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Conserved domains on  [gi|71994050|ref|NP_506615|]
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Cyclin-like domain-containing protein [Caenorhabditis elegans]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
20-133 9.67e-59

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: 182.05  E-value: 9.67e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  20 GLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQ 99
Cdd:cd20530   1 GIDPETEARYRREGARFIQDVGTKLGL-PYDTIATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEETPKKCKDIIK 79
                        90       100       110
                ....*....|....*....|....*....|....*.
gi 71994050 100 AAVTHYPEIYS--KYQNLVDDVMGLERVLLHSLKFD 133
Cdd:cd20530  80 TARSLLNDKQFaqFGDDPKEEVMVLERILLQTIKFD 115
CCL1 super family cl34985
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
12-250 8.45e-21

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];


The actual alignment was detected with superfamily member COG5333:

Pssm-ID: 227640 [Multi-domain]  Cd Length: 297  Bit Score: 89.02  E-value: 8.45e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  12 KTTPSIRAGLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFP 91
Cdd:COG5333  27 LDLLVLEPELTLEKELNLVIYYLKLIMDLCTRLNL-PQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTP 105
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  92 KKCKDVCQAAVTHYPEIYSKYQnlvDDVMGLERVLLHSLKFDLHVALPYDALLDYKMMFPDMNREKITdavQIAWTFIND 171
Cdd:COG5333 106 RDISIESFEARDLWSEEPKSSR---ERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLL---QIAWKIIND 179
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050 172 SIYTTLCITTEPQMIAIALLHLAFTVKG-----------YQPVQKnMDPCWWSADVSNWPQESvdKACHLVLDFYAAtkE 240
Cdd:COG5333 180 ALRTDLCLLYPPHIIALAALLIACEVLGmpiiklldfvsYETKEE-VIALNYKSIVKNKIKTF--KAEHLSRDLPFT--L 254
                       250
                ....*....|
gi 71994050 241 KPVLEKKKLT 250
Cdd:COG5333 255 QNIAEPQFAL 264
 
Name Accession Description Interval E-value
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
20-133 9.67e-59

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: 182.05  E-value: 9.67e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  20 GLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQ 99
Cdd:cd20530   1 GIDPETEARYRREGARFIQDVGTKLGL-PYDTIATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEETPKKCKDIIK 79
                        90       100       110
                ....*....|....*....|....*....|....*.
gi 71994050 100 AAVTHYPEIYS--KYQNLVDDVMGLERVLLHSLKFD 133
Cdd:cd20530  80 TARSLLNDKQFaqFGDDPKEEVMVLERILLQTIKFD 115
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
12-250 8.45e-21

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: 89.02  E-value: 8.45e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  12 KTTPSIRAGLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFP 91
Cdd:COG5333  27 LDLLVLEPELTLEKELNLVIYYLKLIMDLCTRLNL-PQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTP 105
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  92 KKCKDVCQAAVTHYPEIYSKYQnlvDDVMGLERVLLHSLKFDLHVALPYDALLDYKMMFPDMNREKITdavQIAWTFIND 171
Cdd:COG5333 106 RDISIESFEARDLWSEEPKSSR---ERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLL---QIAWKIIND 179
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050 172 SIYTTLCITTEPQMIAIALLHLAFTVKG-----------YQPVQKnMDPCWWSADVSNWPQESvdKACHLVLDFYAAtkE 240
Cdd:COG5333 180 ALRTDLCLLYPPHIIALAALLIACEVLGmpiiklldfvsYETKEE-VIALNYKSIVKNKIKTF--KAEHLSRDLPFT--L 254
                       250
                ....*....|
gi 71994050 241 KPVLEKKKLT 250
Cdd:COG5333 255 QNIAEPQFAL 264
CYCLIN_CCNK_rpt2 cd20531
second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA ...
139-235 9.01e-19

second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase II-associated C-type cyclin possessing both carboxy-terminal domain kinase and Cdk-activating kinase activity. It is a regulatory subunit of cyclin-dependent kinases that mediates the activation of these target kinases. It plays a role in transcriptional regulation by controlling the phosphorylation of the C-terminal domain (CTD) of the large subunit of RNA polymerase II (POLR2A). CCNK contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410234 [Multi-domain]  Cd Length: 101  Bit Score: 78.53  E-value: 9.01e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050 139 PYDALLDYKMMFPDmNREKITDAVQIAWTFINDSIYTTLCITTEPQMIAIALLHLA-----FTV---KGYQPVQKnmdpc 210
Cdd:cd20531   3 PYKYLLKYAKQLKG-DKNKIQKLVQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAaklskFDLqdwTSKPPGKR----- 76
                        90       100
                ....*....|....*....|....*
gi 71994050 211 WWSADVSNWPQESVDKACHLVLDFY 235
Cdd:cd20531  77 WWEQFVEDVSLEVLEDICHQVLDLY 101
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
21-194 1.92e-16

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: 76.80  E-value: 1.92e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050    21 LTKEQELLWRREGIKLLSEVGNALNCK-PRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQ 99
Cdd:TIGR00569  47 LTPEEELDLVKYYEKRLLDFCSAFKPTmPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVG 126
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050   100 aavthypEIYSKYQNLVDDVMGLERVLLHSLKFDLHVALPYDA----LLDYKMMFPDMNREKITDavQIAWTFINDSIYT 175
Cdd:TIGR00569 127 -------NLKETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPlegfLIDIKTRLPGLENPEYLR--KHADKFLNRTLLT 197
                         170       180
                  ....*....|....*....|
gi 71994050   176 TLCITTEPQMIAI-ALLHLA 194
Cdd:TIGR00569 198 DAYLLYTPSQIALaAILHTA 217
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
35-127 2.30e-09

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: 52.98  E-value: 2.30e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050     35 KLLSEVGNALNCKPRpTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQaavthypeiYSKYQN 114
Cdd:smart00385   1 DFLRRVCKALNLDPE-TLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVH---------YTGYFT 70
                           90
                   ....*....|...
gi 71994050    115 lVDDVMGLERVLL 127
Cdd:smart00385  71 -EEEILRMERLLL 82
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
30-134 2.55e-08

Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a Uracil-DNA glycosylase that is related to other cyclins. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the N-terminal domain.


Pssm-ID: 459686 [Multi-domain]  Cd Length: 127  Bit Score: 50.98  E-value: 2.55e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050    30 RREGIKLLSEVGNALNCKPrPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKV-EDFPKKCKDVCQAAvthyPEI 108
Cdd:pfam00134  31 RAILIDWLVEVHEKFKLLP-ETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYeEIYPPTVEDLVYIT----DNA 105
                          90       100
                  ....*....|....*....|....*.
gi 71994050   109 YSKyqnlvDDVMGLERVLLHSLKFDL 134
Cdd:pfam00134 106 YTR-----EEILRMERLILETLNFDL 126
 
Name Accession Description Interval E-value
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
20-133 9.67e-59

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: 182.05  E-value: 9.67e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  20 GLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQ 99
Cdd:cd20530   1 GIDPETEARYRREGARFIQDVGTKLGL-PYDTIATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEETPKKCKDIIK 79
                        90       100       110
                ....*....|....*....|....*....|....*.
gi 71994050 100 AAVTHYPEIYS--KYQNLVDDVMGLERVLLHSLKFD 133
Cdd:cd20530  80 TARSLLNDKQFaqFGDDPKEEVMVLERILLQTIKFD 115
CYCLIN_CCNT1_rpt1 cd20595
first cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor ...
4-133 5.59e-28

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: 103.98  E-value: 5.59e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050   4 WIWPLEALKTTPSIRAGLTKEQELLWRREGIKLLSEVGNALNCKpRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFL 83
Cdd:cd20595   3 WYFTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVS-QLTINTAIVYMHRFYMIQSFTQFHRNSVAPAALFL 81
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 71994050  84 AGKVEDFPKKCKDVCQaaVTH--------YPEIYSK-YQNLVDDVMGLERVLLHSLKFD 133
Cdd:cd20595  82 AAKVEEQPKKLEHVIK--VAHtclhpqesLPDTRSEaYLQQVQDLVILESIILQTLGFE 138
CYCLIN_CCNT_rpt1 cd20538
first cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
4-133 8.26e-27

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: 100.93  E-value: 8.26e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050   4 WIWPLEALKTTPSIRAGLTKEQELLWRREGIKLLSEVGNALNCKpRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFL 83
Cdd:cd20538   2 WYFTREQLENTPSRRCGVDPDKELSYRQQAANLIQEMGQRLQVS-QLCINTAIVYMHRFYMFHSFTKFHRNSIAAAALFL 80
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 71994050  84 AGKVEDFPKK------CKDVCQAAVTHYPEIYS-KYQNLVDDVMGLERVLLHSLKFD 133
Cdd:cd20538  81 AAKVEEQPRKlehvikVAHACLHRGEPDLDTKSeAYLQQAQELVINENILLQTLGFE 137
CYCLIN_CCNT2_rpt1 cd20596
first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit ...
2-133 1.94e-25

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: 97.43  E-value: 1.94e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050   2 SDWIWPLEALKTTPSIRAGLTKEQELLWRREGIKLLSEVGNALNCKpRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCL 81
Cdd:cd20596   2 SRWFFTREQLENTPSRRCGVEADKELSYRQQAANLIQDMGQRLNVS-QLTINTAIVYMHRFYMHHSFTKFHRNIISPTAL 80
                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 71994050  82 FLAGKVEDFPKKCKDVCQaaVTHY------PEIYSK---YQNLVDDVMGLERVLLHSLKFD 133
Cdd:cd20596  81 FLAAKVEEQPRKLEHVIK--VAHAclnplePQLDTKsdaYLQQAQELVILETIMLQTLGFE 139
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
12-250 8.45e-21

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: 89.02  E-value: 8.45e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  12 KTTPSIRAGLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFP 91
Cdd:COG5333  27 LDLLVLEPELTLEKELNLVIYYLKLIMDLCTRLNL-PQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTP 105
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  92 KKCKDVCQAAVTHYPEIYSKYQnlvDDVMGLERVLLHSLKFDLHVALPYDALLDYKMMFPDMNREKITdavQIAWTFIND 171
Cdd:COG5333 106 RDISIESFEARDLWSEEPKSSR---ERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLL---QIAWKIIND 179
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050 172 SIYTTLCITTEPQMIAIALLHLAFTVKG-----------YQPVQKnMDPCWWSADVSNWPQESvdKACHLVLDFYAAtkE 240
Cdd:COG5333 180 ALRTDLCLLYPPHIIALAALLIACEVLGmpiiklldfvsYETKEE-VIALNYKSIVKNKIKTF--KAEHLSRDLPFT--L 254
                       250
                ....*....|
gi 71994050 241 KPVLEKKKLT 250
Cdd:COG5333 255 QNIAEPQFAL 264
CYCLIN_CCNK_rpt2 cd20531
second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA ...
139-235 9.01e-19

second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase II-associated C-type cyclin possessing both carboxy-terminal domain kinase and Cdk-activating kinase activity. It is a regulatory subunit of cyclin-dependent kinases that mediates the activation of these target kinases. It plays a role in transcriptional regulation by controlling the phosphorylation of the C-terminal domain (CTD) of the large subunit of RNA polymerase II (POLR2A). CCNK contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410234 [Multi-domain]  Cd Length: 101  Bit Score: 78.53  E-value: 9.01e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050 139 PYDALLDYKMMFPDmNREKITDAVQIAWTFINDSIYTTLCITTEPQMIAIALLHLA-----FTV---KGYQPVQKnmdpc 210
Cdd:cd20531   3 PYKYLLKYAKQLKG-DKNKIQKLVQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAaklskFDLqdwTSKPPGKR----- 76
                        90       100
                ....*....|....*....|....*
gi 71994050 211 WWSADVSNWPQESVDKACHLVLDFY 235
Cdd:cd20531  77 WWEQFVEDVSLEVLEDICHQVLDLY 101
CYCLIN_ScCTK2-like_rpt1 cd20547
first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar ...
30-133 4.09e-18

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: 77.39  E-value: 4.09e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  30 RREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQAA-VTHYPEI 108
Cdd:cd20547   2 RLAAFQFISQLCKKLKF-PRRTLGTAMLLYQRFHLFNPFTDSSNYEVALACLFLASKIEDTQKKSKDILAASyNLRHPDK 80
                        90       100
                ....*....|....*....|....*....
gi 71994050 109 YSKYQNLVDD----VMGLERVLLHSLKFD 133
Cdd:cd20547  81 ISVDDQMLEEfrkaILGLERLLLETICFD 109
CYCLIN_SpCG1C-like_rpt1 cd20545
first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar ...
26-134 8.97e-17

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: 74.00  E-value: 8.97e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  26 ELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQAAV--- 102
Cdd:cd20545   1 EQEDRSKGVNFIIRVGSRLKL-PQTTLFTAATYFHRFYMRNSLKKYHYYEIAATCLFLATKVEESGRKLRDIVIACAkva 79
                        90       100       110
                ....*....|....*....|....*....|....*..
gi 71994050 103 -----THYPEIYSKYQNLVDDVMGLERVLLHSLKFDL 134
Cdd:cd20545  80 qknpnLVIDEQSKEVWRWRDSILYNEEVLLETLCFDL 116
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
21-194 1.92e-16

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: 76.80  E-value: 1.92e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050    21 LTKEQELLWRREGIKLLSEVGNALNCK-PRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQ 99
Cdd:TIGR00569  47 LTPEEELDLVKYYEKRLLDFCSAFKPTmPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVG 126
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050   100 aavthypEIYSKYQNLVDDVMGLERVLLHSLKFDLHVALPYDA----LLDYKMMFPDMNREKITDavQIAWTFINDSIYT 175
Cdd:TIGR00569 127 -------NLKETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPlegfLIDIKTRLPGLENPEYLR--KHADKFLNRTLLT 197
                         170       180
                  ....*....|....*....|
gi 71994050   176 TLCITTEPQMIAI-ALLHLA 194
Cdd:TIGR00569 198 DAYLLYTPSQIALaAILHTA 217
CYCLIN_CCNL_rpt1 cd20532
first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
20-132 4.44e-15

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: 69.51  E-value: 4.44e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  20 GLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDV-- 97
Cdd:cd20532   2 GIDEETEIDLRIYGCELIQDAGILLKL-PQVVMATAQVLFHRFYYRKSLRKFDVKIVAMACLFLASKIEETPRRLRDVin 80
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
gi 71994050  98 ----------CQAAVTHYPEIYS-KYQNLVDDVMGLERVLLHSLKF 132
Cdd:cd20532  81 vfhrllqrrlGKPAEVLPLDIGSaEYEELKNDIIKAERRILKELGF 126
CYCLIN_CCNM_CCNQ_rpt1 cd20534
first cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
30-133 3.61e-14

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: 66.81  E-value: 3.61e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  30 RREGIKLLSEVGNALNCKPRpTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQAA-VTHYP-- 106
Cdd:cd20534   2 HFKVLRFIREAGLKLELSSV-TIATACVLYHRFYRELSLEDYDPYLVAMACLYLAGKAEEQPRRLRDIINVSyRILHPdk 80
                        90       100       110
                ....*....|....*....|....*....|
gi 71994050 107 ---EIYSKYQNLVDDVMGLERVLLHSLKFD 133
Cdd:cd20534  81 pplELDDEYWELRDSIVNCELLLLRILKFD 110
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
20-133 7.26e-13

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: 63.69  E-value: 7.26e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  20 GLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVcq 99
Cdd:cd20587   2 GIDLKKETYLRKSYCTFLQDLGMRLKV-PQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVEETPRPLKDV-- 78
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*..
gi 71994050 100 aAVTHYPEIYSK-------------YQNLVDDVMGLERVLLHSLKFD 133
Cdd:cd20587  79 -IVVSYEIIFKKdpsaaqrikqkevYEQQKELVLNGEKLVLSTLGFD 124
CYCLIN_SpCG1C_ScCTK2-like_rpt2 cd20546
second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces ...
138-235 1.60e-12

second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2), and similar proteins; Cyclin pch1 is essential for progression through the whole cell cycle. It is a homolog of cyclin T; it forms a heterodimer with its partner kinase, cyclin-dependent kinase 9 (CDK9), that can phosphorylate both the pol II C-terminal domain (CTD) and the CTD of transcription elongation factor Spt5. Yeast Cdk9/Pch1, with mRNA capping enzyme Pct1, may also form an elongation checkpoint for mRNA quality control. CTK2, also called CTD kinase subunit beta, CTDK-I subunit beta, or CTD kinase 38 kDa subunit, is the cyclin subunit of the CTDK-I complex, which hyperphosphorylates the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit. This group also includes yeast RNA polymerase II holoenzyme cyclin-like subunit, a component of the SRB8-11 complex, a regulatory module of the Mediator complex which is involved in regulation of basal and activated RNA polymerase II-dependent transcription. Members of this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410249 [Multi-domain]  Cd Length: 97  Bit Score: 62.00  E-value: 1.60e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050 138 LPYDALLDYKMMFPDMNREKITdavQIAWTFINDSIYTTLCITTEPQMIAIALLHLAFTVKGYQPV--QKNMDPCWWSA- 214
Cdd:cd20546   1 HPYQYLIKFAKKLGVSDPKELA---QLAWAFLNDSYRTPLCLLYPPHVIAAAAIYLAAKLLGIDLElsPNEKLNEWWELf 77
                        90       100
                ....*....|....*....|.
gi 71994050 215 DVSnwpQESVDKACHLVLDFY 235
Cdd:cd20546  78 GVD---EEEIADAINEILDLY 95
CYCLIN_AcCycL_rpt1 cd20591
first cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
16-132 7.21e-12

first cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; Cyclin-L1-1 (CycL1), also called arginine-rich cyclin 1 (AtRCY1), or protein MODIFIER OF SNC1 12, is the cognate cyclin for cyclin-dependent kinase G1 (CDKG1). It is involved in regulation of DNA methylation and transcriptional silencing. It is required for synapsis and male meiosis, and for the proper splicing of specific resistance (R) genes. L-type cyclins contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410294 [Multi-domain]  Cd Length: 128  Bit Score: 61.00  E-value: 7.21e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  16 SIRAGLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCK 95
Cdd:cd20591   1 SRKDGIDEDTEITLRIFGCELIQESGILLKL-PQAVMATGQVLFQRFYCKKSFARFNVKRVAASCVWLAAKLEESPRKIR 79
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|
gi 71994050  96 DVCQaaVTH------------YPEIYSK-YQNLVDDVMGLERVLLHSLKF 132
Cdd:cd20591  80 QVLM--VFHrmecrrenlplePLEPESKkYDEMKEDLIRTERHLLKEMGF 127
CYCLIN_CCNL2_rpt1 cd20590
first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
7-132 1.79e-11

first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA polymerase II-associated cyclin that is involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. CCNL2 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410293 [Multi-domain]  Cd Length: 156  Bit Score: 60.79  E-value: 1.79e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050   7 PLEALKTTPSIRAGLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGK 86
Cdd:cd20590  21 PEERLRFTPSMSSGLDVDTETDLRVVGCELIQAAGILLRL-PQVAMATGQVLFQRFFYTKSFVKHSMEHVSMACVHLASK 99
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 71994050  87 VEDFPKKCKDVCQaaVTH-----------YPEIYSK-YQNLVDDVMGLERVLLHSLKF 132
Cdd:cd20590 100 IEEAPRRIRDVIN--VFHrlrqlrekkkpVPLILDQeYVNLKNQIIKAERRVLKELGF 155
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
34-130 4.99e-11

first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410217 [Multi-domain]  Cd Length: 101  Bit Score: 57.99  E-value: 4.99e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  34 IKLLSEVGNALNCKPRpTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQAAVTHYPEIYSKYQ 113
Cdd:cd20513   6 ANFIQALGERLKLRQR-VIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEECPSHARLIVAEAKVLKTKFSYEFP 84
                        90
                ....*....|....*..
gi 71994050 114 NLVDDVMGLERVLLHSL 130
Cdd:cd20513  85 YRVNDILECEFYLLEAL 101
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
32-113 1.16e-10

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: 56.26  E-value: 1.16e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  32 EGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQAAVTHYPEIYSK 111
Cdd:cd00043   1 KAVDFIRRLCSKLGL-PEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIAKVSGVSEKELRKA 79

                ..
gi 71994050 112 YQ 113
Cdd:cd00043  80 EK 81
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
35-127 2.30e-09

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: 52.98  E-value: 2.30e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050     35 KLLSEVGNALNCKPRpTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQaavthypeiYSKYQN 114
Cdd:smart00385   1 DFLRRVCKALNLDPE-TLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVH---------YTGYFT 70
                           90
                   ....*....|...
gi 71994050    115 lVDDVMGLERVLL 127
Cdd:smart00385  71 -EEEILRMERLLL 82
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
21-134 3.62e-09

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: 54.14  E-value: 3.62e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  21 LTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQA 100
Cdd:cd20524  46 LTPEEELLLVRYYEKKLLEFCRAFKL-PDSVLATALTYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGN 124
                        90       100       110
                ....*....|....*....|....*....|....
gi 71994050 101 AvthypeiySKYQNLVDDVMGLERVLLHSLKFDL 134
Cdd:cd20524 125 I--------KESEKTAEIILEYELLLLQGLNFHL 150
CYCLIN_CCNL1_rpt1 cd20589
first cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin ...
20-132 4.40e-09

first cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin involved in the regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL1 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410292 [Multi-domain]  Cd Length: 124  Bit Score: 53.21  E-value: 4.40e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  20 GLTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQ 99
Cdd:cd20589   2 GLDHETETDLRILGCELIQTAGILLRL-PQVAMATGQVLFQRFFYSKSFVKHSMEIVAMACINLASKIEEAPRRIRDVIN 80
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*
gi 71994050 100 aaVTHY-----------PEIY-SKYQNLVDDVMGLERVLLHSLKF 132
Cdd:cd20589  81 --VFHHikqvrgkrtisPLILdQNYINLKNQVIKAERRVLKELGF 123
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
30-134 2.55e-08

Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a Uracil-DNA glycosylase that is related to other cyclins. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the N-terminal domain.


Pssm-ID: 459686 [Multi-domain]  Cd Length: 127  Bit Score: 50.98  E-value: 2.55e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050    30 RREGIKLLSEVGNALNCKPrPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKV-EDFPKKCKDVCQAAvthyPEI 108
Cdd:pfam00134  31 RAILIDWLVEVHEKFKLLP-ETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYeEIYPPTVEDLVYIT----DNA 105
                          90       100
                  ....*....|....*....|....*.
gi 71994050   109 YSKyqnlvDDVMGLERVLLHSLKFDL 134
Cdd:pfam00134 106 YTR-----EEILRMERLILETLNFDL 126
CYCLIN_CCNM_CCNQ_rpt2 cd20535
second cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
138-235 6.00e-08

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


Pssm-ID: 410238 [Multi-domain]  Cd Length: 104  Bit Score: 49.56  E-value: 6.00e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050 138 LPYDALLDY-KMMFPDMNREKITDA--VQIAWTFINDSIYTTLCITTEPQMIAIALLHLAFTVKGYQ-PVQKNMDPCWWS 213
Cdd:cd20535   1 LPHKYLLHYlKSLRDWLNPEFWSRSpiAKTAWSLLRDFYHSPLCLQFKPQHIALAVIYLALQVYGVKvPPEEEAEKPWWQ 80
                        90       100
                ....*....|....*....|..
gi 71994050 214 ADVSNWPQESVDKACHLVLDFY 235
Cdd:cd20535  81 AFCEDLTKETIDEIIEDIINVY 102
CYCLIN_CCNL_rpt2 cd20533
second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
156-236 2.17e-07

second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 and CCNL2. CCNL1 is involved in 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 second one. The cyclin box is a protein binding domain.


Pssm-ID: 410236 [Multi-domain]  Cd Length: 92  Bit Score: 47.60  E-value: 2.17e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050 156 EKITDAVQIAWTFINDSIYTTLCITTEPQMIAIALLHLAFTVKGYQPvqkNMDPCWWSA-DVSnwpQESVDKACHLVLDF 234
Cdd:cd20533  16 EDNKKLAQTAWNYMNDSLRTDLCVRYPPEVIACACIYLAARELGIPL---PLPPPWWELfDVS---KEDIEEICLTILEL 89

                ..
gi 71994050 235 YA 236
Cdd:cd20533  90 YT 91
CYCLIN_CCNC_rpt2 cd20514
second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
139-217 6.73e-07

second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410218 [Multi-domain]  Cd Length: 92  Bit Score: 46.46  E-value: 6.73e-07
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 71994050 139 PYDALLDYkmmFPDMNREKitDAVQIAWTFINDSIYTTLCITTEPQMIAIALLHLAFTVKgyqpvQKNMDPcwWSADVS 217
Cdd:cd20514   2 PYRPLTQY---VQDAGLDD--ELLPLAWRIVNDSYRTDVCLLYPPYLIALACLHMACVLL-----QKDARQ--WFAELN 68
CYCLIN_AcCycT_rpt2 cd20588
second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
146-212 6.82e-07

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


Pssm-ID: 410291 [Multi-domain]  Cd Length: 93  Bit Score: 46.37  E-value: 6.82e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 71994050 146 YKMMFPDMNREKIT--DAVQIAWTFINDSIYTTLCITTEPQMIAIALLHLAFTVKGYQpVQKNMDPCWW 212
Cdd:cd20588   4 YKPLVAAIKKFNVAqnALAQAAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVK-LPCDGRKVWW 71
CYCLIN_AcCycH_rpt1 cd20585
first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH ...
21-134 1.14e-06

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: 47.51  E-value: 1.14e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  21 LTKEQELLWRREGIKLLSEVGNALNCkPRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFpkkckdvcqa 100
Cdd:cd20585  69 LSADEELLMLKYYEQKIQEVCRALRL-PNKIQATALLYFKRFYLQWSVMEHDPKRIMLTCIYLACKVEEY---------- 137
                        90       100       110
                ....*....|....*....|....*....|....
gi 71994050 101 aVTHYPEIYSKYQNLVDDVMGLERVLLHSLKFDL 134
Cdd:cd20585 138 -HVSAEELGKGIQQDHQLILKNELALLQGLNFDL 170
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
52-132 2.44e-05

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: 42.15  E-value: 2.44e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  52 IGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEDFPKKCKDVCQAAVTHYPEIYSKYQnlVDDVMGLERVLLHSLK 131
Cdd:cd20571  28 VATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAKLLVFYMKRLYADEYHRYE--IKDILEMEMKLLEALD 105

                .
gi 71994050 132 F 132
Cdd:cd20571 106 Y 106
CYCLIN_AcCycL_rpt2 cd20594
second cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
135-239 1.22e-04

second cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; Cyclin-L1-1 (CycL1), also called arginine-rich cyclin 1 (AtRCY1), or protein MODIFIER OF SNC1 12, is the cognate cyclin for cyclin-dependent kinase G1 (CDKG1). It is involved in regulation of DNA methylation and transcriptional silencing. It is required for synapsis and male meiosis, and for the proper splicing of specific resistance (R) genes. L-type cyclins contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410297 [Multi-domain]  Cd Length: 101  Bit Score: 40.23  E-value: 1.22e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050 135 HVALPYDALLDYKMMFpdmnrEKITDAVQIAWTFINDSIYTTLCITTEPQMIAIALLHLAfTVKGYQPVQKNmdPCWWSA 214
Cdd:cd20594   1 HVEHPHKFILNYLAML-----MAPPELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAA-ARRFQVPLPEN--PPWWKV 72
                        90       100
                ....*....|....*....|....*
gi 71994050 215 DVSNWpqESVDKACHLVLDFYAATK 239
Cdd:cd20594  73 FDAEK--AEIDVVCKVLADLYRQPK 95
CYCLIN_CCNL1_rpt2 cd20592
second cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin ...
156-247 2.02e-03

second cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin involved in the regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL1 contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410295 [Multi-domain]  Cd Length: 123  Bit Score: 37.28  E-value: 2.02e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050 156 EKITDAVQIAWTFINDSIYTTLCITTEPQMIAIALLHLAftVKGYQPVQKNmDPCWWSadVSNWPQESVDKACHLVLDFY 235
Cdd:cd20592  17 ERNQTLVQTAWNYMNDSLRTNVFVRFQPETIACACIYLA--ARALQIPLPN-RPHWFL--LFGATEEEIQEICITTLKLY 91
                        90
                ....*....|....*
gi 71994050 236 aaTKEKP---VLEKK 247
Cdd:cd20592  92 --TRKKPnyeFLEKE 104
CYCLIN_CABLES1 cd20602
cyclin box found in CDK5 and ABL1 enzyme substrate 1 (CABLES1); CABLES1, also called ...
15-136 3.83e-03

cyclin box found in CDK5 and ABL1 enzyme substrate 1 (CABLES1); CABLES1, also called interactor with CDK3 1 (Ik3-1), is a cyclin-dependent kinase binding protein that enhances cyclin-dependent kinase tyrosine phosphorylation by non-receptor tyrosine kinases, such as that of CDK5 by activated ABL1, which leads to increased CDK5 activity and is critical for neuronal development, and that of CDK2 by WEE1, which leads to decreased CDK2 activity and growth inhibition. CABLES1 contains one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410305  Cd Length: 132  Bit Score: 36.56  E-value: 3.83e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71994050  15 PSIRAGLTKEQELlwRREGIKLLSEvgnalNCK-PRPTIGVAAVYFHRFYMIHSFQSFSREVTALSCLFLAGKVEdfpkk 93
Cdd:cd20602   6 PHIKLTLSKIRSL--KREMRKLAQE-----ECGyEEPTVAMAFVYFEKLALKGKLNKQNRKLCAGACVLLAAKIG----- 73
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 71994050  94 cKDVCQAAVTHY-PEIYSKYQNLVDDVMGLERVLLHSLKFDLHV 136
Cdd:cd20602  74 -SDLKKHEVKHLiDKLEEKFRLNRRELIAFEFPVLVALEFALHL 116
CYCLIN_AtCycC_rpt2 cd20572
second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
158-198 9.72e-03

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


Pssm-ID: 410275 [Multi-domain]  Cd Length: 102  Bit Score: 34.75  E-value: 9.72e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|.
gi 71994050 158 ITDAVQIAWTFINDSIYTTLCITTEPQMIAIALLHLAFTVK 198
Cdd:cd20572  15 LTDMTQFTWSIVNDTYRTDLILIHPPYMIALACIYIASVHK 55
 
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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