Citrus Sinensis ID: 045125

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340--
MAPSFDCVVSSLLCAEEDSSVFDDINGSVVDEFENDATWHHGNNRTQHRSRRFDDGGDMLLSLPLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDTEKAISLLTQHVKKERVLKCIKMMNDSLISGSVKSATSASLATSFPQSPIGVLDAACLSYKSDESTVGS
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccccHHHHcccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHcccccccccccEEEcccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHcccccccHHHHHHHcccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccc
ccccccHHHccccccccccccccccccccccccHHHHHHHHcccHHccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccHHHHHccccccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEEcccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHcHHHcccHHHHHHHHHHHHHHHHccccccccHHHHHcccccHHHHHHHHHHHHHHHHHcccccccEEEEEcccccccccEEcHHHcccccccccccc
MAPSFDCVVSSllcaeedssvfddingsvvdefendatwhhgnnrtqhrsrrfddggdmllslplqSDECLALLLEKechhlphndylkrlrtgdLDLAARQEAVDWIAKVhshfgfgplcsYLTINYLDRFlsayelpkgKVWMMQLLAVACLSLAAKMeetevplcldlqvgqsKFLFEAKTIQRMELLVLSTLKWRMqaitpfsfldyftrkitdddddhhqtpLRALFCRSIQIITSsikgidflefkpsEIAAAVAISVTGETKTVVDTEKAISLLTQHVKKERVLKCIKMMNDSlisgsvksatsaslatsfpqspigvLDAACLsyksdestvgs
MAPSFDCVVSSLLCAEEDSSVFDDINGSVVDEFendatwhhgnnrtqhrsRRFDDGGDMLLSLPLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVtgetktvvdtEKAISLltqhvkkerVLKCIKMMNDSLISGSVKSATSASLAtsfpqspigVLDAACLSYksdestvgs
MAPSFDCVVSSLLCAEEDSSVFDDINGSVVDEFENDATWHHGNNRTQHRSRRFDDGGDMLLSLPLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDTEKAISLLTQHVKKERVLKCIKMMNDSLISGSVKSATSASLATSFPQSPIGVLDAACLSYKSDESTVGS
****FDCVVSSLLCAEEDSSVFDDINGSVVDEFENDATWHH****************DMLLSLPLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDTEKAISLLTQHVKKERVLKCIKMMNDSLI********************IGVLDAACL***********
****FDCVVSSLLCAEEDSSVFDDINGSVVDEF*****************RRFDDGGDMLLSLPLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDTEKAISLLTQHVKKERVLKCIKMMNDS************************VLDAACLSYKSDE*****
********VSSLLCAEEDSSVFDDINGSVVDEFENDATWHHGNNRTQHRSRRFDDGGDMLLSLPLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDTEKAISLLTQHVKKERVLKCIKMMNDSLISG***********TSFPQSPIGVLDAACLSY*********
****FDCVVSSLLCAEEDSSVFDDING***DEFENDATWHHGNNRTQHRSRRFDDGGDMLLSLPLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDTEKAISLLTQHVKKERVLKCIKMMNDSLISGSVKSATSASLATSFPQSPIGVLDAACLS**********
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MAPSFDCVVSSLLCAEEDSSVFDDINGSVVDEFENDATWHHGNNRTQHRSRRFDDGGDMLLSLPLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDTEKAISLLTQHVKKERVLKCIKMMNDSLISGSVKSATSASLATSFPQSPIGVLDAACLSYKSDESTVGS
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query342 2.2.26 [Sep-21-2011]
Q69QB8342 Cyclin-D3-1 OS=Oryza sati yes no 0.932 0.932 0.461 4e-74
Q6YXH8356 Cyclin-D4-1 OS=Oryza sati yes no 0.935 0.898 0.478 6e-73
Q8LGA1308 Cyclin-D4-1 OS=Arabidopsi yes no 0.751 0.834 0.512 8e-71
Q4KYM5383 Cyclin-D4-2 OS=Oryza sati no no 0.959 0.856 0.457 2e-70
P42752361 Cyclin-D2-1 OS=Arabidopsi no no 0.760 0.720 0.521 3e-68
Q8LHA8356 Cyclin-D2-2 OS=Oryza sati no no 0.792 0.761 0.475 4e-66
Q0WQN9298 Cyclin-D4-2 OS=Arabidopsi no no 0.646 0.741 0.542 2e-64
P42751339 Cyclin-D1-1 OS=Arabidopsi no no 0.654 0.660 0.461 1e-53
Q10K98405 Putative cyclin-D2-3 OS=O no no 0.646 0.545 0.450 1e-51
Q0J233308 Cyclin-D2-1 OS=Oryza sati no no 0.649 0.720 0.425 8e-48
>sp|Q69QB8|CCD31_ORYSJ Cyclin-D3-1 OS=Oryza sativa subsp. japonica GN=CYCD3-1 PE=2 SV=2 Back     alignment and function desciption
 Score =  278 bits (711), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 160/347 (46%), Positives = 227/347 (65%), Gaps = 28/347 (8%)

Query: 1   MAPSFDCVVSSLLCAEEDSSVFDDINGSVVDEFENDATWHHGNNRTQHRSRRFDDGGDML 60
           MAPSFD   S LLCAE+++++ D      + E   + +W  G + +          GD+ 
Sbjct: 1   MAPSFDFAASILLCAEDNTAILD------LGEESEEISWVVGVDASL---------GDLS 45

Query: 61  LSLPLQSDECL-ALLLEKECHHLPHNDYLKRL--RTGDLDLAA-RQEAVDWIAKVHSHFG 116
           +  PLQSD+C+ ALL  +E  H+P   YL+RL  +   LDL A R +A+DWI KVH  + 
Sbjct: 46  MDFPLQSDDCIEALLGREEQQHIPMEGYLQRLLLQPDGLDLVAVRSDAIDWIWKVHELYK 105

Query: 117 FGPLCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQS 176
           FGPL + L++NYLDRFLS ++LP+ +  M QLLAVA LSLAAKMEET VP  LDLQV  +
Sbjct: 106 FGPLTAVLSVNYLDRFLSVFDLPQEEACMTQLLAVASLSLAAKMEETVVPHPLDLQVCDA 165

Query: 177 KFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSI 236
           K++FE +TI+RMEL VL+ LKWRMQA+T  SF+DY+  K  DDD     TP  +   RS+
Sbjct: 166 KYVFETRTIKRMELAVLNALKWRMQAVTACSFIDYYLHKFNDDD-----TPSTSALSRSV 220

Query: 237 QIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDTEKAISLLTQHVKKERVLKCIKM 296
            +I S+ K  +FL F+PSEIAA+VA+    E +T     + ++   +++KKERVL+C +M
Sbjct: 221 DLILSTCKVAEFLVFRPSEIAASVALVALEEHET--SMFERVATCYKNLKKERVLRCYEM 278

Query: 297 MNDSLISGSVKSATSASLATSFPQSPIGVLD-AACLSYKSDESTVGS 342
           + D +I  ++   ++ S+  S P+SPIGVLD AAC+S +S+++ VGS
Sbjct: 279 IQDKIIMRNIMRQSAGSV-FSIPKSPIGVLDAAACISQQSEDTFVGS 324

Oryza sativa subsp. japonica (taxid: 39947)
>sp|Q6YXH8|CCD41_ORYSJ Cyclin-D4-1 OS=Oryza sativa subsp. japonica GN=CYCD4-1 PE=2 SV=2 Back     alignment and function description
>sp|Q8LGA1|CCD41_ARATH Cyclin-D4-1 OS=Arabidopsis thaliana GN=CYCD4-1 PE=1 SV=2 Back     alignment and function description
>sp|Q4KYM5|CCD42_ORYSJ Cyclin-D4-2 OS=Oryza sativa subsp. japonica GN=CYCD4-2 PE=2 SV=2 Back     alignment and function description
>sp|P42752|CCD21_ARATH Cyclin-D2-1 OS=Arabidopsis thaliana GN=CYCD2-1 PE=1 SV=3 Back     alignment and function description
>sp|Q8LHA8|CCD22_ORYSJ Cyclin-D2-2 OS=Oryza sativa subsp. japonica GN=CYCD2-2 PE=2 SV=1 Back     alignment and function description
>sp|Q0WQN9|CCD42_ARATH Cyclin-D4-2 OS=Arabidopsis thaliana GN=CYCD4-2 PE=1 SV=2 Back     alignment and function description
>sp|P42751|CCD11_ARATH Cyclin-D1-1 OS=Arabidopsis thaliana GN=CYCD1-1 PE=1 SV=3 Back     alignment and function description
>sp|Q10K98|CCD23_ORYSJ Putative cyclin-D2-3 OS=Oryza sativa subsp. japonica GN=CYCD2-3 PE=3 SV=1 Back     alignment and function description
>sp|Q0J233|CCD21_ORYSJ Cyclin-D2-1 OS=Oryza sativa subsp. japonica GN=CYCD2-1 PE=3 SV=2 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query342
302142033355 unnamed protein product [Vitis vinifera] 0.973 0.938 0.671 1e-128
255545908354 cyclin d, putative [Ricinus communis] gi 0.953 0.920 0.667 1e-124
147843360375 hypothetical protein VITISV_030539 [Viti 0.973 0.888 0.634 1e-124
359359232353 D2/4-type cyclin [Populus x canadensis] 0.953 0.923 0.690 1e-124
159025707361 D2/4-type cyclin [Populus trichocarpa] 0.953 0.903 0.667 1e-121
224081975337 predicted protein [Populus trichocarpa] 0.906 0.919 0.662 1e-118
359492924325 PREDICTED: LOW QUALITY PROTEIN: cyclin-D 0.883 0.929 0.667 1e-113
356552951355 PREDICTED: cyclin-D4-1-like [Glycine max 0.961 0.926 0.630 1e-113
159025709319 D2/4-type cyclin [Populus trichocarpa] 0.903 0.968 0.649 1e-112
255642346352 unknown [Glycine max] 0.947 0.920 0.634 1e-111
>gi|302142033|emb|CBI19236.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  462 bits (1189), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 231/344 (67%), Positives = 284/344 (82%), Gaps = 11/344 (3%)

Query: 1   MAPSFDCVVSSLLCAEEDSSVFDDIN-GSVVDEFENDATWHHGNNRTQHRSRRFDDGGDM 59
           MAPSFDC  SSLLC E++SS+FDD + G+  +EFE    WHH N+R++++ + F+ GG+ 
Sbjct: 1   MAPSFDCAASSLLCGEDNSSIFDDADYGAAAEEFET--AWHHQNHRSRNQEKSFN-GGEF 57

Query: 60  LLSLPLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGP 119
           L+ LP+QSDECLAL++EKE  HLP  DYL RLR+GDLD+ +RQ+ V WIAK H+HFGFGP
Sbjct: 58  LIGLPVQSDECLALMIEKESQHLPAADYLMRLRSGDLDIGSRQDVVGWIAKAHAHFGFGP 117

Query: 120 LCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFL 179
           LC+YL INYLDRFLS YELPKGK WM QLLAVACLSLAAKMEE EVPLCLDLQV +S+F+
Sbjct: 118 LCAYLAINYLDRFLSTYELPKGKAWMAQLLAVACLSLAAKMEENEVPLCLDLQVAESRFV 177

Query: 180 FEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSIQII 239
           FEA+TIQRMELLVL TLKWRMQA+TPFSF+DYF R+I DD     + P R     SIQ+I
Sbjct: 178 FEARTIQRMELLVLRTLKWRMQAVTPFSFVDYFLRRINDD-----EFPARTSILLSIQLI 232

Query: 240 TSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDTEKAISLLTQHVKKERVLKCIKMMND 299
            S++KGIDFLEF+PSEIAAAVAIS+ GET+T VD EKAIS++ + ++KERVLKCI++M+D
Sbjct: 233 LSTVKGIDFLEFRPSEIAAAVAISIAGETQT-VDIEKAISVVIEPIEKERVLKCIELMHD 291

Query: 300 -SLISGSVKSATSASLATSFPQSPIGVLDAACLSYKSDESTVGS 342
            SLISGSVK +++A+   S P +PIGVLDAACLSYKSD++TVGS
Sbjct: 292 LSLISGSVKRSSTAASVPSVPHTPIGVLDAACLSYKSDDTTVGS 335

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255545908|ref|XP_002514014.1| cyclin d, putative [Ricinus communis] gi|223547100|gb|EEF48597.1| cyclin d, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|147843360|emb|CAN80526.1| hypothetical protein VITISV_030539 [Vitis vinifera] Back     alignment and taxonomy information
>gi|359359232|gb|AEV41134.1| D2/4-type cyclin [Populus x canadensis] Back     alignment and taxonomy information
>gi|159025707|emb|CAN88854.1| D2/4-type cyclin [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224081975|ref|XP_002306546.1| predicted protein [Populus trichocarpa] gi|222855995|gb|EEE93542.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|359492924|ref|XP_003634482.1| PREDICTED: LOW QUALITY PROTEIN: cyclin-D4-2-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|356552951|ref|XP_003544823.1| PREDICTED: cyclin-D4-1-like [Glycine max] Back     alignment and taxonomy information
>gi|159025709|emb|CAN88855.1| D2/4-type cyclin [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255642346|gb|ACU21437.1| unknown [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query342
TAIR|locus:2142504298 CYCD4;2 "AT5G10440" [Arabidops 0.771 0.885 0.485 1.7e-59
TAIR|locus:2020663339 CYCD1;1 "CYCLIN D1;1" [Arabido 0.771 0.778 0.422 1.5e-49
TAIR|locus:2083128361 CYCD3;3 "AT3G50070" [Arabidops 0.678 0.642 0.444 2e-45
TAIR|locus:2157172367 CYCD3;2 "AT5G67260" [Arabidops 0.862 0.803 0.368 3.2e-42
TAIR|locus:2124331376 CYCD3;1 "CYCLIN D3;1" [Arabido 0.678 0.617 0.392 7.8e-39
TAIR|locus:2125522302 CYCD6;1 "AT4G03270" [Arabidops 0.710 0.804 0.329 1.3e-29
UNIPROTKB|Q10QA2345 CYCD5-3 "Cyclin-D5-3" [Oryza s 0.815 0.808 0.330 5.6e-29
TAIR|locus:2120081323 CYCD5;1 "AT4G37630" [Arabidops 0.476 0.504 0.384 3.6e-25
ZFIN|ZDB-GENE-980526-176291 ccnd1 "cyclin D1" [Danio rerio 0.684 0.804 0.281 1.4e-17
UNIPROTKB|P50755291 ccnd1 "G1/S-specific cyclin-D1 0.777 0.914 0.274 6.3e-17
TAIR|locus:2142504 CYCD4;2 "AT5G10440" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 610 (219.8 bits), Expect = 1.7e-59, P = 1.7e-59
 Identities = 132/272 (48%), Positives = 173/272 (63%)

Query:    43 NNRTQHRSRRFDDGGDMLLSLPLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQ 102
             +N    +S   D      +  PL+S+E +  ++EKE  H P +DYLKRLR GDLD   R 
Sbjct:    11 SNFDDEKSNSVDTRSIFQMGFPLESEEIVREMIEKERQHSPRDDYLKRLRNGDLDFNVRI 70

Query:   103 EAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEE 162
             +A+ WI K      FGPLC  L +NYLDRFLS ++LP GK W +QLLAVACLSLAAK+EE
Sbjct:    71 QALGWIWKACEELQFGPLCICLAMNYLDRFLSVHDLPSGKAWTVQLLAVACLSLAAKIEE 130

Query:   163 TEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDD 222
             T VP  + LQVG   F+FEAK++QRMELLVL+ L+WR++A+TP S++ YF  KI   D +
Sbjct:   131 TNVPELMQLQVGAPMFVFEAKSVQRMELLVLNVLRWRLRAVTPCSYVRYFLSKINGYDQE 190

Query:   223 HHQTPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDTEKAISLLT 282
              H      L  RS+Q+I S+ KGIDFLEF+ SEIAAAVA+SV+GE         + S L 
Sbjct:   191 PHSR----LVTRSLQVIASTTKGIDFLEFRASEIAAAVALSVSGEHFDKFSFSSSFSSL- 245

Query:   283 QHVKKERVLKCIKMMNDSLISGSVKSATSASL 314
                +KERV K  +M+     S S ++  +  L
Sbjct:   246 ---EKERVKKIGEMIERDGSSSSSQTPNNTVL 274
GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISM;IEA;IDA
GO:0051726 "regulation of cell cycle" evidence=ISS
GO:0010440 "stomatal lineage progression" evidence=RCA;IMP
GO:0005737 "cytoplasm" evidence=IDA
GO:0005515 "protein binding" evidence=IPI
GO:0000278 "mitotic cell cycle" evidence=RCA
GO:0042023 "DNA endoreduplication" evidence=RCA
GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=RCA
TAIR|locus:2020663 CYCD1;1 "CYCLIN D1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2083128 CYCD3;3 "AT3G50070" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2157172 CYCD3;2 "AT5G67260" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2124331 CYCD3;1 "CYCLIN D3;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2125522 CYCD6;1 "AT4G03270" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q10QA2 CYCD5-3 "Cyclin-D5-3" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2120081 CYCD5;1 "AT4G37630" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-980526-176 ccnd1 "cyclin D1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|P50755 ccnd1 "G1/S-specific cyclin-D1" [Xenopus laevis (taxid:8355)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q6YXH8CCD41_ORYSJNo assigned EC number0.47820.93560.8988yesno
Q69QB8CCD31_ORYSJNo assigned EC number0.46100.93270.9327yesno
Q8LGA1CCD41_ARATHNo assigned EC number0.51260.75140.8344yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query342
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 1e-41
COG5024440 COG5024, COG5024, Cyclin [Cell division and chromo 4e-18
cd0004388 cd00043, CYCLIN, Cyclin box fold 5e-17
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 5e-16
pfam02984117 pfam02984, Cyclin_C, Cyclin, C-terminal domain 1e-05
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score =  141 bits (357), Expect = 1e-41
 Identities = 50/132 (37%), Positives = 68/132 (51%), Gaps = 6/132 (4%)

Query: 69  ECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINY 128
           +  A L E E    P  DYL +    D++   R   +DW+ +VH  F   P   YL +NY
Sbjct: 1   DIYAYLRELEEEDRPPPDYLDQ--QPDINPKMRAILIDWLVEVHEEFKLLPETLYLAVNY 58

Query: 129 LDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRM 188
           LDRFLS   +P+     +QL+ V CL +AAK EE   P   D     +   +  + I RM
Sbjct: 59  LDRFLSKQPVPR---TKLQLVGVTCLLIAAKYEEIYPPSVEDFVY-ITDNAYTKEEILRM 114

Query: 189 ELLVLSTLKWRM 200
           ELL+LSTL W +
Sbjct: 115 ELLILSTLNWDL 126

Cyclins regulate cyclin dependent kinases (CDKs). Human cyclin-O 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. Length = 127
>gnl|CDD|227357 COG5024, COG5024, Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>gnl|CDD|217307 pfam02984, Cyclin_C, Cyclin, C-terminal domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 342
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 100.0
KOG0655408 consensus G1/S-specific cyclin E [Cell cycle contr 100.0
KOG0653391 consensus Cyclin B and related kinase-activating p 100.0
COG5024440 Cyclin [Cell division and chromosome partitioning] 100.0
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 99.96
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.92
TIGR00569305 ccl1 cyclin ccl1. University). 99.89
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.82
KOG0835367 consensus Cyclin L [General function prediction on 99.79
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.72
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.68
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.51
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.46
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.44
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.4
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.3
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 98.71
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.55
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 98.26
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.24
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.24
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 98.22
KOG1598 521 consensus Transcription initiation factor TFIIIB, 97.49
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 95.74
KOG1674218 consensus Cyclin [General function prediction only 95.5
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 95.15
PRK00423310 tfb transcription initiation factor IIB; Reviewed 93.39
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 84.27
KOG1597308 consensus Transcription initiation factor TFIIB [T 83.82
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 82.98
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 81.07
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=2.1e-46  Score=351.54  Aligned_cols=224  Identities=50%  Similarity=0.743  Sum_probs=201.3

Q ss_pred             CCChHHHHHHHHHHHcccCCCCchhhhccCCCCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHhccCcccCCch
Q 045125           64 PLQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKV  143 (342)
Q Consensus        64 ~~y~~ei~~~l~~~E~~~~~~~~yl~~~q~~~i~~~~R~~~vdWi~~v~~~~~l~~~T~~lAv~~lDRfLs~~~~~~~~~  143 (342)
                      ..++++++..|+++|.++.|+.+|...+ +..+++.+|.++++||++|++++++.++|++||+||||||++.+++++.++
T Consensus        42 ~~~~e~~i~~ll~kEe~~~p~~~~~~~~-~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~  120 (335)
T KOG0656|consen   42 LLWDERVLANLLEKEEQHNPSLDYFLCV-QKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKP  120 (335)
T ss_pred             ccccHHHHHHHHHHHHHhCCCCchhhhc-ccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCch
Confidence            5689999999999999999999876665 446888999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhhhccccCCcccceeeccCCccccHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHcCCCCCCC
Q 045125          144 WMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDH  223 (342)
Q Consensus       144 ~~lqLlavaCL~IAsK~eE~~~p~~~dl~v~~~~~~~~~~~I~~mE~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~  223 (342)
                      |++||+|+|||+||||+||+.+|.+.|+++....|.|.+++|++||+.||++|+|+|+.+||++|+++|+++++..    
T Consensus       121 W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~----  196 (335)
T KOG0656|consen  121 WMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQK----  196 (335)
T ss_pred             HHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcc----
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999887    


Q ss_pred             CCCcHHHHHHHHHHHHHhhccCccccccCHHHHHHHHHHHHHccCCCCcch---HHHHHHHhcCCCHHHHHHHHH
Q 045125          224 HQTPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDT---EKAISLLTQHVKKERVLKCIK  295 (342)
Q Consensus       224 ~~~~~~~l~~~~~~lil~~l~d~~~l~~~PS~IAaAai~~a~~~~~~~~~w---~~~l~~~~~~~~~~~l~~C~~  295 (342)
                       ......+...+..+++...+|..|+.|+||+||+|+++.+...+.. .+|   ...+..+ .+++++.+..|++
T Consensus       197 -~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~-l~~~~~~~~~~~~-~~l~~e~~~~~~~  268 (335)
T KOG0656|consen  197 -DHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDG-LDFREYENNLLSL-LSLSKEKVNRCYD  268 (335)
T ss_pred             -cchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcc-hhhhhhhHHHHHH-HHhhHHhhhcchh
Confidence             3333667777777888888899999999999999999888876665 333   2345555 6889999999998

>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>COG5024 Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] Back     alignment and domain information
>COG5333 CCL1 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] Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair] Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] Back     alignment and domain information
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>KOG1674 consensus Cyclin [General function prediction only] Back     alignment and domain information
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query342
4bcq_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 6e-11
4bco_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 6e-11
4bcq_D262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 6e-11
3ddq_B269 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 7e-11
3ddp_B268 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 7e-11
3bht_B262 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 7e-11
2g9x_B262 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 8e-11
1vin_A268 Bovine Cyclin A3 Length = 268 8e-11
3dog_B264 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 9e-11
1ogu_B260 Structure Of Human Thr160-phospho Cdk2/cyclin A Com 1e-10
2x1n_B261 Truncation And Optimisation Of Peptide Inhibitors O 2e-10
1vyw_B265 Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 2e-10
1e9h_B261 Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex 2e-10
1fin_B260 Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 2e-10
1qmz_B259 Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Com 2e-10
3f5x_B256 Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Boun 2e-10
1jst_B258 Phosphorylated Cyclin-Dependent Kinase-2 Bound To C 2e-10
3qhr_B261 Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic 5e-10
4ii5_B258 Structure Of Pcdk2/cyclina Bound To Adp And 1 Magne 6e-10
4i3z_B257 Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNES 6e-10
2b9r_A269 Crystal Structure Of Human Cyclin B1 Length = 269 2e-09
2jgz_B260 Crystal Structure Of Phospho-Cdk2 In Complex With C 4e-09
2w9z_A257 Crystal Structure Of Cdk4 In Complex With A D-Type 1e-07
2w96_A271 Crystal Structure Of Cdk4 In Complex With A D-Type 1e-07
3g33_B306 Crystal Structure Of Cdk4CYCLIN D3 Length = 306 2e-07
1w98_B283 The Structural Basis Of Cdk2 Activation By Cyclin E 3e-07
>pdb|4BCQ|B Chain B, Structure Of Cdk2 In Complex With Cyclin A And A 2-amino-4- Heteroaryl-pyrimidine Inhibitor Length = 262 Back     alignment and structure 
Iteration: 1

 Score = 65.1 bits (157), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 63/209 (30%), Positives = 98/209 (46%), Gaps = 37/209 (17%)
Query: 74  LLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFL 133
           L E E    P   Y+K+    D+  + R   VDW+ +V   +       +L +NY+DRFL
Sbjct: 16  LREMEVKCKPKVGYMKK--QPDITNSMRAILVDWLVEVGEEYKLQNETLHLAVNYIDRFL 73
Query: 134 SAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFL----FEAKTIQRME 189
           S+  + +GK   +QL+  A + LA+K EE   P     +V +  ++    +  K + RME
Sbjct: 74  SSMSVLRGK---LQLVGTAAMLLASKFEEIYPP-----EVAEFVYITDDTYTKKQVLRME 125
Query: 190 LLVLSTLKWRMQAITPFSFL-DYFTRKITDDDDDHHQTPLRALFCR--SIQIITSSIKGI 246
            LVL  L + + A T   FL  YF           HQ P     C+  S+ +    +  I
Sbjct: 126 HLVLKVLTFDLAAPTVNQFLTQYFL----------HQQPAN---CKVESLAMFLGELSLI 172
Query: 247 D---FLEFKPSEIAAA----VAISVTGET 268
           D   +L++ PS IAAA       +VTG++
Sbjct: 173 DADPYLKYLPSVIAAAAFHLALYTVTGQS 201
>pdb|4BCO|B Chain B, Structure Of Cdk2 In Complex With Cyclin A And A 2-amino-4- Heteroaryl-pyrimidine Inhibitor Length = 262 Back     alignment and structure
>pdb|4BCQ|D Chain D, Structure Of Cdk2 In Complex With Cyclin A And A 2-amino-4- Heteroaryl-pyrimidine Inhibitor Length = 262 Back     alignment and structure
>pdb|3DDQ|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX With The Inhibitor Roscovitine Length = 269 Back     alignment and structure
>pdb|3DDP|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX With The Inhibitor Cr8 Length = 268 Back     alignment and structure
>pdb|3BHT|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX WITH THE Inhibitor Meriolin 3 Length = 262 Back     alignment and structure
>pdb|2G9X|B Chain B, Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN COMPLEX WITH THE Inhibitor Nu6271 Length = 262 Back     alignment and structure
>pdb|1VIN|A Chain A, Bovine Cyclin A3 Length = 268 Back     alignment and structure
>pdb|3DOG|B Chain B, Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN Complex With The Inhibitor N-&-N1 Length = 264 Back     alignment and structure
>pdb|1OGU|B Chain B, Structure Of Human Thr160-phospho Cdk2/cyclin A Complexed With A 2-arylamino-4-cyclohexylmethyl-5-nitroso-6- aminopyrimidine Inhibitor Length = 260 Back     alignment and structure
>pdb|2X1N|B Chain B, Truncation And Optimisation Of Peptide Inhibitors Of Cdk2, Cyclin A Through Structure Guided Design Length = 261 Back     alignment and structure
>pdb|1VYW|B Chain B, Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 265 Back     alignment and structure
>pdb|1E9H|B Chain B, Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex With The Inhibitor Indirubin-5-Sulphonate Bound Length = 261 Back     alignment and structure
>pdb|1FIN|B Chain B, Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 260 Back     alignment and structure
>pdb|1QMZ|B Chain B, Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Complex Length = 259 Back     alignment and structure
>pdb|3F5X|B Chain B, Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Bound At Its Active Site Length = 256 Back     alignment and structure
>pdb|1JST|B Chain B, Phosphorylated Cyclin-Dependent Kinase-2 Bound To Cyclin A Length = 258 Back     alignment and structure
>pdb|3QHR|B Chain B, Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic Length = 261 Back     alignment and structure
>pdb|4II5|B Chain B, Structure Of Pcdk2/cyclina Bound To Adp And 1 Magnesium Ion Length = 258 Back     alignment and structure
>pdb|4I3Z|B Chain B, Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNESIUM IONS Length = 257 Back     alignment and structure
>pdb|2B9R|A Chain A, Crystal Structure Of Human Cyclin B1 Length = 269 Back     alignment and structure
>pdb|2JGZ|B Chain B, Crystal Structure Of Phospho-Cdk2 In Complex With Cyclin B Length = 260 Back     alignment and structure
>pdb|2W9Z|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 257 Back     alignment and structure
>pdb|2W96|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 271 Back     alignment and structure
>pdb|3G33|B Chain B, Crystal Structure Of Cdk4CYCLIN D3 Length = 306 Back     alignment and structure
>pdb|1W98|B Chain B, The Structural Basis Of Cdk2 Activation By Cyclin E Length = 283 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query342
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 1e-56
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 6e-56
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 3e-36
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 2e-34
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 8e-33
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 1e-32
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 1e-31
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 1e-30
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 1e-15
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 2e-11
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 4e-11
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-09
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 6e-09
2ivx_A257 Cyclin-T2; transcription regulation, cell division 6e-08
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 2e-06
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} Length = 306 Back     alignment and structure
 Score =  185 bits (471), Expect = 1e-56
 Identities = 59/279 (21%), Positives = 112/279 (40%), Gaps = 16/279 (5%)

Query: 65  LQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYL 124
           L     L  LL  E  ++P   Y + ++  ++    R+    W+ +V            L
Sbjct: 36  LGDQRVLQSLLRLEERYVPRASYFQCVQR-EIKPHMRKMLAYWMLEVCEEQRCEEEVFPL 94

Query: 125 TINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKT 184
            +NYLDR+LS     K +   +QLL   C+ LA+K+ ET  PL ++     +      + 
Sbjct: 95  AMNYLDRYLSCVPTRKAQ---LQLLGAVCMLLASKLRET-TPLTIEKLCIYTDHAVSPRQ 150

Query: 185 IQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQTPLRALFCRSIQIITSSIK 244
           ++  E+LVL  LKW + A+    FL +   +++   D        A        +     
Sbjct: 151 LRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLSLPRDRQALVKKHAQT-----FLALCAT 205

Query: 245 GIDFLEFKPSEIAA-AVAISVTGETKTVVDTEKAISLLTQH--VKKERVLKCIKMMNDSL 301
              F  + PS IA  ++  +V G     +  ++   LL      + + +  C + +  +L
Sbjct: 206 DYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITGTEVDCLRACQEQIEAAL 265

Query: 302 ISGSVKSATSASLATSFPQSPIGVLD-AACLSYKSDEST 339
                ++A ++S  +  P++P G        +    + T
Sbjct: 266 RESLREAAQTSS--SPAPKAPRGSSSQGPSQTSTPTDVT 302
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A Length = 271 Back     alignment and structure
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 Length = 252 Back     alignment and structure
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Length = 257 Back     alignment and structure
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Length = 283 Back     alignment and structure
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Length = 254 Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Length = 260 Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Length = 269 Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Length = 258 Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Length = 323 Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Length = 235 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Length = 358 Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Length = 257 Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Length = 285 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query342
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 100.0
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 100.0
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 100.0
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 100.0
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 100.0
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 100.0
2ivx_A257 Cyclin-T2; transcription regulation, cell division 100.0
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 100.0
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.97
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.97
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.93
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.87
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.67
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.22
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 98.23
1ais_B200 TFB TFIIB, protein (transcription initiation facto 95.39
1c9b_A207 General transcription factor IIB; protein-DNA comp 94.41
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 91.9
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 90.22
2ivx_A257 Cyclin-T2; transcription regulation, cell division 85.58
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 85.18
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 85.16
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 81.57
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 80.34
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=1.2e-45  Score=349.49  Aligned_cols=228  Identities=20%  Similarity=0.306  Sum_probs=198.2

Q ss_pred             ChHHHHHHHHHHHcccCCCCchhhhccCCCCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHhccCcccCCchhh
Q 045125           66 QSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWM  145 (342)
Q Consensus        66 y~~ei~~~l~~~E~~~~~~~~yl~~~q~~~i~~~~R~~~vdWi~~v~~~~~l~~~T~~lAv~~lDRfLs~~~~~~~~~~~  145 (342)
                      |+++|+++|+++|.++.|.++|++.. ++++++.+|..+|+||++|+.+|+++++|+++||+|||||+++..+.+.+   
T Consensus        37 ~~~~i~~~l~~~E~~~~p~~~y~~~~-q~~i~~~~R~~lvdwl~ev~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~---  112 (306)
T 3g33_B           37 GDQRVLQSLLRLEERYVPRASYFQCV-QREIKPHMRKMLAYWMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTRKAQ---  112 (306)
T ss_dssp             CHHHHHHHHHHHGGGGSCSSCCTTTS-TTTCCHHHHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHCCCCGGG---
T ss_pred             chHHHHHHHHHHHHHhCCCcHHHhhc-CccCCHHHHHHHHHHHHHHHHHhCCcHhHHHHHHHHHHHHHhcCCCcHHH---
Confidence            89999999999999999999999865 45799999999999999999999999999999999999999999887766   


Q ss_pred             HHHHHHHHHHHHhhhccccCCcccceeeccCCccccHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHcCCCCCCCCC
Q 045125          146 MQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQAITPFSFLDYFTRKITDDDDDHHQ  225 (342)
Q Consensus       146 lqLlavaCL~IAsK~eE~~~p~~~dl~v~~~~~~~~~~~I~~mE~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~  225 (342)
                      +||+|+||||||+|+||..+|.+.+|. ....+.|++++|++||+.||++|+|+++.|||++||.+|+..++..     .
T Consensus       113 lqLv~~tcL~lAsK~eE~~p~~~~~l~-~~~~~~~~~~~i~~mE~~IL~~L~f~l~~~tp~~fl~~~l~~l~~~-----~  186 (306)
T 3g33_B          113 LQLLGAVCMLLASKLRETTPLTIEKLC-IYTDHAVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLSLP-----R  186 (306)
T ss_dssp             HHHHHHHHHHHHHHHHCSSCCCTTHHH-HHTTTSSCHHHHHHHHHHHHHHTTTCCCCCCGGGGHHHHHHTSSCC-----T
T ss_pred             HHHHHHHHHHHHHHhccCCCCCHHHHH-HHhccCccHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHHcCCC-----h
Confidence            999999999999999999999999994 4444557999999999999999999999999999999999988765     2


Q ss_pred             CcHHHHHHHHHHHHHhhccCccccccCHHHHHHHHHHHHHccCCCCcch----HHHHHHHhcCCCHHHHHHHHHHHHHHH
Q 045125          226 TPLRALFCRSIQIITSSIKGIDFLEFKPSEIAAAVAISVTGETKTVVDT----EKAISLLTQHVKKERVLKCIKMMNDSL  301 (342)
Q Consensus       226 ~~~~~l~~~~~~lil~~l~d~~~l~~~PS~IAaAai~~a~~~~~~~~~w----~~~l~~~~~~~~~~~l~~C~~~l~~l~  301 (342)
                      .....+...+.+++..++.++.|+.|+||.|||||+++|+...+..+.|    .+.|..+ +||++++|.+|++.|.+++
T Consensus       187 ~~~~~~~~~a~~~l~lsl~d~~~l~~~PS~IAaAai~lA~~~l~~~~~w~~~w~~~L~~~-tg~~~~~l~~c~~~I~~l~  265 (306)
T 3g33_B          187 DRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGI-TGTEVDCLRACQEQIEAAL  265 (306)
T ss_dssp             TTHHHHHHHHHHHHHHHHHCGGGTTSCHHHHHHHHHHHHHHTCC---CCHHHHHHHHHHH-HTCCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhhhhhccCCHHHHHHHHHHHHHHHhcCCCCchhhHHHHHHHH-HCCCHHHHHHHHHHHHHHH
Confidence            2212344455556655667999999999999999999999877754444    5667777 8999999999999999999


Q ss_pred             hcC
Q 045125          302 ISG  304 (342)
Q Consensus       302 ~~~  304 (342)
                      ..+
T Consensus       266 ~~~  268 (306)
T 3g33_B          266 RES  268 (306)
T ss_dssp             HTC
T ss_pred             HHH
Confidence            875
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Back     alignment and structure
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Back     alignment and structure
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 342
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 2e-33
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 1e-32
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 3e-32
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 3e-29
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 3e-27
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 7e-22
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 8e-19
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 3e-16
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Length = 132 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Viral cyclin
species: Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]

 Score =  118 bits (297), Expect = 2e-33
 Identities = 31/137 (22%), Positives = 48/137 (35%), Gaps = 5/137 (3%)

Query: 65  LQSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYL 124
           L  D     +LE E   L  +      +   L    R+    W+  V   +   P    L
Sbjct: 1   LCEDRIFYNILEIEPRFLTSDSVFGTFQQ-SLTSHMRKLLGTWMFSVCQEYNLEPNVVAL 59

Query: 125 TINYLDRFLSAYELPKGKVWMMQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKT 184
            +N LDR L   ++ K      Q    ACL +A+K+          L    +   F  + 
Sbjct: 60  ALNLLDRLLLIKQVSK---EHFQKTGSACLLVASKLRSLTPISTSSL-CYAAADSFSRQE 115

Query: 185 IQRMELLVLSTLKWRMQ 201
           +   E  +L  L WR +
Sbjct: 116 LIDQEKELLEKLAWRTE 132
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Length = 140 Back     information, alignment and structure
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 128 Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Length = 141 Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Length = 127 Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Length = 144 Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Length = 143 Back     information, alignment and structure
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 151 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query342
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 100.0
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.98
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.98
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.96
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.95
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.8
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.77
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.76
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.34
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.43
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.31
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 98.03
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.85
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 97.79
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.66
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.45
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.19
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.07
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 97.03
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 96.89
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 95.96
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 95.78
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 92.81
d1f5qb2106 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 91.01
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Viral cyclin
species: Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]

Probab=100.00  E-value=3.9e-33  Score=230.49  Aligned_cols=131  Identities=23%  Similarity=0.315  Sum_probs=121.9

Q ss_pred             ChHHHHHHHHHHHcccCCCCchhhhccCCCCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHhccCcccCCchhh
Q 045125           66 QSDECLALLLEKECHHLPHNDYLKRLRTGDLDLAARQEAVDWIAKVHSHFGFGPLCSYLTINYLDRFLSAYELPKGKVWM  145 (342)
Q Consensus        66 y~~ei~~~l~~~E~~~~~~~~yl~~~q~~~i~~~~R~~~vdWi~~v~~~~~l~~~T~~lAv~~lDRfLs~~~~~~~~~~~  145 (342)
                      ++++|+++|+++|.++.|.++|+..+|. ++++.+|..+|+||.+|+.+++++++|+|+||+|||||+++..+++.+   
T Consensus         2 ~~~~i~~~l~~~E~~~~p~~~y~~~~q~-~it~~~R~~lidWl~~v~~~~~l~~et~~lAv~llDrfls~~~v~~~~---   77 (132)
T d1g3nc1           2 CEDRIFYNILEIEPRFLTSDSVFGTFQQ-SLTSHMRKLLGTWMFSVCQEYNLEPNVVALALNLLDRLLLIKQVSKEH---   77 (132)
T ss_dssp             HHHHHHHHHHHHGGGGCCCGGGHHHHTS-SCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTCCCCHHH---
T ss_pred             chHHHHHHHHHHHHHHCCChHHHHhcCc-cCCHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCcccCcHHH---
Confidence            5789999999999999999999988755 799999999999999999999999999999999999999999998776   


Q ss_pred             HHHHHHHHHHHHhhhccccCCcccceeeccCCccccHHHHHHHHHHHHHHcCCccc
Q 045125          146 MQLLAVACLSLAAKMEETEVPLCLDLQVGQSKFLFEAKTIQRMELLVLSTLKWRMQ  201 (342)
Q Consensus       146 lqLlavaCL~IAsK~eE~~~p~~~dl~v~~~~~~~~~~~I~~mE~~IL~~L~w~l~  201 (342)
                      +||+|+||||||+|+||..+|.+.++ +...+..|++++|.+||+.||++|+|++.
T Consensus        78 lqLia~tcl~iAsK~ee~~~~~~~~l-~~~~~~~~t~~ei~~mE~~IL~~L~w~l~  132 (132)
T d1g3nc1          78 FQKTGSACLLVASKLRSLTPISTSSL-CYAAADSFSRQELIDQEKELLEKLAWRTE  132 (132)
T ss_dssp             HHHHHHHHHHHHHHHHCSSCCCHHHH-HHHTTTCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHHHHHHHHHHhcccCCCCHHHH-HHHHcCCCCHHHHHHHHHHHHHHcCCcCC
Confidence            99999999999999999999999999 44455567999999999999999999974
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1w98b1 a.74.1.1 (B:228-357) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1f5qb2 a.74.1.1 (B:147-252) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure