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Conserved domains on  [gi|6325282|ref|NP_015350|]
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TFIIH complex kinase subunit CCL1 [Saccharomyces cerevisiae S288C]

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 ...
 49-376 1.46e-135

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: 389.58  E-value: 1.46e-135
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282     49 YRHSSQYRMWSYT-KDQLQEKRVDTNAraiayieenllKFREAHnltEEEIKVLEAKAIPLTMEEELDLVNFYAKKVQVI 127
Cdd:TIGR00569   1 YRNSSQKRHWTFTsEEQLQEKRADANA-----------KFREAH---EEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDF 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    128 AQHLN--LPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISVDSFAQKAKSTR----DSVLKFEFKL 201
Cdd:TIGR00569  67 CSAFKptMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPlkalEQVLEYELLL 146

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    202 LESLKFSLLNHHPYKPLHGFFLDIQNVLYGKVDLNYMGQIYDrckKRITAALLTDVVYFYTPPQITLATLLIEDEALVtr 281
Cdd:TIGR00569 147 IQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHAD---KFLNRTLLTDAYLLYTPSQIALAAILHTASRAG-- 221

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    282 yleTKFPSREGSQESVPGNEKEEPQNDASTTEKNKEKSTESEEYSIDSAKLLTIIRECKSIIEDCKPpsteeaKKIAAKN 361
Cdd:TIGR00569 222 ---LNMESYLTEQLSVPGNREELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLSS------VKIRKRK 292

                         330
                  ....*....|....*
gi 6325282    362 YYCQnpSTLIQKLKR 376
Cdd:TIGR00569 293 GYED--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 ...
 49-376 1.46e-135

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: 389.58  E-value: 1.46e-135
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282     49 YRHSSQYRMWSYT-KDQLQEKRVDTNAraiayieenllKFREAHnltEEEIKVLEAKAIPLTMEEELDLVNFYAKKVQVI 127
Cdd:TIGR00569   1 YRNSSQKRHWTFTsEEQLQEKRADANA-----------KFREAH---EEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDF 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    128 AQHLN--LPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISVDSFAQKAKSTR----DSVLKFEFKL 201
Cdd:TIGR00569  67 CSAFKptMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPlkalEQVLEYELLL 146

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    202 LESLKFSLLNHHPYKPLHGFFLDIQNVLYGKVDLNYMGQIYDrckKRITAALLTDVVYFYTPPQITLATLLIEDEALVtr 281
Cdd:TIGR00569 147 IQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHAD---KFLNRTLLTDAYLLYTPSQIALAAILHTASRAG-- 221

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    282 yleTKFPSREGSQESVPGNEKEEPQNDASTTEKNKEKSTESEEYSIDSAKLLTIIRECKSIIEDCKPpsteeaKKIAAKN 361
Cdd:TIGR00569 222 ---LNMESYLTEQLSVPGNREELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLSS------VKIRKRK 292

                         330
                  ....*....|....*
gi 6325282    362 YYCQnpSTLIQKLKR 376
Cdd:TIGR00569 293 GYED--DTYISKKAK 305
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 71-377 1.09e-92

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: 280.08  E-value: 1.09e-92
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282   71 DTNARAIAYIEENL-LKFREAHNLTEEEIKVLEAKaipLTMEEELDLVNFYAKKVQVIAQHLNLPTEVVATAISFFRRFF 149
Cdd:COG5333   1 MANALESNLVSSRPlLSFDSSQNAIELDLLVLEPE---LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFY 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  150 LENSVMQIDPKSIVHTTIFLACKSEN--YFISVDSFAQ------KAKSTRDSVLKFEFKLLESLKFSLLNHHPYKPLHGF 221
Cdd:COG5333  78 LKNSVEEISLYSVVTTCVYLACKVEDtpRDISIESFEArdlwseEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGF 157

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  222 FLDIQNVLYGKvdlnymgqIYDRCKKRITAALLTDVVYFYTPPQITLATLLIEDEALVTRYLETK-FPSREGSQESVPGN 300
Cdd:COG5333 158 LKDLQEKDKYK--------LLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLGMPIIKLLdFVSYETKEEVIALN 229

                       250       260       270       280       290       300       310
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6325282  301 EKeepqndasTTEKNKEKSTESEEYSIDSAKLLTIIREcKSIIEDCKPPSTEEAKKIAAKNYYCQNPSTLIQKLKRK 377
Cdd:COG5333 230 YK--------SIVKNKIKTFKAEHLSRDLPFTLQNIAE-PQFALDKKPKSEEEADKIPDHNKYLQPSSTITDKNNVQ 297
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 50-209 8.11e-49

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: 162.38  E-value: 8.11e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282   50 RHSSQYRMWSYT-KDQLQEKRVDTNARAIAYIEENLLKFreahnlteeeikvlEAKAIPLTMEEELDLVNFYAKKVQVIA 128
Cdd:cd20524   1 HTSTQRKHWIFSsEEELAELRAEANEKAREKLKESLKEE--------------DAEPKFLTPEEELLLVRYYEKKLLEFC 66

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  129 QHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISVDSFAQK---AKSTRDSVLKFEFKLLESL 205
Cdd:cd20524  67 RAFKLPDSVLATALTYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNikeSEKTAEIILEYELLLLQGL 146


                ....
gi 6325282  206 KFSL 209
Cdd:cd20524 147 NFHL 150
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 213-344 3.06e-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: 114.56  E-value: 3.06e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    213 HPYKPLHGFFLDIQNVlyGKVDLNYMGQIYDRCKKRITAALLTDVVYFYTPPQITLATLLIEDEALVTRYLETKFPSREG 292
Cdd:pfam16899   1 HPFRPLEGFLLDLKTR--PPLLEDRIESLYKRAREILKSALLTDAYFLYTPSQIALAALLLADSPLAEFYLTEKFGLPED 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 6325282    293 SQESVPgnekeepqndastteknkeksteseeysidsaKLLTIIRECKSIIE 344
Cdd:pfam16899  79 RETKLE--------------------------------KLLDTIESCRNLLK 98
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 127-203 4.38e-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: 4.38e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6325282     127 IAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISVDSFAQKAK-STRDSVLKFEFKLLE 203
Cdd:smart00385   6 VCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGyFTEEEILRMERLLLE 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 ...
 49-376 1.46e-135

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: 389.58  E-value: 1.46e-135
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282     49 YRHSSQYRMWSYT-KDQLQEKRVDTNAraiayieenllKFREAHnltEEEIKVLEAKAIPLTMEEELDLVNFYAKKVQVI 127
Cdd:TIGR00569   1 YRNSSQKRHWTFTsEEQLQEKRADANA-----------KFREAH---EEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDF 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    128 AQHLN--LPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISVDSFAQKAKSTR----DSVLKFEFKL 201
Cdd:TIGR00569  67 CSAFKptMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPlkalEQVLEYELLL 146

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    202 LESLKFSLLNHHPYKPLHGFFLDIQNVLYGKVDLNYMGQIYDrckKRITAALLTDVVYFYTPPQITLATLLIEDEALVtr 281
Cdd:TIGR00569 147 IQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHAD---KFLNRTLLTDAYLLYTPSQIALAAILHTASRAG-- 221

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    282 yleTKFPSREGSQESVPGNEKEEPQNDASTTEKNKEKSTESEEYSIDSAKLLTIIRECKSIIEDCKPpsteeaKKIAAKN 361
Cdd:TIGR00569 222 ---LNMESYLTEQLSVPGNREELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLSS------VKIRKRK 292

                         330
                  ....*....|....*
gi 6325282    362 YYCQnpSTLIQKLKR 376
Cdd:TIGR00569 293 GYED--DTYISKKAK 305
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 71-377 1.09e-92

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: 280.08  E-value: 1.09e-92
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282   71 DTNARAIAYIEENL-LKFREAHNLTEEEIKVLEAKaipLTMEEELDLVNFYAKKVQVIAQHLNLPTEVVATAISFFRRFF 149
Cdd:COG5333   1 MANALESNLVSSRPlLSFDSSQNAIELDLLVLEPE---LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFY 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  150 LENSVMQIDPKSIVHTTIFLACKSEN--YFISVDSFAQ------KAKSTRDSVLKFEFKLLESLKFSLLNHHPYKPLHGF 221
Cdd:COG5333  78 LKNSVEEISLYSVVTTCVYLACKVEDtpRDISIESFEArdlwseEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGF 157

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  222 FLDIQNVLYGKvdlnymgqIYDRCKKRITAALLTDVVYFYTPPQITLATLLIEDEALVTRYLETK-FPSREGSQESVPGN 300
Cdd:COG5333 158 LKDLQEKDKYK--------LLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLGMPIIKLLdFVSYETKEEVIALN 229

                       250       260       270       280       290       300       310
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6325282  301 EKeepqndasTTEKNKEKSTESEEYSIDSAKLLTIIREcKSIIEDCKPPSTEEAKKIAAKNYYCQNPSTLIQKLKRK 377
Cdd:COG5333 230 YK--------SIVKNKIKTFKAEHLSRDLPFTLQNIAE-PQFALDKKPKSEEEADKIPDHNKYLQPSSTITDKNNVQ 297
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 50-209 8.11e-49

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: 162.38  E-value: 8.11e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282   50 RHSSQYRMWSYT-KDQLQEKRVDTNARAIAYIEENLLKFreahnlteeeikvlEAKAIPLTMEEELDLVNFYAKKVQVIA 128
Cdd:cd20524   1 HTSTQRKHWIFSsEEELAELRAEANEKAREKLKESLKEE--------------DAEPKFLTPEEELLLVRYYEKKLLEFC 66

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  129 QHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISVDSFAQK---AKSTRDSVLKFEFKLLESL 205
Cdd:cd20524  67 RAFKLPDSVLATALTYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNikeSEKTAEIILEYELLLLQGL 146


                ....
gi 6325282  206 KFSL 209
Cdd:cd20524 147 NFHL 150
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 213-344 3.06e-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: 114.56  E-value: 3.06e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    213 HPYKPLHGFFLDIQNVlyGKVDLNYMGQIYDRCKKRITAALLTDVVYFYTPPQITLATLLIEDEALVTRYLETKFPSREG 292
Cdd:pfam16899   1 HPFRPLEGFLLDLKTR--PPLLEDRIESLYKRAREILKSALLTDAYFLYTPSQIALAALLLADSPLAEFYLTEKFGLPED 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 6325282    293 SQESVPgnekeepqndastteknkeksteseeysidsaKLLTIIRECKSIIE 344
Cdd:pfam16899  79 RETKLE--------------------------------KLLDTIESCRNLLK 98
CYCLIN_AcCycH_rpt1 cd20585
first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH ...
 52-209 8.19e-29

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: 110.30  E-value: 8.19e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282   52 SSQYRMWSYTKDQLQEKRVDTNARAIAYIEENLLKFREAH---NLTEEEIKVLEAKAI-----PLTMEEELDLVNFYAKK 123
Cdd:cd20585   5 STHRQRWIFTPQDLTEKREAANQRAVDALQQCGATRVEAQaagSLGGGAEVGGSNGKAaklpePLSADEELLMLKYYEQK 84

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  124 VQVIAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISVDSFAQKAKSTRDSVLKFEFKLLE 203
Cdd:cd20585  85 IQEVCRALRLPNKIQATALLYFKRFYLQWSVMEHDPKRIMLTCIYLACKVEEYHVSAEELGKGIQQDHQLILKNELALLQ 164


                ....*.
gi 6325282  204 SLKFSL 209
Cdd:cd20585 165 GLNFDL 170
CYCLIN_CCNH_rpt2 cd20525
second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 212-367 1.47e-26

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: 102.76  E-value: 1.47e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  212 HHPYKPLHGFFLDIQNVLYGKVDLNyMGQIYDRCKKRITAALLTDVVYFYTPPQITLATLLIEDEA---LVTRYLETKFP 288
Cdd:cd20525   1 HHPYRPLEGFLLDLKTRLPDLKAEN-LEKLYKEAREFLNRSLLTDAPLLYPPSQIALAALLLAASEagiDVEEYLSEKLP 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  289 SREGSQEsvpgnekeepqndastteknkeksteseeysidSAKLLTIIRECKSIIEDCK-PPSTEEAKKIAAKNYYCQNP 367
Cdd:cd20525  80 GSEESEE---------------------------------LEKLLEIIREIKKLVKKYEgPPDKEEVKALDKKLKKCRNP 126
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 119-205 5.47e-16

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: 73.01  E-value: 5.47e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  119 FYAKKVQVIAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISVDSFAQKAKS--------- 189
Cdd:cd20513   4 FFANFIQALGERLKLRQRVIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEECPSHARLIVAEAKVlktkfsyef 83

                        90
                ....*....|....*...
gi 6325282  190 --TRDSVLKFEFKLLESL 205
Cdd:cd20513  84 pyRVNDILECEFYLLEAL 101
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 127-200 8.80e-11

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: 57.81  E-value: 8.80e-11
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6325282  127 IAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISVDSFAQKAKSTRDSVLKFEFK 200
Cdd:cd00043   9 LCSKLGLPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIAKVSGVSEKELRKAEKE 82
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 127-203 4.38e-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: 4.38e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6325282     127 IAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISVDSFAQKAK-STRDSVLKFEFKLLE 203
Cdd:smart00385   6 VCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGyFTEEEILRMERLLLE 83
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 112-207 2.37e-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: 48.70  E-value: 2.37e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  112 EELDLVNFY-AKKVQVIAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSEN---------YFISVD 181
Cdd:cd20571   1 EDVKLIKIHmSNYIKKLAQHIKVRQRVVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEEstvqakllvFYMKRL 80

                        90       100
                ....*....|....*....|....*.
gi 6325282  182 SFAQKAKSTRDSVLKFEFKLLESLKF 207
Cdd:cd20571  81 YADEYHRYEIKDILEMEMKLLEALDY 106
CYCLIN_SpCG1C-like_rpt1 cd20545
first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar ...
 127-209 3.76e-07

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: 48.57  E-value: 3.76e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  127 IAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFIS----VDSFAQKAKST------------ 190
Cdd:cd20545  15 VGSRLKLPQTTLFTAATYFHRFYMRNSLKKYHYYEIAATCLFLATKVEESGRKlrdiVIACAKVAQKNpnlvideqskev 94

                        90       100
                ....*....|....*....|..
gi 6325282  191 ---RDSVLKFEFKLLESLKFSL 209
Cdd:cd20545  95 wrwRDSILYNEEVLLETLCFDL 116
CYCLIN_AcCycH_rpt2 cd20586
second cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; ...
 212-367 4.74e-07

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


Pssm-ID: 410289 [Multi-domain]  Cd Length: 132  Bit Score: 48.58  E-value: 4.74e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  212 HHPYKPLHGFFLDIQNVLYGKVDLNYmgQIYDRCKKRITAA----LLTDVVYFYTPPQITLATLLIEDEAL----VTRYL 283
Cdd:cd20586   1 YAPYRALEGFVQDLEEFLAAGSGPDS--QGLQELRKAALAAvdklMLTDAPLLYPPGQLALAALRSANKAKggvdFDRYL 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  284 ETKFpSREGSQESVPGnekeepqndastteknkeksteseeysidSAKLLTIIRECKSIIEDCKPPSTEEAKKIAAKNYY 363
Cdd:cd20586  79 ERVA-ARAASKMPDDP-----------------------------AAALTAVLDEIEYLVSEGARPEVAEVKEIDRKLKE 128


                ....
gi 6325282  364 CQNP 367
Cdd:cd20586 129 CRAP 132
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 127-209 7.04e-07

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: 47.90  E-value: 7.04e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282    127 IAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSEN---------YFISVDSFaqkaksTRDSVLKF 197
Cdd:pfam00134  41 VHEKFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEEiypptvedlVYITDNAY------TREEILRM 114

                          90
                  ....*....|..
gi 6325282    198 EFKLLESLKFSL 209
Cdd:pfam00134 115 ERLILETLNFDL 126
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
 120-207 2.71e-06

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: 46.07  E-value: 2.71e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  120 YAKKVQVIAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENY-------------FISVDSFAQK 186
Cdd:cd20530  14 GARFIQDVGTKLGLPYDTIATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEETpkkckdiiktarsLLNDKQFAQF 93

                        90       100
                ....*....|....*....|.
gi 6325282  187 AKSTRDSVLKFEFKLLESLKF 207
Cdd:cd20530  94 GDDPKEEVMVLERILLQTIKF 114
CYCLIN_CCNM_CCNQ_rpt1 cd20534
first cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 128-207 3.08e-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: 45.62  E-value: 3.08e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  128 AQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSEN------------YFIS--------VDSfaqKA 187
Cdd:cd20534  13 GLKLELSSVTIATACVLYHRFYRELSLEDYDPYLVAMACLYLAGKAEEqprrlrdiinvsYRILhpdkppleLDD---EY 89

                        90       100
                ....*....|....*....|
gi 6325282  188 KSTRDSVLKFEFKLLESLKF 207
Cdd:cd20534  90 WELRDSIVNCELLLLRILKF 109
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 120-174 3.50e-06

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: 45.97  E-value: 3.50e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 6325282  120 YAKKVQVIAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSE 174
Cdd:cd20587  15 YCTFLQDLGMRLKVPQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVE 69
CYCLIN_CCNT2_rpt1 cd20596
first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit ...
 94-174 2.54e-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: 40.80  E-value: 2.54e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282   94 TEEEIKVLEAKAIPLTMEEELDLVNFYAKKVQVIAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKS 173
Cdd:cd20596   7 TREQLENTPSRRCGVEADKELSYRQQAANLIQDMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFHRNIISPTALFLAAKV 86


                .
gi 6325282  174 E 174
Cdd:cd20596  87 E 87
CYCLIN_ScCTK2-like_rpt1 cd20547
first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar ...
 131-207 6.58e-04

first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar proteins; CTK2, also called CTD kinase subunit beta, CTDK-I subunit beta, or CTD kinase 38 kDa subunit, is the cyclin subunit of the CTDK-I complex, which hyperphosphorylates the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit. CTK2 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410250 [Multi-domain]  Cd Length: 110  Bit Score: 38.87  E-value: 6.58e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  131 LNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSEN----------------YFISVDSFAQKAKSTRDSV 194
Cdd:cd20547  16 LKFPRRTLGTAMLLYQRFHLFNPFTDSSNYEVALACLFLASKIEDtqkkskdilaasynlrHPDKISVDDQMLEEFRKAI 95

                        90
                ....*....|...
gi 6325282  195 LKFEFKLLESLKF 207
Cdd:cd20547  96 LGLERLLLETICF 108
CYCLIN_CCNL_rpt1 cd20532
first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 111-180 9.19e-04

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: 39.08  E-value: 9.19e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  111 EEELDLVNFYAKKVQVIAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYFISV 180
Cdd:cd20532   6 ETEIDLRIYGCELIQDAGILLKLPQVVMATAQVLFHRFYYRKSLRKFDVKIVAMACLFLASKIEETPRRL 75
CYCLIN_CCNT1_rpt1 cd20595
first cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor ...
 93-174 1.44e-03

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


Pssm-ID: 410298 [Multi-domain]  Cd Length: 138  Bit Score: 38.50  E-value: 1.44e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282   93 LTEEEIKVLEAKAIPLTMEEELDLVNFYAKKVQVIAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACK 172
Cdd:cd20595   5 FTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTQFHRNSVAPAALFLAAK 84


                ..
gi 6325282  173 SE 174
Cdd:cd20595  85 VE 86
CYCLIN_CNTD2 cd20542
cyclin box found in Cyclin N-terminal domain-containing protein 2 (CNTD2) and similar proteins; ...
 124-209 9.74e-03

cyclin box found in Cyclin N-terminal domain-containing protein 2 (CNTD2) and similar proteins; CNTD2 is an atypical cyclin upregulated in human cancer tissues. It promotes cell proliferation and migration, as well as increases tumor growth in vivo. It can function as a prognostic factor and drug target. CNTD2 contains one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410245 [Multi-domain]  Cd Length: 96  Bit Score: 35.37  E-value: 9.74e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6325282  124 VQViAQHLNLPTEVVATAISFFRRFFLENSVMQIDPKSIVHTTIFLACKSENYF---ISVDSFAQKAKSTRDSVLKFEFK 200
Cdd:cd20542   9 VQV-QEHLELSTQTLHLAVALLDRYLSRQKISLSLLQLLGITCLFIACKFEERFppeVATLCYLTDDSYSKKQVLRMERR 87


                ....*....
gi 6325282  201 LLESLKFSL 209
Cdd:cd20542  88 VLRRLRFDL 96
 
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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