Citrus Sinensis ID: 043577

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-------370-------380-------390-------400--
VPCSAKIAKKKESSAHSHDKGLSGNTLPASLSVKIGVIAKDAFSTRSDHPIIRAIPAPSSNISSLPASSSAIMVPRCKNISPSTSVSGSVSLDETMSTCDSLKSPEFVYIDKEDSSAVKSIERRTCSSLNISDCAQGKGKTCKRDILVEMEMVDDFVDIDDNIKDPQFCATIACDIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNTRFIRAAQRSNKAPSMQFECLANYILELSLLDYKMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDGGLSNLSAIREKYSQHK
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccHHccHHHHHHHHHHHHHHHHHcccccHHHHHcccccccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHccccccccccccccccccccccccccEEEcccHHHHHHHHHHcccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHccccccccHHHHHHccccHHHHHHHHHHHHHHHHHcccccHHHHHHHHcccc
ccccHHHHHHcccccccccccccccccccHccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccEccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccEEEcccccccHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHcccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHcccccccHHHHHHccccccHHHHHHHccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccccccHHHHHHccccHHHHHHHHHHHHHHHHcccccccHHHHHHccccc
vpcsakiakkkessahshdkglsgntlpaslsVKIGVIakdafstrsdhpiiraipapssnisslpasssaimvprcknispstsvsgsvsldetmstcdslkspefvyidkedssaVKSIERrtcsslnisdcaqgkgktckrDILVEMEMVddfvdiddnikdpqfcATIACDIYKNlrasedfqakkrpsldfMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQLQLLGVACMMISATmdnkwksdYVVSKyeeicppqveelcyitDNTRFIRAAqrsnkapsmqFECLANYILELSLLDYKMLCYSPSLIAASATFLANFIlyplkkpwnstlghytfyqpsdlCDCVKALHRLFCDGGLSNLSAIREKYSQHK
vpcsakiakkkessahshdkglsgntlpaslSVKIGVIAKDAFSTRSDHPiiraipapssnisslpaSSSAIMVPRCKnispstsvsgsvsldetmSTCDSLKSPEFVYIDKEDSSAVKsierrtcsslnisdcaqgkgktCKRDILVEMEMVDDFVDIDDNIKDPQFCATIACDIYKNLRAsedfqakkrpsldfmDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNTRFIRAAQrsnkapsmqFECLANYILELSLLDYKMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDGGLSNLSAIREKYSQHK
VPCsakiakkkessahsHDKGLSGNTLPASLSVKIGVIAKDAFSTRSDHpiiraipapssnisslpasssaiMVPRCKNIspstsvsgsvsLDETMSTCDSLKSPEFVYIDKEDSSAVKSIERRTCSSLNISDCAQGKGKTCKRDILVEMEMvddfvdiddnikdPQFCATIACDIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNTRFIRAAQRSNKAPSMQFECLANYILELSLLDYKMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDGGLSNLSAIREKYSQHK
******************************LSVKIGVIAKDAF***************************************************************FVYI**************TCSSLNISDCAQGKGKTCKRDILVEMEMVDDFVDIDDNIKDPQFCATIACDIYKNLRASE*********LDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNTRFIRAAQRSNKAPSMQFECLANYILELSLLDYKMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDGGLSNLS**********
********************************************************************************************************************************************************VDDFVDIDDNIKDPQFCATIACDIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNTRFIRAAQRSNKAPSMQFECLANYILELSLLDYKMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDGGLSNLSAIREKYS***
**********************SGNTLPASLSVKIGVIAKDAFSTRSDHPIIRAIPAPSSNISSLPASSSAIMVPRCKNI******************CDSLKSPEFVYIDKEDSSAVKSIERRTCSSLNISDCAQGKGKTCKRDILVEMEMVDDFVDIDDNIKDPQFCATIACDIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNTRFIRAAQRSNKAPSMQFECLANYILELSLLDYKMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDGGLSNLSAIREKYSQHK
*******************************************************************************************************************************************KTCKRDILVEMEMVDDFVDIDDNIKDPQFCATIACDIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNTRFIRAAQRSNKAPSMQFECLANYILELSLLDYKMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDGGLSNLSAIREKYS***
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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VPCSAKIAKKKESSAHSHDKGLSGNTLPASLSVKIGVIAKDAFSTRSDHPIIRAIPAPSSNISSLPASSSAIMVPRCKNISPSTSVSGSVSLDETMSTCDSLKSPEFVYIDKEDSSAVKSIERRTCSSLNISDCAQGKGKTCKRDILVEMEMVDDFVDIDDNIKDPQFCATIACDIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNTRFIRAAQRSNKAPSMQFECLANYILELSLLDYKMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDGGLSNLSAIREKYSQHK
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 ?
Query402 2.2.26 [Sep-21-2011]
Q9C6Y3460 Cyclin-A1-1 OS=Arabidopsi yes no 0.781 0.682 0.559 1e-105
Q7F830508 Cyclin-A1-1 OS=Oryza sati yes no 0.791 0.625 0.554 1e-105
Q0INT0491 Cyclin-A1-3 OS=Oryza sati no no 0.791 0.647 0.548 1e-104
Q0JPA4477 Cyclin-A1-2 OS=Oryza sati no no 0.813 0.685 0.539 1e-103
Q0DJR9356 Cyclin-A1-4 OS=Oryza sati no no 0.736 0.831 0.520 2e-89
Q9FVX0442 Cyclin-A1-2 OS=Arabidopsi no no 0.577 0.524 0.526 2e-76
Q2QQ96490 Cyclin-A2-1 OS=Oryza sati no no 0.574 0.471 0.471 5e-63
Q39071443 Cyclin-A2-1 OS=Arabidopsi no no 0.574 0.521 0.460 2e-62
Q38819450 Cyclin-A2-3 OS=Arabidopsi no no 0.582 0.52 0.459 4e-61
Q147G5436 Cyclin-A2-2 OS=Arabidopsi no no 0.587 0.541 0.454 6e-61
>sp|Q9C6Y3|CCA11_ARATH Cyclin-A1-1 OS=Arabidopsis thaliana GN=CYCA1-1 PE=1 SV=1 Back     alignment and function desciption
 Score =  382 bits (982), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 203/363 (55%), Positives = 242/363 (66%), Gaps = 49/363 (13%)

Query: 73  MVPRCKNISPSTSVSGSVSLDETMSTCDSLKSPEFVYIDKEDSSAVKSIERRTCSSLNIS 132
           +VP     SPS S  GSVS+DET S+ DS KSP+  YI+ +D SAV SIER+  S+L I+
Sbjct: 93  IVPHKVASSPSKSDDGSVSMDETRSSSDSYKSPQVEYIENDDVSAVVSIERKALSNLFIT 152

Query: 133 DCAQGKGKTCKRDILVEMEMVD--DFVDIDDNIKDPQFCATIACDIYKNLRASEDFQAKK 190
             ++     C RD+L +M+ +D    V+ID N  DPQ CAT ACDIYK+LRASE   AKK
Sbjct: 153 PNSETIDNYCSRDVLSDMKKMDKNQIVNIDSNNGDPQLCATFACDIYKHLRASE---AKK 209

Query: 191 RPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQ 250
           RP +D+M+RVQKD+N  MR IL+DWL+EVSEEYRLVPETL+L VNYIDRYLSGNVI RQ+
Sbjct: 210 RPDVDYMERVQKDVNSSMRGILVDWLIEVSEEYRLVPETLYLTVNYIDRYLSGNVISRQK 269

Query: 251 LQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNT-------------- 296
           LQLLGVACMMI+A             KYEEIC PQVEE CYITDNT              
Sbjct: 270 LQLLGVACMMIAA-------------KYEEICAPQVEEFCYITDNTYLKDEVLDMESDVL 316

Query: 297 -----------------RFIRAAQRSNKAPSMQFECLANYILELSLLDYKMLCYSPSLIA 339
                            RF+RAA   ++AP MQ EC+ANYI ELSLL+Y ML +SPSL+A
Sbjct: 317 NYLKFEMTAPTTKCFLRRFVRAAHGVHEAPLMQLECMANYIAELSLLEYTMLSHSPSLVA 376

Query: 340 ASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDGGLSNLSAIREKYS 399
           ASA FLA +IL P ++PWNSTL HYT Y+  +L  CVK L RL      S L A+REKYS
Sbjct: 377 ASAIFLAKYILDPTRRPWNSTLQHYTQYKAMELRGCVKDLQRLCSTAHGSTLPAVREKYS 436

Query: 400 QHK 402
           QHK
Sbjct: 437 QHK 439

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|Q39071|CCA21_ARATH Cyclin-A2-1 OS=Arabidopsis thaliana GN=CYCA2-1 PE=2 SV=3 Back     alignment and function description
>sp|Q38819|CCA23_ARATH Cyclin-A2-3 OS=Arabidopsis thaliana GN=CYCA2-3 PE=1 SV=2 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

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 ?
Query402
225459631495 PREDICTED: cyclin-A1-1-like [Vitis vinif 0.920 0.747 0.571 1e-126
302141779 550 unnamed protein product [Vitis vinifera] 0.920 0.672 0.571 1e-126
356515929480 PREDICTED: cyclin-A1-1-like [Glycine max 0.917 0.768 0.549 1e-120
255558608498 cyclin A, putative [Ricinus communis] gi 0.907 0.732 0.548 1e-119
70568819496 cyclin A [Scutellaria baicalensis] 0.917 0.743 0.537 1e-118
351723701484 mitotic cyclin a2-type [Glycine max] gi| 0.927 0.770 0.540 1e-117
224082330493 predicted protein [Populus trichocarpa] 0.902 0.736 0.536 1e-116
225459629476 PREDICTED: cyclin-A1-1-like [Vitis vinif 0.930 0.785 0.551 1e-116
449463410 506 PREDICTED: cyclin-A1-1-like [Cucumis sat 0.912 0.725 0.526 1e-114
350539787490 cyclin A1 [Solanum lycopersicum] gi|5420 0.912 0.748 0.529 1e-114
>gi|225459631|ref|XP_002284567.1| PREDICTED: cyclin-A1-1-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  458 bits (1178), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 249/436 (57%), Positives = 293/436 (67%), Gaps = 66/436 (15%)

Query: 1   VPCSAKIAK-KKESSAHSHDKGLSGNTLPASLSVKIGVI--AKDAFSTRSDHPIIRAIPA 57
           VPC+ KI+K K+ SS  S   G++GNT  ASL+VK   +   KD    +SD         
Sbjct: 69  VPCAEKISKAKRGSSKISRSVGITGNTSSASLNVKPTAVIPCKDTSLPKSD--------G 120

Query: 58  PSSNISSLPASSSAIMVPRCKNISPSTSVSGSVSLDETMSTCDSLKSPEFVYIDKEDSSA 117
            +S +++LP        P   ++SP+ S   S S+DETMSTCDS KSPE  Y+D +D  A
Sbjct: 121 TASTVTALPD-------PCSLDVSPNRSDGISASMDETMSTCDSFKSPEVEYMDVDDL-A 172

Query: 118 VKSIERRTCSSLNISDCAQGKGKTCKRDILVEMEMVDDFVDIDDNIKDPQFCATIACDIY 177
           V SIER+TCS L IS+  + +G  C  DI VE E      DIDDN  DPQFCAT+ACDIY
Sbjct: 173 VNSIERKTCSKLYISEHVEAEGNICSEDIHVETETNGKIADIDDNFGDPQFCATMACDIY 232

Query: 178 KNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYI 237
           K+LRASE   A+KRPS DFM+R+QKD+N  MR+ILIDWLVEV+EEYRLVP+TL+L VN+I
Sbjct: 233 KHLRASE---ARKRPSTDFMERIQKDVNASMRSILIDWLVEVAEEYRLVPDTLYLTVNFI 289

Query: 238 DRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNT- 296
           DRYLSGNV+ RQQLQLLGVACMMI+A             KYEEIC PQVEE CYITDNT 
Sbjct: 290 DRYLSGNVMNRQQLQLLGVACMMIAA-------------KYEEICAPQVEEFCYITDNTY 336

Query: 297 ------------------------------RFIRAAQRSNKAPSMQFECLANYILELSLL 326
                                         RF+RAAQ  N+ PS+Q ECLANYI ELSLL
Sbjct: 337 FKEEVLQMESSVLNYLKFEMTAPTAKCFLRRFVRAAQGMNEVPSLQLECLANYIAELSLL 396

Query: 327 DYKMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDG 386
           +Y MLCY+PSLIAASA FLAN+IL P K+PWNSTL HYT YQPSDLCDCVKALHRL C+ 
Sbjct: 397 EYSMLCYAPSLIAASAIFLANYILLPSKRPWNSTLRHYTLYQPSDLCDCVKALHRLCCNN 456

Query: 387 GLSNLSAIREKYSQHK 402
             S+L AIREKYSQHK
Sbjct: 457 HNSSLPAIREKYSQHK 472

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|302141779|emb|CBI18982.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356515929|ref|XP_003526649.1| PREDICTED: cyclin-A1-1-like [Glycine max] Back     alignment and taxonomy information
>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|70568819|dbj|BAE06271.1| cyclin A [Scutellaria baicalensis] 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|224082330|ref|XP_002306649.1| predicted protein [Populus trichocarpa] gi|222856098|gb|EEE93645.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225459629|ref|XP_002284561.1| PREDICTED: cyclin-A1-1-like [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|350539787|ref|NP_001233762.1| cyclin A1 [Solanum lycopersicum] gi|5420274|emb|CAB46641.1| cyclin A1 [Solanum lycopersicum] 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 ?
Query402
TAIR|locus:2205871460 CYCA1;1 "Cyclin A1;1" [Arabido 0.470 0.410 0.589 3.5e-88
TAIR|locus:2031407442 CYCA1;2 "CYCLIN A1;2" [Arabido 0.293 0.266 0.622 8.7e-69
TAIR|locus:2034250461 CYCA2;4 "Cyclin A2;4" [Arabido 0.286 0.249 0.526 1.3e-32
UNIPROTKB|P78396465 CCNA1 "Cyclin-A1" [Homo sapien 0.519 0.449 0.4 6e-32
UNIPROTKB|F1P4N0383 CCNA1 "Uncharacterized protein 0.519 0.545 0.403 2e-31
MGI|MGI:108042421 Ccna1 "cyclin A1" [Mus musculu 0.519 0.496 0.392 1.4e-30
RGD|1310639421 Ccna1 "cyclin A1" [Rattus norv 0.519 0.496 0.392 1.4e-30
ZFIN|ZDB-GENE-020418-1428 ccna2 "cyclin A2" [Danio rerio 0.524 0.492 0.389 2.3e-30
UNIPROTKB|F1RSR0427 CCNA1 "Uncharacterized protein 0.517 0.487 0.398 7.9e-30
TAIR|locus:2148052436 CYC3B "mitotic-like cyclin 3B 0.286 0.263 0.526 1e-29
TAIR|locus:2205871 CYCA1;1 "Cyclin A1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 575 (207.5 bits), Expect = 3.5e-88, Sum P(2) = 3.5e-88
 Identities = 122/207 (58%), Positives = 145/207 (70%)

Query:    92 LDETMSTCDSLKSPEFVYIDKEDSSAVKSIERRTCSSLNISDCAQGKGKTCKRDILVEME 151
             +DET S+ DS KSP+  YI+ +D SAV SIER+  S+L I+  ++     C RD+L +M+
Sbjct:   112 MDETRSSSDSYKSPQVEYIENDDVSAVVSIERKALSNLFITPNSETIDNYCSRDVLSDMK 171

Query:   152 MXXXXXXXXXXXXX--PQFCATIACDIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMR 209
                             PQ CAT ACDIYK+LRASE   AKKRP +D+M+RVQKD+N  MR
Sbjct:   172 KMDKNQIVNIDSNNGDPQLCATFACDIYKHLRASE---AKKRPDVDYMERVQKDVNSSMR 228

Query:   210 AILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKW 269
              IL+DWL+EVSEEYRLVPETL+L VNYIDRYLSGNVI RQ+LQLLGVACMMI+A      
Sbjct:   229 GILVDWLIEVSEEYRLVPETLYLTVNYIDRYLSGNVISRQKLQLLGVACMMIAA------ 282

Query:   270 KSDYVVSKYEEICPPQVEELCYITDNT 296
                    KYEEIC PQVEE CYITDNT
Sbjct:   283 -------KYEEICAPQVEEFCYITDNT 302
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:2034250 CYCA2;4 "Cyclin A2;4" [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
UNIPROTKB|F1P4N0 CCNA1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
MGI|MGI:108042 Ccna1 "cyclin A1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1310639 Ccna1 "cyclin A1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-020418-1 ccna2 "cyclin A2" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|F1RSR0 CCNA1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] 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

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 number0.55920.78100.6826yesno
Q7F830CCA11_ORYSJNo assigned EC number0.55430.79100.6259yesno

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:
GSVIVG00015433001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (476 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00022138001
SubName- Full=Putative uncharacterized protein (Chromosome chr6 scaffold_25, whole genome shotg [...] (88 aa)
   •• • 0.411

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 ?
Query402
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 3e-46
pfam02984117 pfam02984, Cyclin_C, Cyclin, C-terminal domain 6e-32
COG5024440 COG5024, COG5024, Cyclin [Cell division and chromo 8e-26
cd0004388 cd00043, CYCLIN, Cyclin box fold 2e-16
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 8e-15
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 2e-13
cd0004388 cd00043, CYCLIN, Cyclin box fold 2e-11
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score =  154 bits (392), Expect = 3e-46
 Identities = 65/122 (53%), Positives = 83/122 (68%), Gaps = 17/122 (13%)

Query: 175 DIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAV 234
           DIY  LR  E    + RP  D++D+ Q DINP MRAILIDWLVEV EE++L+PETL+LAV
Sbjct: 1   DIYAYLRELE---EEDRPPPDYLDQ-QPDINPKMRAILIDWLVEVHEEFKLLPETLYLAV 56

Query: 235 NYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITD 294
           NY+DR+LS   + R +LQL+GV C++I+             +KYEEI PP VE+  YITD
Sbjct: 57  NYLDRFLSKQPVPRTKLQLVGVTCLLIA-------------AKYEEIYPPSVEDFVYITD 103

Query: 295 NT 296
           N 
Sbjct: 104 NA 105

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|217307 pfam02984, Cyclin_C, Cyclin, C-terminal domain Back     alignment and domain information
>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|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 402
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 100.0
COG5024440 Cyclin [Cell division and chromosome partitioning] 100.0
KOG0653391 consensus Cyclin B and related kinase-activating p 100.0
KOG0655408 consensus G1/S-specific cyclin E [Cell cycle contr 99.97
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 99.93
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.77
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.69
TIGR00569305 ccl1 cyclin ccl1. University). 99.47
KOG0835 367 consensus Cyclin L [General function prediction on 99.43
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.38
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.16
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.15
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.9
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 98.84
PRK00423310 tfb transcription initiation factor IIB; Reviewed 98.67
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.55
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.09
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 97.88
KOG1597308 consensus Transcription initiation factor TFIIB [T 97.72
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 97.44
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 95.12
KOG1598 521 consensus Transcription initiation factor TFIIIB, 94.73
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 92.98
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 91.27
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 90.08
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=3.7e-41  Score=334.49  Aligned_cols=227  Identities=56%  Similarity=0.870  Sum_probs=213.5

Q ss_pred             cCccCCCCCchhhhhhHHHHHHHHHHhhhhhhc-CCCCcchhhhcCCCCChhhHHHHHHHHHHHHHhcCcchHHHHHHHH
Q 043577          157 VDIDDNIKDPQFCATIACDIYKNLRASEDFQAK-KRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVN  235 (402)
Q Consensus       157 ~~id~~~~dp~~~~eY~~eI~~~L~~~E~~~~~-~~p~~~yl~~~q~~it~~~R~~LVdWL~eV~~~~~L~~eTl~LAV~  235 (402)
                      .++|.+..||++|..|+.+|++|++..|   .+ .+|.++||+.+|.++++.||.++|||+++|++++++..+|||++++
T Consensus        87 ~~~ds~~~dp~~c~~~~~~I~~~~r~~e---i~~~rp~~~~~e~vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~  163 (359)
T KOG0654|consen   87 MRIDSVGEDPQMCLKIAAKIYNTLRVSD---IKSERPLPSKFEFVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVN  163 (359)
T ss_pred             cchhhcccchHHHHHHHHHHhhcccccc---hhhccCcccceeeeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHH
Confidence            6888899999999999999999999999   77 9999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhccccccccccchhhHHHHHhhcccccccccccccccccccCCccccchhhhccch-------------------
Q 043577          236 YIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNT-------------------  296 (402)
Q Consensus       236 ~lDRfLs~~~v~~~~LQLvgitCL~IAaK~ee~~~~~~~vsK~EEi~~p~l~df~~itd~~-------------------  296 (402)
                      ++||||....+.+.++|++|++|++||             +||||+.+|.+++||+++|+.                   
T Consensus       164 ~~drfl~~~~~~~~k~ql~g~s~m~I~-------------sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~  230 (359)
T KOG0654|consen  164 YRDRFLSYKEVNKQKLQLVGISAMLIA-------------SKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTF  230 (359)
T ss_pred             HHHHHhccCccHHHHHHHhCcccceee-------------ccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHH
Confidence            999999999999999999999999999             999999999999999999998                   


Q ss_pred             --------HHHHHHHhhCCCCcHHHHHHHHHHHHHhcccccccCCCHHHHHHHHHHHHHHHhCCCCCCChHHHHHhhCCC
Q 043577          297 --------RFIRAAQRSNKAPSMQFECLANYILELSLLDYKMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQ  368 (402)
Q Consensus       297 --------~FL~~~~~~~~~~~~~l~~la~yllElsL~d~~fl~~~PS~IAaAai~lA~~~l~~~~~~W~~~L~~~tgy~  368 (402)
                              .|++.+......+..+++.++.||.|++++|+.|++|.||+|||||+++|+.+++  ..+|+..|+++|||+
T Consensus       231 ~~~~pt~~~~l~~~~~~~~~~~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~--~~pW~~~L~~~T~y~  308 (359)
T KOG0654|consen  231 ELVRPTSKTFLRRFLRVAQTPELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD--FHPWNQTLEDYTGYK  308 (359)
T ss_pred             HHhCchHHHHHHHHHHhhcchhHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc--CCCCchhhHHhhccc
Confidence                    3454443333335667899999999999999999999999999999999999994  889999999999999


Q ss_pred             hhhHHHHHHHHHHHHhhCCCCChhHHHHhhcCCC
Q 043577          369 PSDLCDCVKALHRLFCDGGLSNLSAIREKYSQHK  402 (402)
Q Consensus       369 ~~~L~~C~~~L~~l~~~~~~~~~~aIr~KYs~~k  402 (402)
                      .++|..|+..|+ ++.+.++..+++||+||+++|
T Consensus       309 ~edl~~~v~~L~-~~l~~~~~~l~air~ky~~~k  341 (359)
T KOG0654|consen  309 AEDLKPCVLDLH-LYLNASGTDLPAIREKYKQSK  341 (359)
T ss_pred             HHHHHHHHHHHh-cccCCCCCchHHHHHHhhhhh
Confidence            999999999999 999999999999999999987

>COG5024 Cyclin [Cell division and 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
>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
>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
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] 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
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma 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
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold 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
>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
>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
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning] 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 ?
Query402
4ii5_B258 Structure Of Pcdk2/cyclina Bound To Adp And 1 Magne 5e-33
4i3z_B257 Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNES 5e-33
3qhr_B261 Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic 5e-33
4bco_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 6e-32
3ddq_B269 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 7e-32
3ddp_B268 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 7e-32
3bht_B262 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 7e-32
3dog_B264 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 8e-32
2g9x_B262 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 9e-32
1vin_A268 Bovine Cyclin A3 Length = 268 9e-32
1ogu_B260 Structure Of Human Thr160-phospho Cdk2/cyclin A Com 1e-31
2x1n_B261 Truncation And Optimisation Of Peptide Inhibitors O 1e-31
3f5x_B256 Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Boun 2e-31
1jst_B258 Phosphorylated Cyclin-Dependent Kinase-2 Bound To C 2e-31
1qmz_B259 Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Com 2e-31
1vyw_B265 Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 2e-31
1fin_B260 Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 2e-31
1e9h_B261 Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex 2e-31
4bcq_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 6e-31
4bcq_D262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 6e-31
2jgz_B260 Crystal Structure Of Phospho-Cdk2 In Complex With C 6e-30
2b9r_A269 Crystal Structure Of Human Cyclin B1 Length = 269 9e-30
2w96_A271 Crystal Structure Of Cdk4 In Complex With A D-Type 8e-15
2w9z_A257 Crystal Structure Of Cdk4 In Complex With A D-Type 9e-15
3g33_B306 Crystal Structure Of Cdk4CYCLIN D3 Length = 306 1e-13
1w98_B283 The Structural Basis Of Cdk2 Activation By Cyclin E 3e-13
1jow_A254 Crystal Structure Of A Complex Of Human Cdk6 And A 6e-04
1bu2_A229 X-Ray Structure Of A Viral Cyclin From Herpesvirus 6e-04
>pdb|4II5|B Chain B, Structure Of Pcdk2/cyclina Bound To Adp And 1 Magnesium Ion Length = 258 Back     alignment and structure 
Iteration: 1

 Score =  138 bits (348), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 97/256 (37%), Positives = 130/256 (50%), Gaps = 47/256 (18%)
Query: 175 DIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAV 234
           DI+  LR   + + K +P + +M R Q DI   MRAIL+DWLVEV EEY+L  ETL LAV
Sbjct: 7   DIHTYLR---EMEVKCKPKVGYMKR-QPDITNSMRAILVDWLVEVGEEYKLQNETLHLAV 62
Query: 235 NYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITD 294
           NYIDR+LS   ++R +LQL+G A M+++             SK+EEI PP+V E  YITD
Sbjct: 63  NYIDRFLSSMSVLRGKLQLVGTAAMLLA-------------SKFEEIYPPEVAEFVYITD 109
Query: 295 NT-----------------RFIRAAQRSNKAPSMQF----------ECLANYILELSLLD 327
           +T                  F  AA   N+  +  F          E LA ++ ELSL+D
Sbjct: 110 DTYSKKQVLRMEHLVLKVLAFDLAAPTVNQFLTQYFLHLQPANCKVESLAMFLGELSLID 169
Query: 328 Y-KMLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALHRLFCDG 386
               L Y PSLIA +A  LA + +    + W  +L   T Y    L  C+  LH+ +   
Sbjct: 170 ADPYLKYLPSLIAGAAFHLALYTV--TGQSWPESLAQQTGYTLESLKPCLVDLHQTYLKA 227
Query: 387 GLSNLSAIREKYSQHK 402
                 +IREKY   K
Sbjct: 228 PQHAQQSIREKYKHSK 243
>pdb|4I3Z|B Chain B, Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNESIUM IONS Length = 257 Back     alignment and structure
>pdb|3QHR|B Chain B, Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic Length = 261 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|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|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|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|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|1QMZ|B Chain B, Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Complex Length = 259 Back     alignment and structure
>pdb|1VYW|B Chain B, Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 265 Back     alignment and structure
>pdb|1FIN|B Chain B, Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 260 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|2JGZ|B Chain B, Crystal Structure Of Phospho-Cdk2 In Complex With Cyclin B Length = 260 Back     alignment and structure
>pdb|2B9R|A Chain A, Crystal Structure Of Human Cyclin B1 Length = 269 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|2W9Z|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 257 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|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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query402
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 4e-93
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 2e-92
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 2e-91
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 7e-90
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 3e-87
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 1e-81
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 1e-79
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 5e-70
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 9e-11
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-06
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 8e-05
>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 =  279 bits (716), Expect = 4e-93
 Identities = 93/262 (35%), Positives = 128/262 (48%), Gaps = 55/262 (20%)

Query: 173 ACDIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFL 232
             DI+  LR  E    K +P + +M + Q DI   MRAIL+DWLVEV EEY+L  ETL L
Sbjct: 7   HEDIHTYLREMEV---KCKPKVGYMKK-QPDITNSMRAILVDWLVEVGEEYKLQNETLHL 62

Query: 233 AVNYIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYI 292
           AVNYIDR+LS   ++R +LQL+G A M+++             SK+EEI PP+V E  YI
Sbjct: 63  AVNYIDRFLSSMSVLRGKLQLVGTAAMLLA-------------SKFEEIYPPEVAEFVYI 109

Query: 293 TDNT-------------------------------RFIRAAQRSNKAPSMQFECLANYIL 321
           TD+T                               ++    Q +N     + E LA ++ 
Sbjct: 110 TDDTYTKKQVLRMEHLVLKVLTFDLAAPTVNQFLTQYFLHQQPAN----CKVESLAMFLG 165

Query: 322 ELSLLDYK-MLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALH 380
           ELSL+D    L Y PS+IA +A  LA + +    + W  +L   T Y    L  C+  LH
Sbjct: 166 ELSLIDADPYLKYLPSVIAGAAFHLALYTVT--GQSWPESLIRKTGYTLESLKPCLMDLH 223

Query: 381 RLFCDGGLSNLSAIREKYSQHK 402
           + +         +IREKY   K
Sbjct: 224 QTYLKAPQHAQQSIREKYKNSK 245
>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
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Length = 269 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
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query402
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
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 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
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 99.94
2ivx_A257 Cyclin-T2; transcription regulation, cell division 99.94
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 99.93
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.92
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 99.91
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.9
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.77
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.59
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.12
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 98.19
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 93.46
1ais_B200 TFB TFIIB, protein (transcription initiation facto 92.73
1c9b_A207 General transcription factor IIB; protein-DNA comp 90.7
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 80.49
>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=3.5e-44  Score=344.81  Aligned_cols=215  Identities=43%  Similarity=0.671  Sum_probs=200.6

Q ss_pred             hhhhHHHHHHHHHHhhhhhhcCCCCcchhhhcCCCCChhhHHHHHHHHHHHHHhcCcchHHHHHHHHHHhhhhccccccc
Q 043577          169 CATIACDIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSGNVIIR  248 (402)
Q Consensus       169 ~~eY~~eI~~~L~~~E~~~~~~~p~~~yl~~~q~~it~~~R~~LVdWL~eV~~~~~L~~eTl~LAV~~lDRfLs~~~v~~  248 (402)
                      |.+|++|||.||+++|   .++.|+++||+. |++|++.||.++||||++|+..|+|.++|+|+||+|||||+++..+.+
T Consensus         3 ~~eY~~di~~~l~~~E---~~~~p~~~y~~~-q~~i~~~~R~~lvdwl~~v~~~~~l~~~tl~lAv~~lDRfls~~~v~~   78 (260)
T 2cch_B            3 VPDYHEDIHTYLREME---VKCKPKVGYMKK-QPDITNSMRAILVDWLVEVGEEYKLQNETLHLAVNYIDRFLSSMSVLR   78 (260)
T ss_dssp             CCTTHHHHHHHHHHHH---HHTCCCTTGGGG-CSSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCCCCH
T ss_pred             hHhHHHHHHHHHHHHH---hhcCCCchhhhc-CCCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccCCCCH
Confidence            6799999999999999   899999999997 999999999999999999999999999999999999999999999999


Q ss_pred             cccchhhHHHHHhhcccccccccccccccccccCCccccchhhhccch---------------------------HHHHH
Q 043577          249 QQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNT---------------------------RFIRA  301 (402)
Q Consensus       249 ~~LQLvgitCL~IAaK~ee~~~~~~~vsK~EEi~~p~l~df~~itd~~---------------------------~FL~~  301 (402)
                      .++||+|+||||||             +|+||+.+|.++||++++++.                           +|+..
T Consensus        79 ~~lqlv~~acl~iA-------------~K~ee~~~~~~~d~~~i~~~~~~~~~i~~mE~~iL~~L~~~l~~~tp~~fl~~  145 (260)
T 2cch_B           79 GKLQLVGTAAMLLA-------------SKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLTFDLAAPTVNQFLTQ  145 (260)
T ss_dssp             HHHHHHHHHHHHHH-------------HHHHCSSCCCHHHHHHHTTSSSCHHHHHHHHHHHHHHTTTCCCCCCHHHHHHH
T ss_pred             HHHhHHHHHHHHHH-------------HHhcccCCCCHHHHHHHHcCCcCHHHHHHHHHHHHHHcCCccCCCCHHHHHHH
Confidence            99999999999999             999999999999999999865                           67777


Q ss_pred             HHhhCCCCcHHHHHHHHHHHHHhccccc-ccCCCHHHHHHHHHHHHHHHhCCCCCCChHHHHHhhCCChhhHHHHHHHHH
Q 043577          302 AQRSNKAPSMQFECLANYILELSLLDYK-MLCYSPSLIAASATFLANFILYPLKKPWNSTLGHYTFYQPSDLCDCVKALH  380 (402)
Q Consensus       302 ~~~~~~~~~~~l~~la~yllElsL~d~~-fl~~~PS~IAaAai~lA~~~l~~~~~~W~~~L~~~tgy~~~~L~~C~~~L~  380 (402)
                      +.........++..+|+|++|+++.|+. |++|+||.||+|||++|+.+++  .+.|...|.+++||+.++|++|++.|.
T Consensus       146 ~~~~l~~~~~~~~~~a~~l~e~sl~~~~~~~~~~Ps~iAaAai~lA~~~~~--~~~w~~~l~~~~g~~~~~i~~~~~~l~  223 (260)
T 2cch_B          146 YFLHQQPANCKVESLAMFLGELSLIDADPYLKYLPSVIAGAAFHLALYTVT--GQSWPESLIRKTGYTLESLKPCLMDLH  223 (260)
T ss_dssp             HHTTCSSCCHHHHHHHHHHHHHHHHCHHHHTTSCHHHHHHHHHHHHHHHHH--SCCSCHHHHHHHCCCHHHHHHHHHHHH
T ss_pred             HHHHcCCChHHHHHHHHHHHHHHHHhHHHHhCCCHHHHHHHHHHHHHHHhC--CCcchHHHHHHhCcCHHHHHHHHHHHH
Confidence            7665544444788999999999999999 9999999999999999999994  478999999999999999999999999


Q ss_pred             HHHhhCCCCChhHHHHhhcCCC
Q 043577          381 RLFCDGGLSNLSAIREKYSQHK  402 (402)
Q Consensus       381 ~l~~~~~~~~~~aIr~KYs~~k  402 (402)
                      .++.+....++++|++||+++|
T Consensus       224 ~~~~~~~~~~~~~i~~Ky~~~~  245 (260)
T 2cch_B          224 QTYLKAPQHAQQSIREKYKNSK  245 (260)
T ss_dssp             HHHHHGGGSSCCHHHHHHTSGG
T ss_pred             HHHHhcCCcchHHHHHHHCccc
Confidence            9999888888999999999875
>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
>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
>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
>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
>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
>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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} 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 402
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 2e-36
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 2e-33
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 7e-33
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 1e-32
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 3e-31
d2cchb2124 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [T 4e-29
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 4e-19
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 1e-16
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 2e-12
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Length = 127 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Viral cyclin
species: Herpesvirus saimiri [TaxId: 10381]

 Score =  127 bits (320), Expect = 2e-36
 Identities = 29/121 (23%), Positives = 52/121 (42%), Gaps = 17/121 (14%)

Query: 176 IYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVN 235
           +  NL+  E       P    +  +Q ++    R IL+ W+  + E + L      L+V+
Sbjct: 2   VLNNLKLRE----LLLPKFTSLWEIQTEVTVDNRTILLTWMHLLCESFELDKSVFPLSVS 57

Query: 236 YIDRYLSGNVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDN 295
            +DRYL      ++ LQ +G AC++I              SK   + P  V +L Y++ +
Sbjct: 58  ILDRYLCKKQGTKKTLQKIGAACVLIG-------------SKIRTVKPMTVSKLTYLSCD 104

Query: 296 T 296
            
Sbjct: 105 C 105
>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
>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
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 124 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 ?
Query402
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.94
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.94
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.93
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.92
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.87
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.82
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.42
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.34
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.31
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 97.65
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 97.58
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 97.56
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 96.59
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 96.41
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 95.29
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 94.56
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 94.02
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 93.98
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 93.97
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 93.85
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 93.16
>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=99.94  E-value=1.2e-27  Score=207.94  Aligned_cols=116  Identities=34%  Similarity=0.671  Sum_probs=109.6

Q ss_pred             CCchhhhhhHHHHHHHHHHhhhhhhcCCCCcchhhhcCCCCChhhHHHHHHHHHHHHHhcCcchHHHHHHHHHHhhhhcc
Q 043577          164 KDPQFCATIACDIYKNLRASEDFQAKKRPSLDFMDRVQKDINPGMRAILIDWLVEVSEEYRLVPETLFLAVNYIDRYLSG  243 (402)
Q Consensus       164 ~dp~~~~eY~~eI~~~L~~~E~~~~~~~p~~~yl~~~q~~it~~~R~~LVdWL~eV~~~~~L~~eTl~LAV~~lDRfLs~  243 (402)
                      .+|+++..|++|||++|+++|   .++.+.++|+.+ |++++++||.++||||++|+..|+++++|+|+||+||||||+.
T Consensus         2 ~~p~~~~~~~~dI~~~l~~~E---~~~~~~~~~l~~-q~~i~~~~R~~lidW~~~v~~~~~l~~et~~lAv~llDryl~~   77 (140)
T d1w98b2           2 PLPVLSWANREEVWKIMLNKE---KTYLRDQHFLEQ-HPLLQPKMRAILLDWLMEVCEVYKLHRETFYLAQDFFDRYMAT   77 (140)
T ss_dssp             CSCCCSSSCHHHHHHHHHHHT---TTSCCCTTGGGG-CTTCCHHHHHHHHHHHHHHHHHTTCBHHHHHHHHHHHHHHHHH
T ss_pred             CCccccccCHHHHHHHHHHHH---HhhCCChHHHhC-CCCCCHHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHhc
Confidence            368899999999999999999   899999999986 9999999999999999999999999999999999999999985


Q ss_pred             -ccccccccchhhHHHHHhhcccccccccccccccccccCCccccchhhhccch
Q 043577          244 -NVIIRQQLQLLGVACMMISATMDNKWKSDYVVSKYEEICPPQVEELCYITDNT  296 (402)
Q Consensus       244 -~~v~~~~LQLvgitCL~IAaK~ee~~~~~~~vsK~EEi~~p~l~df~~itd~~  296 (402)
                       ..+.++++||+|+||||||             +|+||..+|.+.+|++++++.
T Consensus        78 ~~~v~~~~lqL~a~acL~IA-------------sK~ee~~~~~~~~l~~~~~~~  118 (140)
T d1w98b2          78 QENVVKTLLQLIGISSLFIA-------------AKLEEIYPPKLHQFAYVTDGA  118 (140)
T ss_dssp             CCCCCGGGHHHHHHHHHHHH-------------HHHHCSSCCCHHHHHHTTTTS
T ss_pred             cccccHHHHhHHHHHHHHHH-------------HHHcccCCCCHHHHHHHHcCC
Confidence             4589999999999999999             999999999999999998776
>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
>d1w98b1 a.74.1.1 (B:228-357) G1/S-specific cyclin-E1 {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
>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
>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
>d1aisb2 a.74.1.2 (B:1206-1300) 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
>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
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure