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Conserved domains on  [gi|30694715|ref|NP_199332|]
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Cyclin family protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 49-172 1.77e-90

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: 274.40  E-value: 1.77e-90
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  49 DGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIF 128
Cdd:cd20587   1 DGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVEETPRPLKDVIV 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 30694715 129 VSYEIINKKDPGASQKIKQKEVYEQQKELILNGEKIVLSTLGFD 172
Cdd:cd20587  81 VSYEIIFKKDPSAAQRIKQKEVYEQQKELVLNGEKLVLSTLGFD 124
CYCLIN_AcCycT_rpt2 cd20588
second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 176-268 1.08e-62

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: 201.22  E-value: 1.08e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 176 YHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEKVWWQEFDVTPRQ 255
Cdd:cd20588   1 EHPYKPLVAAIKKFNVAQNALAQAAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPCDGRKVWWQEFDVTPRQ 80

                        90
                ....*....|...
gi 30694715 256 LEDVSNQMLELYE 268
Cdd:cd20588  81 LEEVSNQMLELYE 93
dermokine super family cl42387
dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a ...
 273-341 1.49e-03

dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a skin-specific glycoprotein that may play a regulatory role in the crosstalk between barrier dysfunction and inflammation, and therefore play a role in inflammatory diseases such as psoriasis. Dermokine is one of the most highly expressed proteins in differentiating keratinocytes, found mainly in the spinous and granular layers of the epidermis, but also in the epithelia of the small intestine, macrophages of the lung, and endothelial cells of the lung. Mouse dermokine has been reported to be encoded by 22 exons, and its expression leads to alpha, beta, and gamma transcripts.


The actual alignment was detected with superfamily member cd21118:

Pssm-ID: 455732 [Multi-domain]  Cd Length: 495  Bit Score: 41.52  E-value: 1.49e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30694715 273 PASQGSEVESSVGGGSAqrpgSRNAVSTDEHVGSRQTSSVRSTHEQSNSDNHGGSSKGVLNQNNENGGG 341
Cdd:cd21118 205 PPPSGSHESFSNSGGSS----SSGSSGSQGSHGSNGQGSSGSSGGQGNGGNNGSSSSNSGNSGGSNGGS 269
 
Name Accession Description Interval E-value
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 49-172 1.77e-90

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: 274.40  E-value: 1.77e-90
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  49 DGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIF 128
Cdd:cd20587   1 DGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVEETPRPLKDVIV 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 30694715 129 VSYEIINKKDPGASQKIKQKEVYEQQKELILNGEKIVLSTLGFD 172
Cdd:cd20587  81 VSYEIIFKKDPSAAQRIKQKEVYEQQKELVLNGEKLVLSTLGFD 124
CYCLIN_AcCycT_rpt2 cd20588
second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 176-268 1.08e-62

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: 201.22  E-value: 1.08e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 176 YHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEKVWWQEFDVTPRQ 255
Cdd:cd20588   1 EHPYKPLVAAIKKFNVAQNALAQAAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPCDGRKVWWQEFDVTPRQ 80

                        90
                ....*....|...
gi 30694715 256 LEDVSNQMLELYE 268
Cdd:cd20588  81 LEEVSNQMLELYE 93
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 8-244 6.72e-41

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: 149.88  E-value: 6.72e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715   8 ECSYSESGVSSHSRNSHEKQEevsrwyfgrKEIEENSPSrldgIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIF 87
Cdd:COG5333   6 ESNLVSSRPLLSFDSSQNAIE---------LDLLVLEPE----LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILF 72

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  88 CHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRplkDVIFVSYEiinkkdpgasQKIKQKEVYEQQKELILNGEKIVLS 167
Cdd:COG5333  73 FSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPR---DISIESFE----------ARDLWSEEPKSSRERILEYEFELLE 139

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 30694715 168 TLGFDLNVYHPYKPLVEAIKKFKVAQNA-LAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEKV 244
Cdd:COG5333 140 ALDFDLHVHHPYKYLEGFLKDLQEKDKYkLLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLGMPIIKLLDFV 217
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 33-174 7.73e-20

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: 85.65  E-value: 7.73e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715    33 WYFgrKEIEENSPSRLDGIDLKKETYL--RKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCM 110
Cdd:pfam00134   4 QYL--RELELKYLPKPDYMDQQPDINPkmRAILIDWLVEVHEKFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCL 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 30694715   111 FLAGKVEET-PRPLKDVIFVSyeiinkkdpgasqkikqKEVYEqqKELILNGEKIVLSTLGFDLN 174
Cdd:pfam00134  82 FIAAKYEEIyPPTVEDLVYIT-----------------DNAYT--REEILRMERLILETLNFDLS 127
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 25-239 1.33e-15

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: 77.95  E-value: 1.33e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715    25 EKQEEVSRWYfgRKEIEENSPSR-LDGIDL--KKETYLRKSYCTFLQDLGMRLK--VPQVTIATAIIFCHRFFFRQSHAK 99
Cdd:TIGR00569  20 EKRADANAKF--REAHEEEEKVLeAKPIFLtpEEELDLVKYYEKRLLDFCSAFKptMPTSVVGTAIMYFKRFYLNNSVME 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715   100 NDRRTIATVCMFLAGKVEEtprplkdvIFVSYEIINKKDPGASQKIkqkevyeqqKELILNGEKIVLSTLGFDLNVYHPY 179
Cdd:TIGR00569  98 YHPKIIMLTCVFLACKVEE--------FNVSIDQFVGNLKETPLKA---------LEQVLEYELLLIQQLNFHLIVHNPY 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 30694715   180 KPL------VEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPS 239
Cdd:TIGR00569 161 RPLegflidIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMES 226
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 65-130 3.83e-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: 53.75  E-value: 3.83e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 30694715     65 TFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIFVS 130
Cdd:smart00385   1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYT 66
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 182-268 1.79e-08

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: 51.82  E-value: 1.79e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715    182 LVEAIKKFKVAQNALaQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEKVWWQEFDVtprqlEDVSN 261
Cdd:smart00385   3 LRRVCKALNLDPETL-NLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGYFTE-----EEILR 76


                   ....*..
gi 30694715    262 QMLELYE 268
Cdd:smart00385  77 MERLLLE 83
dermokine cd21118
dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a ...
 273-341 1.49e-03

dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a skin-specific glycoprotein that may play a regulatory role in the crosstalk between barrier dysfunction and inflammation, and therefore play a role in inflammatory diseases such as psoriasis. Dermokine is one of the most highly expressed proteins in differentiating keratinocytes, found mainly in the spinous and granular layers of the epidermis, but also in the epithelia of the small intestine, macrophages of the lung, and endothelial cells of the lung. Mouse dermokine has been reported to be encoded by 22 exons, and its expression leads to alpha, beta, and gamma transcripts.


Pssm-ID: 411053 [Multi-domain]  Cd Length: 495  Bit Score: 41.52  E-value: 1.49e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30694715 273 PASQGSEVESSVGGGSAqrpgSRNAVSTDEHVGSRQTSSVRSTHEQSNSDNHGGSSKGVLNQNNENGGG 341
Cdd:cd21118 205 PPPSGSHESFSNSGGSS----SSGSSGSQGSHGSNGQGSSGSSGGQGNGGNNGSSSSNSGNSGGSNGGS 269
 
Name Accession Description Interval E-value
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 49-172 1.77e-90

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: 274.40  E-value: 1.77e-90
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  49 DGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIF 128
Cdd:cd20587   1 DGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVEETPRPLKDVIV 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 30694715 129 VSYEIINKKDPGASQKIKQKEVYEQQKELILNGEKIVLSTLGFD 172
Cdd:cd20587  81 VSYEIIFKKDPSAAQRIKQKEVYEQQKELVLNGEKLVLSTLGFD 124
CYCLIN_AcCycT_rpt2 cd20588
second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 176-268 1.08e-62

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: 201.22  E-value: 1.08e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 176 YHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEKVWWQEFDVTPRQ 255
Cdd:cd20588   1 EHPYKPLVAAIKKFNVAQNALAQAAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPCDGRKVWWQEFDVTPRQ 80

                        90
                ....*....|...
gi 30694715 256 LEDVSNQMLELYE 268
Cdd:cd20588  81 LEEVSNQMLELYE 93
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
 50-172 5.15e-53

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: 176.27  E-value: 5.15e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  50 GIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIFV 129
Cdd:cd20530   1 GIDPETEARYRREGARFIQDVGTKLGLPYDTIATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEETPKKCKDIIKT 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 30694715 130 SYEIINKKDPgasqkikqKEVYEQQKELILNGEKIVLSTLGFD 172
Cdd:cd20530  81 ARSLLNDKQF--------AQFGDDPKEEVMVLERILLQTIKFD 115
CYCLIN_CCNK_rpt2 cd20531
second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA ...
 176-267 1.01e-41

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: 145.56  E-value: 1.01e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 176 YHPYKPLVEAIKKFKVA---QNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLP----SDGEKVWWQE 248
Cdd:cd20531   1 EHPYKYLLKYAKQLKGDknkIQKLVQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAAKLSKFDLQdwtsKPPGKRWWEQ 80

                        90       100
                ....*....|....*....|.
gi 30694715 249 F--DVTPRQLEDVSNQMLELY 267
Cdd:cd20531  81 FveDVSLEVLEDICHQVLDLY 101
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 8-244 6.72e-41

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: 149.88  E-value: 6.72e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715   8 ECSYSESGVSSHSRNSHEKQEevsrwyfgrKEIEENSPSrldgIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIF 87
Cdd:COG5333   6 ESNLVSSRPLLSFDSSQNAIE---------LDLLVLEPE----LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILF 72

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  88 CHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRplkDVIFVSYEiinkkdpgasQKIKQKEVYEQQKELILNGEKIVLS 167
Cdd:COG5333  73 FSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPR---DISIESFE----------ARDLWSEEPKSSRERILEYEFELLE 139

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 30694715 168 TLGFDLNVYHPYKPLVEAIKKFKVAQNA-LAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEKV 244
Cdd:COG5333 140 ALDFDLHVHHPYKYLEGFLKDLQEKDKYkLLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLGMPIIKLLDFV 217
CYCLIN_CCNT_rpt1 cd20538
first cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 32-172 1.38e-37

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: 135.60  E-value: 1.38e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  32 RWYFGRKEIEeNSPSRLDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMF 111
Cdd:cd20538   1 RWYFTREQLE-NTPSRRCGVDPDKELSYRQQAANLIQEMGQRLQVSQLCINTAIVYMHRFYMFHSFTKFHRNSIAAAALF 79

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30694715 112 LAGKVEETPRPLKDVIFVSYEIINkkdPGASQKIKQKEVYEQQ-KELILNgEKIVLSTLGFD 172
Cdd:cd20538  80 LAAKVEEQPRKLEHVIKVAHACLH---RGEPDLDTKSEAYLQQaQELVIN-ENILLQTLGFE 137
CYCLIN_CCNT1_rpt1 cd20595
first cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor ...
 31-172 2.95e-36

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: 132.10  E-value: 2.95e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  31 SRWYFGRKEIEeNSPSRLDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCM 110
Cdd:cd20595   1 KRWYFTREQLE-NSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTQFHRNSVAPAAL 79

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30694715 111 FLAGKVEETPRPLKDVIFVSYEIINKKDPGASQKikqKEVYEQQKELILNGEKIVLSTLGFD 172
Cdd:cd20595  80 FLAAKVEEQPKKLEHVIKVAHTCLHPQESLPDTR---SEAYLQQVQDLVILESIILQTLGFE 138
CYCLIN_CCNT2_rpt1 cd20596
first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit ...
 31-172 3.57e-33

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: 123.62  E-value: 3.57e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  31 SRWYFGRKEIEeNSPSRLDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCM 110
Cdd:cd20596   2 SRWFFTREQLE-NTPSRRCGVEADKELSYRQQAANLIQDMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFHRNIISPTAL 80

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30694715 111 FLAGKVEETPRPLKDVIFVSYEIINKKDPGASQKikqKEVYEQQKELILNGEKIVLSTLGFD 172
Cdd:cd20596  81 FLAAKVEEQPRKLEHVIKVAHACLNPLEPQLDTK---SDAYLQQAQELVILETIMLQTLGFE 139
CYCLIN_SpCG1C_ScCTK2-like_rpt2 cd20546
second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces ...
 177-269 3.13e-29

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: 110.92  E-value: 3.13e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPYKPLVEAIKKFKVAQ-NALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEKV---WWQEFDVT 252
Cdd:cd20546   1 HPYQYLIKFAKKLGVSDpKELAQLAWAFLNDSYRTPLCLLYPPHVIAAAAIYLAAKLLGIDLELSPNEKlneWWELFGVD 80

                        90
                ....*....|....*..
gi 30694715 253 PRQLEDVSNQMLELYEQ 269
Cdd:cd20546  81 EEEIADAINEILDLYSS 97
CYCLIN_CCNL_rpt1 cd20532
first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 49-171 6.47e-29

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: 111.11  E-value: 6.47e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  49 DGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIF 128
Cdd:cd20532   1 DGIDEETEIDLRIYGCELIQDAGILLKLPQVVMATAQVLFHRFYYRKSLRKFDVKIVAMACLFLASKIEETPRRLRDVIN 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
gi 30694715 129 VSYEIINKKD--PGASQKI-KQKEVYEQQKELILNGEKIVLSTLGF 171
Cdd:cd20532  81 VFHRLLQRRLgkPAEVLPLdIGSAEYEELKNDIIKAERRILKELGF 126
CYCLIN_CCNL_rpt2 cd20533
second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 177-267 5.84e-27

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: 104.61  E-value: 5.84e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPYKPLVEAIKKFKVAQN-ALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDgeKVWWQEFDVTPRQ 255
Cdd:cd20533   1 HPHKFILMYLQVLEGEDNkKLAQTAWNYMNDSLRTDLCVRYPPEVIACACIYLAARELGIPLPLP--PPWWELFDVSKED 78

                        90
                ....*....|..
gi 30694715 256 LEDVSNQMLELY 267
Cdd:cd20533  79 IEEICLTILELY 90
CYCLIN_CCNM_CCNQ_rpt1 cd20534
first cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 60-172 6.40e-26

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: 102.25  E-value: 6.40e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  60 RKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIFVSYEIINKKDP 139
Cdd:cd20534   2 HFKVLRFIREAGLKLELSSVTIATACVLYHRFYRELSLEDYDPYLVAMACLYLAGKAEEQPRRLRDIINVSYRILHPDKP 81

                        90       100       110
                ....*....|....*....|....*....|...
gi 30694715 140 gasqKIKQKEVYEQQKELILNGEKIVLSTLGFD 172
Cdd:cd20534  82 ----PLELDDEYWELRDSIVNCELLLLRILKFD 110
CYCLIN_SpCG1C-like_rpt1 cd20545
first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar ...
 56-173 6.43e-24

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: 96.72  E-value: 6.43e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  56 ETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIFVSYEIIN 135
Cdd:cd20545   1 EQEDRSKGVNFIIRVGSRLKLPQTTLFTAATYFHRFYMRNSLKKYHYYEIAATCLFLATKVEESGRKLRDIVIACAKVAQ 80

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 30694715 136 KKdpGASQKIKQKEVYEQQKELILNGEKIVLSTLGFDL 173
Cdd:cd20545  81 KN--PNLVIDEQSKEVWRWRDSILYNEEVLLETLCFDL 116
CYCLIN_CCNL2_rpt1 cd20590
first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 44-171 2.78e-21

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: 90.84  E-value: 2.78e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  44 SPSRLDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPL 123
Cdd:cd20590  28 TPSMSSGLDVDTETDLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVKHSMEHVSMACVHLASKIEEAPRRI 107

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
gi 30694715 124 KDVIFVSYEIINKKDPGASQKIKQKEVYEQQKELILNGEKIVLSTLGF 171
Cdd:cd20590 108 RDVINVFHRLRQLREKKKPVPLILDQEYVNLKNQIIKAERRVLKELGF 155
CYCLIN_AcCycL_rpt1 cd20591
first cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
 46-171 4.25e-21

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: 89.12  E-value: 4.25e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  46 SRLDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKD 125
Cdd:cd20591   1 SRKDGIDEDTEITLRIFGCELIQESGILLKLPQAVMATGQVLFQRFYCKKSFARFNVKRVAASCVWLAAKLEESPRKIRQ 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*..
gi 30694715 126 VIFVSYEIINKKDPGASQKIK-QKEVYEQQKELILNGEKIVLSTLGF 171
Cdd:cd20591  81 VLMVFHRMECRRENLPLEPLEpESKKYDEMKEDLIRTERHLLKEMGF 127
CYCLIN_CCNL1_rpt1 cd20589
first cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin ...
 49-171 6.16e-20

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: 85.57  E-value: 6.16e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  49 DGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIF 128
Cdd:cd20589   1 DGLDHETETDLRILGCELIQTAGILLRLPQVAMATGQVLFQRFFYSKSFVKHSMEIVAMACINLASKIEEAPRRIRDVIN 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 30694715 129 VSYEIINKKDPGASQKIKQKEVYEQQKELILNGEKIVLSTLGF 171
Cdd:cd20589  81 VFHHIKQVRGKRTISPLILDQNYINLKNQVIKAERRVLKELGF 123
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 33-174 7.73e-20

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: 85.65  E-value: 7.73e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715    33 WYFgrKEIEENSPSRLDGIDLKKETYL--RKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCM 110
Cdd:pfam00134   4 QYL--RELELKYLPKPDYMDQQPDINPkmRAILIDWLVEVHEKFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCL 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 30694715   111 FLAGKVEET-PRPLKDVIFVSyeiinkkdpgasqkikqKEVYEqqKELILNGEKIVLSTLGFDLN 174
Cdd:pfam00134  82 FIAAKYEEIyPPTVEDLVYIT-----------------DNAYT--REEILRMERLILETLNFDLS 127
CYCLIN_CCNC_rpt2 cd20514
second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 177-269 1.22e-18

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: 80.74  E-value: 1.22e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPYKPLVEAIKKFKVAQNALaQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLpsdgeKVWWQEFDVTPRQL 256
Cdd:cd20514   1 HPYRPLTQYVQDAGLDDELL-PLAWRIVNDSYRTDVCLLYPPYLIALACLHMACVLLQKDA-----RQWFAELNVDMDKI 74

                        90
                ....*....|...
gi 30694715 257 EDVSNQMLELYEQ 269
Cdd:cd20514  75 LEITREILSLYEL 87
CYCLIN_AcCycL_rpt2 cd20594
second cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
 174-271 2.61e-18

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: 80.29  E-value: 2.61e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 174 NVYHPYKPLVEAIKKFKvAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEkvWWQEFDVTP 253
Cdd:cd20594   1 HVEHPHKFILNYLAMLM-APPELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRFQVPLPENPP--WWKVFDAEK 77

                        90
                ....*....|....*...
gi 30694715 254 RQLEDVSNQMLELYEQNR 271
Cdd:cd20594  78 AEIDVVCKVLADLYRQPK 95
CYCLIN_ScCTK2-like_rpt1 cd20547
first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar ...
 59-172 1.65e-17

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: 78.16  E-value: 1.65e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  59 LRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRF--FFRQSHAKNdrRTIATVCMFLAGKVEETPRPLKDVIFVSYEIINK 136
Cdd:cd20547   1 LRLAAFQFISQLCKKLKFPRRTLGTAMLLYQRFhlFNPFTDSSN--YEVALACLFLASKIEDTQKKSKDILAASYNLRHP 78

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 30694715 137 KDPGASQKIkqkevYEQQKELILNGEKIVLSTLGFD 172
Cdd:cd20547  79 DKISVDDQM-----LEEFRKAILGLERLLLETICFD 109
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 17-173 1.31e-16

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: 76.87  E-value: 1.31e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  17 SSHSRN--------SHEKQEEVSRWYFGR-KEIEENSPSRLDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIF 87
Cdd:cd20524   3 STQRKHwifsseeeLAELRAEANEKAREKlKESLKEEDAEPKFLTPEEELLLVRYYEKKLLEFCRAFKLPDSVLATALTY 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  88 CHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDviFVsyeiinkkdpgasQKIKQKEVYEQQkelILNGEKIVLS 167
Cdd:cd20524  83 FKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQ--FV-------------GNIKESEKTAEI---ILEYELLLLQ 144


                ....*.
gi 30694715 168 TLGFDL 173
Cdd:cd20524 145 GLNFHL 150
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 59-147 5.65e-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: 73.78  E-value: 5.65e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  59 LRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIFVSYEIINKKD 138
Cdd:cd20513   1 LHIFFANFIQALGERLKLRQRVIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEECPSHARLIVAEAKVLKTKFS 80


                ....*....
gi 30694715 139 PGASQKIKQ 147
Cdd:cd20513  81 YEFPYRVND 89
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 25-239 1.33e-15

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: 77.95  E-value: 1.33e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715    25 EKQEEVSRWYfgRKEIEENSPSR-LDGIDL--KKETYLRKSYCTFLQDLGMRLK--VPQVTIATAIIFCHRFFFRQSHAK 99
Cdd:TIGR00569  20 EKRADANAKF--REAHEEEEKVLeAKPIFLtpEEELDLVKYYEKRLLDFCSAFKptMPTSVVGTAIMYFKRFYLNNSVME 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715   100 NDRRTIATVCMFLAGKVEEtprplkdvIFVSYEIINKKDPGASQKIkqkevyeqqKELILNGEKIVLSTLGFDLNVYHPY 179
Cdd:TIGR00569  98 YHPKIIMLTCVFLACKVEE--------FNVSIDQFVGNLKETPLKA---------LEQVLEYELLLIQQLNFHLIVHNPY 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 30694715   180 KPL------VEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPS 239
Cdd:TIGR00569 161 RPLegflidIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMES 226
CYCLIN_CCNM_CCNQ_rpt2 cd20535
second cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 177-269 1.52e-15

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: 72.67  E-value: 1.52e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPY-----KPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDG--EKVWWQEF 249
Cdd:cd20535   3 HKYllhylKSLRDWLNPEFWSRSPIAKTAWSLLRDFYHSPLCLQFKPQHIALAVIYLALQVYGVKVPPEEeaEKPWWQAF 82

                        90       100
                ....*....|....*....|..
gi 30694715 250 --DVTPRQLEDVSNQMLELYEQ 269
Cdd:cd20535  83 ceDLTKETIDEIIEDIINVYDL 104
CYCLIN_CCNL1_rpt2 cd20592
second cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin ...
 177-271 2.58e-15

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: 72.72  E-value: 2.58e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPYKPLVEAIKKFKVAQN-ALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEkvWWQEFDVTPRQ 255
Cdd:cd20592   2 HPHKIIVMYLQVLECERNqTLVQTAWNYMNDSLRTNVFVRFQPETIACACIYLAARALQIPLPNRPH--WFLLFGATEEE 79

                        90
                ....*....|....*.
gi 30694715 256 LEDVSNQMLELYEQNR 271
Cdd:cd20592  80 IQEICITTLKLYTRKK 95
CYCLIN_CCNL2_rpt2 cd20593
second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 177-281 4.28e-15

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


Pssm-ID: 410296 [Multi-domain]  Cd Length: 123  Bit Score: 71.92  E-value: 4.28e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPYKPLVEAIKKFKVAQNA-LAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEkvWWQEFDVTPRQ 255
Cdd:cd20593   1 HPHKIIVMYLQVLECERNRhLVQTSWNYMNDSLRTDVFVRFNPETIACACIYLAARTLEIPLPNRPH--WFLLFGATEEE 78

                        90       100
                ....*....|....*....|....*..
gi 30694715 256 LEDVSNQMLELYEQNRVPASQ-GSEVE 281
Cdd:cd20593  79 IQEICLKILQLYTRKKVDLEHlESKVE 105
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 64-130 1.23e-12

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: 63.58  E-value: 1.23e-12
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 30694715  64 CTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIFVS 130
Cdd:cd00043   3 VDFIRRLCSKLGLPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIAKVS 69
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 65-130 3.83e-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: 53.75  E-value: 3.83e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 30694715     65 TFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIFVS 130
Cdd:smart00385   1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYT 66
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 182-268 1.79e-08

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: 51.82  E-value: 1.79e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715    182 LVEAIKKFKVAQNALaQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGEKVWWQEFDVtprqlEDVSN 261
Cdd:smart00385   3 LRRVCKALNLDPETL-NLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGYFTE-----EEILR 76


                   ....*..
gi 30694715    262 QMLELYE 268
Cdd:smart00385  77 MERLLLE 83
CYCLIN_AtCycC_rpt2 cd20572
second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 177-271 4.25e-08

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: 51.31  E-value: 4.25e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPYKPLVEAIKKFKVAQnaLAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAkflkVKLPSDgEKVWWQEFDVTPRQL 256
Cdd:cd20572   1 HPYRPLIQLLQDAGLTD--MTQFTWSIVNDTYRTDLILIHPPYMIALACIYIAS----VHKEKD-ITLWFEELRVDMNII 73

                        90
                ....*....|....*
gi 30694715 257 EDVSNQMLELYEQNR 271
Cdd:cd20572  74 KNIAMEILDFYDNYR 88
CYCLIN_AcCycH_rpt1 cd20585
first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH ...
 53-173 5.06e-08

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: 52.91  E-value: 5.06e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715  53 LKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETprplkdviFVSYE 132
Cdd:cd20585  71 ADEELLMLKYYEQKIQEVCRALRLPNKIQATALLYFKRFYLQWSVMEHDPKRIMLTCIYLACKVEEY--------HVSAE 142

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 30694715 133 IINKKdpgasqkikqkevYEQQKELILNGEKIVLSTLGFDL 173
Cdd:cd20585 143 ELGKG-------------IQQDHQLILKNELALLQGLNFDL 170
CYCLIN_CCNT2_rpt2 cd20598
second cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory ...
 177-269 3.04e-07

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


Pssm-ID: 410301 [Multi-domain]  Cd Length: 114  Bit Score: 49.31  E-value: 3.04e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPYKPLVEAIKKFKVAQNaLAQVAWNFVNDGLR-TSLCLQFKPHHIAAGAIFLAAKFLKVKLP--SDGeKVWWQEFD--V 251
Cdd:cd20598   2 HPHTDVVKCTQLVRASKD-LAQTSYFMATNSLHlTTFCLQYKPTVIACVCIHLACKWSNWEIPvsTDG-KHWWEYVDptV 79

                        90
                ....*....|....*...
gi 30694715 252 TPRQLEDVSNQMLELYEQ 269
Cdd:cd20598  80 TLELLDELTHEFLQILEK 97
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 66-128 4.25e-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: 4.25e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 30694715  66 FLQDLGMRLKVPQVTIATAIIFCHRFFFRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIF 128
Cdd:cd20571  13 YIKKLAQHIKVRQRVVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAKLLVF 75
CYCLIN_CCNT_rpt2 cd20539
second cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 177-265 6.36e-07

second 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 in this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410242 [Multi-domain]  Cd Length: 92  Bit Score: 47.65  E-value: 6.36e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLR-TSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGE-KVWWQEFDVTpr 254
Cdd:cd20539   1 HPHTHVLKICNLVKAGSKDLAQTAYFLATNSLHlTTFCLQYKPTVIACVCIHLACKWSNWEIPRSSEgKDWYEYVDPS-- 78

                        90
                ....*....|.
gi 30694715 255 qledVSNQMLE 265
Cdd:cd20539  79 ----LTLEELD 85
CYCLIN_CCNT1_rpt2 cd20597
second cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor ...
 177-269 2.88e-06

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


Pssm-ID: 410300 [Multi-domain]  Cd Length: 109  Bit Score: 46.23  E-value: 2.88e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPYKPLVEAIKKFKVAQNaLAQVAWNFVNDGLR-TSLCLQFKPHHIAAGAIFLAAKFLKVKLP--SDGeKVWWQEFD--V 251
Cdd:cd20597   2 HPHTHVVKCTQLVRASKD-LAQTSYFMATNSLHlTTFSLQYTPPVVACVCIHLACKWSNWEIPvsTDG-KHWWEYVDatV 79

                        90
                ....*....|....*...
gi 30694715 252 TPRQLEDVSNQMLELYEQ 269
Cdd:cd20597  80 TLELLDELTHEFLQILEK 97
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 177-259 1.57e-05

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: 43.17  E-value: 1.57e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 177 HPYKPLVEAIKKFKVAQNALAQvAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSdgeKVWWQEFDVTPRQL 256
Cdd:cd00043   1 KAVDFIRRLCSKLGLPEEVLEL-AIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTL---KEIAKVSGVSEKEL 76


                ...
gi 30694715 257 EDV 259
Cdd:cd00043  77 RKA 79
dermokine cd21118
dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a ...
 273-341 1.49e-03

dermokine; Dermokine, also known as epidermis-specific secreted protein SK30/SK89, is a skin-specific glycoprotein that may play a regulatory role in the crosstalk between barrier dysfunction and inflammation, and therefore play a role in inflammatory diseases such as psoriasis. Dermokine is one of the most highly expressed proteins in differentiating keratinocytes, found mainly in the spinous and granular layers of the epidermis, but also in the epithelia of the small intestine, macrophages of the lung, and endothelial cells of the lung. Mouse dermokine has been reported to be encoded by 22 exons, and its expression leads to alpha, beta, and gamma transcripts.


Pssm-ID: 411053 [Multi-domain]  Cd Length: 495  Bit Score: 41.52  E-value: 1.49e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30694715 273 PASQGSEVESSVGGGSAqrpgSRNAVSTDEHVGSRQTSSVRSTHEQSNSDNHGGSSKGVLNQNNENGGG 341
Cdd:cd21118 205 PPPSGSHESFSNSGGSS----SSGSSGSQGSHGSNGQGSSGSSGGQGNGGNNGSSSSNSGNSGGSNGGS 269
CYCLIN_CCNH_rpt2 cd20525
second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 176-249 1.72e-03

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: 38.81  E-value: 1.72e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30694715 176 YHPYKPL---VEAIKKF-KVAQNALAQVAWN----FVNDGLRTSLCLQFKPHHIAAGAIFLAA--------KFLKVKLPS 239
Cdd:cd20525   1 HHPYRPLegfLLDLKTRlPDLKAENLEKLYKeareFLNRSLLTDAPLLYPPSQIALAALLLAAseagidveEYLSEKLPG 80

                        90
                ....*....|
gi 30694715 240 DGEKVWWQEF 249
Cdd:cd20525  81 SEESEELEKL 90
 
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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