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Conserved domains on  [gi|1013936593|gb|KYQ90291|]
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putative H-type cyclin [Tieghemostelium lacteum]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 26-168 3.22e-47

first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called MO15-associated protein, p34, or p37, is normally associated with the cyclin-dependent kinase cdk7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CCNH contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


:

Pssm-ID: 410228  Cd Length: 150  Bit Score: 156.60  E-value: 3.22e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  26 STSTQINNWIFST-DKIASMRDEVNENTRKEYLAKNPTEKNILSIL--EEQQLIC-YYEYKIAEISKVLNLPDKVAATGI 101
Cdd:cd20524     1 HTSTQRKHWIFSSeEELAELRAEANEKAREKLKESLKEEDAEPKFLtpEEELLLVrYYEKKLLEFCRAFKLPDSVLATAL 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 102 IYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVEIDFYANGVGV---TANDIIDLEIPILESLNFNL 168
Cdd:cd20524    81 TYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNIKEsekTAEIILEYELLLLQGLNFHL 150
CYCLIN_CCNH_rpt2 cd20525
second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 171-300 2.29e-31

second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called MO15-associated protein, p34, or p37, is normally associated with the cyclin-dependent kinase cdk7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CCNH contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


:

Pssm-ID: 410229  Cd Length: 126  Bit Score: 114.70  E-value: 2.29e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 171 YHPYRPLHGYLMDIYNPQSKVKfnnnNMTFDQMWEMSRNWVQKSLYTDLPLQYHPFIIALACLSLSYG--QDNFKTYIEY 248
Cdd:cd20525     1 HHPYRPLEGFLLDLKTRLPDLK----AENLEKLYKEAREFLNRSLLTDAPLLYPPSQIALAALLLAASeaGIDVEEYLSE 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1013936593 249 KsqqLQIDTQSESYQNTLLQIEHIKSLLSKVE-LIDKNIVKPIDRKLIFLNNP 300
Cdd:cd20525    77 K---LPGSEESEELEKLLEIIREIKKLVKKYEgPPDKEEVKALDKKLKKCRNP 126
 
Name Accession Description Interval E-value
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 26-168 3.22e-47

first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called MO15-associated protein, p34, or p37, is normally associated with the cyclin-dependent kinase cdk7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CCNH contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410228  Cd Length: 150  Bit Score: 156.60  E-value: 3.22e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  26 STSTQINNWIFST-DKIASMRDEVNENTRKEYLAKNPTEKNILSIL--EEQQLIC-YYEYKIAEISKVLNLPDKVAATGI 101
Cdd:cd20524     1 HTSTQRKHWIFSSeEELAELRAEANEKAREKLKESLKEEDAEPKFLtpEEELLLVrYYEKKLLEFCRAFKLPDSVLATAL 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 102 IYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVEIDFYANGVGV---TANDIIDLEIPILESLNFNL 168
Cdd:cd20524    81 TYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNIKEsekTAEIILEYELLLLQGLNFHL 150
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 25-301 6.08e-40

cyclin ccl1; All proteins in this family for which functions are known are cyclins that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, StanfordUniversity). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129660 [Multi-domain]  Cd Length: 305  Bit Score: 142.67  E-value: 6.08e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  25 YSTSTQINNWIFST-DKIASMRDEVNENTRKEYLAKN---PTEKNILSILEEQQLICYYEYKIAEISKVLN--LPDKVAA 98
Cdd:TIGR00569   1 YRNSSQKRHWTFTSeEQLQEKRADANAKFREAHEEEEkvlEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKptMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  99 TGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVEIDFYANGVGVTANDIID----LEIPILESLNFNLIVYHPY 174
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKALEqvleYELLLIQQLNFHLIVHNPY 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 175 RPLHGYLMDIYNPQSKVKfnnnnmTFDQMWEMSRNWVQKSLYTDLPLQYHPFIIALACL--SLSYGQDNFKTYIeykSQQ 252
Cdd:TIGR00569 161 RPLEGFLIDIKTRLPGLE------NPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAIlhTASRAGLNMESYL---TEQ 231

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*....
gi 1013936593 253 LQIDTQSESYQNTLLQIEHIKSLLSKVELIDKNIVKPIDRKLIFLNNPE 301
Cdd:TIGR00569 232 LSVPGNREELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIE 280
CYCLIN_CCNH_rpt2 cd20525
second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 171-300 2.29e-31

second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called MO15-associated protein, p34, or p37, is normally associated with the cyclin-dependent kinase cdk7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CCNH contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410229  Cd Length: 126  Bit Score: 114.70  E-value: 2.29e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 171 YHPYRPLHGYLMDIYNPQSKVKfnnnNMTFDQMWEMSRNWVQKSLYTDLPLQYHPFIIALACLSLSYG--QDNFKTYIEY 248
Cdd:cd20525     1 HHPYRPLEGFLLDLKTRLPDLK----AENLEKLYKEAREFLNRSLLTDAPLLYPPSQIALAALLLAASeaGIDVEEYLSE 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1013936593 249 KsqqLQIDTQSESYQNTLLQIEHIKSLLSKVE-LIDKNIVKPIDRKLIFLNNP 300
Cdd:cd20525    77 K---LPGSEESEELEKLLEIIREIKKLVKKYEgPPDKEEVKALDKKLKKCRNP 126
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 54-251 6.31e-28

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: 110.59  E-value: 6.31e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  54 KEYLAKNPTEKNILSILEEQQLIC--YYEYKIAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACK 131
Cdd:COG5333    21 SQNAIELDLLVLEPELTLEKELNLviYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACK 100

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 132 TEDSHVEID---FYANGVGV-----TANDIIDLEIPILESLNFNLIVYHPYRPLHGYLMDIYNPQSKvkfnnnnmtfdQM 203
Cdd:COG5333   101 VEDTPRDISiesFEARDLWSeepksSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKY-----------KL 169

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1013936593 204 WEMSRNWVQKSLYTDLPLQYHPFIIALACLSLSYGQDNfKTYIEYKSQ 251
Cdd:COG5333   170 LQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLG-MPIIKLLDF 216
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 172-277 8.42e-12

Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family corresponds with the C-terminal domain of some cyclins including cyclin C and cyclin H.


Pssm-ID: 465303  Cd Length: 98  Bit Score: 61.01  E-value: 8.42e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 172 HPYRPLHGYLMDIynpQSKVKFNNNNMtfDQMWEMSRNWVQKSLYTDLPLQYHPFIIALACLSLSyGQDNFKTYIEYKsq 251
Cdd:pfam16899   1 HPFRPLEGFLLDL---KTRPPLLEDRI--ESLYKRAREILKSALLTDAYFLYTPSQIALAALLLA-DSPLAEFYLTEK-- 72

                          90       100
                  ....*....|....*....|....*..
gi 1013936593 252 qLQIDTQSESYQNTLL-QIEHIKSLLS 277
Cdd:pfam16899  73 -FGLPEDRETKLEKLLdTIESCRNLLK 98
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 83-162 1.55e-11

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: 59.53  E-value: 1.55e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593   83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHV-EIDFYANGVGVTANDIIDLEIPIL 161
Cdd:smart00385   3 LRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPwTKELVHYTGYFTEEEILRMERLLL 82


                   .
gi 1013936593  162 E 162
Cdd:smart00385  83 E 83
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 85-168 2.01e-08

Cyclin, N-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 N-terminal domain.


Pssm-ID: 459686 [Multi-domain]  Cd Length: 127  Bit Score: 52.13  E-value: 2.01e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  85 EISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHV-EI-DF-YANGVGVTANDIIDLEIPIL 161
Cdd:pfam00134  40 EVHEKFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEEIYPpTVeDLvYITDNAYTREEILRMERLIL 119


                  ....*..
gi 1013936593 162 ESLNFNL 168
Cdd:pfam00134 120 ETLNFDL 126
 
Name Accession Description Interval E-value
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 26-168 3.22e-47

first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called MO15-associated protein, p34, or p37, is normally associated with the cyclin-dependent kinase cdk7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CCNH contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410228  Cd Length: 150  Bit Score: 156.60  E-value: 3.22e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  26 STSTQINNWIFST-DKIASMRDEVNENTRKEYLAKNPTEKNILSIL--EEQQLIC-YYEYKIAEISKVLNLPDKVAATGI 101
Cdd:cd20524     1 HTSTQRKHWIFSSeEELAELRAEANEKAREKLKESLKEEDAEPKFLtpEEELLLVrYYEKKLLEFCRAFKLPDSVLATAL 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 102 IYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVEIDFYANGVGV---TANDIIDLEIPILESLNFNL 168
Cdd:cd20524    81 TYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNIKEsekTAEIILEYELLLLQGLNFHL 150
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 25-301 6.08e-40

cyclin ccl1; All proteins in this family for which functions are known are cyclins that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, StanfordUniversity). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129660 [Multi-domain]  Cd Length: 305  Bit Score: 142.67  E-value: 6.08e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  25 YSTSTQINNWIFST-DKIASMRDEVNENTRKEYLAKN---PTEKNILSILEEQQLICYYEYKIAEISKVLN--LPDKVAA 98
Cdd:TIGR00569   1 YRNSSQKRHWTFTSeEQLQEKRADANAKFREAHEEEEkvlEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKptMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  99 TGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVEIDFYANGVGVTANDIID----LEIPILESLNFNLIVYHPY 174
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKALEqvleYELLLIQQLNFHLIVHNPY 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 175 RPLHGYLMDIYNPQSKVKfnnnnmTFDQMWEMSRNWVQKSLYTDLPLQYHPFIIALACL--SLSYGQDNFKTYIeykSQQ 252
Cdd:TIGR00569 161 RPLEGFLIDIKTRLPGLE------NPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAIlhTASRAGLNMESYL---TEQ 231

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*....
gi 1013936593 253 LQIDTQSESYQNTLLQIEHIKSLLSKVELIDKNIVKPIDRKLIFLNNPE 301
Cdd:TIGR00569 232 LSVPGNREELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIE 280
CYCLIN_CCNH_rpt2 cd20525
second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 171-300 2.29e-31

second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called MO15-associated protein, p34, or p37, is normally associated with the cyclin-dependent kinase cdk7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CCNH contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410229  Cd Length: 126  Bit Score: 114.70  E-value: 2.29e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 171 YHPYRPLHGYLMDIYNPQSKVKfnnnNMTFDQMWEMSRNWVQKSLYTDLPLQYHPFIIALACLSLSYG--QDNFKTYIEY 248
Cdd:cd20525     1 HHPYRPLEGFLLDLKTRLPDLK----AENLEKLYKEAREFLNRSLLTDAPLLYPPSQIALAALLLAASeaGIDVEEYLSE 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1013936593 249 KsqqLQIDTQSESYQNTLLQIEHIKSLLSKVE-LIDKNIVKPIDRKLIFLNNP 300
Cdd:cd20525    77 K---LPGSEESEELEKLLEIIREIKKLVKKYEgPPDKEEVKALDKKLKKCRNP 126
CYCLIN_AcCycH_rpt1 cd20585
first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH ...
 25-168 6.95e-31

first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH associates with and activates the cyclin-dependent kinases, CDK-2 and CDK-3. CycH contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410288  Cd Length: 170  Bit Score: 114.92  E-value: 6.95e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  25 YSTSTQINNWIFSTDKIASMRDEVNEN----------TRKEYLA---------------KNPTEKNILSILEEQQLICYY 79
Cdd:cd20585     2 FATSTHRQRWIFTPQDLTEKREAANQRavdalqqcgaTRVEAQAagslgggaevggsngKAAKLPEPLSADEELLMLKYY 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  80 EYKIAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVEIDFYANGVGVTANDIIDLEIP 159
Cdd:cd20585    82 EQKIQEVCRALRLPNKIQATALLYFKRFYLQWSVMEHDPKRIMLTCIYLACKVEEYHVSAEELGKGIQQDHQLILKNELA 161


                  ....*....
gi 1013936593 160 ILESLNFNL 168
Cdd:cd20585   162 LLQGLNFDL 170
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 54-251 6.31e-28

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: 110.59  E-value: 6.31e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  54 KEYLAKNPTEKNILSILEEQQLIC--YYEYKIAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACK 131
Cdd:COG5333    21 SQNAIELDLLVLEPELTLEKELNLviYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACK 100

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 132 TEDSHVEID---FYANGVGV-----TANDIIDLEIPILESLNFNLIVYHPYRPLHGYLMDIYNPQSKvkfnnnnmtfdQM 203
Cdd:COG5333   101 VEDTPRDISiesFEARDLWSeepksSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKY-----------KL 169

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1013936593 204 WEMSRNWVQKSLYTDLPLQYHPFIIALACLSLSYGQDNfKTYIEYKSQ 251
Cdd:COG5333   170 LQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLG-MPIIKLLDF 216
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 83-157 1.46e-12

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: 62.43  E-value: 1.46e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1013936593  83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVEIDFYANGVGVTANDIIDLE 157
Cdd:cd00043     6 IRRLCSKLGLPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIAKVSGVSEKELRKAE 80
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 75-164 2.37e-12

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: 62.61  E-value: 2.37e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  75 LICYYEYKIAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVEI-----------DFYA 143
Cdd:cd20513     1 LHIFFANFIQALGERLKLRQRVIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEECPSHArlivaeakvlkTKFS 80

                          90       100
                  ....*....|....*....|.
gi 1013936593 144 NGVGVTANDIIDLEIPILESL 164
Cdd:cd20513    81 YEFPYRVNDILECEFYLLEAL 101
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 172-277 8.42e-12

Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family corresponds with the C-terminal domain of some cyclins including cyclin C and cyclin H.


Pssm-ID: 465303  Cd Length: 98  Bit Score: 61.01  E-value: 8.42e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 172 HPYRPLHGYLMDIynpQSKVKFNNNNMtfDQMWEMSRNWVQKSLYTDLPLQYHPFIIALACLSLSyGQDNFKTYIEYKsq 251
Cdd:pfam16899   1 HPFRPLEGFLLDL---KTRPPLLEDRI--ESLYKRAREILKSALLTDAYFLYTPSQIALAALLLA-DSPLAEFYLTEK-- 72

                          90       100
                  ....*....|....*....|....*..
gi 1013936593 252 qLQIDTQSESYQNTLL-QIEHIKSLLS 277
Cdd:pfam16899  73 -FGLPEDRETKLEKLLdTIESCRNLLK 98
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 83-162 1.55e-11

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: 59.53  E-value: 1.55e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593   83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHV-EIDFYANGVGVTANDIIDLEIPIL 161
Cdd:smart00385   3 LRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPwTKELVHYTGYFTEEEILRMERLLL 82


                   .
gi 1013936593  162 E 162
Cdd:smart00385  83 E 83
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 83-166 5.02e-09

first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; Plant 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 first one. The cyclin box is a protein binding domain.


Pssm-ID: 410274 [Multi-domain]  Cd Length: 107  Bit Score: 53.32  E-value: 5.02e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVE---IDFYANGVGVTA------NDI 153
Cdd:cd20571    14 IKKLAQHIKVRQRVVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQaklLVFYMKRLYADEyhryeiKDI 93

                          90
                  ....*....|...
gi 1013936593 154 IDLEIPILESLNF 166
Cdd:cd20571    94 LEMEMKLLEALDY 106
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 85-168 2.01e-08

Cyclin, N-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 N-terminal domain.


Pssm-ID: 459686 [Multi-domain]  Cd Length: 127  Bit Score: 52.13  E-value: 2.01e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  85 EISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHV-EI-DF-YANGVGVTANDIIDLEIPIL 161
Cdd:pfam00134  40 EVHEKFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEEIYPpTVeDLvYITDNAYTREEILRMERLIL 119


                  ....*..
gi 1013936593 162 ESLNFNL 168
Cdd:pfam00134 120 ETLNFDL 126
CYCLIN_CCNC_rpt2 cd20514
second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 172-233 1.03e-07

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: 49.16  E-value: 1.03e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1013936593 172 HPYRPLHGYLMDIynpqskvkfnnnNMTfDQMWEMSRNWVQKSLYTDLPLQYHPFIIALACL 233
Cdd:cd20514     1 HPYRPLTQYVQDA------------GLD-DELLPLAWRIVNDSYRTDVCLLYPPYLIALACL 49
CYCLIN_CCNM_CCNQ_rpt1 cd20534
first cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 83-139 1.04e-07

first 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 first one. The cyclin box is a protein binding domain.


Pssm-ID: 410237 [Multi-domain]  Cd Length: 110  Bit Score: 49.48  E-value: 1.04e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1013936593  83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVEI 139
Cdd:cd20534     9 IREAGLKLELSSVTIATACVLYHRFYRELSLEDYDPYLVAMACLYLAGKAEEQPRRL 65
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
 83-136 1.78e-07

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: 49.15  E-value: 1.78e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1013936593  83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSvMKVSPKLIM-ICCLYLACKTEDSH 136
Cdd:cd20530    18 IQDVGTKLGLPYDTIATGIVYFHRFYMFHS-FKDFDRYVTaACCLFLAGKVEETP 71
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 90-135 5.74e-07

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: 47.90  E-value: 5.74e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1013936593  90 LNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDS 135
Cdd:cd20587    26 LKVPQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVEET 71
CYCLIN_AcCycH_rpt2 cd20586
second cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; ...
 171-294 7.87e-07

second cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH associates with and activates the cyclin-dependent kinases, CDK-2 and CDK-3. CycH contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410289 [Multi-domain]  Cd Length: 132  Bit Score: 47.81  E-value: 7.87e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593 171 YHPYRPLHGYLMDIY-------NPQSKvkfnnnnmTFDQMWEMSRNWVQKSLYTDLPLQYHPFIIALACLSLSYGQD--- 240
Cdd:cd20586     1 YAPYRALEGFVQDLEeflaagsGPDSQ--------GLQELRKAALAAVDKLMLTDAPLLYPPGQLALAALRSANKAKggv 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1013936593 241 NFKTYIEYKSQQLQIDTQSESYQNTLLQIEHIKSLLSKVELIDKNIVKPIDRKL 294
Cdd:cd20586    73 DFDRYLERVAARAASKMPDDPAAALTAVLDEIEYLVSEGARPEVAEVKEIDRKL 126
CYCLIN_CCNL_rpt1 cd20532
first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 90-166 3.96e-06

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: 45.63  E-value: 3.96e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  90 LNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTE------------------------DSHVEIDFYANG 145
Cdd:cd20532    26 LKLPQVVMATAQVLFHRFYYRKSLRKFDVKIVAMACLFLASKIEetprrlrdvinvfhrllqrrlgkpAEVLPLDIGSAE 105

                          90       100
                  ....*....|....*....|.
gi 1013936593 146 VGVTANDIIDLEIPILESLNF 166
Cdd:cd20532   106 YEELKNDIIKAERRILKELGF 126
CYCLIN_CABLES cd20556
cyclin box found in CDK5 and ABL1 enzyme substrate (CABLES) family; The CABLES family includes ...
 81-170 4.69e-06

cyclin box found in CDK5 and ABL1 enzyme substrate (CABLES) family; The CABLES family includes CABLES1 and CABLES2. CABLES1, also called interactor with CDK3 1 (Ik3-1), is a cyclin-dependent kinase binding protein that enhances cyclin-dependent kinase tyrosine phosphorylation by non-receptor tyrosine kinases, such as that of CDK5 by activated ABL1, which leads to increased CDK5 activity and is critical for neuronal development, and that of CDK2 by WEE1, which leads to decreased CDK2 activity and growth inhibition. CABLES2, also called interactor with CDK3 2 (Ik3-2), acts as a proapoptotic factor involved in both p53-mediated and p53-independent apoptotic pathways. Both, CABLES1 and CABLES2, contain one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410259  Cd Length: 119  Bit Score: 45.25  E-value: 4.69e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  81 YKIAEISKVLNLPdkVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLA------CKTEDSHVEIDFYANGVGVTANDII 154
Cdd:cd20556    14 LKIALKLCGLDVS--TVALAYVYFEKLVLKGLVNKSNRKLIAGACLLLAakfnddVKKEDLKSLLEEIEDVFRLTRKELI 91

                          90
                  ....*....|....*.
gi 1013936593 155 DLEIPILESLNFNLIV 170
Cdd:cd20556    92 AFEFPVLVALEFSLHV 107
CYCLIN_SpCG1C-like_rpt1 cd20545
first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar ...
 83-168 5.77e-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: 44.72  E-value: 5.77e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDS-----HVEIDFYA----NGVGVTAND- 152
Cdd:cd20545    12 IIRVGSRLKLPQTTLFTAATYFHRFYMRNSLKKYHYYEIAATCLFLATKVEESgrklrDIVIACAKvaqkNPNLVIDEQs 91

                          90       100
                  ....*....|....*....|....*
gi 1013936593 153 ---------IIDLEIPILESLNFNL 168
Cdd:cd20545    92 kevwrwrdsILYNEEVLLETLCFDL 116
CYCLIN_AcCycL_rpt1 cd20591
first cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
 83-139 7.39e-06

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: 44.83  E-value: 7.39e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1013936593  83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDSHVEI 139
Cdd:cd20591    22 IQESGILLKLPQAVMATGQVLFQRFYCKKSFARFNVKRVAASCVWLAAKLEESPRKI 78
CYCLIN_ScCTK2-like_rpt1 cd20547
first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar ...
 83-134 1.69e-04

first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar proteins; 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. CTK2 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410250 [Multi-domain]  Cd Length: 110  Bit Score: 40.41  E-value: 1.69e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1013936593  83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTED 134
Cdd:cd20547     9 ISQLCKKLKFPRRTLGTAMLLYQRFHLFNPFTDSSNYEVALACLFLASKIED 60
CYCLIN_CCNK_rpt2 cd20531
second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA ...
 171-236 2.33e-04

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: 40.01  E-value: 2.33e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1013936593 171 YHPYRPLHGYLMDIYNPQSKVKfnnnnmtfdQMWEMSRNWVQKSLYTDLPLQYHPFIIALACLSLS 236
Cdd:cd20531     1 EHPYKYLLKYAKQLKGDKNKIQ---------KLVQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLA 57
CYCLIN_CCNJ-like_rpt1 cd20528
first cyclin box found in cyclin-J (CCNJ) family; The CCNJ family includes two cyclins, CCNJ ...
 83-166 2.93e-04

first cyclin box found in cyclin-J (CCNJ) family; The CCNJ family includes two cyclins, CCNJ and CCNJ-like. CCNJ may regulate the cell cycle or transcription. 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: 410231 [Multi-domain]  Cd Length: 103  Bit Score: 39.51  E-value: 2.93e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTE--DSHV----EIDFYANGVGVTANDIIDL 156
Cdd:cd20528    14 LAVVSERLKLSDTTLHLAVYLLDRFMDRYDISEDQLHLVALTCLLLAAKFEelDDNIpkisDLNRYLCNSVYSKQEYLQM 93

                          90
                  ....*....|
gi 1013936593 157 EIPILESLNF 166
Cdd:cd20528    94 ELLILEFFQW 103
CYCLIN_CCNT_rpt1 cd20538
first cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 54-166 3.60e-04

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: 40.07  E-value: 3.60e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  54 KEYLAKNPTEKNILSILEEQQLICYYEYKIAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTE 133
Cdd:cd20538     6 REQLENTPSRRCGVDPDKELSYRQQAANLIQEMGQRLQVSQLCINTAIVYMHRFYMFHSFTKFHRNSIAAAALFLAAKVE 85

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1013936593 134 DS-----HV-------------EIDFYANGVGVTANDIIDLEIPILESLNF 166
Cdd:cd20538    86 EQprkleHVikvahaclhrgepDLDTKSEAYLQQAQELVINENILLQTLGF 136
CYCLIN_CCNT2_rpt1 cd20596
first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit ...
 83-166 1.43e-03

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: 38.49  E-value: 1.43e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  83 IAEISKVLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDS-----HV-------------EIDFYAN 144
Cdd:cd20596    37 IQDMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFHRNIISPTALFLAAKVEEQprkleHVikvahaclnplepQLDTKSD 116

                          90       100
                  ....*....|....*....|..
gi 1013936593 145 GVGVTANDIIDLEIPILESLNF 166
Cdd:cd20596   117 AYLQQAQELVILETIMLQTLGF 138
CYCLIN_CCNI-like cd20526
cyclin box found in cyclin-I (CCNI) and similar proteins; CCNI is an atypical cyclin because ...
 83-168 1.48e-03

cyclin box found in cyclin-I (CCNI) and similar proteins; CCNI is an atypical cyclin because it is most abundant in post-mitotic cells. It is involved in various biological processes, such as cell survival, angiogenesis, cell differentiation, and cell cycle progression. CCNI contains a typical cyclin box near the N-terminus and a PEST sequence near the C-terminus. The cyclin box is a protein binding domain.


Pssm-ID: 410230  Cd Length: 99  Bit Score: 37.68  E-value: 1.48e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  83 IAEISKVLNLPDKVAATGIIYLKRFFlknSVMKVSPK---LIMICCLYLACKT--EDSHVEI--DFYAN-GVGVTANDII 154
Cdd:cd20526     9 LAELNSQFKFYPETFALAVSILDRFL---ASVKARPKylrCIAISCLFLAAKTneEDEVIPStkDLVRVsKCGCSVAEVL 85

                          90
                  ....*....|....
gi 1013936593 155 DLEIPILESLNFNL 168
Cdd:cd20526    86 RMERIILDKLHWDL 99
CYCLIN_ScPCL7-like cd20558
cyclin box found in Saccharomyces cerevisiae PHO85 cyclin-7 (ScPCL7) and similar proteins; ...
 102-170 1.56e-03

cyclin box found in Saccharomyces cerevisiae PHO85 cyclin-7 (ScPCL7) and similar proteins; ScPCL7, also called PHO85-associated protein 1, is a cyclin partner of the cyclin-dependent kinase (CDK) PHO85. Together with cyclin PCL6, ScPCL7 controls glycogen phosphorylase and glycogen synthase activities in response to nutrient availablility. This family also includes Schizosaccharomyces pombe PHO85 cyclin-like protein Psl1 (SpPsl1) and Arabidopsis thaliana PHO80-like proteins, P-type cyclins (CYCPs). SpPsl1 is the cyclin partner of the CDK pef1 (PHO85 homolog). CYCPs may be involved in cell division, cell differentiation, and the nutritional status of the cell in Arabidopsis thaliana. Members of this family contain one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410261  Cd Length: 101  Bit Score: 37.54  E-value: 1.56e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1013936593 102 IYLKRFFLKNSVMKVSPKLI---MICCLYLACK-TEDSHVEIDFYANGVGVTANDIIDLEIPILESLNFNLIV 170
Cdd:cd20558    28 IYIDRLIATINGFVVTSLNVhrlLITALTLAAKfLDDRYYSNAYYAKVGGVSVSELNKLELEFLFLLDFDLHV 100
CYCLIN_ScPCL1-like cd20557
cyclin box found in Saccharomyces cerevisiae G1/S-specific cyclin PCL1, PCL2 and similar ...
 79-166 1.71e-03

cyclin box found in Saccharomyces cerevisiae G1/S-specific cyclin PCL1, PCL2 and similar proteins; The family includes a group of cyclin-like proteins that interact with the Pho85 cyclin-dependent kinase, such as Saccharomyces cerevisiae G1/S-specific cyclin PCL1, PCL2, PCL9 and their vertebrate counterparts, cyclin Pas1/PHO80 domain-containing protein 1 (CNPPD1). PCL1 (also called PHO85 cyclin-1, or cyclin HCS26) and PCL2 (also called PHO85 cyclin-1, or cyclin HCS26 homolog) are G1/S-specific cyclin partners of the cyclin-dependent kinase (CDK) PHO85. They are essential for the control of the cell cycle at the G1/S (start) transition. The PCL1-PHO85 cyclin-CDK holoenzyme is involved in phosphorylation of the CDK inhibitor (CKI) SIC1, which is required for its ubiquitination and degradation, releasing repression of b-type cyclins and promoting exit from mitosis. Together with cyclin PCL2, it positively controls degradation of sphingoid long chain base kinase LCB4. PCL1-PHO85 also phosphorylates HMS1, NCP1 and NPA3, which may all have a role in mitotic exit. PCL2-PHO85 also phosphorylates RVS167, linking cyclin-CDK activity with organization of the actin cytoskeleton. PCL9 is an M/G1-specific cyclin partner of the cyclin-dependent kinase (CDK) PHO85. It may have a role in bud site selection in the G1 phase. The family also includes cyclin Pas1/PHO80 domain-containing protein 1 (CNPPD1) and similar proteins. Their biological functions remain unclear. Members of this family contain one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410260  Cd Length: 94  Bit Score: 37.25  E-value: 1.71e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1013936593  79 YEYKIAEISKVLNLPDKVAATGIIYLKRFFLKNSVMK----VSPKLIMICCLYLACKT-EDSHVEIDFYANGVGVTANDI 153
Cdd:cd20557     2 LRSFIARLLRRTRLSPSVVLLALVYLERLRRRLPEALlgqeGSPYRLFLVALMLASKYlDDESYSNKSWAEISGLPVREL 81

                          90
                  ....*....|...
gi 1013936593 154 IDLEIPILESLNF 166
Cdd:cd20557    82 NAMEREFLEALDW 94
CYCLIN_CCNL2_rpt1 cd20590
first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 89-135 3.51e-03

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: 37.68  E-value: 3.51e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1013936593  89 VLNLPDKVAATGIIYLKRFFLKNSVMKVSPKLIMICCLYLACKTEDS 135
Cdd:cd20590    57 LLRLPQVAMATGQVLFQRFFYTKSFVKHSMEHVSMACVHLASKIEEA 103
CYCLIN_SpCG1C_ScCTK2-like_rpt2 cd20546
second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces ...
 214-236 4.07e-03

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: 36.19  E-value: 4.07e-03
                          10        20
                  ....*....|....*....|...
gi 1013936593 214 SLYTDLPLQYHPFIIALACLSLS 236
Cdd:cd20546    32 SYRTPLCLLYPPHVIAAAAIYLA 54
 
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.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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