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Conserved domains on  [gi|767906197|ref|XP_011540518|]
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cyclin-L2 isoform X1 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CYCLIN_CCNL2_rpt2 cd20593
second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 228-350 5.35e-93

second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA polymerase II-associated cyclin that is involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. CCNL2 contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


:

Pssm-ID: 410296 [Multi-domain]  Cd Length: 123  Bit Score: 279.93  E-value: 5.35e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVLECERNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPHWFLLFGATEEEIQ 307
Cdd:cd20593    1 HPHKIIVMYLQVLECERNRHLVQTSWNYMNDSLRTDVFVRFNPETIACACIYLAARTLEIPLPNRPHWFLLFGATEEEIQ 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 767906197 308 EICLKILQLYARKKVDLTHLEGEVEKRKHAIEEAKAQARGLLP 350
Cdd:cd20593   81 EICLKILQLYTRKKVDLEHLESKVEKRKLAIEEAKAKAKGLLP 123
CYCLIN_SF super family cl40454
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 35-223 6.42e-76

Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in cell-cycle and transcriptional control. It is about 100 amino acids in length, composed of five helices, and is present in cyclins, transcription initiation factor IIB (TFIIB), and retinoblastoma tumour suppressor protein (Rb). Cyclins consist of 8 classes of cell cycle regulators that function as regulatory subunits of cyclin-dependent kinases (CDKs), which are serine/threonine kinases. The catalytic activities of CDKs are modulated not only by their interactions with cyclins but also by CDK inhibitors (CKIs). CDKs, cyclins and CKIs play key roles in transcription, epigenetic regulation, metabolism, stem cell self-renewal, neuronal functions, and spermatogenesis. TFIIB is a transcription factor that binds the TATA box. Members in this superfamily contain one or two copies of the cyclin box.


The actual alignment was detected with superfamily member cd20590:

Pssm-ID: 477360 [Multi-domain]  Cd Length: 156  Bit Score: 237.21  E-value: 6.42e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197  35 VLIGDRLYSGVLITLENCLLPDDKLRFTPSMSSGLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKS 114
Cdd:cd20590    1 VLIGDRLYSGVLITLENCLLPEERLRFTPSMSSGLDVDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 115 FVKHSMEPSSLwrpsgrrgwgqtwaccnasasACVNGLCPPGFQDRRGPKT----HTGRHQcvsppstaeRQKtlcslsg 190
Cdd:cd20590   81 FVKHSMEHVSM---------------------ACVHLASKIEEAPRRIRDVinvfHRLRQL---------REK------- 123

                        170       180       190
                 ....*....|....*....|....*....|...
gi 767906197 191 RKPVPLLLDQDYVNLKNQIIKAERRVLKELGFC 223
Cdd:cd20590  124 KKPVPLILDQEYVNLKNQIIKAERRVLKELGFC 156
 
Name Accession Description Interval E-value
CYCLIN_CCNL2_rpt2 cd20593
second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 228-350 5.35e-93

second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA polymerase II-associated cyclin that is involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. CCNL2 contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410296 [Multi-domain]  Cd Length: 123  Bit Score: 279.93  E-value: 5.35e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVLECERNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPHWFLLFGATEEEIQ 307
Cdd:cd20593    1 HPHKIIVMYLQVLECERNRHLVQTSWNYMNDSLRTDVFVRFNPETIACACIYLAARTLEIPLPNRPHWFLLFGATEEEIQ 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 767906197 308 EICLKILQLYARKKVDLTHLEGEVEKRKHAIEEAKAQARGLLP 350
Cdd:cd20593   81 EICLKILQLYTRKKVDLEHLESKVEKRKLAIEEAKAKAKGLLP 123
CYCLIN_CCNL2_rpt1 cd20590
first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 35-223 6.42e-76

first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA polymerase II-associated cyclin that is involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. CCNL2 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410293 [Multi-domain]  Cd Length: 156  Bit Score: 237.21  E-value: 6.42e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197  35 VLIGDRLYSGVLITLENCLLPDDKLRFTPSMSSGLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKS 114
Cdd:cd20590    1 VLIGDRLYSGVLITLENCLLPEERLRFTPSMSSGLDVDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 115 FVKHSMEPSSLwrpsgrrgwgqtwaccnasasACVNGLCPPGFQDRRGPKT----HTGRHQcvsppstaeRQKtlcslsg 190
Cdd:cd20590   81 FVKHSMEHVSM---------------------ACVHLASKIEEAPRRIRDVinvfHRLRQL---------REK------- 123

                        170       180       190
                 ....*....|....*....|....*....|...
gi 767906197 191 RKPVPLLLDQDYVNLKNQIIKAERRVLKELGFC 223
Cdd:cd20590  124 KKPVPLILDQEYVNLKNQIIKAERRVLKELGFC 156
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 69-306 3.21e-20

Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair];


Pssm-ID: 227640 [Multi-domain]  Cd Length: 297  Bit Score: 91.33  E-value: 3.21e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197  69 LDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVKHSMEpsslwrpsgrrgwgqtwACCNAS---A 145
Cdd:COG5333   36 LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLY-----------------SVVTTCvylA 98

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 146 SACVNglcppgfqdrrgpkthTGRHQCvsppstaerqkTLCSLSgRKPVPLLLDQDyvnlKNQIIKAERRVLKELGFCVH 225
Cdd:COG5333   99 CKVED----------------TPRDIS-----------IESFEA-RDLWSEEPKSS----RERILEYEFELLEALDFDLH 146

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 226 VKHPHKIIVMYLQVLECERNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPnrPHWFLLFGATEEE 305
Cdd:COG5333  147 VHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLGMPII--KLLDFVSYETKEE 224


                 .
gi 767906197 306 I 306
Cdd:COG5333  225 V 225
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 233-315 8.55e-16

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 72.63  E-value: 8.55e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197   233 IVMYLQVLECerNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPHWFLLFGATEEEIQEICLK 312
Cdd:smart00385   3 LRRVCKALNL--DPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGYFTEEEILRMERL 80


                   ...
gi 767906197   313 ILQ 315
Cdd:smart00385  81 LLE 83
Cyclin_C pfam02984
Cyclin, C-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 265-319 9.70e-05

Cyclin, C-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a Uracil-DNA glycosylase that is related to other cyclins. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the C-terminal domain.


Pssm-ID: 397230  Cd Length: 119  Bit Score: 42.23  E-value: 9.70e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 767906197  265 FVRFQPESIACACIYLAARTLeiplpNRPHW--FLLF--GATEEEIQEICLKILQLYAR 319
Cdd:pfam02984  39 FLKYPPSLIAAAAVYLARKTL-----NSPEWteTLEHytGYSEEDLKPCVKLLLELLLN 92
 
Name Accession Description Interval E-value
CYCLIN_CCNL2_rpt2 cd20593
second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 228-350 5.35e-93

second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA polymerase II-associated cyclin that is involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. CCNL2 contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410296 [Multi-domain]  Cd Length: 123  Bit Score: 279.93  E-value: 5.35e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVLECERNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPHWFLLFGATEEEIQ 307
Cdd:cd20593    1 HPHKIIVMYLQVLECERNRHLVQTSWNYMNDSLRTDVFVRFNPETIACACIYLAARTLEIPLPNRPHWFLLFGATEEEIQ 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 767906197 308 EICLKILQLYARKKVDLTHLEGEVEKRKHAIEEAKAQARGLLP 350
Cdd:cd20593   81 EICLKILQLYTRKKVDLEHLESKVEKRKLAIEEAKAKAKGLLP 123
CYCLIN_CCNL1_rpt2 cd20592
second cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin ...
 227-348 8.03e-77

second cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin involved in the regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL1 contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410295 [Multi-domain]  Cd Length: 123  Bit Score: 238.36  E-value: 8.03e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 227 KHPHKIIVMYLQVLECERNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPHWFLLFGATEEEI 306
Cdd:cd20592    1 KHPHKIIVMYLQVLECERNQTLVQTAWNYMNDSLRTNVFVRFQPETIACACIYLAARALQIPLPNRPHWFLLFGATEEEI 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 767906197 307 QEICLKILQLYARKKVDLTHLEGEVEKRKHAIEEAKAQARGL 348
Cdd:cd20592   81 QEICITTLKLYTRKKPNYEFLEKEVEKRKVALQEAKLKAKGL 122
CYCLIN_CCNL2_rpt1 cd20590
first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 35-223 6.42e-76

first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA polymerase II-associated cyclin that is involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. CCNL2 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410293 [Multi-domain]  Cd Length: 156  Bit Score: 237.21  E-value: 6.42e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197  35 VLIGDRLYSGVLITLENCLLPDDKLRFTPSMSSGLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKS 114
Cdd:cd20590    1 VLIGDRLYSGVLITLENCLLPEERLRFTPSMSSGLDVDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 115 FVKHSMEPSSLwrpsgrrgwgqtwaccnasasACVNGLCPPGFQDRRGPKT----HTGRHQcvsppstaeRQKtlcslsg 190
Cdd:cd20590   81 FVKHSMEHVSM---------------------ACVHLASKIEEAPRRIRDVinvfHRLRQL---------REK------- 123

                        170       180       190
                 ....*....|....*....|....*....|...
gi 767906197 191 RKPVPLLLDQDYVNLKNQIIKAERRVLKELGFC 223
Cdd:cd20590  124 KKPVPLILDQEYVNLKNQIIKAERRVLKELGFC 156
CYCLIN_CCNL_rpt2 cd20533
second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 228-319 1.92e-59

second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 and CCNL2. CCNL1 is involved in regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL2 is a novel RNA polymerase II-associated cyclin involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. Members of this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410236 [Multi-domain]  Cd Length: 92  Bit Score: 191.66  E-value: 1.92e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVLECERNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPHWFLLFGATEEEIQ 307
Cdd:cd20533    1 HPHKFILMYLQVLEGEDNKKLAQTAWNYMNDSLRTDLCVRYPPEVIACACIYLAARELGIPLPLPPPWWELFDVSKEDIE 80

                         90
                 ....*....|..
gi 767906197 308 EICLKILQLYAR 319
Cdd:cd20533   81 EICLTILELYTR 92
CYCLIN_CCNL1_rpt1 cd20589
first cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin ...
 68-223 6.12e-46

first cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin involved in the regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL1 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410292 [Multi-domain]  Cd Length: 124  Bit Score: 157.22  E-value: 6.12e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197  68 GLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVKHSMEpsslwrpsgrrgwgqtwaccnASASA 147
Cdd:cd20589    2 GLDHETETDLRILGCELIQTAGILLRLPQVAMATGQVLFQRFFYSKSFVKHSME---------------------IVAMA 60

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 767906197 148 CVNGLCPPGFQDRRGPKTHTGRHQCvsppstaeRQKTlcslSGRKPVPLLLDQDYVNLKNQIIKAERRVLKELGFC 223
Cdd:cd20589   61 CINLASKIEEAPRRIRDVINVFHHI--------KQVR----GKRTISPLILDQNYINLKNQVIKAERRVLKELGFC 124
CYCLIN_CCNL_rpt1 cd20532
first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 67-223 1.04e-36

first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 and CCNL2. CCNL1 is involved in the regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL2 is a novel RNA polymerase II-associated cyclin involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. Members of this family contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410235 [Multi-domain]  Cd Length: 127  Bit Score: 132.68  E-value: 1.04e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197  67 SGLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVKHSMEpsslwrpsgrrgwgqtWAccnasAS 146
Cdd:cd20532    1 DGIDEETEIDLRIYGCELIQDAGILLKLPQVVMATAQVLFHRFYYRKSLRKFDVK----------------IV-----AM 59

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 767906197 147 ACVNGLCPPGFQDRRGPKTHTGRHQCvsppstaeRQKTLCSlSGRKPVPLLLDQDYVNLKNQIIKAERRVLKELGFC 223
Cdd:cd20532   60 ACLFLASKIEETPRRLRDVINVFHRL--------LQRRLGK-PAEVLPLDIGSAEYEELKNDIIKAERRILKELGFC 127
CYCLIN_AcCycL_rpt2 cd20594
second cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
 225-321 2.83e-26

second cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; Cyclin-L1-1 (CycL1), also called arginine-rich cyclin 1 (AtRCY1), or protein MODIFIER OF SNC1 12, is the cognate cyclin for cyclin-dependent kinase G1 (CDKG1). It is involved in regulation of DNA methylation and transcriptional silencing. It is required for synapsis and male meiosis, and for the proper splicing of specific resistance (R) genes. L-type cyclins contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410297 [Multi-domain]  Cd Length: 101  Bit Score: 102.63  E-value: 2.83e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 225 HVKHPHKIIVMYLQVLECErnQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPHWFLLFGATEE 304
Cdd:cd20594    1 HVEHPHKFILNYLAMLMAP--PELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRFQVPLPENPPWWKVFDAEKA 78

                         90
                 ....*....|....*..
gi 767906197 305 EIQEICLKILQLYARKK 321
Cdd:cd20594   79 EIDVVCKVLADLYRQPK 95
CYCLIN_SpCG1C_ScCTK2-like_rpt2 cd20546
second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces ...
 228-319 2.67e-24

second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2), and similar proteins; Cyclin pch1 is essential for progression through the whole cell cycle. It is a homolog of cyclin T; it forms a heterodimer with its partner kinase, cyclin-dependent kinase 9 (CDK9), that can phosphorylate both the pol II C-terminal domain (CTD) and the CTD of transcription elongation factor Spt5. Yeast Cdk9/Pch1, with mRNA capping enzyme Pct1, may also form an elongation checkpoint for mRNA quality control. CTK2, also called CTD kinase subunit beta, CTDK-I subunit beta, or CTD kinase 38 kDa subunit, is the cyclin subunit of the CTDK-I complex, which hyperphosphorylates the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit. This group also includes yeast RNA polymerase II holoenzyme cyclin-like subunit, a component of the SRB8-11 complex, a regulatory module of the Mediator complex which is involved in regulation of basal and activated RNA polymerase II-dependent transcription. Members of this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410249 [Multi-domain]  Cd Length: 97  Bit Score: 97.05  E-value: 2.67e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVLECERNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPH-----WFLLFGAT 302
Cdd:cd20546    1 HPYQYLIKFAKKLGVSDPKELAQLAWAFLNDSYRTPLCLLYPPHVIAAAAIYLAAKLLGIDLELSPNeklneWWELFGVD 80

                         90
                 ....*....|....*..
gi 767906197 303 EEEIQEICLKILQLYAR 319
Cdd:cd20546   81 EEEIADAINEILDLYSS 97
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 69-306 3.21e-20

Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair];


Pssm-ID: 227640 [Multi-domain]  Cd Length: 297  Bit Score: 91.33  E-value: 3.21e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197  69 LDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVKHSMEpsslwrpsgrrgwgqtwACCNAS---A 145
Cdd:COG5333   36 LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLY-----------------SVVTTCvylA 98

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 146 SACVNglcppgfqdrrgpkthTGRHQCvsppstaerqkTLCSLSgRKPVPLLLDQDyvnlKNQIIKAERRVLKELGFCVH 225
Cdd:COG5333   99 CKVED----------------TPRDIS-----------IESFEA-RDLWSEEPKSS----RERILEYEFELLEALDFDLH 146

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 226 VKHPHKIIVMYLQVLECERNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPnrPHWFLLFGATEEE 305
Cdd:COG5333  147 VHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLGMPII--KLLDFVSYETKEE 224


                 .
gi 767906197 306 I 306
Cdd:COG5333  225 V 225
CYCLIN_CCNK_rpt2 cd20531
second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA ...
 228-317 5.10e-20

second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase II-associated C-type cyclin possessing both carboxy-terminal domain kinase and Cdk-activating kinase activity. It is a regulatory subunit of cyclin-dependent kinases that mediates the activation of these target kinases. It plays a role in transcriptional regulation by controlling the phosphorylation of the C-terminal domain (CTD) of the large subunit of RNA polymerase II (POLR2A). CCNK contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410234 [Multi-domain]  Cd Length: 101  Bit Score: 85.08  E-value: 5.10e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVLECERN--QHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPH------WFLLF 299
Cdd:cd20531    2 HPYKYLLKYAKQLKGDKNkiQKLVQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAAKLSKFDLQDWTSkppgkrWWEQF 81

                         90       100
                 ....*....|....*....|
gi 767906197 300 --GATEEEIQEICLKILQLY 317
Cdd:cd20531   82 veDVSLEVLEDICHQVLDLY 101
CYCLIN_AcCycL_rpt1 cd20591
first cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
 64-222 7.18e-19

first cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; Cyclin-L1-1 (CycL1), also called arginine-rich cyclin 1 (AtRCY1), or protein MODIFIER OF SNC1 12, is the cognate cyclin for cyclin-dependent kinase G1 (CDKG1). It is involved in regulation of DNA methylation and transcriptional silencing. It is required for synapsis and male meiosis, and for the proper splicing of specific resistance (R) genes. L-type cyclins contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410294 [Multi-domain]  Cd Length: 128  Bit Score: 82.58  E-value: 7.18e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197  64 SMSSGLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVKHSMepsslwrpsgRRgwgqtwaccna 143
Cdd:cd20591    1 SRKDGIDEDTEITLRIFGCELIQESGILLKLPQAVMATGQVLFQRFYCKKSFARFNV----------KR----------- 59

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 144 SASACVnglcppgFQDRRGPKTHTGRHQCVSPPSTAErqktlCSLSGRKPVPLLLD-QDYVNLKNQIIKAERRVLKELGF 222
Cdd:cd20591   60 VAASCV-------WLAAKLEESPRKIRQVLMVFHRME-----CRRENLPLEPLEPEsKKYDEMKEDLIRTERHLLKEMGF 127
CYCLIN_CCNM_CCNQ_rpt2 cd20535
second cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 228-317 4.45e-17

second cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ancient conserved domain proteins (ACDPs), are evolutionarily conserved Mg2+ transporters. CCNM, also called cyclin-Q (CCNQ), or CDK10-activating cyclin, or cyclin-related protein FAM58A, associates with CDK10 to promote its kinase activity. Members of this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410238 [Multi-domain]  Cd Length: 104  Bit Score: 76.91  E-value: 4.45e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVL------ECERNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPH----WFL 297
Cdd:cd20535    1 LPHKYLLHYLKSLrdwlnpEFWSRSPIAKTAWSLLRDFYHSPLCLQFKPQHIALAVIYLALQVYGVKVPPEEEaekpWWQ 80

                         90       100
                 ....*....|....*....|..
gi 767906197 298 LF--GATEEEIQEICLKILQLY 317
Cdd:cd20535   81 AFceDLTKETIDEIIEDIINVY 102
CYCLIN_AcCycT_rpt2 cd20588
second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 228-317 4.07e-16

second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; CycTs associate with their partner cyclin-dependent kinases (CDKs) to trigger their kinase activity. CycTs show high sequence similarity with metazoan cyclin-K (CCNK). CycTs contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410291 [Multi-domain]  Cd Length: 93  Bit Score: 73.72  E-value: 4.07e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVLECERNQhLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPN--RPHWFLLFGATEEE 305
Cdd:cd20588    2 HPYKPLVAAIKKFNVAQNA-LAQAAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPCdgRKVWWQEFDVTPRQ 80

                         90
                 ....*....|..
gi 767906197 306 IQEICLKILQLY 317
Cdd:cd20588   81 LEEVSNQMLELY 92
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 233-315 8.55e-16

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 72.63  E-value: 8.55e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197   233 IVMYLQVLECerNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRPHWFLLFGATEEEIQEICLK 312
Cdd:smart00385   3 LRRVCKALNL--DPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGYFTEEEILRMERL 80


                   ...
gi 767906197   313 ILQ 315
Cdd:smart00385  81 LLE 83
CYCLIN_CCNC_rpt2 cd20514
second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 228-317 1.64e-12

second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410218 [Multi-domain]  Cd Length: 92  Bit Score: 63.41  E-value: 1.64e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQvlECERNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEiplPNRPHWFLLFGATEEEIQ 307
Cdd:cd20514    1 HPYRPLTQYVQ--DAGLDDELLPLAWRIVNDSYRTDVCLLYPPYLIALACLHMACVLLQ---KDARQWFAELNVDMDKIL 75

                         90
                 ....*....|
gi 767906197 308 EICLKILQLY 317
Cdd:cd20514   76 EITREILSLY 85
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
 68-119 1.47e-10

first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase II-associated C-type cyclin possessing both carboxy-terminal domain kinase and Cdk-activating kinase activity. It is a regulatory subunit of cyclin-dependent kinases that mediates the activation of these target kinases. It plays a role in transcriptional regulation by controlling the phosphorylation of the C-terminal domain (CTD) of the large subunit of RNA polymerase II (POLR2A). CCNK contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410233 [Multi-domain]  Cd Length: 115  Bit Score: 58.40  E-value: 1.47e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 767906197  68 GLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVKHS 119
Cdd:cd20530    1 GIDPETEARYRREGARFIQDVGTKLGLPYDTIATGIVYFHRFYMFHSFKDFD 52
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 228-312 6.22e-10

Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in cell-cycle and transcriptional control. It is about 100 amino acids in length, composed of five helices, and is present in cyclins, transcription initiation factor IIB (TFIIB), and retinoblastoma tumour suppressor protein (Rb). Cyclins consist of 8 classes of cell cycle regulators that function as regulatory subunits of cyclin-dependent kinases (CDKs), which are serine/threonine kinases. The catalytic activities of CDKs are modulated not only by their interactions with cyclins but also by CDK inhibitors (CKIs). CDKs, cyclins and CKIs play key roles in transcription, epigenetic regulation, metabolism, stem cell self-renewal, neuronal functions, and spermatogenesis. TFIIB is a transcription factor that binds the TATA box. Members in this superfamily contain one or two copies of the cyclin box.


Pssm-ID: 410207 [Multi-domain]  Cd Length: 82  Bit Score: 55.88  E-value: 6.22e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVLECerNQHLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPNRpHWFLLFGATEEEIQ 307
Cdd:cd00043    1 KAVDFIRRLCSKLGL--PEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLK-EIAKVSGVSEKELR 77


                 ....*
gi 767906197 308 EICLK 312
Cdd:cd00043   78 KAEKE 82
CYCLIN_CCNT_rpt2 cd20539
second cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 228-314 9.13e-07

second cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, cyclin-T1 (CCNT1) and cyclin-T2 (CCNT2), both of which are regulatory subunits of the cyclin-dependent kinase pair (CDK9/cyclin-T) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to productive elongation by phosphorylating the CTD (C-terminal domain) of the large subunit of RNA polymerase II (RNA Pol II). Members in this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410242 [Multi-domain]  Cd Length: 92  Bit Score: 47.27  E-value: 9.13e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVLEcERNQHLVQTSwNYM--NDSLRTDVFVRFQPESIACACIYLAAR--TLEIPLPNR-PHWFLLF--G 300
Cdd:cd20539    1 HPHTHVLKICNLVK-AGSKDLAQTA-YFLatNSLHLTTFCLQYKPTVIACVCIHLACKwsNWEIPRSSEgKDWYEYVdpS 78

                         90
                 ....*....|....
gi 767906197 301 ATEEEIQEICLKIL 314
Cdd:cd20539   79 LTLEELDELTSEFL 92
CYCLIN_SpCG1C-like_rpt1 cd20545
first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar ...
 74-118 2.14e-06

first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar proteins; Cyclin pch1 is essential for progression through the whole cell cycle. It is a homolog of cyclin T; it forms a heterodimer with its partner kinase, cyclin-dependent kinase 9 (CDK9), that can phosphorylate both the pol II C-terminal domain (CTD) and the CTD of transcription elongation factor Spt5. Yeast Cdk9/Pch1, with mRNA capping enzyme Pct1, may also form an elongation checkpoint for mRNA quality control. Members of this family contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410248 [Multi-domain]  Cd Length: 116  Bit Score: 46.65  E-value: 2.14e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 767906197  74 ETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVKH 118
Cdd:cd20545    1 EQEDRSKGVNFIIRVGSRLKLPQTTLFTAATYFHRFYMRNSLKKY 45
CYCLIN_CCNO-like_rpt2 cd20537
second cyclin box found in cyclin-O (CCNO) and similar proteins; This subfamily is composed of ...
 265-319 1.12e-05

second cyclin box found in cyclin-O (CCNO) and similar proteins; This subfamily is composed of CCNO and similar proteins including Schizosaccharomyces pombe meiosis-specific cyclin rem1, Drosophila melanogaster G2/mitotic-specific cyclin-A (CCNA), and Candida albicans G1/S-specific cyclin CCN1, among others. Rem1 is required for pre-meiotic DNA synthesis and S phase progression. CCNA is essential for the control of the cell cycle at the G2/M (mitosis) transition. CCN1 is essential for the control of the cell cycle at the G1/S (start) transition and for maintenance of filamentous growth. CCNO is specifically required for generation of multiciliated cells, possibly by promoting a cell cycle state compatible with centriole amplification and maturation. It is involved in the activation of cyclin-dependent kinase 2. Members of this subfamily contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410240 [Multi-domain]  Cd Length: 91  Bit Score: 43.84  E-value: 1.12e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 767906197 265 FVRFQPESIACACIYLAARTLEIPLPNRPHWFLLFGATEEEIQEICLKILQLYAR 319
Cdd:cd20537   37 FLKYRPSLIAAAALYLARKILGEPPPSPQLLQLVTGYSENDLQECAKELLELLAQ 91
CYCLIN_AtCycC_rpt2 cd20572
second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 228-317 1.60e-05

second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; CycCs are the cognate cyclin partners of cyclin-dependent kinase CDK8. They may be involved in cell cycle control. CycCs contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410275 [Multi-domain]  Cd Length: 102  Bit Score: 44.00  E-value: 1.60e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQvlECERNQhLVQTSWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEiplPNRPHWFLLFGATEEEIQ 307
Cdd:cd20572    1 HPYRPLIQLLQ--DAGLTD-MTQFTWSIVNDTYRTDLILIHPPYMIALACIYIASVHKE---KDITLWFEELRVDMNIIK 74

                         90
                 ....*....|
gi 767906197 308 EICLKILQLY 317
Cdd:cd20572   75 NIAMEILDFY 84
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 68-117 4.27e-05

first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; CycTs associate with their partner cyclin-dependent kinases (CDKs) to trigger their kinase activity. CycTs show high sequence similarity with metazoan cyclin-K (CCNK). CycTs contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410290 [Multi-domain]  Cd Length: 124  Bit Score: 43.28  E-value: 4.27e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 767906197  68 GLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVK 117
Cdd:cd20587    2 GIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIVFCHRFFLRQSHAK 51
CYCLIN_CCNT2_rpt1 cd20596
first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit ...
 57-155 6.86e-05

first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin T) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to production elongation by phosphorylating the CTD (carboxy-terminal domain) of the large subunit of RNA polymerase II (RNAP II). CCNT2 contains two cyclin boxs. The model responds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410299 [Multi-domain]  Cd Length: 139  Bit Score: 43.11  E-value: 6.86e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197  57 DKLRFTPSMSSGLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVK---HSMEPSSLWRPSGRRG 133
Cdd:cd20596    9 EQLENTPSRRCGVEADKELSYRQQAANLIQDMGQRLNVSQLTINTAIVYMHRFYMHHSFTKfhrNIISPTALFLAAKVEE 88

                         90       100
                 ....*....|....*....|..
gi 767906197 134 WGQTWACCNASASACVNGLCPP 155
Cdd:cd20596   89 QPRKLEHVIKVAHACLNPLEPQ 110
CYCLIN_CCNT1_rpt1 cd20595
first cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor ...
 57-126 9.02e-05

first cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor essential for HIV-1 replication in CD4 T cells and macrophages. It is a regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin-T1) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to productive elongation by phosphorylating the CTD (C-terminal domain) of the large subunit of RNA polymerase II (RNA Pol II). CCNT1 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410298 [Multi-domain]  Cd Length: 138  Bit Score: 42.73  E-value: 9.02e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 767906197  57 DKLRFTPSMSSGLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVK---HSMEPSSLW 126
Cdd:cd20595    8 EQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTQfhrNSVAPAALF 80
Cyclin_C pfam02984
Cyclin, C-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 265-319 9.70e-05

Cyclin, C-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a Uracil-DNA glycosylase that is related to other cyclins. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the C-terminal domain.


Pssm-ID: 397230  Cd Length: 119  Bit Score: 42.23  E-value: 9.70e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 767906197  265 FVRFQPESIACACIYLAARTLeiplpNRPHW--FLLF--GATEEEIQEICLKILQLYAR 319
Cdd:pfam02984  39 FLKYPPSLIAAAAVYLARKTL-----NSPEWteTLEHytGYSEEDLKPCVKLLLELLLN 92
CYCLIN_CCNT1_rpt2 cd20597
second cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor ...
 228-319 1.37e-04

second cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor essential for HIV-1 replication in CD4 T cells and macrophages. It is a regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin-T1) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to productive elongation by phosphorylating the CTD (C-terminal domain) of the large subunit of RNA polymerase II (RNA Pol II). CCNT1 contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410300 [Multi-domain]  Cd Length: 109  Bit Score: 41.60  E-value: 1.37e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767906197 228 HPHKIIVMYLQVLECERNqhLVQTSWNYMNDSLRTDVF-VRFQPESIACACIYLAAR--TLEIPLP-NRPHWFLLFGATE 303
Cdd:cd20597    2 HPHTHVVKCTQLVRASKD--LAQTSYFMATNSLHLTTFsLQYTPPVVACVCIHLACKwsNWEIPVStDGKHWWEYVDATV 79

                         90
                 ....*....|....*...
gi 767906197 304 --EEIQEICLKILQLYAR 319
Cdd:cd20597   80 tlELLDELTHEFLQILEK 97
CYCLIN_CCNT2_rpt2 cd20598
second cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory ...
 227-296 3.20e-04

second cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin T) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to production elongation by phosphorylating the CTD (carboxy-terminal domain) of the large subunit of RNA polymerase II (RNAP II). CCNT2 contains two cyclin boxs. The model responds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410301 [Multi-domain]  Cd Length: 114  Bit Score: 40.45  E-value: 3.20e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767906197 227 KHPHKIIVMYLQVLECERNqhLVQTSWNYMNDSLRTDVF-VRFQPESIACACIYLAAR--TLEIPLP-NRPHWF 296
Cdd:cd20598    1 EHPHTDVVKCTQLVRASKD--LAQTSYFMATNSLHLTTFcLQYKPTVIACVCIHLACKwsNWEIPVStDGKHWW 72
CYCLIN_CCNT_rpt1 cd20538
first cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 57-125 1.17e-03

first cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, cyclin-T1 (CCNT1) and cyclin-T2 (CCNT2), both of which are regulatory subunits of the cyclin-dependent kinase pair (CDK9/cyclin-T) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to productive elongation by phosphorylating the CTD (C-terminal domain) of the large subunit of RNA polymerase II (RNA Pol II). Members of this family contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410241 [Multi-domain]  Cd Length: 137  Bit Score: 39.30  E-value: 1.17e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 767906197  57 DKLRFTPSMSSGLDTDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVK---HSMEPSSL 125
Cdd:cd20538    7 EQLENTPSRRCGVDPDKELSYRQQAANLIQEMGQRLQVSQLCINTAIVYMHRFYMFHSFTKfhrNSIAAAAL 78
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 77-122 8.59e-03

first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410217 [Multi-domain]  Cd Length: 101  Bit Score: 36.03  E-value: 8.59e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 767906197  77 LRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVkhSMEP 122
Cdd:cd20513    1 LHIFFANFIQALGERLKLRQRVIATAIVYFKRFYARNSFK--DIDP 44
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
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