Citrus Sinensis ID: 017988

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-------350-------360--
MDVSPSKSDANSVSMDESMSVCDSFKSPEVEYLDNNDVPPLDSIDRKSFRNLYISDHTERTENVCSRDILADMDTDDRVVNVDDNYMDPQLCATFACDIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQGINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFLNQA
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHccccccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHccccccccccEEEcccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHccccccccHHHHHHccccHHHHHHHHHHHHHHHHcccccccHHHHHHHcccccccccccccccccccccccccc
cccccccccccccccccccccccccccccccEccccccccccccccccccccccccccccHHHHcccccccccccccccEEcccccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHcccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccccccHHHHHHccccHHHHHHHHHHHHHHHHcccccccHHHHHHcccccccHEcccccccHccHHHHHHHc
mdvspsksdansvsmdesmsvcdsfkspeveyldnndvppldsidrksfrnlyisdhtertenvcsrdiladmdtddrvvnvddnymdpqlcaTFACDIYKHLrasevkkrpstdFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDrylsgnpmsrQRLQLLGVACMMIAAKYEEicapqveefcfitdntyFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAaqginevpsMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILlpakrpwnstlqhytlyqpsdlmECVKDLHRLYcnsqsstlpairEKYSLHKykcvakkycppsippefflnqa
mdvspsksdansvsmdesmSVCDSFKSPEveyldnndvppldsidrkSFRNLyisdhtertenvcsrdiladmdtDDRVVNVDDNYMDPQLCATFACDIYKHLRasevkkrpstdFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQginevpsmQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFLNQA
MDVSPSKSDANSVSMDESMSVCDSFKSPEVEYLDNNDVPPLDSIDRKSFRNLYISDHTERTENVCSRDILAdmdtddrvvnvddnymdPQLCATFACDIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQGINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFLNQA
***********************************************SFRNLYISDHTERTENVCSRDILADMDTDDRVVNVDDNYMDPQLCATFACDIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQGINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIP**F*****
**************************************************************************TDDRVVNVDDNYMDPQLCATFACDIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQGINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFLN**
*********************CDSFKSPEVEYLDNNDVPPLDSIDRKSFRNLYISDHTERTENVCSRDILADMDTDDRVVNVDDNYMDPQLCATFACDIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQGINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFLNQA
**********************************************************************ADMDTDDRVVNVDDNYMDPQLCATFACDIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQGINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFLNQA
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MDVSPSKSDANSVSMDESMSVCDSFKSPEVEYLDNNDVPPLDSIDRKSFRNLYISDHTERTENVCSRDILADMDTDDRVVNVDDNYMDPQLCATFACDIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQGINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFLNQA
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 ?
Query362 2.2.26 [Sep-21-2011]
Q9C6Y3460 Cyclin-A1-1 OS=Arabidopsi yes no 0.986 0.776 0.715 1e-156
Q7F830508 Cyclin-A1-1 OS=Oryza sati yes no 0.977 0.696 0.694 1e-142
Q0INT0491 Cyclin-A1-3 OS=Oryza sati no no 0.977 0.720 0.691 1e-141
Q0JPA4477 Cyclin-A1-2 OS=Oryza sati no no 0.975 0.740 0.686 1e-139
Q0DJR9356 Cyclin-A1-4 OS=Oryza sati no no 0.953 0.969 0.609 1e-120
Q9FVX0442 Cyclin-A1-2 OS=Arabidopsi no no 0.773 0.633 0.691 1e-115
Q2QQ96490 Cyclin-A2-1 OS=Oryza sati no no 0.872 0.644 0.506 1e-88
Q147G5436 Cyclin-A2-2 OS=Arabidopsi no no 0.773 0.642 0.542 1e-86
Q39071443 Cyclin-A2-1 OS=Arabidopsi no no 0.950 0.776 0.453 8e-86
Q9C968461 Cyclin-A2-4 OS=Arabidopsi no no 0.806 0.633 0.519 2e-85
>sp|Q9C6Y3|CCA11_ARATH Cyclin-A1-1 OS=Arabidopsis thaliana GN=CYCA1-1 PE=1 SV=1 Back     alignment and function desciption
 Score =  550 bits (1418), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 257/359 (71%), Positives = 304/359 (84%), Gaps = 2/359 (0%)

Query: 4   SPSKSDANSVSMDESMSVCDSFKSPEVEYLDNNDVPPLDSIDRKSFRNLYISDHTERTEN 63
           SPSKSD  SVSMDE+ S  DS+KSP+VEY++N+DV  + SI+RK+  NL+I+ ++E  +N
Sbjct: 101 SPSKSDDGSVSMDETRSSSDSYKSPQVEYIENDDVSAVVSIERKALSNLFITPNSETIDN 160

Query: 64  VCSRDILADMDTDDR--VVNVDDNYMDPQLCATFACDIYKHLRASEVKKRPSTDFMEIIQ 121
            CSRD+L+DM   D+  +VN+D N  DPQLCATFACDIYKHLRASE KKRP  D+ME +Q
Sbjct: 161 YCSRDVLSDMKKMDKNQIVNIDSNNGDPQLCATFACDIYKHLRASEAKKRPDVDYMERVQ 220

Query: 122 KDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMI 181
           KD+N+SMR IL+DWL+EV+EEYRLVP+TLYLTVNYIDRYLSGN +SRQ+LQLLGVACMMI
Sbjct: 221 KDVNSSMRGILVDWLIEVSEEYRLVPETLYLTVNYIDRYLSGNVISRQKLQLLGVACMMI 280

Query: 182 AAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQ 241
           AAKYEEICAPQVEEFC+ITDNTY K+EVL+MES +LNYLKFEMTAPT KCFLRRFVRAA 
Sbjct: 281 AAKYEEICAPQVEEFCYITDNTYLKDEVLDMESDVLNYLKFEMTAPTTKCFLRRFVRAAH 340

Query: 242 GINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQH 301
           G++E P MQLEC+ANY+ ELSLL+Y+ML H+PSL+AASAIFLAKYIL P +RPWNSTLQH
Sbjct: 341 GVHEAPLMQLECMANYIAELSLLEYTMLSHSPSLVAASAIFLAKYILDPTRRPWNSTLQH 400

Query: 302 YTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFLN 360
           YT Y+  +L  CVKDL RL   +  STLPA+REKYS HKYK VAKK+CP  IP EFF N
Sbjct: 401 YTQYKAMELRGCVKDLQRLCSTAHGSTLPAVREKYSQHKYKFVAKKFCPSVIPQEFFNN 459

Arabidopsis thaliana (taxid: 3702)
>sp|Q7F830|CCA11_ORYSJ Cyclin-A1-1 OS=Oryza sativa subsp. japonica GN=CYCA1-1 PE=2 SV=1 Back     alignment and function description
>sp|Q0INT0|CCA13_ORYSJ Cyclin-A1-3 OS=Oryza sativa subsp. japonica GN=CYCA1-3 PE=2 SV=2 Back     alignment and function description
>sp|Q0JPA4|CCA12_ORYSJ Cyclin-A1-2 OS=Oryza sativa subsp. japonica GN=CYCA1-2 PE=3 SV=2 Back     alignment and function description
>sp|Q0DJR9|CCA14_ORYSJ Cyclin-A1-4 OS=Oryza sativa subsp. japonica GN=CYCA1-4 PE=2 SV=2 Back     alignment and function description
>sp|Q9FVX0|CCA12_ARATH Cyclin-A1-2 OS=Arabidopsis thaliana GN=CYCA1-2 PE=1 SV=2 Back     alignment and function description
>sp|Q2QQ96|CCA21_ORYSJ Cyclin-A2-1 OS=Oryza sativa subsp. japonica GN=CYCA2-1 PE=2 SV=1 Back     alignment and function description
>sp|Q147G5|CCA22_ARATH Cyclin-A2-2 OS=Arabidopsis thaliana GN=CYCA2-2 PE=2 SV=1 Back     alignment and function description
>sp|Q39071|CCA21_ARATH Cyclin-A2-1 OS=Arabidopsis thaliana GN=CYCA2-1 PE=2 SV=3 Back     alignment and function description
>sp|Q9C968|CCA24_ARATH Cyclin-A2-4 OS=Arabidopsis thaliana GN=CYCA2-4 PE=2 SV=1 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 ?
Query362
224082330 493 predicted protein [Populus trichocarpa] 0.991 0.728 0.832 1e-180
255558608 498 cyclin A, putative [Ricinus communis] gi 0.997 0.724 0.831 1e-180
351723701 484 mitotic cyclin a2-type [Glycine max] gi| 0.986 0.737 0.805 1e-172
356515929 480 PREDICTED: cyclin-A1-1-like [Glycine max 0.988 0.745 0.805 1e-170
225459631 495 PREDICTED: cyclin-A1-1-like [Vitis vinif 0.991 0.725 0.783 1e-169
302141779 550 unnamed protein product [Vitis vinifera] 0.991 0.652 0.783 1e-169
449463410 506 PREDICTED: cyclin-A1-1-like [Cucumis sat 0.997 0.713 0.769 1e-169
449499063 506 PREDICTED: cyclin-A1-1-like [Cucumis sat 0.997 0.713 0.769 1e-169
849070 483 A-type cyclin [Nicotiana tabacum] 0.991 0.743 0.761 1e-166
1064927 483 cyclin A-like protein [Nicotiana tabacum 0.991 0.743 0.761 1e-166
>gi|224082330|ref|XP_002306649.1| predicted protein [Populus trichocarpa] gi|222856098|gb|EEE93645.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  637 bits (1642), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 299/359 (83%), Positives = 330/359 (91%)

Query: 2   DVSPSKSDANSVSMDESMSVCDSFKSPEVEYLDNNDVPPLDSIDRKSFRNLYISDHTERT 61
           DVSPSKSD  S+S+DESMS CDSFKSPEVEY+DNN++  +DSI++K+  NLYISDH E  
Sbjct: 132 DVSPSKSDDLSISLDESMSTCDSFKSPEVEYIDNNEIIAIDSINKKTLSNLYISDHLETA 191

Query: 62  ENVCSRDILADMDTDDRVVNVDDNYMDPQLCATFACDIYKHLRASEVKKRPSTDFMEIIQ 121
           ENVC RD   DM+TDD++VNVDDNY DPQLCAT ACDIYKHLRASE+KKRPSTDFME IQ
Sbjct: 192 ENVCIRDTRTDMETDDKIVNVDDNYQDPQLCATIACDIYKHLRASEMKKRPSTDFMERIQ 251

Query: 122 KDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMI 181
           KDINASMRAIL+DWLVEVAEEYRLVPDTLYLTVNYIDRYLSGN M+RQRLQLLG+ACMM+
Sbjct: 252 KDINASMRAILVDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNVMNRQRLQLLGIACMMV 311

Query: 182 AAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQ 241
           AAKYEEICAPQVEEFC+ITDNTYF++EVLEMES++LNYLKFEMTAPTAKCFLRRFVRAAQ
Sbjct: 312 AAKYEEICAPQVEEFCYITDNTYFRDEVLEMESTVLNYLKFEMTAPTAKCFLRRFVRAAQ 371

Query: 242 GINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQH 301
           GINEVPSMQLECLANY+ ELSLL+Y+MLC+APSL+AASAIFLAKYILLP+KRPWNSTLQH
Sbjct: 372 GINEVPSMQLECLANYIAELSLLEYTMLCYAPSLVAASAIFLAKYILLPSKRPWNSTLQH 431

Query: 302 YTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFLN 360
           YTLY+P DL  CVKDL+RL C S +STLPAIREKYS HKYK VAKKYCPPSIP EFF N
Sbjct: 432 YTLYEPVDLCHCVKDLYRLCCGSHNSTLPAIREKYSQHKYKFVAKKYCPPSIPEEFFQN 490

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255558608|ref|XP_002520329.1| cyclin A, putative [Ricinus communis] gi|223540548|gb|EEF42115.1| cyclin A, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|351723701|ref|NP_001237800.1| mitotic cyclin a2-type [Glycine max] gi|857397|dbj|BAA09466.1| mitotic cyclin a2-type [Glycine max] Back     alignment and taxonomy information
>gi|356515929|ref|XP_003526649.1| PREDICTED: cyclin-A1-1-like [Glycine max] Back     alignment and taxonomy information
>gi|225459631|ref|XP_002284567.1| PREDICTED: cyclin-A1-1-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|302141779|emb|CBI18982.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|449463410|ref|XP_004149427.1| PREDICTED: cyclin-A1-1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449499063|ref|XP_004160710.1| PREDICTED: cyclin-A1-1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|849070|dbj|BAA09366.1| A-type cyclin [Nicotiana tabacum] Back     alignment and taxonomy information
>gi|1064927|emb|CAA63542.1| cyclin A-like protein [Nicotiana tabacum] 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 ?
Query362
TAIR|locus:2205871460 CYCA1;1 "Cyclin A1;1" [Arabido 0.986 0.776 0.693 4.7e-135
TAIR|locus:2031407442 CYCA1;2 "CYCLIN A1;2" [Arabido 0.745 0.610 0.698 2.2e-105
TAIR|locus:2148052436 CYC3B "mitotic-like cyclin 3B 0.743 0.616 0.546 3.1e-76
TAIR|locus:2034250461 CYCA2;4 "Cyclin A2;4" [Arabido 0.748 0.587 0.547 1.3e-75
TAIR|locus:2167761355 CYCA3;1 "Cyclin A3;1" [Arabido 0.745 0.760 0.522 4.5e-75
TAIR|locus:2196563450 CYCA2;3 "CYCLIN A2;3" [Arabido 0.709 0.571 0.564 2.5e-74
TAIR|locus:2036756370 CYCA3;4 "CYCLIN A3;4" [Arabido 0.745 0.729 0.523 4e-74
TAIR|locus:2030648372 CYCA3;2 "cyclin-dependent prot 0.745 0.725 0.507 2.2e-73
TAIR|locus:2036761327 CYCA3;3 "Cyclin A3;3" [Arabido 0.745 0.825 0.5 1.3e-66
UNIPROTKB|P78396465 CCNA1 "Cyclin-A1" [Homo sapien 0.690 0.537 0.45 3.5e-52
TAIR|locus:2205871 CYCA1;1 "Cyclin A1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1323 (470.8 bits), Expect = 4.7e-135, P = 4.7e-135
 Identities = 249/359 (69%), Positives = 293/359 (81%)

Query:     4 SPSKSDANSVSMDESMSVCDSFKSPEVEYLDNNDVPPLDSIDRKSFRNLYISDHTERTEN 63
             SPSKSD  SVSMDE+ S  DS+KSP+VEY++N+DV  + SI+RK+  NL+I+ ++E  +N
Sbjct:   101 SPSKSDDGSVSMDETRSSSDSYKSPQVEYIENDDVSAVVSIERKALSNLFITPNSETIDN 160

Query:    64 VCSRDILAXXXXXXXXXXXXXXXXX--PQLCATFACDIYKHLRASEVKKRPSTDFMEIIQ 121
              CSRD+L+                   PQLCATFACDIYKHLRASE KKRP  D+ME +Q
Sbjct:   161 YCSRDVLSDMKKMDKNQIVNIDSNNGDPQLCATFACDIYKHLRASEAKKRPDVDYMERVQ 220

Query:   122 KDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRLQLLGVACMMI 181
             KD+N+SMR IL+DWL+EV+EEYRLVP+TLYLTVNYIDRYLSGN +SRQ+LQLLGVACMMI
Sbjct:   221 KDVNSSMRGILVDWLIEVSEEYRLVPETLYLTVNYIDRYLSGNVISRQKLQLLGVACMMI 280

Query:   182 AAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQ 241
             AAKYEEICAPQVEEFC+ITDNTY K+EVL+MES +LNYLKFEMTAPT KCFLRRFVRAA 
Sbjct:   281 AAKYEEICAPQVEEFCYITDNTYLKDEVLDMESDVLNYLKFEMTAPTTKCFLRRFVRAAH 340

Query:   242 GINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQH 301
             G++E P MQLEC+ANY+ ELSLL+Y+ML H+PSL+AASAIFLAKYIL P +RPWNSTLQH
Sbjct:   341 GVHEAPLMQLECMANYIAELSLLEYTMLSHSPSLVAASAIFLAKYILDPTRRPWNSTLQH 400

Query:   302 YTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFLN 360
             YT Y+  +L  CVKDL RL   +  STLPA+REKYS HKYK VAKK+CP  IP EFF N
Sbjct:   401 YTQYKAMELRGCVKDLQRLCSTAHGSTLPAVREKYSQHKYKFVAKKFCPSVIPQEFFNN 459
GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IEA;IDA
GO:0010389 "regulation of G2/M transition of mitotic cell cycle" evidence=IEA;RCA
GO:0016538 "cyclin-dependent protein serine/threonine kinase regulator activity" evidence=ISS
GO:0019901 "protein kinase binding" evidence=IEA
GO:0051726 "regulation of cell cycle" evidence=IEA;ISS;RCA
GO:0005737 "cytoplasm" evidence=IDA
GO:0005515 "protein binding" evidence=IPI
GO:0000911 "cytokinesis by cell plate formation" evidence=RCA
GO:0006260 "DNA replication" evidence=RCA
GO:0006270 "DNA replication initiation" evidence=RCA
GO:0006275 "regulation of DNA replication" evidence=RCA
GO:0006306 "DNA methylation" evidence=RCA
GO:0008283 "cell proliferation" evidence=RCA
GO:0009909 "regulation of flower development" evidence=RCA
GO:0010103 "stomatal complex morphogenesis" evidence=RCA
GO:0010583 "response to cyclopentenone" evidence=RCA
GO:0016458 "gene silencing" evidence=RCA
GO:0016572 "histone phosphorylation" evidence=RCA
GO:0034968 "histone lysine methylation" evidence=RCA
GO:0042127 "regulation of cell proliferation" evidence=RCA
GO:0051567 "histone H3-K9 methylation" evidence=RCA
TAIR|locus:2031407 CYCA1;2 "CYCLIN A1;2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2148052 CYC3B "mitotic-like cyclin 3B from Arabidopsis" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2034250 CYCA2;4 "Cyclin A2;4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2167761 CYCA3;1 "Cyclin A3;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2196563 CYCA2;3 "CYCLIN A2;3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2036756 CYCA3;4 "CYCLIN A3;4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2030648 CYCA3;2 "cyclin-dependent protein kinase 3;2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2036761 CYCA3;3 "Cyclin A3;3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|P78396 CCNA1 "Cyclin-A1" [Homo sapiens (taxid:9606)] 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) ?
Q9C6Y3CCA11_ARATHNo assigned EC number0.71580.98610.7760yesno
Q7F830CCA11_ORYSJNo assigned EC number0.69460.97790.6968yesno

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

Your Input:
estExt_Genewise1_v1.C_LG_V0004
hypothetical protein (494 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query362
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 4e-60
COG5024440 COG5024, COG5024, Cyclin [Cell division and chromo 9e-43
pfam02984117 pfam02984, Cyclin_C, Cyclin, C-terminal domain 2e-40
cd0004388 cd00043, CYCLIN, Cyclin box fold 2e-20
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 3e-18
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 5e-15
cd0004388 cd00043, CYCLIN, Cyclin box fold 3e-14
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score =  189 bits (482), Expect = 4e-60
 Identities = 74/128 (57%), Positives = 98/128 (76%), Gaps = 1/128 (0%)

Query: 98  DIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYI 157
           DIY +LR  E + RP  D+++  Q DIN  MRAILIDWLVEV EE++L+P+TLYL VNY+
Sbjct: 1   DIYAYLRELEEEDRPPPDYLDQ-QPDINPKMRAILIDWLVEVHEEFKLLPETLYLAVNYL 59

Query: 158 DRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSIL 217
           DR+LS  P+ R +LQL+GV C++IAAKYEEI  P VE+F +ITDN Y KEE+L ME  IL
Sbjct: 60  DRFLSKQPVPRTKLQLVGVTCLLIAAKYEEIYPPSVEDFVYITDNAYTKEEILRMELLIL 119

Query: 218 NYLKFEMT 225
           + L ++++
Sbjct: 120 STLNWDLS 127

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|217307 pfam02984, Cyclin_C, Cyclin, C-terminal domain 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|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 362
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 100.0
KOG0653391 consensus Cyclin B and related kinase-activating p 100.0
COG5024440 Cyclin [Cell division and chromosome partitioning] 100.0
KOG0655408 consensus G1/S-specific cyclin E [Cell cycle contr 100.0
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 100.0
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.94
TIGR00569305 ccl1 cyclin ccl1. University). 99.9
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.87
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.85
KOG0835367 consensus Cyclin L [General function prediction on 99.8
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.79
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.73
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.55
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.54
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.46
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.46
KOG1597308 consensus Transcription initiation factor TFIIB [T 99.02
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 98.94
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 98.69
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.67
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.55
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 97.94
KOG1598 521 consensus Transcription initiation factor TFIIIB, 96.86
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 96.72
KOG1674218 consensus Cyclin [General function prediction only 96.11
PRK00423310 tfb transcription initiation factor IIB; Reviewed 95.12
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 93.98
KOG1675343 consensus Predicted cyclin [General function predi 93.57
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 90.48
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 87.53
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 86.95
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 83.18
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=4.5e-51  Score=391.02  Aligned_cols=273  Identities=56%  Similarity=0.883  Sum_probs=263.5

Q ss_pred             CcccCCCCCCCcchhhhhHHHHHHHHHHHHhh-cCCCcchHhhhcccCCHHHHHHHHHHHHHHHHHcCCchHHHHHHHHH
Q 017988           78 RVVNVDDNYMDPQLCATFACDIYKHLRASEVK-KRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNY  156 (362)
Q Consensus        78 ~~~~id~~~~dp~~~~~y~~dI~~~l~~~E~~-~~p~~~y~~~~q~~i~~~~R~~lvdwl~ev~~~~~l~~eTl~lAv~l  156 (362)
                      ..+++|....||++|..|+.+|++|++..|.+ .+|.++||+.+|.++++.||.++|+|++++++.+++..+++|+++++
T Consensus        85 ~~~~~ds~~~dp~~c~~~~~~I~~~~r~~ei~~~rp~~~~~e~vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~  164 (359)
T KOG0654|consen   85 FVMRIDSVGEDPQMCLKIAAKIYNTLRVSDIKSERPLPSKFEFVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNY  164 (359)
T ss_pred             cccchhhcccchHHHHHHHHHHhhcccccchhhccCcccceeeeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHH
Confidence            34788999999999999999999999999999 99999999999999999999999999999999999999999999999


Q ss_pred             HHhhccCCcCcchhhHHHHHHHHHHHhhhccccccCHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCccCCCHHHHHHHH
Q 017988          157 IDRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRF  236 (362)
Q Consensus       157 lDRfLs~~~v~~~~lqLva~tcL~IAsK~eE~~~p~i~~l~~i~~~~~t~~ei~~mE~~IL~~L~f~l~~pT~~~FL~~~  236 (362)
                      .|||+....+.+.++|++|.+|++||+|+||+.+|.+++|+++++++|+..++..||..+|+.|.|.+..||...|+++|
T Consensus       165 ~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~  244 (359)
T KOG0654|consen  165 RDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRF  244 (359)
T ss_pred             HHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHccCCCCchhHHHHHHHHHHHHhhccccccCccHHHHHHHHHHHHHHhhcCCCCCCcHHHHhhhCCChhhHHHHHHH
Q 017988          237 VRAAQGINEVPSMQLECLANYVTELSLLDYSMLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKD  316 (362)
Q Consensus       237 l~~~~~~~~~~~~~~~~la~~l~elsL~d~~~l~y~PS~iAaAai~lA~~~l~~~~~~w~~~L~~~t~~~~~~l~~c~~~  316 (362)
                      +.+.+.    +..+++.++.|++|++++++.|+.|.||.|||||+++|+.+++  ..+|+..|+++|||+.++++.|+..
T Consensus       245 ~~~~~~----~~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~--~~pW~~~L~~~T~y~~edl~~~v~~  318 (359)
T KOG0654|consen  245 LRVAQT----PELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD--FHPWNQTLEDYTGYKAEDLKPCVLD  318 (359)
T ss_pred             HHhhcc----hhHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc--CCCCchhhHHhhcccHHHHHHHHHH
Confidence            998876    5567889999999999999999999999999999999999994  8899999999999999999999999


Q ss_pred             HHHHHhcCCCCChhHHHHhhcCCcccccccccCCCCCCccccc
Q 017988          317 LHRLYCNSQSSTLPAIREKYSLHKYKCVAKKYCPPSIPPEFFL  359 (362)
Q Consensus       317 L~~l~~~~~~~~~~~i~~KY~~~~~~~va~~~~p~~~~~~~~~  359 (362)
                      |+ ++.+..+..+++||+||+++||++||...+|  +|..||.
T Consensus       319 L~-~~l~~~~~~l~air~ky~~~k~~~Va~~~~p--~p~~~~~  358 (359)
T KOG0654|consen  319 LH-LYLNASGTDLPAIREKYKQSKFKEVALLPVP--LPHTFVE  358 (359)
T ss_pred             Hh-cccCCCCCchHHHHHHhhhhhhhhhhccCCC--Ccchhcc
Confidence            99 9999999999999999999999999999888  7888875

>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
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0656 consensus G1/S-specific cyclin D [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
>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
>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
>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
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/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
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold 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
>PRK00423 tfb transcription initiation factor IIB; Reviewed 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
>KOG1675 consensus Predicted cyclin [General function prediction only] 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
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [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
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] 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 ?
Query362
3qhr_B261 Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic 2e-50
4i3z_B257 Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNES 2e-50
4ii5_B258 Structure Of Pcdk2/cyclina Bound To Adp And 1 Magne 3e-50
4bco_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 5e-50
1vyw_B265 Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 8e-50
3ddq_B269 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 8e-50
3ddp_B268 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 8e-50
3bht_B262 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 8e-50
3dog_B264 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 8e-50
2x1n_B261 Truncation And Optimisation Of Peptide Inhibitors O 9e-50
2g9x_B262 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 1e-49
1vin_A268 Bovine Cyclin A3 Length = 268 1e-49
1fin_B260 Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 1e-49
1qmz_B259 Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Com 1e-49
1jst_B258 Phosphorylated Cyclin-Dependent Kinase-2 Bound To C 1e-49
1ogu_B260 Structure Of Human Thr160-phospho Cdk2/cyclin A Com 1e-49
3f5x_B256 Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Boun 1e-49
1e9h_B261 Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex 1e-49
4bcq_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 5e-49
4bcq_D262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 6e-49
2b9r_A269 Crystal Structure Of Human Cyclin B1 Length = 269 1e-43
2jgz_B260 Crystal Structure Of Phospho-Cdk2 In Complex With C 7e-43
3g33_B306 Crystal Structure Of Cdk4CYCLIN D3 Length = 306 2e-19
1w98_B283 The Structural Basis Of Cdk2 Activation By Cyclin E 6e-19
2w9z_A257 Crystal Structure Of Cdk4 In Complex With A D-Type 1e-18
2w96_A271 Crystal Structure Of Cdk4 In Complex With A D-Type 2e-18
1jow_A254 Crystal Structure Of A Complex Of Human Cdk6 And A 5e-10
1bu2_A229 X-Ray Structure Of A Viral Cyclin From Herpesvirus 7e-10
1g3n_C257 Structure Of A P18(Ink4c)-Cdk6-K-Cyclin Ternary Com 6e-07
>pdb|3QHR|B Chain B, Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic Length = 261 Back     alignment and structure 
Iteration: 1

 Score =  196 bits (497), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 111/249 (44%), Positives = 153/249 (61%), Gaps = 8/249 (3%)
Query: 98  DIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYI 157
           DI+ +LR  EVK +P   +M+  Q DI  SMRAIL+DWLVEV EEY+L  +TL+L VNYI
Sbjct: 10  DIHTYLREMEVKCKPKVGYMKR-QPDITNSMRAILVDWLVEVGEEYKLQNETLHLAVNYI 68
Query: 158 DRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSIL 217
           DR+LS   + R +LQL+G A M++A+K+EEI  P+V EF +ITD+TY K++VL ME  +L
Sbjct: 69  DRFLSSMSVLRGKLQLVGTAAMLLASKFEEIYPPEVAEFVYITDDTYSKKQVLRMEHLVL 128
Query: 218 NYLKFEMTAPTAKCFLRRFVRAAQGINEVPSMQLECLANYVTELSLLDYS-MLCHAPSLI 276
             L F++ APT   FL ++    Q  N     ++E LA ++ ELSL+D    L + PSLI
Sbjct: 129 KVLAFDLAAPTVNQFLTQYFLHLQPAN----CKVESLAMFLGELSLIDADPYLKYLPSLI 184
Query: 277 AASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLPAIREKY 336
           A +A  LA Y +    + W  +L   T Y    L  C+ DLH+ Y  +      +IREKY
Sbjct: 185 AGAAFHLALYTV--TGQSWPESLAQQTGYTLESLKPCLVDLHQTYLKAPQHAQQSIREKY 242
Query: 337 SLHKYKCVA 345
              KY  V+
Sbjct: 243 KHSKYHSVS 251
>pdb|4I3Z|B Chain B, Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNESIUM IONS Length = 257 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|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|1VYW|B Chain B, Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 265 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|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|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|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|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|1JST|B Chain B, Phosphorylated Cyclin-Dependent Kinase-2 Bound To Cyclin A Length = 258 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|3F5X|B Chain B, Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Bound At Its Active Site Length = 256 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|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
>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|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|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
>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|1JOW|A Chain A, Crystal Structure Of A Complex Of Human Cdk6 And A Viral Cyclin Length = 254 Back     alignment and structure
>pdb|1BU2|A Chain A, X-Ray Structure Of A Viral Cyclin From Herpesvirus Saimiri Length = 229 Back     alignment and structure
>pdb|1G3N|C Chain C, Structure Of A P18(Ink4c)-Cdk6-K-Cyclin Ternary Complex Length = 257 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 ?
Query362
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 1e-126
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 1e-121
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 1e-121
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 1e-118
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 1e-113
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 1e-108
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 1e-105
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 3e-93
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 1e-24
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 2e-13
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 2e-12
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 2e-11
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
2ivx_A257 Cyclin-T2; transcription regulation, cell division 4e-08
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 1e-07
>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
 Score =  362 bits (932), Expect = e-126
 Identities = 110/264 (41%), Positives = 157/264 (59%), Gaps = 8/264 (3%)

Query: 92  CATFACDIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLY 151
              +  DI+ +LR  EVK +P   +M+  Q DI  SMRAIL+DWLVEV EEY+L  +TL+
Sbjct: 3   VPDYHEDIHTYLREMEVKCKPKVGYMKK-QPDITNSMRAILVDWLVEVGEEYKLQNETLH 61

Query: 152 LTVNYIDRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLE 211
           L VNYIDR+LS   + R +LQL+G A M++A+K+EEI  P+V EF +ITD+TY K++VL 
Sbjct: 62  LAVNYIDRFLSSMSVLRGKLQLVGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLR 121

Query: 212 MESSILNYLKFEMTAPTAKCFLRRFVRAAQGINEVPSMQLECLANYVTELSLLDYS-MLC 270
           ME  +L  L F++ APT   FL ++    Q      + ++E LA ++ ELSL+D    L 
Sbjct: 122 MEHLVLKVLTFDLAAPTVNQFLTQYFLHQQP----ANCKVESLAMFLGELSLIDADPYLK 177

Query: 271 HAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLP 330
           + PS+IA +A  LA Y +    + W  +L   T Y    L  C+ DLH+ Y  +      
Sbjct: 178 YLPSVIAGAAFHLALYTV--TGQSWPESLIRKTGYTLESLKPCLMDLHQTYLKAPQHAQQ 235

Query: 331 AIREKYSLHKYKCVAKKYCPPSIP 354
           +IREKY   KY  V+    P ++ 
Sbjct: 236 SIREKYKNSKYHGVSLLNPPETLN 259
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Length = 269 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 Length = 271 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
>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
>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
>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
>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
>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
>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
>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
>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
>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 ?
Query362
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 100.0
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 100.0
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 100.0
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 100.0
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 100.0
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 100.0
2ivx_A257 Cyclin-T2; transcription regulation, cell division 100.0
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 100.0
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 100.0
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 100.0
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 100.0
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.95
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.9
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.73
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.32
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 98.49
1ais_B200 TFB TFIIB, protein (transcription initiation facto 96.74
1c9b_A207 General transcription factor IIB; protein-DNA comp 95.13
2ivx_A257 Cyclin-T2; transcription regulation, cell division 88.34
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 87.61
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 87.5
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 86.02
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 85.72
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 84.18
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 82.59
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 81.55
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 80.82
>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
Probab=100.00  E-value=2.2e-57  Score=425.86  Aligned_cols=256  Identities=43%  Similarity=0.682  Sum_probs=243.3

Q ss_pred             hhhhHHHHHHHHHHHHhhcCCCcchHhhhcccCCHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHhhccCCcCcchhh
Q 017988           92 CATFACDIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSGNPMSRQRL  171 (362)
Q Consensus        92 ~~~y~~dI~~~l~~~E~~~~p~~~y~~~~q~~i~~~~R~~lvdwl~ev~~~~~l~~eTl~lAv~llDRfLs~~~v~~~~l  171 (362)
                      |.+|++|||.+|+++|.++.|+++|+.. |++|++.||.++||||++++.+|+++++|+++||+|+|||+++.++++.++
T Consensus         3 ~~eY~~di~~~l~~~E~~~~p~~~y~~~-q~~i~~~~R~~lvdwl~~v~~~~~l~~~tl~lAv~~lDRfls~~~v~~~~l   81 (260)
T 2cch_B            3 VPDYHEDIHTYLREMEVKCKPKVGYMKK-QPDITNSMRAILVDWLVEVGEEYKLQNETLHLAVNYIDRFLSSMSVLRGKL   81 (260)
T ss_dssp             CCTTHHHHHHHHHHHHHHTCCCTTGGGG-CSSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCCCCHHHH
T ss_pred             hHhHHHHHHHHHHHHHhhcCCCchhhhc-CCCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccCCCCHHHH
Confidence            6799999999999999999999999996 999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhccccccCHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCccCCCHHHHHHHHHHHHccCCCCchhHH
Q 017988          172 QLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMTAPTAKCFLRRFVRAAQGINEVPSMQL  251 (362)
Q Consensus       172 qLva~tcL~IAsK~eE~~~p~i~~l~~i~~~~~t~~ei~~mE~~IL~~L~f~l~~pT~~~FL~~~l~~~~~~~~~~~~~~  251 (362)
                      |++|+||||||||+||..+|++.++++++++.|++++|.+||+.||++|+|++++|||++|+.+|+..++...    .++
T Consensus        82 qlv~~acl~iA~K~ee~~~~~~~d~~~i~~~~~~~~~i~~mE~~iL~~L~~~l~~~tp~~fl~~~~~~l~~~~----~~~  157 (260)
T 2cch_B           82 QLVGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLTFDLAAPTVNQFLTQYFLHQQPAN----CKV  157 (260)
T ss_dssp             HHHHHHHHHHHHHHHCSSCCCHHHHHHHTTSSSCHHHHHHHHHHHHHHTTTCCCCCCHHHHHHHHHTTCSSCC----HHH
T ss_pred             hHHHHHHHHHHHHhcccCCCCHHHHHHHHcCCcCHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHHcCCCh----HHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999998765432    256


Q ss_pred             HHHHHHHHHHhhcccc-ccCccHHHHHHHHHHHHHHhhcCCCCCCcHHHHhhhCCChhhHHHHHHHHHHHHhcCCCCChh
Q 017988          252 ECLANYVTELSLLDYS-MLCHAPSLIAASAIFLAKYILLPAKRPWNSTLQHYTLYQPSDLMECVKDLHRLYCNSQSSTLP  330 (362)
Q Consensus       252 ~~la~~l~elsL~d~~-~l~y~PS~iAaAai~lA~~~l~~~~~~w~~~L~~~t~~~~~~l~~c~~~L~~l~~~~~~~~~~  330 (362)
                      ..+|++++++++.++. +++|+||.||+|||++|+..++  .+.|...+.+++|++.+++.+|++.|.+++.+....+++
T Consensus       158 ~~~a~~l~e~sl~~~~~~~~~~Ps~iAaAai~lA~~~~~--~~~w~~~l~~~~g~~~~~i~~~~~~l~~~~~~~~~~~~~  235 (260)
T 2cch_B          158 ESLAMFLGELSLIDADPYLKYLPSVIAGAAFHLALYTVT--GQSWPESLIRKTGYTLESLKPCLMDLHQTYLKAPQHAQQ  235 (260)
T ss_dssp             HHHHHHHHHHHHHCHHHHTTSCHHHHHHHHHHHHHHHHH--SCCSCHHHHHHHCCCHHHHHHHHHHHHHHHHHGGGSSCC
T ss_pred             HHHHHHHHHHHHHhHHHHhCCCHHHHHHHHHHHHHHHhC--CCcchHHHHHHhCcCHHHHHHHHHHHHHHHHhcCCcchH
Confidence            7899999999999999 9999999999999999999984  478999999999999999999999999999888888899


Q ss_pred             HHHHhhcCCcccccccccCCCCCC
Q 017988          331 AIREKYSLHKYKCVAKKYCPPSIP  354 (362)
Q Consensus       331 ~i~~KY~~~~~~~va~~~~p~~~~  354 (362)
                      +|++||++++|++||.+.+|+.+|
T Consensus       236 ~i~~Ky~~~~~~~vs~~~~~~~~~  259 (260)
T 2cch_B          236 SIREKYKNSKYHGVSLLNPPETLN  259 (260)
T ss_dssp             HHHHHHTSGGGTTGGGSCCCSCCC
T ss_pred             HHHHHHCcccccceeCCCCcccCC
Confidence            999999999999999999988776
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_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
>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
>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
>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
>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
>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
>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
>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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} 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
>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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} 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
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} 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 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
>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
>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

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 362
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 3e-45
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 5e-45
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 5e-45
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 1e-43
d2cchb2124 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [T 1e-40
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 5e-40
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 4e-30
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 2e-24
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 2e-21
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 128 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Cyclin A
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  149 bits (378), Expect = 3e-45
 Identities = 69/129 (53%), Positives = 94/129 (72%), Gaps = 1/129 (0%)

Query: 98  DIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYI 157
           DI+ +LR  EVK +P   +M+  Q DI  SMRAIL+DWLVEV EEY+L  +TL+L VNYI
Sbjct: 1   DIHTYLREMEVKCKPKVGYMKK-QPDITNSMRAILVDWLVEVGEEYKLQNETLHLAVNYI 59

Query: 158 DRYLSGNPMSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSIL 217
           DR+LS   + R +LQL+G A M++A+K+EEI  P+V EF +ITD+TY K++VL ME  +L
Sbjct: 60  DRFLSSMSVLRGKLQLVGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVL 119

Query: 218 NYLKFEMTA 226
             L F++ A
Sbjct: 120 KVLTFDLAA 128
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Length = 127 Back     information, alignment and structure
>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
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Length = 132 Back     information, alignment and structure
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 124 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
>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 ?
Query362
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 100.0
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 100.0
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 100.0
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 100.0
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.97
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.92
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.84
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.8
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.79
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.25
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.24
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 98.21
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.97
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.89
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 97.67
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.64
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.57
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 97.46
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 96.95
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 96.58
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 96.4
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 95.97
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 94.11
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: G1/S-specific cyclin-E1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.3e-36  Score=253.96  Aligned_cols=138  Identities=34%  Similarity=0.612  Sum_probs=132.7

Q ss_pred             CCcchhhhhHHHHHHHHHHHHhhcCCCcchHhhhcccCCHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHhhccC-Cc
Q 017988           87 MDPQLCATFACDIYKHLRASEVKKRPSTDFMEIIQKDINASMRAILIDWLVEVAEEYRLVPDTLYLTVNYIDRYLSG-NP  165 (362)
Q Consensus        87 ~dp~~~~~y~~dI~~~l~~~E~~~~p~~~y~~~~q~~i~~~~R~~lvdwl~ev~~~~~l~~eTl~lAv~llDRfLs~-~~  165 (362)
                      .+|+++..|++|||.+|+++|.++.++++|+.+ |++++++||.++|+||++++..++++++|+|+||+||||||+. ..
T Consensus         2 ~~p~~~~~~~~dI~~~l~~~E~~~~~~~~~l~~-q~~i~~~~R~~lidW~~~v~~~~~l~~et~~lAv~llDryl~~~~~   80 (140)
T d1w98b2           2 PLPVLSWANREEVWKIMLNKEKTYLRDQHFLEQ-HPLLQPKMRAILLDWLMEVCEVYKLHRETFYLAQDFFDRYMATQEN   80 (140)
T ss_dssp             CSCCCSSSCHHHHHHHHHHHTTTSCCCTTGGGG-CTTCCHHHHHHHHHHHHHHHHHTTCBHHHHHHHHHHHHHHHHHCCC
T ss_pred             CCccccccCHHHHHHHHHHHHHhhCCChHHHhC-CCCCCHHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHhcccc
Confidence            378999999999999999999999999999986 9999999999999999999999999999999999999999985 56


Q ss_pred             CcchhhHHHHHHHHHHHhhhccccccCHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCcc
Q 017988          166 MSRQRLQLLGVACMMIAAKYEEICAPQVEEFCFITDNTYFKEEVLEMESSILNYLKFEMT  225 (362)
Q Consensus       166 v~~~~lqLva~tcL~IAsK~eE~~~p~i~~l~~i~~~~~t~~ei~~mE~~IL~~L~f~l~  225 (362)
                      ++++++||+|+||||||+|+||..+|.+.++++++++.|++++|.+||+.||++|+|+++
T Consensus        81 v~~~~lqL~a~acL~IAsK~ee~~~~~~~~l~~~~~~~~t~~ei~~mE~~IL~~L~~~Ln  140 (140)
T d1w98b2          81 VVKTLLQLIGISSLFIAAKLEEIYPPKLHQFAYVTDGACSGDEILTMELMIMKALKWRLS  140 (140)
T ss_dssp             CCGGGHHHHHHHHHHHHHHHHCSSCCCHHHHHHTTTTSSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             ccHHHHhHHHHHHHHHHHHHcccCCCCHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCcCC
Confidence            899999999999999999999999999999999999999999999999999999999985
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Back     information, alignment and structure
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 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
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 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
>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
>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
>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
>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
>d1vola2 a.74.1.2 (A:208-316) 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
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {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
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure