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Conserved domains on  [gi|1391723557|ref|NP_001350468|]
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cyclin-H isoform 3 [Homo sapiens]

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 1.18e-178

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: 495.89  E-value: 1.18e-178
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557   2 YHNSSQKRHWTFSSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVG 81
Cdd:TIGR00569   1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  82 TACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLgqeKALEQILEYELLLIQQLNFHLIVH 161
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPL---KALEQVLEYELLLIQQLNFHLIVH 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557 162 NPYRPFEGFLIDLKTRYPILENPEILRKTADDFLNRIALTDAYLLYTPSQIALTAILSSASRAGITMESYLSESLMLKEN 241
Cdd:TIGR00569 158 NPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPGN 237

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1391723557 242 RTCLSQLLDIMKSMRNLVKKYEPPRSEEVAVLKQKLERCHSAELALN-VITKKRKGYEDDDYVSKKSK 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 1.18e-178

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: 495.89  E-value: 1.18e-178
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557   2 YHNSSQKRHWTFSSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVG 81
Cdd:TIGR00569   1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  82 TACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLgqeKALEQILEYELLLIQQLNFHLIVH 161
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPL---KALEQVLEYELLLIQQLNFHLIVH 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557 162 NPYRPFEGFLIDLKTRYPILENPEILRKTADDFLNRIALTDAYLLYTPSQIALTAILSSASRAGITMESYLSESLMLKEN 241
Cdd:TIGR00569 158 NPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPGN 237

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1391723557 242 RTCLSQLLDIMKSMRNLVKKYEPPRSEEVAVLKQKLERCHSAELALN-VITKKRKGYEDDDYVSKKSK 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 1.07e-76

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: 231.72  E-value: 1.07e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557   3 HNSSQKRHWTFSSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKpaMPRSVVGT 82
Cdd:cd20524     1 HTSTQRKHWIFSSEEELAELRAEANEKAREKLKESLKEEDAEPKFLTPEEELLLVRYYEKKLLEFCRAFK--LPDSVLAT 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1391723557  83 ACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESplgqEKALEQILEYELLLIQQLNFHL 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 3.56e-37

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: 128.42  E-value: 3.56e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557 162 NPYRPFEGFLIDLKTRYPILE-NPEILRKTADDFLNRIALTDAYLLYTPSQIALTAILSSASRAGitmESYLSESLMLKE 240
Cdd:pfam16899   1 HPFRPLEGFLLDLKTRPPLLEdRIESLYKRAREILKSALLTDAYFLYTPSQIALAALLLADSPLA---EFYLTEKFGLPE 77

                          90       100
                  ....*....|....*....|.
gi 1391723557 241 NRT-CLSQLLDIMKSMRNLVK 260
Cdd:pfam16899  78 DREtKLEKLLDTIESCRNLLK 98
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 48-222 1.87e-26

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: 105.97  E-value: 1.87e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  48 LEPHEEMT----LCKYYEKRLLEFCSVFKPamPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEF--NVS 121
Cdd:COG5333    32 LEPELTLEkelnLVIYYLKLIMDLCTRLNL--PQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTprDIS 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557 122 SPQFVGNLRESPLgQEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKtrypILENPEILrKTADDFLNRIALT 201
Cdd:COG5333   110 IESFEARDLWSEE-PKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQ----EKDKYKLL-QIAWKIINDALRT 183

                         170       180
                  ....*....|....*....|.
gi 1391723557 202 DAYLLYTPSQIALTAILSSAS 222
Cdd:COG5333   184 DLCLLYPPHIIALAALLIACE 204
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 62-152 3.60e-10

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: 55.68  E-value: 3.60e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557   62 KRLLEFCSVFKpaMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLresplgQEKALE 141
Cdd:smart00385   1 DFLRRVCKALN--LDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYT------GYFTEE 72

                           90
                   ....*....|.
gi 1391723557  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 1.18e-178

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: 495.89  E-value: 1.18e-178
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557   2 YHNSSQKRHWTFSSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVG 81
Cdd:TIGR00569   1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  82 TACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLgqeKALEQILEYELLLIQQLNFHLIVH 161
Cdd:TIGR00569  81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPL---KALEQVLEYELLLIQQLNFHLIVH 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557 162 NPYRPFEGFLIDLKTRYPILENPEILRKTADDFLNRIALTDAYLLYTPSQIALTAILSSASRAGITMESYLSESLMLKEN 241
Cdd:TIGR00569 158 NPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPGN 237

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1391723557 242 RTCLSQLLDIMKSMRNLVKKYEPPRSEEVAVLKQKLERCHSAELALN-VITKKRKGYEDDDYVSKKSK 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 1.07e-76

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: 231.72  E-value: 1.07e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557   3 HNSSQKRHWTFSSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKpaMPRSVVGT 82
Cdd:cd20524     1 HTSTQRKHWIFSSEEELAELRAEANEKAREKLKESLKEEDAEPKFLTPEEELLLVRYYEKKLLEFCRAFK--LPDSVLAT 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1391723557  83 ACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESplgqEKALEQILEYELLLIQQLNFHL 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 8.20e-46

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: 151.68  E-value: 8.20e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557 161 HNPYRPFEGFLIDLKTRYPIL--ENPEILRKTADDFLNRIALTDAYLLYTPSQIALTAILSSASRAGITMESYLSESLML 238
Cdd:cd20525     1 HHPYRPLEGFLLDLKTRLPDLkaENLEKLYKEAREFLNRSLLTDAPLLYPPSQIALAALLLAASEAGIDVEEYLSEKLPG 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1391723557 239 KENRTCLSQLLDIMKSMRNLVKKYE-PPRSEEVAVLKQKLERCHS 282
Cdd:cd20525    81 SEESEELEKLLEIIREIKKLVKKYEgPPDKEEVKALDKKLKKCRN 125
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 162-260 3.56e-37

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: 128.42  E-value: 3.56e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557 162 NPYRPFEGFLIDLKTRYPILE-NPEILRKTADDFLNRIALTDAYLLYTPSQIALTAILSSASRAGitmESYLSESLMLKE 240
Cdd:pfam16899   1 HPFRPLEGFLLDLKTRPPLLEdRIESLYKRAREILKSALLTDAYFLYTPSQIALAALLLADSPLA---EFYLTEKFGLPE 77

                          90       100
                  ....*....|....*....|.
gi 1391723557 241 NRT-CLSQLLDIMKSMRNLVK 260
Cdd:pfam16899  78 DREtKLEKLLDTIESCRNLLK 98
CYCLIN_AcCycH_rpt1 cd20585
first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH ...
 5-158 3.43e-27

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: 104.52  E-value: 3.43e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557   5 SSQKRHWTFSSEeQLARLRADAN----------RKFRCKAVANGKVLP-------NDPVFLEPH-----EEMTLCKYYEK 62
Cdd:cd20585     5 STHRQRWIFTPQ-DLTEKREAANqravdalqqcGATRVEAQAAGSLGGgaevggsNGKAAKLPEplsadEELLMLKYYEQ 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  63 RLLEFCSVFkpAMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPlgqekalEQ 142
Cdd:cd20585    84 KIQEVCRAL--RLPNKIQATALLYFKRFYLQWSVMEHDPKRIMLTCIYLACKVEEYHVSAEELGKGIQQDH-------QL 154

                         170
                  ....*....|....*.
gi 1391723557 143 ILEYELLLIQQLNFHL 158
Cdd:cd20585   155 ILKNELALLQGLNFDL 170
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 48-222 1.87e-26

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: 105.97  E-value: 1.87e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  48 LEPHEEMT----LCKYYEKRLLEFCSVFKPamPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEF--NVS 121
Cdd:COG5333    32 LEPELTLEkelnLVIYYLKLIMDLCTRLNL--PQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTprDIS 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557 122 SPQFVGNLRESPLgQEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKtrypILENPEILrKTADDFLNRIALT 201
Cdd:COG5333   110 IESFEARDLWSEE-PKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQ----EKDKYKLL-QIAWKIINDALRT 183

                         170       180
                  ....*....|....*....|.
gi 1391723557 202 DAYLLYTPSQIALTAILSSAS 222
Cdd:COG5333   184 DLCLLYPPHIIALAALLIACE 204
CYCLIN_AcCycH_rpt2 cd20586
second cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; ...
 161-280 9.90e-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: 72.46  E-value: 9.90e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557 161 HNPYRPFEGFLIDLKTRYPILENPEI-----LRKTADDFLNRIALTDAYLLYTPSQIALTAILSSA-SRAGITMESYLsE 234
Cdd:cd20586     1 YAPYRALEGFVQDLEEFLAAGSGPDSqglqeLRKAALAAVDKLMLTDAPLLYPPGQLALAALRSANkAKGGVDFDRYL-E 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 1391723557 235 SLM----LKENRTCLSQLLDIMKSMRNLVKKYEPPRSEEVAVLKQKLERC 280
Cdd:cd20586    80 RVAaraaSKMPDDPAAALTAVLDEIEYLVSEGARPEVAEVKEIDRKLKEC 129
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 79-154 7.74e-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: 61.07  E-value: 7.74e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  79 VVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLREspLGQEKALE------QILEYELLLIQ 152
Cdd:cd20513    22 VIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEECPSHARLIVAEAKV--LKTKFSYEfpyrvnDILECEFYLLE 99


                  ..
gi 1391723557 153 QL 154
Cdd:cd20513   100 AL 101
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 62-152 3.60e-10

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: 55.68  E-value: 3.60e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557   62 KRLLEFCSVFKpaMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLresplgQEKALE 141
Cdd:smart00385   1 DFLRRVCKALN--LDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYT------GYFTEE 72

                           90
                   ....*....|.
gi 1391723557  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 3.00e-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: 53.97  E-value: 3.00e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1391723557  75 MPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDE 117
Cdd:cd20545    21 LPQTTLFTAATYFHRFYMRNSLKKYHYYEIAATCLFLATKVEE 63
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 79-157 2.03e-08

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: 51.40  E-value: 2.03e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  79 VVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRE--SPLGQEKALEQILEYELLLIQQLNF 156
Cdd:cd20571    27 VVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAKLLVFYMKRlyADEYHRYEIKDILEMEMKLLEALDY 106


                  .
gi 1391723557 157 H 157
Cdd:cd20571   107 Y 107
CYCLIN_CCNL_rpt1 cd20532
first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 75-117 3.71e-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: 48.32  E-value: 3.71e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1391723557  75 MPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDE 117
Cdd:cd20532    28 LPQVVMATAQVLFHRFYYRKSLRKFDVKIVAMACLFLASKIEE 70
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 62-126 4.76e-07

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: 47.02  E-value: 4.76e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1391723557  62 KRLLEFCSVFKpaMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFV 126
Cdd:cd00043     4 DFIRRLCSKLG--LPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIA 66
CYCLIN_CCNM_CCNQ_rpt1 cd20534
first cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 82-157 1.34e-06

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: 46.39  E-value: 1.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  82 TACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDE--------FNVS--------SPQFVG----NLRESplgqekale 141
Cdd:cd20534    25 TACVLYHRFYRELSLEDYDPYLVAMACLYLAGKAEEqprrlrdiINVSyrilhpdkPPLELDdeywELRDS--------- 95

                          90
                  ....*....|....*.
gi 1391723557 142 qILEYELLLIQQLNFH 157
Cdd:cd20534    96 -IVNCELLLLRILKFD 110
CYCLIN_ScCTK2-like_rpt1 cd20547
first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar ...
 76-156 5.98e-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: 44.64  E-value: 5.98e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  76 PRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDE------------FNVSSPQFVGNLRESPLGQEKAleqI 143
Cdd:cd20547    19 PRRTLGTAMLLYQRFHLFNPFTDSSNYEVALACLFLASKIEDtqkkskdilaasYNLRHPDKISVDDQMLEEFRKA---I 95

                          90
                  ....*....|...
gi 1391723557 144 LEYELLLIQQLNF 156
Cdd:cd20547    96 LGLERLLLETICF 108
CYCLIN_CCNT2_rpt1 cd20596
first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit ...
 80-117 7.20e-04

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: 39.26  E-value: 7.20e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1391723557  80 VGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDE 117
Cdd:cd20596    51 INTAIVYMHRFYMHHSFTKFHRNIISPTALFLAAKVEE 88
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
 76-118 9.02e-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: 38.37  E-value: 9.02e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1391723557  76 PRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEF 118
Cdd:cd20530    28 PYDTIATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEET 70
CYCLIN_CCNT_rpt1 cd20538
first cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 82-156 2.34e-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: 37.76  E-value: 2.34e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391723557  82 TACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEfnvsSPQFVGNL---------RESPLGQEKA------LEQILEY 146
Cdd:cd20538    51 TAIVYMHRFYMFHSFTKFHRNSIAAAALFLAAKVEE----QPRKLEHVikvahaclhRGEPDLDTKSeaylqqAQELVIN 126

                          90
                  ....*....|
gi 1391723557 147 ELLLIQQLNF 156
Cdd:cd20538   127 ENILLQTLGF 136
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 86-158 3.11e-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: 37.11  E-value: 3.11e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1391723557  86 YFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEfnVSSPQfvgnLRESPLGQEKAL--EQILEYELLLIQQLNFHL 158
Cdd:pfam00134  58 YLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEE--IYPPT----VEDLVYITDNAYtrEEILRMERLILETLNFDL 126
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 76-117 6.05e-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: 36.34  E-value: 6.05e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1391723557  76 PRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDE 117
Cdd:cd20587    29 PQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVEE 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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