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Conserved domains on  [gi|3329502|gb|AAC26868|]
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cyclin H homolog [Drosophila melanogaster]

Protein Classification

ccl1 family protein( domain architecture ID 11489237)

ccl1 family protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 2-307 1.28e-169

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: 473.17  E-value: 1.28e-169
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502      2 YPVSSQKRSWTFANEGQLMEFRVEQNSKYIESHEEEAQGRDLNEHFLTSAEERLLLKQYEIYLFDFCRRFEPTMPKCVVG 81
Cdd:TIGR00569   1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502     82 TAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVNNIKGDRNKATDIVLSNELLLIGQLNYYLTIHNPF 161
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKALEQVLEYELLLIQQLNFHLIVHNPY 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502    162 RPIEGFLIDIKTRS-NMQNPDRLRPHIDSFIDSTYYSDACLLHTPSQIALAAVLHAASREQENLDSYVTDLLFVS-AREK 239
Cdd:TIGR00569 161 RPLEGFLIDIKTRLpGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPgNREE 240

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 3329502    240 LPGLIDAVRKIRIMVKQYQQPDREKVKAIEKKLDKCRNQANNPDSelYKERLRRLYTDeDDMPAEDAS 307
Cdd:TIGR00569 241 LPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLSS--VKIRKRKGYED-DTYISKKAK 305
 
Name Accession Description Interval E-value
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 2-307 1.28e-169

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: 473.17  E-value: 1.28e-169
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502      2 YPVSSQKRSWTFANEGQLMEFRVEQNSKYIESHEEEAQGRDLNEHFLTSAEERLLLKQYEIYLFDFCRRFEPTMPKCVVG 81
Cdd:TIGR00569   1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502     82 TAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVNNIKGDRNKATDIVLSNELLLIGQLNYYLTIHNPF 161
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKALEQVLEYELLLIQQLNFHLIVHNPY 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502    162 RPIEGFLIDIKTRS-NMQNPDRLRPHIDSFIDSTYYSDACLLHTPSQIALAAVLHAASREQENLDSYVTDLLFVS-AREK 239
Cdd:TIGR00569 161 RPLEGFLIDIKTRLpGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPgNREE 240

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 3329502    240 LPGLIDAVRKIRIMVKQYQQPDREKVKAIEKKLDKCRNQANNPDSelYKERLRRLYTDeDDMPAEDAS 307
Cdd:TIGR00569 241 LPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLSS--VKIRKRKGYED-DTYISKKAK 305
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 5-155 5.60e-65

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: 201.67  E-value: 5.60e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502    5 SSQKRSWTFANEGQLMEFRVEQNSKYIESHEEEAQGRDLNEHFLTSAEERLLLKQYEIYLFDFCRRFepTMPKCVVGTAF 84
Cdd:cd20524   3 STQRKHWIFSSEEELAELRAEANEKAREKLKESLKEEDAEPKFLTPEEELLLVRYYEKKLLEFCRAF--KLPDSVLATAL 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 3329502   85 HYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVNNIKGDRnKATDIVLSNELLLIGQLNYYL 155
Cdd:cd20524  81 TYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNIKESE-KTAEIILEYELLLLQGLNFHL 150
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 159-255 6.56e-31

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: 111.86  E-value: 6.56e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502    159 NPFRPIEGFLIDIKTRSNM--QNPDRLRPHIDSFIDSTYYSDACLLHTPSQIALAAVLHAASREQEnldSYVTDLLFV-- 234
Cdd:pfam16899   1 HPFRPLEGFLLDLKTRPPLleDRIESLYKRAREILKSALLTDAYFLYTPSQIALAALLLADSPLAE---FYLTEKFGLpe 77

                          90       100
                  ....*....|....*....|.
gi 3329502    235 SAREKLPGLIDAVRKIRIMVK 255
Cdd:pfam16899  78 DRETKLEKLLDTIESCRNLLK 98
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 22-218 2.60e-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: 110.98  E-value: 2.60e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502   22 FRVEQNSKYIESHEEEAQGRDLNEHFLTSAEERLLLKQYEIYLFDFCRRFEPtmPKCVVGTAFHYFKRFYLNNSPMDYHP 101
Cdd:COG5333  10 VSSRPLLSFDSSQNAIELDLLVLEPELTLEKELNLVIYYLKLIMDLCTRLNL--PQTVLATAILFFSRFYLKNSVEEISL 87

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502  102 KEILATCVFVACKVEEF--NVSINQFVNN------IKGDRNKatdiVLSNELLLIGQLNYYLTIHNPFRPIEGFLIDIKT 173
Cdd:COG5333  88 YSVVTTCVYLACKVEDTprDISIESFEARdlwseePKSSRER----ILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQE 163

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 3329502  174 RSNMQNPDRLRphidSFIDSTYYSDACLLHTPSQIALAAVLHAAS 218
Cdd:COG5333 164 KDKYKLLQIAW----KIINDALRTDLCLLYPPHIIALAALLIACE 204
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 63-146 2.50e-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: 58.76  E-value: 2.50e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502      63 YLFDFCRRFEptMPKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVNNIkGDRNKATDIVLS 142
Cdd:smart00385   2 FLRRVCKALN--LDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYT-GYFTEEEILRME 78


                   ....
gi 3329502     143 NELL 146
Cdd:smart00385  79 RLLL 82
 
Name Accession Description Interval E-value
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 2-307 1.28e-169

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: 473.17  E-value: 1.28e-169
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502      2 YPVSSQKRSWTFANEGQLMEFRVEQNSKYIESHEEEAQGRDLNEHFLTSAEERLLLKQYEIYLFDFCRRFEPTMPKCVVG 81
Cdd:TIGR00569   1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502     82 TAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVNNIKGDRNKATDIVLSNELLLIGQLNYYLTIHNPF 161
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKALEQVLEYELLLIQQLNFHLIVHNPY 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502    162 RPIEGFLIDIKTRS-NMQNPDRLRPHIDSFIDSTYYSDACLLHTPSQIALAAVLHAASREQENLDSYVTDLLFVS-AREK 239
Cdd:TIGR00569 161 RPLEGFLIDIKTRLpGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPgNREE 240

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 3329502    240 LPGLIDAVRKIRIMVKQYQQPDREKVKAIEKKLDKCRNQANNPDSelYKERLRRLYTDeDDMPAEDAS 307
Cdd:TIGR00569 241 LPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLSS--VKIRKRKGYED-DTYISKKAK 305
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 5-155 5.60e-65

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: 201.67  E-value: 5.60e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502    5 SSQKRSWTFANEGQLMEFRVEQNSKYIESHEEEAQGRDLNEHFLTSAEERLLLKQYEIYLFDFCRRFepTMPKCVVGTAF 84
Cdd:cd20524   3 STQRKHWIFSSEEELAELRAEANEKAREKLKESLKEEDAEPKFLTPEEELLLVRYYEKKLLEFCRAF--KLPDSVLATAL 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 3329502   85 HYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVNNIKGDRnKATDIVLSNELLLIGQLNYYL 155
Cdd:cd20524  81 TYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNIKESE-KTAEIILEYELLLLQGLNFHL 150
CYCLIN_CCNH_rpt2 cd20525
second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 158-278 8.33e-45

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: 148.98  E-value: 8.33e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502  158 HNPFRPIEGFLIDIKTRSNM---QNPDRLRPHIDSFIDSTYYSDACLLHTPSQIALAAVLHAASREQENLDSYVTDLLFV 234
Cdd:cd20525   1 HHPYRPLEGFLLDLKTRLPDlkaENLEKLYKEAREFLNRSLLTDAPLLYPPSQIALAALLLAASEAGIDVEEYLSEKLPG 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
gi 3329502  235 SA-REKLPGLIDAVRKIRIMVKQYQ-QPDREKVKAIEKKLDKCRNQ 278
Cdd:cd20525  81 SEeSEELEKLLEIIREIKKLVKKYEgPPDKEEVKALDKKLKKCRNP 126
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 159-255 6.56e-31

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: 111.86  E-value: 6.56e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502    159 NPFRPIEGFLIDIKTRSNM--QNPDRLRPHIDSFIDSTYYSDACLLHTPSQIALAAVLHAASREQEnldSYVTDLLFV-- 234
Cdd:pfam16899   1 HPFRPLEGFLLDLKTRPPLleDRIESLYKRAREILKSALLTDAYFLYTPSQIALAALLLADSPLAE---FYLTEKFGLpe 77

                          90       100
                  ....*....|....*....|.
gi 3329502    235 SAREKLPGLIDAVRKIRIMVK 255
Cdd:pfam16899  78 DRETKLEKLLDTIESCRNLLK 98
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 22-218 2.60e-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: 110.98  E-value: 2.60e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502   22 FRVEQNSKYIESHEEEAQGRDLNEHFLTSAEERLLLKQYEIYLFDFCRRFEPtmPKCVVGTAFHYFKRFYLNNSPMDYHP 101
Cdd:COG5333  10 VSSRPLLSFDSSQNAIELDLLVLEPELTLEKELNLVIYYLKLIMDLCTRLNL--PQTVLATAILFFSRFYLKNSVEEISL 87

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502  102 KEILATCVFVACKVEEF--NVSINQFVNN------IKGDRNKatdiVLSNELLLIGQLNYYLTIHNPFRPIEGFLIDIKT 173
Cdd:COG5333  88 YSVVTTCVYLACKVEDTprDISIESFEARdlwseePKSSRER----ILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQE 163

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 3329502  174 RSNMQNPDRLRphidSFIDSTYYSDACLLHTPSQIALAAVLHAAS 218
Cdd:COG5333 164 KDKYKLLQIAW----KIINDALRTDLCLLYPPHIIALAALLIACE 204
CYCLIN_AcCycH_rpt1 cd20585
first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH ...
 48-155 2.26e-23

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: 94.51  E-value: 2.26e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502   48 LTSAEERLLLKQYEIYLFDFCRRFEptMPKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVN 127
Cdd:cd20585  69 LSADEELLMLKYYEQKIQEVCRALR--LPNKIQATALLYFKRFYLQWSVMEHDPKRIMLTCIYLACKVEEYHVSAEELGK 146

                        90       100
                ....*....|....*....|....*...
gi 3329502  128 NIKGDRnkatDIVLSNELLLIGQLNYYL 155
Cdd:cd20585 147 GIQQDH----QLILKNELALLQGLNFDL 170
CYCLIN_AcCycH_rpt2 cd20586
second cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; ...
 158-277 8.77e-16

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: 72.85  E-value: 8.77e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502  158 HNPFRPIEGFLIDIKT-RSNMQNPD-----RLRPHIDSFIDSTYYSDACLLHTPSQIALAAvLHAASREQE--NLDSYVT 229
Cdd:cd20586   1 YAPYRALEGFVQDLEEfLAAGSGPDsqglqELRKAALAAVDKLMLTDAPLLYPPGQLALAA-LRSANKAKGgvDFDRYLE 79

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 3329502  230 DL-----LFVSAR--EKLPGLIDAvrkIRIMVKQYQQPDREKVKAIEKKLDKCRN 277
Cdd:cd20586  80 RVaaraaSKMPDDpaAALTAVLDE---IEYLVSEGARPEVAEVKEIDRKLKECRA 131
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 79-123 1.01e-11

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: 60.69  E-value: 1.01e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 3329502   79 VVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSIN 123
Cdd:cd20513  22 VIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEECPSHAR 66
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 63-146 2.50e-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: 58.76  E-value: 2.50e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502      63 YLFDFCRRFEptMPKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVNNIkGDRNKATDIVLS 142
Cdd:smart00385   2 FLRRVCKALN--LDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYT-GYFTEEEILRME 78


                   ....
gi 3329502     143 NELL 146
Cdd:smart00385  79 RLLL 82
CYCLIN_SpCG1C-like_rpt1 cd20545
first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar ...
 75-117 1.11e-09

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: 55.12  E-value: 1.11e-09
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 3329502   75 MPKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEE 117
Cdd:cd20545  21 LPQTTLFTAATYFHRFYMRNSLKKYHYYEIAATCLFLATKVEE 63
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 63-126 2.41e-09

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: 53.18  E-value: 2.41e-09
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 3329502   63 YLFDFCRRFEptMPKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFV 126
Cdd:cd00043   5 FIRRLCSKLG--LPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIA 66
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 79-154 3.17e-06

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: 45.23  E-value: 3.17e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502   79 VVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVNNIK------GDRNKATDIvLSNELLLIGQLN 152
Cdd:cd20571  27 VVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAKLLVFYMKrlyadeYHRYEIKDI-LEMEMKLLEALD 105


                ..
gi 3329502  153 YY 154
Cdd:cd20571 106 YY 107
CYCLIN_ScCTK2-like_rpt1 cd20547
first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar ...
 76-117 8.21e-06

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: 44.26  E-value: 8.21e-06
                        10        20        30        40
                ....*....|....*....|....*....|....*....|..
gi 3329502   76 PKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEE 117
Cdd:cd20547  19 PRRTLGTAMLLYQRFHLFNPFTDSSNYEVALACLFLASKIED 60
CYCLIN_CCNM_CCNQ_rpt1 cd20534
first cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 63-127 4.18e-05

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: 42.16  E-value: 4.18e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 3329502   63 YLFDFCRRFEptMPKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVN 127
Cdd:cd20534   8 FIREAGLKLE--LSSVTIATACVLYHRFYRELSLEDYDPYLVAMACLYLAGKAEEQPRRLRDIIN 70
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 52-117 8.80e-04

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: 38.65  E-value: 8.80e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 3329502   52 EERLLLKQYEIYLFDFCRRFEptMPKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEE 117
Cdd:cd20587   7 KETYLRKSYCTFLQDLGMRLK--VPQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVEE 70
CYCLIN_CCNC_rpt2 cd20514
second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 160-231 1.41e-03

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: 37.21  E-value: 1.41e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 3329502  160 PFRPIEGFLIDIKTRsnmqnpDRLRPHIDSFIDSTYYSDACLLHTPSQIALAAVLHAASREQENLDSYVTDL 231
Cdd:cd20514   2 PYRPLTQYVQDAGLD------DELLPLAWRIVNDSYRTDVCLLYPPYLIALACLHMACVLLQKDARQWFAEL 67
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 46-156 1.99e-03

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: 37.50  E-value: 1.99e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3329502     46 HFLTSAEERL------LLKQYEIY----------LFDFCRRFE---PTMPKCVVgtafhYFKRFYLNNSPMDYHPKEILA 106
Cdd:pfam00134   4 QYLRELELKYlpkpdyMDQQPDINpkmrailidwLVEVHEKFKllpETLYLAVN-----YLDRFLSKKSVPKNKLQLVGV 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 3329502    107 TCVFVACKVEEFNV-SINQFVNNIKGDRNKATdiVLSNELLLIGQLNYYLT 156
Cdd:pfam00134  79 TCLFIAAKYEEIYPpTVEDLVYITDNAYTREE--ILRMERLILETLNFDLS 127
CYCLIN_CCNL_rpt1 cd20532
first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 75-117 2.53e-03

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: 37.54  E-value: 2.53e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 3329502   75 MPKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEE 117
Cdd:cd20532  28 LPQVVMATAQVLFHRFYYRKSLRKFDVKIVAMACLFLASKIEE 70
CYCLIN_AcCycL_rpt1 cd20591
first cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
 75-127 3.76e-03

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: 37.12  E-value: 3.76e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 3329502   75 MPKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVN 127
Cdd:cd20591  31 LPQAVMATGQVLFQRFYCKKSFARFNVKRVAASCVWLAAKLEESPRKIRQVLM 83
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
 47-118 3.80e-03

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: 36.44  E-value: 3.80e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 3329502   47 FLTSAEERLLLKQYEIYLFDFCRRFEptMPKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEF 118
Cdd:cd20530   1 GIDPETEARYRREGARFIQDVGTKLG--LPYDTIATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEET 70
 
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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