Citrus Sinensis ID: 041510

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-------34
MGNADADQENRVRDPRSSSKNRASLFSSASPPRHHALETPRRVVLGELTNSFNAGSSQCSDSRNTQKPKRILKRKYGEDTLESIQHESKETKNENEELAGRKSNESLSALRNCAYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDLKECHKVF
ccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccHHHHHccccccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHccccccccccEEEcccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHcccccccccHHHHHHHcccHHHHHHHHHHc
cccHHHccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccEEEccccccccHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHcccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHcHHccccHHHHHHHHHHHHHHHHccccccccHHHHHHccccHHHHHHHHHHc
mgnadadqenrvrdprsssknraslfssaspprhhaletprrVVLGELtnsfnagssqcsdsrntqkpkRILKRKYGEDTLESIQHESKETKNeneelagrksnesLSALRNCAYSSSIYKHLRSleiedktrplpnyleKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFlsshalsrnKLQLLGVCCMLIASkyeeispphvedfcyitdntyMKEEVVEMEEKVLEFLNfemgspttKSFLRIFTRvteenckkpdLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRfimqpkihpwswelqtfsgyrpsdlkechkvf
mgnadadqenrvrdprsssknraslfssaspprhhaletPRRVVLGELTNSfnagssqcsdsrntqkpkrilkrkygedtlesiqhesketkneneelagrksneslsaLRNCAYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKyeeispphvEDFCYITDNTYMKEEVVEMEEKVLEFLnfemgspttKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQtfsgyrpsdlKECHKVF
MGNADADQENRVRDPRSSSKNRASLFSSASPPRHHALETPRRVVLGELTNSFNAGSSQCSDSRNTQKPKRILKRKYGEDTLESIQHESKETKNENEELAGRKSNESLSALRNCAYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYmkeevvemeekvLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDLKECHKVF
**************************************************************************************************************RNCAYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYR***********
***************************************************************************************************GRKSNESLSALRNCAYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDLKECHKVF
**********************************HALETPRRVVLGELTNSF****************KRILKRKYGEDTLESIQH****************SNESLSALRNCAYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDLKECHKVF
********************************************************************************************NENEELAGRKSNESLSALRNCAYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDLKECHKVF
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooo
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MGNADADQENRVRDPRSSSKNRASLFSSASPPRHHALETPRRVVLGELTNSFNAGSSQCSDSRNTQKPKRILKRKYGEDTxxxxxxxxxxxxxxxxxxxxxKSNESLSALRNCAYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDLKECHKVF
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 ?
Query339 2.2.26 [Sep-21-2011]
Q9FMH5355 Putative cyclin-A3-1 OS=A no no 0.890 0.850 0.474 7e-81
Q9C6A9372 Cyclin-A3-2 OS=Arabidopsi no no 0.920 0.838 0.471 1e-80
Q3ECW2370 Cyclin-A3-4 OS=Arabidopsi yes no 0.938 0.859 0.474 2e-79
Q75I54373 Cyclin-A3-1 OS=Oryza sati yes no 0.657 0.597 0.633 2e-75
P25010341 G2/mitotic-specific cycli N/A no 0.814 0.809 0.506 3e-75
Q2QN26385 Cyclin-A3-2 OS=Oryza sati no no 0.651 0.574 0.610 2e-74
Q7F830508 Cyclin-A1-1 OS=Oryza sati no no 0.663 0.442 0.551 8e-70
Q0JPA4477 Cyclin-A1-2 OS=Oryza sati no no 0.663 0.471 0.551 2e-69
A0MEB5327 Cyclin-A3-3 OS=Arabidopsi no no 0.728 0.755 0.513 1e-68
Q0INT0491 Cyclin-A1-3 OS=Oryza sati no no 0.663 0.458 0.547 2e-68
>sp|Q9FMH5|CCA31_ARATH Putative cyclin-A3-1 OS=Arabidopsis thaliana GN=CYCA3-1 PE=3 SV=1 Back     alignment and function desciption
 Score =  300 bits (769), Expect = 7e-81,   Method: Compositional matrix adjust.
 Identities = 156/329 (47%), Positives = 228/329 (69%), Gaps = 27/329 (8%)

Query: 7   DQENRVRDPRSSSKNRASLFSSASPPRHHALETPRRVVLGELTNSFNAGSSQCSDSRNTQ 66
           ++EN VR  R+++K +AS+ ++    R +     +RVVLGEL N  N   S+ + ++  +
Sbjct: 4   EKENCVRMTRAATKRKASMEAAIDKERINK----KRVVLGELPNLSNIKKSRKATTKQKK 59

Query: 67  KPKRILKRKYGEDTLESIQHESKETKNENEELAGRKSNESLSALRNCAYSSSIYKHLRSL 126
           K   I        T+E++  +  +T++++ ++ G              Y +SI+++LR L
Sbjct: 60  KSVSI-------PTIETLNSDI-DTRSDDPQMCG-------------PYVTSIFEYLRQL 98

Query: 127 EIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSH 186
           E+  K+RPL +Y+EK+Q D++ NMR  LVDWLVEV EEYKL+SDTLYL VSY+DRFLS  
Sbjct: 99  EV--KSRPLVDYIEKIQKDVTSNMRGVLVDWLVEVAEEYKLLSDTLYLAVSYIDRFLSLK 156

Query: 187 ALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEM 246
            +++ +LQLLGV  MLIASKYEEI+PP+V+DFCYITDNTY K+E+V+ME  +L  L FE+
Sbjct: 157 TVNKQRLQLLGVTSMLIASKYEEITPPNVDDFCYITDNTYTKQEIVKMEADILLALQFEL 216

Query: 247 GSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLS 306
           G+PT+ +FLR FTRV +E+ +   L  EFL  YL+ELS+LDY  + +LPS VAAS++FL+
Sbjct: 217 GNPTSNTFLRRFTRVAQEDFEMSHLQMEFLCSYLSELSMLDYQSVKFLPSTVAASAVFLA 276

Query: 307 RFIMQPKIHPWSWELQTFSGYRPSDLKEC 335
           RFI++PK HPW+  L+ ++ Y+  DLKEC
Sbjct: 277 RFIIRPKQHPWNVMLEEYTRYKAGDLKEC 305

Arabidopsis thaliana (taxid: 3702)
>sp|Q9C6A9|CCA32_ARATH Cyclin-A3-2 OS=Arabidopsis thaliana GN=CYCA3-2 PE=2 SV=1 Back     alignment and function description
>sp|Q3ECW2|CCA34_ARATH Cyclin-A3-4 OS=Arabidopsis thaliana GN=CYCA3-4 PE=1 SV=1 Back     alignment and function description
>sp|Q75I54|CCA31_ORYSJ Cyclin-A3-1 OS=Oryza sativa subsp. japonica GN=CYCA3-1 PE=3 SV=1 Back     alignment and function description
>sp|P25010|CCNAL_DAUCA G2/mitotic-specific cyclin C13-1 (Fragment) OS=Daucus carota PE=2 SV=1 Back     alignment and function description
>sp|Q2QN26|CCA32_ORYSJ Cyclin-A3-2 OS=Oryza sativa subsp. japonica GN=CYCA3-2 PE=2 SV=1 Back     alignment and function description
>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|Q0JPA4|CCA12_ORYSJ Cyclin-A1-2 OS=Oryza sativa subsp. japonica GN=CYCA1-2 PE=3 SV=2 Back     alignment and function description
>sp|A0MEB5|CCA33_ARATH Cyclin-A3-3 OS=Arabidopsis thaliana GN=CYCA3-3 PE=2 SV=2 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

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 ?
Query339
255573079387 cyclin A, putative [Ricinus communis] gi 0.976 0.855 0.579 1e-102
2196455371 A-type cyclin [Nicotiana tabacum] 0.834 0.762 0.577 1e-94
2190259372 A-type cyclin [Catharanthus roseus] 0.946 0.862 0.572 1e-93
1064925371 cyclin A-like protein [Nicotiana tabacum 0.943 0.862 0.537 5e-93
1064931384 cyclin A-like protein [Nicotiana tabacum 0.920 0.812 0.548 5e-91
350537005378 cyclin A3 [Solanum lycopersicum] gi|5420 0.941 0.843 0.524 1e-90
2190263306 A-type cyclin [Catharanthus roseus] 0.893 0.990 0.570 2e-87
359491997365 PREDICTED: putative cyclin-A3-1-like iso 0.917 0.852 0.543 3e-87
449450257373 PREDICTED: cyclin-A3-2-like [Cucumis sat 0.849 0.772 0.534 2e-86
224137698363 predicted protein [Populus trichocarpa] 0.808 0.754 0.559 5e-86
>gi|255573079|ref|XP_002527469.1| cyclin A, putative [Ricinus communis] gi|223533109|gb|EEF34867.1| cyclin A, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 204/352 (57%), Positives = 249/352 (70%), Gaps = 21/352 (5%)

Query: 1   MGNADADQENRVRDPRSSSKNRASLFSSASPPRHHALETPRRVVLGELTNSFNAGSSQCS 60
           MGN   + + RV   RSSS + ++     S   H    T +RV LGE+TN+    S+Q S
Sbjct: 1   MGN---ENDTRVHSTRSSSSSTSASKKRVSNATHSQQLTKKRVPLGEITNTV-TDSTQNS 56

Query: 61  DSRNTQKPKRILKRKYGEDT-----LESIQHESKETKNENEELAGRKSNE-----SLSA- 109
           D  +TQK    LK K  +D+      ES Q    E   +N +   +  N+     SLS+ 
Sbjct: 57  DLDSTQKQVLHLKEKAEQDSENWSIAESTQISDVEISTKNTKCEVKIKNQWDLESSLSSG 116

