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Conserved domains on  [gi|148232399|ref|NP_001081052|]
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cyclin-H [Xenopus laevis]

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 ...
 2-308 1.88e-180

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: 500.52  E-value: 1.88e-180
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399    2 YHNSTQKKHWTFLSEDEPLRRRIQANVRYRARIRATEKPRLSEIFSLEPHEELAICKYYEKRLLDFCNAFKPTMPKSVLG 81
Cdd:TIGR00569   1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399   82 TACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSSIQFVGNLGENPLgqeKILEQILEYELLLIQQLNFHLIVH 161
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPL---KALEQVLEYELLLIQQLNFHLIVH 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  162 NPYRPFEGFLIDVKTRYPMLENPEVLRKSADEFLNRVALTDACLLFAPSVIALTAILSTASRAGLNMESYLTECLSLKDN 241
Cdd:TIGR00569 158 NPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPGN 237

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 148232399  242 QETMSHLLDGMRRLKILVSKYEPARPEEVAALKKRLDHCHSTEVTL-SVHGRKRKGYEDDGYISKKPK 308
Cdd:TIGR00569 238 REELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLsSVKIRKRKGYEDDTYISKKAK 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 ...
 2-308 1.88e-180

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: 500.52  E-value: 1.88e-180
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399    2 YHNSTQKKHWTFLSEDEPLRRRIQANVRYRARIRATEKPRLSEIFSLEPHEELAICKYYEKRLLDFCNAFKPTMPKSVLG 81
Cdd:TIGR00569   1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399   82 TACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSSIQFVGNLGENPLgqeKILEQILEYELLLIQQLNFHLIVH 161
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPL---KALEQVLEYELLLIQQLNFHLIVH 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  162 NPYRPFEGFLIDVKTRYPMLENPEVLRKSADEFLNRVALTDACLLFAPSVIALTAILSTASRAGLNMESYLTECLSLKDN 241
Cdd:TIGR00569 158 NPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPGN 237

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 148232399  242 QETMSHLLDGMRRLKILVSKYEPARPEEVAALKKRLDHCHSTEVTL-SVHGRKRKGYEDDGYISKKPK 308
Cdd:TIGR00569 238 REELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLsSVKIRKRKGYEDDTYISKKAK 305
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 3-158 4.63e-74

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: 224.78  E-value: 4.63e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399   3 HNSTQKKHWTFLSEDEPLRRRIQANVRYRARIRATEKPRLSEIFSLEPHEELAICKYYEKRLLDFCNAFKptMPKSVLGT 82
Cdd:cd20524    1 HTSTQRKHWIFSSEEELAELRAEANEKAREKLKESLKEEDAEPKFLTPEEELLLVRYYEKKLLEFCRAFK--LPDSVLAT 78

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 148232399  83 ACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSSIQFVGNLGENplgqEKILEQILEYELLLIQQLNFHL 158
Cdd:cd20524   79 ALTYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNIKES----EKTAEIILEYELLLLQGLNFHL 150
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 162-260 1.20e-27

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: 103.39  E-value: 1.20e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  162 NPYRPFEGFLIDVKTRYPMLE-NPEVLRKSADEFLNRVALTDACLLFAPSVIALTAILSTASRAGlnmESYLTECLSLKD 240
Cdd:pfam16899   1 HPFRPLEGFLLDLKTRPPLLEdRIESLYKRAREILKSALLTDAYFLYTPSQIALAALLLADSPLA---EFYLTEKFGLPE 77

                          90       100
                  ....*....|....*....|.
gi 148232399  241 NQETM-SHLLDGMRRLKILVS 260
Cdd:pfam16899  78 DRETKlEKLLDTIESCRNLLK 98
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 44-222 2.07e-27

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: 108.67  E-value: 2.07e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  44 EIFSLEPH---EELAICK-YYEKRLLDFCNAFKPtmPKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEF- 118
Cdd:COG5333   28 DLLVLEPEltlEKELNLViYYLKLIMDLCTRLNL--PQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTp 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399 119 -NVSSIQFVgnlgENPLGQEKIL---EQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDVKTrypmLENPEVLrKSADEF 194
Cdd:COG5333  106 rDISIESFE----ARDLWSEEPKssrERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQE----KDKYKLL-QIAWKI 176

                        170       180
                 ....*....|....*....|....*...
gi 148232399 195 LNRVALTDACLLFAPSVIALTAILSTAS 222
Cdd:COG5333  177 INDALRTDLCLLYPPHIIALAALLIACE 204
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 62-152 5.43e-12

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: 60.68  E-value: 5.43e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399    62 KRLLDFCNAFKptMPKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSSIQFVGNLGENPlgqekiLE 141
Cdd:smart00385   1 DFLRRVCKALN--LDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGYFT------EE 72

                           90
                   ....*....|.
gi 148232399   142 QILEYELLLIQ 152
Cdd:smart00385  73 EILRMERLLLE 83
 
Name Accession Description Interval E-value
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 2-308 1.88e-180

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: 500.52  E-value: 1.88e-180
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399    2 YHNSTQKKHWTFLSEDEPLRRRIQANVRYRARIRATEKPRLSEIFSLEPHEELAICKYYEKRLLDFCNAFKPTMPKSVLG 81
Cdd:TIGR00569   1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399   82 TACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSSIQFVGNLGENPLgqeKILEQILEYELLLIQQLNFHLIVH 161
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPL---KALEQVLEYELLLIQQLNFHLIVH 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  162 NPYRPFEGFLIDVKTRYPMLENPEVLRKSADEFLNRVALTDACLLFAPSVIALTAILSTASRAGLNMESYLTECLSLKDN 241
Cdd:TIGR00569 158 NPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPGN 237

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 148232399  242 QETMSHLLDGMRRLKILVSKYEPARPEEVAALKKRLDHCHSTEVTL-SVHGRKRKGYEDDGYISKKPK 308
Cdd:TIGR00569 238 REELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLsSVKIRKRKGYEDDTYISKKAK 305
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 3-158 4.63e-74

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: 224.78  E-value: 4.63e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399   3 HNSTQKKHWTFLSEDEPLRRRIQANVRYRARIRATEKPRLSEIFSLEPHEELAICKYYEKRLLDFCNAFKptMPKSVLGT 82
Cdd:cd20524    1 HTSTQRKHWIFSSEEELAELRAEANEKAREKLKESLKEEDAEPKFLTPEEELLLVRYYEKKLLEFCRAFK--LPDSVLAT 78

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 148232399  83 ACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSSIQFVGNLGENplgqEKILEQILEYELLLIQQLNFHL 158
Cdd:cd20524   79 ALTYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNIKES----EKTAEIILEYELLLLQGLNFHL 150
CYCLIN_CCNH_rpt2 cd20525
second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 161-282 2.54e-44

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: 147.82  E-value: 2.54e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399 161 HNPYRPFEGFLIDVKTRYPML--ENPEVLRKSADEFLNRVALTDACLLFAPSVIALTAILSTASRAGLNMESYLTECLSL 238
Cdd:cd20525    1 HHPYRPLEGFLLDLKTRLPDLkaENLEKLYKEAREFLNRSLLTDAPLLYPPSQIALAALLLAASEAGIDVEEYLSEKLPG 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 148232399 239 KDNQETMSHLLDGMRRLKILVSKYE-PARPEEVAALKKRLDHCHS 282
Cdd:cd20525   81 SEESEELEKLLEIIREIKKLVKKYEgPPDKEEVKALDKKLKKCRN 125
CYCLIN_AcCycH_rpt1 cd20585
first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH ...
 5-158 7.61e-30

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: 111.84  E-value: 7.61e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399   5 STQKKHWTFlSEDEPLRRRIQANVR-----YRARIRATE-----------------KPRLSEIFSLEPHEELAICKYYEK 62
Cdd:cd20585    5 STHRQRWIF-TPQDLTEKREAANQRavdalQQCGATRVEaqaagslgggaevggsnGKAAKLPEPLSADEELLMLKYYEQ 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  63 RLLDFCNAFKptMPKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSSIQFVGNLGENPlgqekilEQ 142
Cdd:cd20585   84 KIQEVCRALR--LPNKIQATALLYFKRFYLQWSVMEHDPKRIMLTCIYLACKVEEYHVSAEELGKGIQQDH-------QL 154

                        170
                 ....*....|....*.
gi 148232399 143 ILEYELLLIQQLNFHL 158
Cdd:cd20585  155 ILKNELALLQGLNFDL 170
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 162-260 1.20e-27

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: 103.39  E-value: 1.20e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  162 NPYRPFEGFLIDVKTRYPMLE-NPEVLRKSADEFLNRVALTDACLLFAPSVIALTAILSTASRAGlnmESYLTECLSLKD 240
Cdd:pfam16899   1 HPFRPLEGFLLDLKTRPPLLEdRIESLYKRAREILKSALLTDAYFLYTPSQIALAALLLADSPLA---EFYLTEKFGLPE 77

                          90       100
                  ....*....|....*....|.
gi 148232399  241 NQETM-SHLLDGMRRLKILVS 260
Cdd:pfam16899  78 DRETKlEKLLDTIESCRNLLK 98
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 44-222 2.07e-27

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: 108.67  E-value: 2.07e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  44 EIFSLEPH---EELAICK-YYEKRLLDFCNAFKPtmPKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEF- 118
Cdd:COG5333   28 DLLVLEPEltlEKELNLViYYLKLIMDLCTRLNL--PQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTp 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399 119 -NVSSIQFVgnlgENPLGQEKIL---EQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDVKTrypmLENPEVLrKSADEF 194
Cdd:COG5333  106 rDISIESFE----ARDLWSEEPKssrERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQE----KDKYKLL-QIAWKI 176

                        170       180
                 ....*....|....*....|....*...
gi 148232399 195 LNRVALTDACLLFAPSVIALTAILSTAS 222
Cdd:COG5333  177 INDALRTDLCLLYPPHIIALAALLIACE 204
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 79-154 1.78e-14

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: 68.39  E-value: 1.78e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  79 VLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEF--NVSSIQFVGNLGENPLGQEKILE--QILEYELLLIQQL 154
Cdd:cd20513   22 VIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEECpsHARLIVAEAKVLKTKFSYEFPYRvnDILECEFYLLEAL 101
CYCLIN_AcCycH_rpt2 cd20586
second cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; ...
 161-280 1.55e-13

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: 66.68  E-value: 1.55e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399 161 HNPYRPFEGFLIDVKTRYPMLENPEV-----LRKSADEFLNRVALTDACLLFAPSVIALTAILSTA-SRAGLNMESYLTE 234
Cdd:cd20586    1 YAPYRALEGFVQDLEEFLAAGSGPDSqglqeLRKAALAAVDKLMLTDAPLLYPPGQLALAALRSANkAKGGVDFDRYLER 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 148232399 235 CLS---LKDNQETMSHLLDGMRRLKILVSKYEPARPEEVAALKKRLDHC 280
Cdd:cd20586   81 VAAraaSKMPDDPAAALTAVLDEIEYLVSEGARPEVAEVKEIDRKLKEC 129
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 62-152 5.43e-12

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: 60.68  E-value: 5.43e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399    62 KRLLDFCNAFKptMPKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSSIQFVGNLGENPlgqekiLE 141
Cdd:smart00385   1 DFLRRVCKALN--LDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGYFT------EE 72

                           90
                   ....*....|.
gi 148232399   142 QILEYELLLIQ 152
Cdd:smart00385  73 EILRMERLLLE 83
CYCLIN_SpCG1C-like_rpt1 cd20545
first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar ...
 75-117 5.79e-10

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: 56.28  E-value: 5.79e-10
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 148232399  75 MPKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDE 117
Cdd:cd20545   21 LPQTTLFTAATYFHRFYMRNSLKKYHYYEIAATCLFLATKVEE 63
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 62-126 2.21e-08

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: 50.49  E-value: 2.21e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 148232399  62 KRLLDFCNAFKptMPKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSSIQFV 126
Cdd:cd00043    4 DFIRRLCSKLG--LPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIA 66
CYCLIN_ScCTK2-like_rpt1 cd20547
first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar ...
 76-156 1.02e-07

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: 49.65  E-value: 1.02e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  76 PKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEF--NVSSIQFVGNLGENPLG----QEKILEQ---ILEY 146
Cdd:cd20547   19 PRRTLGTAMLLYQRFHLFNPFTDSSNYEVALACLFLASKIEDTqkKSKDILAASYNLRHPDKisvdDQMLEEFrkaILGL 98

                         90
                 ....*....|
gi 148232399 147 ELLLIQQLNF 156
Cdd:cd20547   99 ERLLLETICF 108
CYCLIN_CCNL_rpt1 cd20532
first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 75-117 1.83e-07

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: 49.09  E-value: 1.83e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 148232399  75 MPKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDE 117
Cdd:cd20532   28 LPQVVMATAQVLFHRFYYRKSLRKFDVKIVAMACLFLASKIEE 70
CYCLIN_CCNM_CCNQ_rpt1 cd20534
first cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 75-157 3.15e-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: 48.32  E-value: 3.15e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  75 MPKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDE--------FNVSSIQFVGNLGENPLGQE--KILEQIL 144
Cdd:cd20534   18 LSSVTIATACVLYHRFYRELSLEDYDPYLVAMACLYLAGKAEEqprrlrdiINVSYRILHPDKPPLELDDEywELRDSIV 97

                         90
                 ....*....|...
gi 148232399 145 EYELLLIQQLNFH 157
Cdd:cd20534   98 NCELLLLRILKFD 110
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 79-157 4.91e-07

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: 47.54  E-value: 4.91e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  79 VLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSS---IQFVGNLGENPLGQEKIlEQILEYELLLIQQLN 155
Cdd:cd20571   27 VVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAkllVFYMKRLYADEYHRYEI-KDILEMEMKLLEALD 105


                 ..
gi 148232399 156 FH 157
Cdd:cd20571  106 YY 107
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
 80-156 1.41e-04

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: 40.68  E-value: 1.41e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  80 LGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFN-------------VSSIQFvGNLGENPlgqekiLEQILEY 146
Cdd:cd20530   32 IATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEETPkkckdiiktarslLNDKQF-AQFGDDP------KEEVMVL 104

                         90
                 ....*....|
gi 148232399 147 ELLLIQQLNF 156
Cdd:cd20530  105 ERILLQTIKF 114
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 86-158 5.69e-04

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: 39.04  E-value: 5.69e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 148232399   86 YFKRFYLNNSVMEHHPRIIMLTCVFLACKVDEFNVSSIQFVGNLGENPLgqekILEQILEYELLLIQQLNFHL 158
Cdd:pfam00134  58 YLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEEIYPPTVEDLVYITDNAY----TREEILRMERLILETLNFDL 126
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 76-157 1.05e-03

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: 38.27  E-value: 1.05e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  76 PKSVLGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDE--FNVSSIQFVGN--------LGENPLGQEKILEQ--- 142
Cdd:cd20587   29 PQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVEEtpRPLKDVIVVSYeiifkkdpSAAQRIKQKEVYEQqke 108

                         90
                 ....*....|....*.
gi 148232399 143 -ILEYELLLIQQLNFH 157
Cdd:cd20587  109 lVLNGEKLVLSTLGFD 124
CYCLIN_CCNT2_rpt1 cd20596
first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit ...
 80-117 1.23e-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: 1.23e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 148232399  80 LGTACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDE 117
Cdd:cd20596   51 INTAIVYMHRFYMHHSFTKFHRNIISPTALFLAAKVEE 88
CYCLIN_CCNT_rpt1 cd20538
first cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 82-156 6.15e-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: 36.60  E-value: 6.15e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 148232399  82 TACMYFKRFYLNNSVMEHHPRIIMLTCVFLACKVDE--------FNVSSIQFvgNLGENPLG--QEKILEQ---ILEYEL 148
Cdd:cd20538   51 TAIVYMHRFYMFHSFTKFHRNSIAAAALFLAAKVEEqprklehvIKVAHACL--HRGEPDLDtkSEAYLQQaqeLVINEN 128


                 ....*...
gi 148232399 149 LLIQQLNF 156
Cdd:cd20538  129 ILLQTLGF 136
 
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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