Query: 110 ------LRNCAYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLE 163
                 L+ C++SSSIY +L SLE+E+  R L NY+ KVQ DIS+ MR+ LVDWLVEV E
Sbjct: 117 SNQGLDLKKCSFSSSIYGYLHSLEMEENRRCLSNYMTKVQTDISVKMREILVDWLVEVAE 176

Query: 164 EYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITD 223
           EYKLVSDTLYLTVSY+DRFLSS AL RNKLQLLGV CMLIASKYEEISPPHVEDFCYITD
Sbjct: 177 EYKLVSDTLYLTVSYIDRFLSSRALGRNKLQLLGVSCMLIASKYEEISPPHVEDFCYITD 236

Query: 224 NTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAEL 283
           NTY KEEVV+ME+ VL+FLN+EM +PT K+FLRI T+  +E CK PDL +EFLSCYLAEL
Sbjct: 237 NTYSKEEVVDMEKDVLKFLNYEMSTPTAKNFLRILTKAAQEYCKSPDLQFEFLSCYLAEL 296

Query: 284 SLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDLKEC 335
           SLLDY C+ +LPS++AAS++FLSRF + PK+HPW+  LQ  SGYRPSDLKEC
Sbjct: 297 SLLDYQCVLFLPSVIAASAVFLSRFTIHPKMHPWNASLQRCSGYRPSDLKEC 348

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|2196455|dbj|BAA20426.1| A-type cyclin [Nicotiana tabacum] Back     alignment and taxonomy information
>gi|2190259|dbj|BAA20410.1| A-type cyclin [Catharanthus roseus] Back     alignment and taxonomy information
>gi|1064925|emb|CAA63540.1| cyclin A-like protein [Nicotiana tabacum] Back     alignment and taxonomy information
>gi|1064931|emb|CAA63541.1| cyclin A-like protein [Nicotiana tabacum] Back     alignment and taxonomy information
>gi|350537005|ref|NP_001234787.1| cyclin A3 [Solanum lycopersicum] gi|5420278|emb|CAB46643.1| cyclin A3 [Solanum lycopersicum] Back     alignment and taxonomy information
>gi|2190263|dbj|BAA20412.1| A-type cyclin [Catharanthus roseus] Back     alignment and taxonomy information
>gi|359491997|ref|XP_002285074.2| PREDICTED: putative cyclin-A3-1-like isoform 1 [Vitis vinifera] gi|302142243|emb|CBI19446.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|449450257|ref|XP_004142880.1| PREDICTED: cyclin-A3-2-like [Cucumis sativus] gi|449482693|ref|XP_004156373.1| PREDICTED: cyclin-A3-2-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224137698|ref|XP_002327190.1| predicted protein [Populus trichocarpa] gi|222835505|gb|EEE73940.1| predicted protein [Populus trichocarpa] 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 ?
Query339
TAIR|locus:2030648372 CYCA3;2 "cyclin-dependent prot 0.941 0.857 0.457 1.8e-69
TAIR|locus:2036756370 CYCA3;4 "CYCLIN A3;4" [Arabido 0.926 0.848 0.468 6.3e-69
TAIR|locus:2167761355 CYCA3;1 "Cyclin A3;1" [Arabido 0.781 0.746 0.498 1.1e-64
TAIR|locus:2036761327 CYCA3;3 "Cyclin A3;3" [Arabido 0.660 0.685 0.540 5e-60
TAIR|locus:2205871460 CYCA1;1 "Cyclin A1;1" [Arabido 0.713 0.526 0.489 9.9e-60
TAIR|locus:2031407442 CYCA1;2 "CYCLIN A1;2" [Arabido 0.657 0.504 0.491 8.8e-59
TAIR|locus:2196563450 CYCA2;3 "CYCLIN A2;3" [Arabido 0.805 0.606 0.431 2.1e-54
TAIR|locus:2148052436 CYC3B "mitotic-like cyclin 3B 0.646 0.502 0.490 8.9e-54
TAIR|locus:2034250461 CYCA2;4 "Cyclin A2;4" [Arabido 0.646 0.475 0.477 7.2e-52
ZFIN|ZDB-GENE-020418-1428 ccna2 "cyclin A2" [Danio rerio 0.622 0.492 0.436 5.9e-42
TAIR|locus:2030648 CYCA3;2 "cyclin-dependent protein kinase 3;2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 704 (252.9 bits), Expect = 1.8e-69, P = 1.8e-69
 Identities = 151/330 (45%), Positives = 216/330 (65%)

Query:     7 DQENRVRDPRSSSKNRASLFSSASPPRHHALETPRRVVLGELTNSFNAGS-SQCSDSRNT 65
             +QE  VR  R+++K +AS        R +     +RVVLGEL N  N    +  +  + T
Sbjct:     3 EQEICVRVTRAAAKRKASTAMGIDGDRVNK----KRVVLGELLNVSNVNLLANLNQKKET 58

Query:    66 QKPKRILKRKYGEDTLESIQHESKETKNENEELAGRKSNESLSALRNCAYSSSIYKHLRS 125
             QKPKR LK    +  ++S      + +++++ +  R  +  +       Y + IY++LR 
Sbjct:    59 QKPKRNLKPPPAKQ-IKSAPVAIIDLESKSD-IDSRSDDPQMCG----PYVADIYEYLRQ 112

Query:   126 LEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSS 185
             LE++ K RPLP+Y+EKVQ D++ +MR  LVDWLVEV EEYKL S+TLYLTVS++DRFLS 
Sbjct:   113 LEVKPKQRPLPDYIEKVQKDVTPSMRGVLVDWLVEVAEEYKLGSETLYLTVSHIDRFLSL 172

Query:   186 HALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYXXXXXXXXXXXXLEFLNFE 245
               +++ KLQL+GV  MLIASKYEEISPP V+DFCYITDNT+            L  L FE
Sbjct:   173 KTVNKQKLQLVGVSAMLIASKYEEISPPKVDDFCYITDNTFSKQDVVKMEADILLALQFE 232

Query:   246 MGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFL 305
             +G PT  +F+R FTRV +++ K P L  E L CYL+ELS+LDY  + ++PSL+AAS++FL
Sbjct:   233 LGRPTINTFMRRFTRVAQDDFKVPHLQLEPLCCYLSELSILDYKTVKFVPSLLAASAVFL 292

Query:   306 SRFIMQPKIHPWSWELQTFSGYRPSDLKEC 335
             +RFI++PK HPW+  L+ ++ Y+ +DL+ C
Sbjct:   293 ARFIIRPKQHPWNQMLEEYTKYKAADLQVC 322
GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA
GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=ISS
GO:0005634 "nucleus" evidence=IEA;IDA
GO:0010389 "regulation of G2/M transition of mitotic cell cycle" evidence=IEA
GO:0019901 "protein kinase binding" evidence=IEA
GO:0051726 "regulation of cell cycle" evidence=IEA;ISS
GO:0005737 "cytoplasm" evidence=IDA
TAIR|locus:2036756 CYCA3;4 "CYCLIN A3;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:2036761 CYCA3;3 "Cyclin A3;3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2205871 CYCA1;1 "Cyclin A1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2031407 CYCA1;2 "CYCLIN A1;2" [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: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
ZFIN|ZDB-GENE-020418-1 ccna2 "cyclin A2" [Danio rerio (taxid:7955)] 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) ?
P25010CCNAL_DAUCANo assigned EC number0.50660.81410.8093N/Ano
Q3ECW2CCA34_ARATHNo assigned EC number0.47460.93800.8594yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query339
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 4e-55
COG5024440 COG5024, COG5024, Cyclin [Cell division and chromo 3e-36
cd0004388 cd00043, CYCLIN, Cyclin box fold 2e-22
pfam02984117 pfam02984, Cyclin_C, Cyclin, C-terminal domain 5e-21
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 5e-20
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 4e-08
cd0004388 cd00043, CYCLIN, Cyclin box fold 2e-07
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score =  175 bits (447), Expect = 4e-55
 Identities = 76/129 (58%), Positives = 97/129 (75%), Gaps = 3/129 (2%)

Query: 119 IYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSY 178
           IY +LR LE ED  RP P+YL++ Q DI+  MR  L+DWLVEV EE+KL+ +TLYL V+Y
Sbjct: 2   IYAYLRELEEED--RPPPDYLDQ-QPDINPKMRAILIDWLVEVHEEFKLLPETLYLAVNY 58

Query: 179 VDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKV 238
           +DRFLS   + R KLQL+GV C+LIA+KYEEI PP VEDF YITDN Y KEE++ ME  +
Sbjct: 59  LDRFLSKQPVPRTKLQLVGVTCLLIAAKYEEIYPPSVEDFVYITDNAYTKEEILRMELLI 118

Query: 239 LEFLNFEMG 247
           L  LN+++ 
Sbjct: 119 LSTLNWDLS 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|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information
>gnl|CDD|217307 pfam02984, Cyclin_C, Cyclin, C-terminal domain 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 339
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). 99.89
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.81
KOG0835 367 consensus Cyclin L [General function prediction on 99.79
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.71
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.67
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.59
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.55
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.49
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.47
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.26
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.9
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 98.84
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.64
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 98.64
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.59
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 97.82
KOG1598 521 consensus Transcription initiation factor TFIIIB, 97.04
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 96.86
KOG1674218 consensus Cyclin [General function prediction only 95.76
PRK00423310 tfb transcription initiation factor IIB; Reviewed 95.35
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 93.1
KOG1675343 consensus Predicted cyclin [General function predi 92.73
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 91.02
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 87.96
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 86.29
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=5.3e-46  Score=356.12  Aligned_cols=313  Identities=41%  Similarity=0.637  Sum_probs=258.6

Q ss_pred             cccccCCccccchhhcc-cccCCCCCCCCCCCCCCccccccccCCCCCCCCcccC-CcCCCCccchhhccccCCccchhh
Q 041510            8 QENRVRDPRSSSKNRAS-LFSSASPPRHHALETPRRVVLGELTNSFNAGSSQCSD-SRNTQKPKRILKRKYGEDTLESIQ   85 (339)
Q Consensus         8 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~r~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   85 (339)
                      +.++.|.++++.+ +++ ...+.    ++.|-..++++.|+++++++..... .. ..++.+.....-....++   .+.
T Consensus         4 ~~~~~~~~~~~~~-~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~e---~~~   74 (359)
T KOG0654|consen    4 KVAKPQNIFAADS-KKANTSNVI----DVEPIRQDYAVDGDLTALEELRSPP-KILSKQTNKSDLELLKLFSSE---HKL   74 (359)
T ss_pred             hhhcccCCccCch-hhhcccccc----cCCCccchhhhhchhhhhhhhhccc-cccchhhhhhhhccccccccc---chh
Confidence            4566788888888 665 33332    4445788999999999987543322 22 222222111100000000   000


Q ss_pred             hhchhhcccchhhccCCcccCCCCcccc-ccHHHHHHHHHHhHhhccCCCCCchhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 041510           86 HESKETKNENEELAGRKSNESLSALRNC-AYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEE  164 (339)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~d~q~~-eY~~dI~~~l~~~E~e~~~~p~~~yl~~~Q~~it~~~R~~lVdWl~ev~~~  164 (339)
                       .. .+.-.... ...|+|.+..||++| .|+.+|++|++..|... .+|.++|++.+|.++|+.||.++|+|++++.+.
T Consensus        75 -~~-~~~~~~~~-~~~~~ds~~~dp~~c~~~~~~I~~~~r~~ei~~-~rp~~~~~e~vq~d~t~smrgilvdwlvevsee  150 (359)
T KOG0654|consen   75 -SL-DEASAMDG-FVMRIDSVGEDPQMCLKIAAKIYNTLRVSDIKS-ERPLPSKFEFVQADITPSMRGILVDWLVEVSEE  150 (359)
T ss_pred             -hh-cccccccc-cccchhhcccchHHHHHHHHHHhhcccccchhh-ccCcccceeeeecCCCcchhhhhhhhhhHHHHH
Confidence             00 00001111 126888999999999 99999999999888753 889999999999999999999999999999999


Q ss_pred             ccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHcCC
Q 041510          165 YKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNF  244 (339)
Q Consensus       165 l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~IL~~L~f  244 (339)
                      +++..++||++++++|||++...+.+.++|++|.+|++||+|+||+.+|.+++|+++++++|+..++..||.+||+.|.|
T Consensus       151 ~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~  230 (359)
T KOG0654|consen  151 YRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTF  230 (359)
T ss_pred             HHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHH
Q 041510          245 EMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTF  324 (339)
Q Consensus       245 ~l~~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~  324 (339)
                      .+..||..+|++.|++..+.    ...+++.++.||+|++++|+.|++|.||.||+||++||+.+++  .++|+..|+++
T Consensus       231 ~~~~pt~~~~l~~~~~~~~~----~~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~--~~pW~~~L~~~  304 (359)
T KOG0654|consen  231 ELVRPTSKTFLRRFLRVAQT----PELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD--FHPWNQTLEDY  304 (359)
T ss_pred             HHhCchHHHHHHHHHHhhcc----hhHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc--CCCCchhhHHh
Confidence            99999999999999998876    5678899999999999999999999999999999999999996  89999999999


Q ss_pred             hCCCHHhHHHHHHhC
Q 041510          325 SGYRPSDLKECHKVF  339 (339)
Q Consensus       325 tgy~~~dL~~C~~~~  339 (339)
                      |||+.+||+.|+..|
T Consensus       305 T~y~~edl~~~v~~L  319 (359)
T KOG0654|consen  305 TGYKAEDLKPCVLDL  319 (359)
T ss_pred             hcccHHHHHHHHHHH
Confidence            999999999999753

>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
>KOG0835 consensus Cyclin L [General function prediction only] 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
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] 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
>cd00043 CYCLIN Cyclin box fold 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
>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
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>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
>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 ?
Query339
3qhr_B261 Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic 8e-41
4ii5_B258 Structure Of Pcdk2/cyclina Bound To Adp And 1 Magne 1e-40
4i3z_B257 Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNES 1e-40
4bco_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 3e-40
3dog_B264 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 3e-40
3ddq_B269 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 3e-40
3ddp_B268 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 3e-40
3bht_B262 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 3e-40
2g9x_B262 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 3e-40
1vin_A268 Bovine Cyclin A3 Length = 268 3e-40
2x1n_B261 Truncation And Optimisation Of Peptide Inhibitors O 6e-40
1vyw_B265 Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 7e-40
1fin_B260 Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 7e-40
1ogu_B260 Structure Of Human Thr160-phospho Cdk2/cyclin A Com 8e-40
3f5x_B256 Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Boun 8e-40
1e9h_B261 Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex 9e-40
1jst_B258 Phosphorylated Cyclin-Dependent Kinase-2 Bound To C 9e-40
1qmz_B259 Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Com 9e-40
4bcq_D262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 2e-39
4bcq_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 2e-39
2b9r_A269 Crystal Structure Of Human Cyclin B1 Length = 269 5e-36
2jgz_B260 Crystal Structure Of Phospho-Cdk2 In Complex With C 2e-35
3g33_B306 Crystal Structure Of Cdk4CYCLIN D3 Length = 306 9e-18
1w98_B283 The Structural Basis Of Cdk2 Activation By Cyclin E 1e-17
2w9z_A257 Crystal Structure Of Cdk4 In Complex With A D-Type 2e-15
2w96_A271 Crystal Structure Of Cdk4 In Complex With A D-Type 2e-15
1jow_A254 Crystal Structure Of A Complex Of Human Cdk6 And A 6e-08
1bu2_A229 X-Ray Structure Of A Viral Cyclin From Herpesvirus 7e-08
1g3n_C257 Structure Of A P18(Ink4c)-Cdk6-K-Cyclin Ternary Com 2e-04
>pdb|3QHR|B Chain B, Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic Length = 261 Back     alignment and structure 
Iteration: 1

 Score =  164 bits (414), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 97/223 (43%), Positives = 135/223 (60%), Gaps = 12/223 (5%)
Query: 115 YSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYL 174
           Y   I+ +LR +E+  K +P   Y+++ Q DI+ +MR  LVDWLVEV EEYKL ++TL+L
Sbjct: 7   YQEDIHTYLREMEV--KCKPKVGYMKR-QPDITNSMRAILVDWLVEVGEEYKLQNETLHL 63
Query: 175 TVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYXXXXXXXX 234
            V+Y+DRFLSS ++ R KLQL+G   ML+ASK+EEI PP V +F YITD+TY        
Sbjct: 64  AVNYIDRFLSSMSVLRGKLQLVGTAAMLLASKFEEIYPPEVAEFVYITDDTYSKKQVLRM 123
Query: 235 XXXXLEFLNFEMGSPTTKSFL-RIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYG-CLW 292
               L+ L F++ +PT   FL + F  +   NCK      E L+ +L ELSL+D    L 
Sbjct: 124 EHLVLKVLAFDLAAPTVNQFLTQYFLHLQPANCK-----VESLAMFLGELSLIDADPYLK 178
Query: 293 YLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDLKEC 335
           YLPSL+A ++  L+ + +  +  P S   QT  GY    LK C
Sbjct: 179 YLPSLIAGAAFHLALYTVTGQSWPESLAQQT--GYTLESLKPC 219
>pdb|4II5|B Chain B, Structure Of Pcdk2/cyclina Bound To Adp And 1 Magnesium Ion Length = 258 Back     alignment and structure
>pdb|4I3Z|B Chain B, Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNESIUM IONS Length = 257 Back     alignment and structure
>pdb|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|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|3DDQ|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX With The Inhibitor Roscovitine Length = 269 Back     alignment and structure
>pdb|3DDP|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX With The Inhibitor Cr8 Length = 268 Back     alignment and structure
>pdb|3BHT|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX WITH THE Inhibitor Meriolin 3 Length = 262 Back     alignment and structure
>pdb|2G9X|B Chain B, Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN COMPLEX WITH THE Inhibitor Nu6271 Length = 262 Back     alignment and structure
>pdb|1VIN|A Chain A, Bovine Cyclin A3 Length = 268 Back     alignment and structure
>pdb|2X1N|B Chain B, Truncation And Optimisation Of Peptide Inhibitors Of Cdk2, Cyclin A Through Structure Guided Design Length = 261 Back     alignment and structure
>pdb|1VYW|B Chain B, Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 265 Back     alignment and structure
>pdb|1FIN|B Chain B, Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 260 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|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|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|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|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 ?
Query339
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 1e-100
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 9e-99
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 3e-98
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 1e-97
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 5e-97
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 6e-93
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 1e-92
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 1e-86
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 1e-20
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 3e-13
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 9e-11
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 2e-10
2ivx_A257 Cyclin-T2; transcription regulation, cell division 4e-09
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 4e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
>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
 Score =  295 bits (756), Expect = e-100
 Identities = 41/229 (17%), Positives = 90/229 (39%), Gaps = 7/229 (3%)

Query: 112 NCAYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDT 171
                  +  +L+  E      P    L ++Q +++++ R  L+ W+  + E ++L    
Sbjct: 16  TTMKDPRVLNNLKLRE---LLLPKFTSLWEIQTEVTVDNRTILLTWMHLLCESFELDKSV 72

Query: 172 LYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEV 231
             L+VS +DR+L     ++  LQ +G  C+LI SK   + P  V    Y++ + +   E+
Sbjct: 73  FPLSVSILDRYLCKKQGTKKTLQKIGAACVLIGSKIRTVKPMTVSKLTYLSCDCFTNLEL 132

Query: 232 VEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCL 291
           +  E+ +LE L ++  +     FL       +   +         +      +L+     
Sbjct: 133 INQEKDILEALKWDTEAVLATDFLIPLCNALKIP-EDLWPQLYEAASTTICKALIQPNIA 191

Query: 292 WYLPSLVAASSIFLSRFIMQPKIHPWSWELQ---TFSGYRPSDLKECHK 337
              P L+ A  +  +         PW+  L+   +   +  + ++    
Sbjct: 192 LLSPGLICAGGLLTTIETDNTNCRPWTCYLEDLSSILNFSTNTVRTVKD 240
>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
>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
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Length = 260 Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Length = 269 Back     alignment and structure
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query339
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 100.0
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 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 100.0
2ivx_A257 Cyclin-T2; transcription regulation, cell division 100.0
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 100.0
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 100.0
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.97
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.94
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.89
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.72
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.28
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 98.38
1ais_B200 TFB TFIIB, protein (transcription initiation facto 96.85
1c9b_A207 General transcription factor IIB; protein-DNA comp 95.18
2ivx_A257 Cyclin-T2; transcription regulation, cell division 90.91
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 88.75
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 88.37
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 87.5
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 87.34
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 84.07
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 82.95
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 82.59
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 80.69
>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
Probab=100.00  E-value=2.3e-50  Score=375.51  Aligned_cols=231  Identities=19%  Similarity=0.272  Sum_probs=203.5

Q ss_pred             CcccCCCCcccc-ccHHHHHHHHHHhHhhccCCCCCchhhhcCCCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHH
Q 041510          102 KSNESLSALRNC-AYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVD  180 (339)
Q Consensus       102 ~~~~~~~d~q~~-eY~~dI~~~l~~~E~e~~~~p~~~yl~~~Q~~it~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~llD  180 (339)
                      .++...+||++| +  +||| +|+++|.  ++.|.++|+...|+++++.||.++||||++|+.+|+++++|+|+||+|||
T Consensus         6 ~~~~~~~dp~~~~~--~~i~-~l~~~E~--~~~p~~~y~~~~q~~i~~~~R~~lvdwl~ev~~~~~l~~etl~lAv~~~D   80 (257)
T 1g3n_C            6 NPPSGLLDPTLCED--RIFY-NILEIEP--RFLTSDSVFGTFQQSLTSHMRKLLGTWMFSVCQEYNLEPNVVALALNLLD   80 (257)
T ss_dssp             ----------CHHH--HHHH-HHHHHGG--GGCCCGGGHHHHTSSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             CCccCCCCCccccH--HHHH-HHHHHHH--HhCCChhHHHhcCccCCHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            355677899999 8  9999 9988775  57888999977799999999999999999999999999999999999999


Q ss_pred             HHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHH
Q 041510          181 RFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTR  260 (339)
Q Consensus       181 RfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~fl~  260 (339)
                      ||++...+.+.++||+|+||||||||+||..||++.+|++++++.|++++|.+||+.||++|+|+++.|||++|+++|+.
T Consensus        81 Rfls~~~v~~~~lqLv~~acl~iA~K~eE~~~p~~~d~~~~~~~~~~~~~i~~mE~~iL~~L~~~l~~~tp~~fl~~~~~  160 (257)
T 1g3n_C           81 RLLLIKQVSKEHFQKTGSACLLVASKLRSLTPISTSSLCYAAADSFSRQELIDQEKELLEKLAWRTEAVLATDVTSFLLL  160 (257)
T ss_dssp             HHTTTCCCCHHHHHHHHHHHHHHHHHHHCSSCCCHHHHHHHTTTCSCHHHHHHHHHHHHHHTTTCCCCCCHHHHHHHHHH
T ss_pred             HHHccCCCCHHHHHHHHHHHHHHHHHHccccCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCcCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             HhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCC----CCCChHHHHHHhCCCHHhHHHHH
Q 041510          261 VTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPK----IHPWSWELQTFSGYRPSDLKECH  336 (339)
Q Consensus       261 ~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~----~~~W~~~L~~~tgy~~~dL~~C~  336 (339)
                      .+..+... ...+..++.++++++++|+.|++|+||.||+|||++|+..++..    .+.|...|.++|||++++|.+|+
T Consensus       161 ~~~~~~~~-~~~~~~~a~~~le~~l~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~~~~~w~~~l~~~t~~~~~~l~~c~  239 (257)
T 1g3n_C          161 KLVGGSQH-LDFWHHEVNTLITKALVDPLTGSLPASIISAAGCALLVPANVIPQDTHSGGVVPQLASILGCDVSVLQAAV  239 (257)
T ss_dssp             HHSCSSTT-HHHHHHHHHHHHHHHHTSTTGGGSCHHHHHHHHHHHHCCGGGSCC-----CHHHHHHHHHTCCHHHHHHHH
T ss_pred             HcCCChhH-HHHHHHHHHHHHHHHHhCcchhCcCHHHHHHHHHHHHHHHhCCCcccchhhHHHHHHHHHCcCHHHHHHHH
Confidence            87654332 22456789999999999999999999999999999999998732    25799999999999999999998


Q ss_pred             Hh
Q 041510          337 KV  338 (339)
Q Consensus       337 ~~  338 (339)
                      +.
T Consensus       240 ~~  241 (257)
T 1g3n_C          240 EQ  241 (257)
T ss_dssp             HH
T ss_pred             HH
Confidence            74
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* 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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>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
>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
>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
>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
>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

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 339
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 6e-47
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 5e-45
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 5e-44
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 3e-41
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 1e-38
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 2e-28
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 3e-24
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 7e-24
d2cchb2124 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [T 6e-19
>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 =  153 bits (387), Expect = 6e-47
 Identities = 32/124 (25%), Positives = 66/124 (53%)

Query: 123 LRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRF 182
           L +L++ +   P    L ++Q +++++ R  L+ W+  + E ++L      L+VS +DR+
Sbjct: 3   LNNLKLRELLLPKFTSLWEIQTEVTVDNRTILLTWMHLLCESFELDKSVFPLSVSILDRY 62

Query: 183 LSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFL 242
           L     ++  LQ +G  C+LI SK   + P  V    Y++ + +   E++  E+ +LE L
Sbjct: 63  LCKKQGTKKTLQKIGAACVLIGSKIRTVKPMTVSKLTYLSCDCFTNLELINQEKDILEAL 122

Query: 243 NFEM 246
            ++ 
Sbjct: 123 KWDT 126
>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
>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
>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
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 124 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 ?
Query339
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 100.0
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 100.0
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 100.0
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 100.0
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.96
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.82
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.77
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.76
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.65
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 98.2
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 98.09
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.94
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 97.86
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.71
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 97.68
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 97.27
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.27
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 97.24
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 96.89
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 96.1
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 95.62
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 95.36
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 93.38
>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=3.3e-35  Score=247.75  Aligned_cols=136  Identities=31%  Similarity=0.572  Sum_probs=128.3

Q ss_pred             Ccccc-ccHHHHHHHHHHhHhhccCCCCCchhhhcCCCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcC-
Q 041510          109 ALRNC-AYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSH-  186 (339)
Q Consensus       109 d~q~~-eY~~dI~~~l~~~E~e~~~~p~~~yl~~~Q~~it~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~-  186 (339)
                      +|++| .|++|||.+|.++|.  ++.+.++|+.+ |++++++||.++|+||++++..++++.+|+|+||+|||||++.. 
T Consensus         3 ~p~~~~~~~~dI~~~l~~~E~--~~~~~~~~l~~-q~~i~~~~R~~lidW~~~v~~~~~l~~et~~lAv~llDryl~~~~   79 (140)
T d1w98b2           3 LPVLSWANREEVWKIMLNKEK--TYLRDQHFLEQ-HPLLQPKMRAILLDWLMEVCEVYKLHRETFYLAQDFFDRYMATQE   79 (140)
T ss_dssp             SCCCSSSCHHHHHHHHHHHTT--TSCCCTTGGGG-CTTCCHHHHHHHHHHHHHHHHHTTCBHHHHHHHHHHHHHHHHHCC
T ss_pred             CccccccCHHHHHHHHHHHHH--hhCCChHHHhC-CCCCCHHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHhccc
Confidence            68999 999999999988775  57777889865 99999999999999999999999999999999999999999864 


Q ss_pred             cCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHcCCccc
Q 041510          187 ALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMG  247 (339)
Q Consensus       187 ~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~IL~~L~f~l~  247 (339)
                      .+.++++||+|+||||||+|+||..+|.+.+++++|++.|+.++|.+||..||++|+|+++
T Consensus        80 ~v~~~~lqL~a~acL~IAsK~ee~~~~~~~~l~~~~~~~~t~~ei~~mE~~IL~~L~~~Ln  140 (140)
T d1w98b2          80 NVVKTLLQLIGISSLFIAAKLEEIYPPKLHQFAYVTDGACSGDEILTMELMIMKALKWRLS  140 (140)
T ss_dssp             CCCGGGHHHHHHHHHHHHHHHHCSSCCCHHHHHHTTTTSSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             cccHHHHhHHHHHHHHHHHHHcccCCCCHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCcCC
Confidence            5899999999999999999999999999999999999999999999999999999999985
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>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
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>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
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {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
>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
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure