Citrus Sinensis ID: 017441

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-
MALPQGNTDAHHHQLETTPLALDGLFCDEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIIDANFSCDSSNDSWPAASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVDVLSSPR
ccccccccccccccccccccccccccccccccccHHHHccccHHHccccccccccccccccccccHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHccccccccccEEEEcccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccc
cccccccccccccccccccccHHHHcccHHHHccccccccccccccccccccccccHcHccHcHHHHHHHHHHHHHHccccccHHHccccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHccccccHHHcEEEEccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccHccccHHHHHHHHHHHHHHHccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccEEEEEcccccccccccccHHccccccccccccccccccccccHHHHcccccccccccHcEEEEEEccccc
malpqgntdahhhqlettplaldglfcdeesfefEECCIDAEterceekesplppvlqehdlfwddNELLSLICKekkenfvpsdpisDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFilshsfqkdkpwmGQLVAVACLSLAAkvdetqvpllldlqvkdpkyvfEAKTIQRMELLVLSTLQwrmnpvtpisfFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIAdsrfmcylpstLATATMLHTiqevepcnpvehqnLLMGVLNISQDKLKECYLLILELsrgngsqnqsckrkhfplpgspsciidanfscdssndswpaaspfssppeprfkrsrihvqqmrlpsltrTFVDVLSSPR
malpqgntdahhhqlETTPLALDGLFCDEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEkkenfvpsdpiSDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETqvpllldlqvkdpKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELSrgngsqnqSCKRKHFPLPGSPSCIIDANFSCDSSNDSWPAASPFSSPPEPRFKRSRIhvqqmrlpsltrtfvdvlsspr
MALPQGNTDAHHHQLETTPLALDGLfcdeesfefeeccIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIIDANFSCDSSNDswpaaspfssppeprfkrsrIHVQQMRLPSLTRTFVDVLSSPR
*****************TPLALDGLFCDEESFEFEECCIDAET************VLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELS**********************CIIDANF**************************************************
************************LFCDEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKE************DEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILE************************CIIDANFSCDSS***********************************TFVDVLSSP*
************HQLETTPLALDGLFCDEESFEFEECCIDAE**********LPPVLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELSR************HFPLPGSPSCIIDANFSCDSS****************RFKRSRIHVQQMRLPSLTRTFVDVLSSPR
******************PLALDGLFCDEESFE*******AETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIIDA*FS********************************RLPSLTRTFVDVLS***
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MALPQGNTDAHHHQLETTPLALDGLFCDEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIIDANFSCDSSNDSWPAASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVDVLSSPR
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 ?
Query371 2.2.26 [Sep-21-2011]
Q9FGQ7367 Cyclin-D3-2 OS=Arabidopsi yes no 0.911 0.920 0.549 5e-96
Q9SN11361 Cyclin-D3-3 OS=Arabidopsi no no 0.921 0.947 0.498 3e-86
P42753376 Cyclin-D3-1 OS=Arabidopsi no no 0.805 0.795 0.526 8e-85
P42752361 Cyclin-D2-1 OS=Arabidopsi no no 0.619 0.637 0.361 2e-39
Q10K98405 Putative cyclin-D2-3 OS=O yes no 0.436 0.4 0.445 2e-37
P42751339 Cyclin-D1-1 OS=Arabidopsi no no 0.695 0.761 0.349 3e-36
Q4KYM5383 Cyclin-D4-2 OS=Oryza sati yes no 0.428 0.415 0.415 2e-34
Q8LHA8356 Cyclin-D2-2 OS=Oryza sati no no 0.590 0.615 0.361 2e-34
Q6YXH8356 Cyclin-D4-1 OS=Oryza sati no no 0.312 0.325 0.586 5e-34
Q0J233308 Cyclin-D2-1 OS=Oryza sati no no 0.498 0.600 0.385 3e-33
>sp|Q9FGQ7|CCD32_ARATH Cyclin-D3-2 OS=Arabidopsis thaliana GN=CYCD3-2 PE=2 SV=1 Back     alignment and function desciption
 Score =  351 bits (901), Expect = 5e-96,   Method: Compositional matrix adjust.
 Identities = 200/364 (54%), Positives = 252/364 (69%), Gaps = 26/364 (7%)

Query: 21  ALDGLFCDEESFEFEECCIDAETERCEEK--ESPLP----PVLQEHDLF-WDDNELLSLI 73
            LDGL+C+EE+   E+   D       EK  ES +     P+L   D+F WDD+E+LSLI
Sbjct: 17  VLDGLYCEEETGFVEDDLDDDGDLDFLEKSDESVVKFQFLPLL---DMFLWDDDEILSLI 73

Query: 74  CKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSF 133
            KE + N    + I D  L+  RKE ++WVLRVK+H+GFT+LTAILAVNYFDRF+ S   
Sbjct: 74  SKENETNPCFGEQILDGFLVSCRKEALDWVLRVKSHYGFTSLTAILAVNYFDRFMTSIKL 133

Query: 134 QKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQW 193
           Q DKPWM QLVAVA LSLAAKV+E QVPLLLDLQV++ +Y+FEAKTIQRMELL+LSTLQW
Sbjct: 134 QTDKPWMSQLVAVASLSLAAKVEEIQVPLLLDLQVEEARYLFEAKTIQRMELLILSTLQW 193

Query: 194 RMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLH 253
           RM+PVTPISFFDHI+RR G K H   +F  +CE LL+SVIAD+RFM Y PS LATA M+ 
Sbjct: 194 RMHPVTPISFFDHIIRRFGSKWHQQLDFCRKCERLLISVIADTRFMRYFPSVLATAIMIL 253

Query: 254 TIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELSRGNGSQNQSCKR-KHFPLPGS 312
             +E++PC+ VE+Q+ +  +L ++Q+K+ ECY L+LE        N S KR  +     S
Sbjct: 254 VFEELKPCDEVEYQSQITTLLKVNQEKVNECYELLLE-------HNPSKKRMMNLVDQDS 306

Query: 313 PSCIIDANFSCDSSNDSW-----PAASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVDVL 367
           PS ++D +   DSSN SW      + S  SS PEP  KR R+  QQMRLPS+ R F+DVL
Sbjct: 307 PSGVLDFD---DSSNSSWNVSTTASVSSSSSSPEPLLKRRRVQEQQMRLPSINRMFLDVL 363

Query: 368 SSPR 371
           SSPR
Sbjct: 364 SSPR 367

Arabidopsis thaliana (taxid: 3702)
>sp|Q9SN11|CCD33_ARATH Cyclin-D3-3 OS=Arabidopsis thaliana GN=CYCD3-3 PE=2 SV=1 Back     alignment and function description
>sp|P42753|CCD31_ARATH Cyclin-D3-1 OS=Arabidopsis thaliana GN=CYCD3-1 PE=1 SV=3 Back     alignment and function description
>sp|P42752|CCD21_ARATH Cyclin-D2-1 OS=Arabidopsis thaliana GN=CYCD2-1 PE=1 SV=3 Back     alignment and function description
>sp|Q10K98|CCD23_ORYSJ Putative cyclin-D2-3 OS=Oryza sativa subsp. japonica GN=CYCD2-3 PE=3 SV=1 Back     alignment and function description
>sp|P42751|CCD11_ARATH Cyclin-D1-1 OS=Arabidopsis thaliana GN=CYCD1-1 PE=1 SV=3 Back     alignment and function description
>sp|Q4KYM5|CCD42_ORYSJ Cyclin-D4-2 OS=Oryza sativa subsp. japonica GN=CYCD4-2 PE=2 SV=2 Back     alignment and function description
>sp|Q8LHA8|CCD22_ORYSJ Cyclin-D2-2 OS=Oryza sativa subsp. japonica GN=CYCD2-2 PE=2 SV=1 Back     alignment and function description
>sp|Q6YXH8|CCD41_ORYSJ Cyclin-D4-1 OS=Oryza sativa subsp. japonica GN=CYCD4-1 PE=2 SV=2 Back     alignment and function description
>sp|Q0J233|CCD21_ORYSJ Cyclin-D2-1 OS=Oryza sativa subsp. japonica GN=CYCD2-1 PE=3 SV=2 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query371
147810960372 hypothetical protein VITISV_038874 [Viti 0.951 0.948 0.665 1e-133
225438825372 PREDICTED: cyclin-D3-2 [Vitis vinifera] 0.951 0.948 0.665 1e-133
224081763371 predicted protein [Populus trichocarpa] 0.948 0.948 0.671 1e-130
118482952371 unknown [Populus trichocarpa] 0.948 0.948 0.668 1e-129
29374148371 cyclin D [Populus alba] 0.946 0.946 0.652 1e-125
224096702367 predicted protein [Populus trichocarpa] 0.948 0.959 0.655 1e-122
89111301372 cyclin D3-2 [Camellia sinensis] 0.978 0.975 0.615 1e-116
296087399309 unnamed protein product [Vitis vinifera] 0.757 0.909 0.726 1e-115
255567883276 cyclin d, putative [Ricinus communis] gi 0.741 0.996 0.758 1e-115
33517432355 cyclin D3-2 [Euphorbia esula] 0.929 0.971 0.622 1e-115
>gi|147810960|emb|CAN59802.1| hypothetical protein VITISV_038874 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  481 bits (1237), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 243/365 (66%), Positives = 284/365 (77%), Gaps = 12/365 (3%)

Query: 16  ETTPLALDGLFCDEESF------EFEECCIDAETERC--EEKESPLPPVLQEHDLFWDDN 67
           +  P  LDGL+C+EE F      E EE    +E E+C  E+K+S  P  L EHDLFW+D+
Sbjct: 11  QNAPFFLDGLYCEEERFGDDDDGEVEEA---SEIEKCDREKKQSLFPLTLLEHDLFWEDD 67

Query: 68  ELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRF 127
           EL SLI KE++ +   S  ISD  L +AR + VEW+L+V AH+GF+ALTA+LAVNYFDRF
Sbjct: 68  ELCSLISKEEQAHHCYSGIISDGFLTVARTKAVEWMLKVNAHYGFSALTAVLAVNYFDRF 127

Query: 128 ILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLV 187
           + S  FQ+DKPWM QL AV CLSLAAKVDET VPLLLDLQV++ KYVFEAKTIQRMELLV
Sbjct: 128 LSSSCFQRDKPWMSQLAAVTCLSLAAKVDETDVPLLLDLQVEEXKYVFEAKTIQRMELLV 187

Query: 188 LSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLA 247
           LS+LQW+MNPVTPISFFDHI+RRLGLKTHLHWEFL RCE LLLSVIADSRF+CYLPSTLA
Sbjct: 188 LSSLQWKMNPVTPISFFDHIIRRLGLKTHLHWEFLERCERLLLSVIADSRFLCYLPSTLA 247

Query: 248 TATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELSRGNG-SQNQSCKRKH 306
           TATMLH I EVEPCNP+E+QN L+ VL IS+B + +CY LILE    +G +QNQ+ KRKH
Sbjct: 248 TATMLHIITEVEPCNPLEYQNQLLSVLKISKBDVDDCYKLILEFLGXHGHTQNQTHKRKH 307

Query: 307 FPLPGSPSCIIDANFSCDSSNDSWPAASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVDV 366
             LP SPS I DA FSCDSS+DSW  A+  SS  +P FK+SR   QQMRLPSL R  VDV
Sbjct: 308 LSLPSSPSGIFDAPFSCDSSSDSWAMATSISSSSQPLFKKSRAQDQQMRLPSLNRVSVDV 367

Query: 367 LSSPR 371
           LSSPR
Sbjct: 368 LSSPR 372

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225438825|ref|XP_002283380.1| PREDICTED: cyclin-D3-2 [Vitis vinifera] Back     alignment and taxonomy information
>gi|224081763|ref|XP_002306487.1| predicted protein [Populus trichocarpa] gi|159025721|emb|CAN88861.1| D3-type cyclin [Populus trichocarpa] gi|222855936|gb|EEE93483.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|118482952|gb|ABK93388.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information
>gi|29374148|gb|AAO72990.1| cyclin D [Populus alba] Back     alignment and taxonomy information
>gi|224096702|ref|XP_002310704.1| predicted protein [Populus trichocarpa] gi|159025719|emb|CAN88860.1| D3-type cyclin [Populus trichocarpa] gi|222853607|gb|EEE91154.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|89111301|dbj|BAE80325.1| cyclin D3-2 [Camellia sinensis] Back     alignment and taxonomy information
>gi|296087399|emb|CBI33773.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255567883|ref|XP_002524919.1| cyclin d, putative [Ricinus communis] gi|223535754|gb|EEF37416.1| cyclin d, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|33517432|gb|AAQ19972.1| cyclin D3-2 [Euphorbia esula] 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 ?
Query371
TAIR|locus:2157172367 CYCD3;2 "AT5G67260" [Arabidops 0.819 0.828 0.549 1e-82
TAIR|locus:2124331376 CYCD3;1 "CYCLIN D3;1" [Arabido 0.770 0.760 0.559 2.2e-80
TAIR|locus:2083128361 CYCD3;3 "AT3G50070" [Arabidops 0.870 0.894 0.485 6e-80
TAIR|locus:2020663339 CYCD1;1 "CYCLIN D1;1" [Arabido 0.622 0.681 0.394 7.2e-36
TAIR|locus:2142504298 CYCD4;2 "AT5G10440" [Arabidops 0.423 0.526 0.405 1.5e-26
TAIR|locus:2120081323 CYCD5;1 "AT4G37630" [Arabidops 0.544 0.625 0.328 6.8e-24
TAIR|locus:2185178341 CYCD7;1 "AT5G02110" [Arabidops 0.536 0.583 0.283 1.5e-21
TAIR|locus:2125522302 CYCD6;1 "AT4G03270" [Arabidops 0.536 0.658 0.314 8e-21
UNIPROTKB|Q10QA2345 CYCD5-3 "Cyclin-D5-3" [Oryza s 0.506 0.544 0.323 3.1e-19
ZFIN|ZDB-GENE-980526-176291 ccnd1 "cyclin D1" [Danio rerio 0.671 0.855 0.282 1.9e-12
TAIR|locus:2157172 CYCD3;2 "AT5G67260" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 829 (296.9 bits), Expect = 1.0e-82, P = 1.0e-82
 Identities = 173/315 (54%), Positives = 220/315 (69%)

Query:    61 DLF-WDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAIL 119
             D+F WDD+E+LSLI KE + N    + I D  L+  RKE ++WVLRVK+H+GFT+LTAIL
Sbjct:    60 DMFLWDDDEILSLISKENETNPCFGEQILDGFLVSCRKEALDWVLRVKSHYGFTSLTAIL 119

Query:   120 AVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKT 179
             AVNYFDRF+ S   Q DKPWM QLVAVA LSLAAKV+E QVPLLLDLQV++ +Y+FEAKT
Sbjct:   120 AVNYFDRFMTSIKLQTDKPWMSQLVAVASLSLAAKVEEIQVPLLLDLQVEEARYLFEAKT 179

Query:   180 IQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFM 239
             IQRMELL+LSTLQWRM+PVTPISFFDHI+RR G K H   +F  +CE LL+SVIAD+RFM
Sbjct:   180 IQRMELLILSTLQWRMHPVTPISFFDHIIRRFGSKWHQQLDFCRKCERLLISVIADTRFM 239

Query:   240 CYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELSRGNGSQN 299
              Y PS LATA M+   +E++PC+ VE+Q+ +  +L ++Q+K+ ECY L+LE        N
Sbjct:   240 RYFPSVLATAIMILVFEELKPCDEVEYQSQITTLLKVNQEKVNECYELLLE-------HN 292

Query:   300 QSCKRK-HFPLPGSPSCIIDANFSCDSSNDXXXXXXXXXXXXXXX--XXXXXIHVQQMRL 356
              S KR  +     SPS ++D + S +SS +                      +  QQMRL
Sbjct:   293 PSKKRMMNLVDQDSPSGVLDFDDSSNSSWNVSTTASVSSSSSSPEPLLKRRRVQEQQMRL 352

Query:   357 PSLTRTFVDVLSSPR 371
             PS+ R F+DVLSSPR
Sbjct:   353 PSINRMFLDVLSSPR 367
GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISM;IEA
GO:0051726 "regulation of cell cycle" evidence=ISS
GO:0042127 "regulation of cell proliferation" evidence=IGI;RCA
GO:0005515 "protein binding" evidence=IPI
GO:0048316 "seed development" evidence=IGI
GO:0010440 "stomatal lineage progression" evidence=RCA
TAIR|locus:2124331 CYCD3;1 "CYCLIN D3;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2083128 CYCD3;3 "AT3G50070" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2020663 CYCD1;1 "CYCLIN D1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2142504 CYCD4;2 "AT5G10440" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2120081 CYCD5;1 "AT4G37630" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2185178 CYCD7;1 "AT5G02110" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2125522 CYCD6;1 "AT4G03270" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q10QA2 CYCD5-3 "Cyclin-D5-3" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-980526-176 ccnd1 "cyclin D1" [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) ?
Q9FGQ7CCD32_ARATHNo assigned EC number0.54940.91100.9209yesno

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:
GSVIVG00019560001
SubName- Full=Chromosome chr7 scaffold_20, whole genome shotgun sequence; (372 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query371
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 3e-32
cd0004388 cd00043, CYCLIN, Cyclin box fold 1e-15
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 2e-13
pfam02984117 pfam02984, Cyclin_C, Cyclin, C-terminal domain 5e-11
COG5024440 COG5024, COG5024, Cyclin [Cell division and chromo 3e-09
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score =  117 bits (296), Expect = 3e-32
 Identities = 44/130 (33%), Positives = 62/130 (47%), Gaps = 7/130 (5%)

Query: 69  LLSLICKEKKENFVPSDPISD--EILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDR 126
              L   E+ E+  P D +    +I    R  +++W++ V   F     T  LAVNY DR
Sbjct: 3   YAYLRELEE-EDRPPPDYLDQQPDINPKMRAILIDWLVEVHEEFKLLPETLYLAVNYLDR 61

Query: 127 FILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELL 186
           F+   S Q       QLV V CL +AAK +E   P + D         +  + I RMELL
Sbjct: 62  FL---SKQPVPRTKLQLVGVTCLLIAAKYEEIYPPSVEDFVYIT-DNAYTKEEILRMELL 117

Query: 187 VLSTLQWRMN 196
           +LSTL W ++
Sbjct: 118 ILSTLNWDLS 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|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>gnl|CDD|217307 pfam02984, Cyclin_C, Cyclin, C-terminal domain Back     alignment and domain information
>gnl|CDD|227357 COG5024, COG5024, Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 371
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 100.0
KOG0655408 consensus G1/S-specific cyclin E [Cell cycle contr 100.0
KOG0653391 consensus Cyclin B and related kinase-activating p 99.97
COG5024440 Cyclin [Cell division and chromosome partitioning] 99.97
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 99.92
TIGR00569305 ccl1 cyclin ccl1. University). 99.9
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.89
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.88
KOG0835367 consensus Cyclin L [General function prediction on 99.85
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.84
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.75
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.52
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.43
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.43
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.42
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.34
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 98.86
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.66
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 98.29
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.19
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.16
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 98.14
KOG1598 521 consensus Transcription initiation factor TFIIIB, 97.79
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 95.76
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 95.57
KOG1674218 consensus Cyclin [General function prediction only 94.58
PRK00423310 tfb transcription initiation factor IIB; Reviewed 92.77
PF09080106 K-cyclin_vir_C: K cyclin, C terminal; InterPro: IP 92.01
PF09241106 Herp-Cyclin: Herpesviridae viral cyclin; InterPro: 86.7
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 81.18
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=2.3e-56  Score=428.02  Aligned_cols=288  Identities=43%  Similarity=0.633  Sum_probs=240.4

Q ss_pred             CCCCHHHHHHHHHHHhhcCC--CC-CCCCCchhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCC
Q 017441           62 LFWDDNELLSLICKEKKENF--VP-SDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKP  138 (371)
Q Consensus        62 ~f~~~e~l~~Ll~~E~~~~~--~~-~~~q~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAV~ylDRfls~~~v~~~~p  138 (371)
                      +.|++|.+.+|+++|.++.|  +| ..+++. +++.+|.++++||++||+++++.++|++|||||||||++.+++++.+|
T Consensus        42 ~~~~e~~i~~ll~kEe~~~p~~~~~~~~~~~-~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~  120 (335)
T KOG0656|consen   42 LLWDERVLANLLEKEEQHNPSLDYFLCVQKL-ILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKP  120 (335)
T ss_pred             ccccHHHHHHHHHHHHHhCCCCchhhhcccc-cccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCch
Confidence            78999999999999999988  33 344444 889999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHHhhcccccCccccchhhccCCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCccc
Q 017441          139 WMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLH  218 (371)
Q Consensus       139 ~~lqLlavaCL~LAaK~eE~~vp~l~dl~v~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~  218 (371)
                      |++||+|+|||+||||+||+.+|.+.|++|.+.+|.|++++|+|||++||++|+|+|+++||++|+++|+++++..+...
T Consensus       121 W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~  200 (335)
T KOG0656|consen  121 WMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNK  200 (335)
T ss_pred             HHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999987777


Q ss_pred             HHHHHHHHHHHHHHhchhhccCCcHHHHHHHHHHHHHHhcCCCCccchHHHHHHHhCCCHHHHHHHHHHHHHHHhccCCC
Q 017441          219 WEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQDKLKECYLLILELSRGNGSQ  298 (371)
Q Consensus       219 ~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAai~~a~~~l~~~~~~~~~~~L~~~~~i~~e~l~~C~~~i~el~~~~~~~  298 (371)
                      ..++.++..+++.+.+|.+|++|+||+||+|++..+...+.+.....+...+..+++++++.+..|+.  ..+.      
T Consensus       201 ~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~--~~~~------  272 (335)
T KOG0656|consen  201 HLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD--HFLS------  272 (335)
T ss_pred             HHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh--hhhh------
Confidence            78899999999999999999999999999999999998887666666667888899999999999998  0000      


Q ss_pred             CCcccccCCCCCCCcccccccccccCCCCCCCC--CCCCCCCCCCCCcccccchhhhccCCCCCeeeeecc
Q 017441          299 NQSCKRKHFPLPGSPSCIIDANFSCDSSNDSWP--AASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVDVL  367 (371)
Q Consensus       299 ~~~~~~k~~s~p~sP~~V~d~~~s~~s~~~s~~--~~s~~~s~~~~~~kr~~~~~~~~~~~~~~~~~~~~~  367 (371)
                               ....++.++++.--+.++..-+-.  +.++..++++|..|+||.+.++++..+..+..+..+
T Consensus       273 ---------~~~~~~~~~l~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~rr~~~~~~~~~s~~~~~~~~l  334 (335)
T KOG0656|consen  273 ---------KILNSESDCLRGEASNESGEASLRDSSSSSSQSPNSPSLKKRRVSSDKERKQSSPPTEVRDL  334 (335)
T ss_pred             ---------hccCCccccccHHHHhhhhcccccccchhccCCCCcccccccccccccccccCCCCcccccc
Confidence                     022344455553111111111100  111222223677789999999999998888776654

>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>COG5024 Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>TIGR00569 ccl1 cyclin ccl1 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
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] Back     alignment and domain information
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>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
>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
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] Back     alignment and domain information
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>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
>PF09080 K-cyclin_vir_C: K cyclin, C terminal; InterPro: IPR015164 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
>PF09241 Herp-Cyclin: Herpesviridae viral cyclin; InterPro: IPR015322 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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query371
3g33_B306 Crystal Structure Of Cdk4CYCLIN D3 Length = 306 3e-10
1vyw_B265 Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 1e-06
4bco_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 1e-06
3dog_B264 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 1e-06
4bcq_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 1e-06
4bcq_D262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 1e-06
2g9x_B262 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 1e-06
1vin_A268 Bovine Cyclin A3 Length = 268 1e-06
1fin_B260 Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 1e-06
3ddq_B269 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 1e-06
3ddp_B268 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 1e-06
3bht_B262 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 1e-06
1qmz_B259 Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Com 1e-06
2x1n_B261 Truncation And Optimisation Of Peptide Inhibitors O 1e-06
1ogu_B260 Structure Of Human Thr160-phospho Cdk2/cyclin A Com 1e-06
1jst_B258 Phosphorylated Cyclin-Dependent Kinase-2 Bound To C 1e-06
1e9h_B261 Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex 1e-06
3f5x_B256 Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Boun 2e-06
3qhr_B261 Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic 2e-06
4ii5_B258 Structure Of Pcdk2/cyclina Bound To Adp And 1 Magne 2e-06
4i3z_B257 Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNES 2e-06
1w98_B283 The Structural Basis Of Cdk2 Activation By Cyclin E 4e-05
2w96_A271 Crystal Structure Of Cdk4 In Complex With A D-Type 2e-04
2b9r_A269 Crystal Structure Of Human Cyclin B1 Length = 269 2e-04
2jgz_B260 Crystal Structure Of Phospho-Cdk2 In Complex With C 2e-04
2w9z_A257 Crystal Structure Of Cdk4 In Complex With A D-Type 2e-04
>pdb|3G33|B Chain B, Crystal Structure Of Cdk4CYCLIN D3 Length = 306 Back     alignment and structure 
Iteration: 1

 Score = 62.8 bits (151), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 65/245 (26%), Positives = 99/245 (40%), Gaps = 12/245 (4%)
Query: 46  CEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENFVPSDP----ISDEILILARKEVVE 101
           C E     P    +  L  D   L SL+  E  E +VP       +  EI    RK +  
Sbjct: 19  CCEGTRHAPRAGPDPRLLGDQRVLQSLLRLE--ERYVPRASYFQCVQREIKPHMRKMLAY 76
Query: 102 WVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVP 161
           W+L V            LA+NY DR++     +K +    QL+   C+ LA+K+ ET  P
Sbjct: 77  WMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTRKAQL---QLLGAVCMLLASKLRET-TP 132
Query: 162 LLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEF 221
           L ++       +    + ++  E+LVL  L+W +  V    F   I+ RL L        
Sbjct: 133 LTIEKLCIYTDHAVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLSLPRDRQALV 192
Query: 222 LYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPV--EHQNLLMGVLNISQD 279
               +  L     D  F  Y PS +AT ++   +Q +  C+    E   LL G+     D
Sbjct: 193 KKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITGTEVD 252
Query: 280 KLKEC 284
            L+ C
Sbjct: 253 CLRAC 257
>pdb|1VYW|B Chain B, Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 265 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|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|2G9X|B Chain B, Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN COMPLEX WITH THE Inhibitor Nu6271 Length = 262 Back     alignment and structure
>pdb|1VIN|A Chain A, Bovine Cyclin A3 Length = 268 Back     alignment and structure
>pdb|1FIN|B Chain B, Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 260 Back     alignment and structure
>pdb|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|1QMZ|B Chain B, Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Complex Length = 259 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|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|1JST|B Chain B, Phosphorylated Cyclin-Dependent Kinase-2 Bound To Cyclin A Length = 258 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|3F5X|B Chain B, Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Bound At Its Active Site Length = 256 Back     alignment and structure
>pdb|3QHR|B Chain B, Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic Length = 261 Back     alignment and structure
>pdb|4II5|B Chain B, Structure Of Pcdk2/cyclina Bound To Adp And 1 Magnesium Ion Length = 258 Back     alignment and structure
>pdb|4I3Z|B Chain B, Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNESIUM IONS Length = 257 Back     alignment and structure
>pdb|1W98|B Chain B, The Structural Basis Of Cdk2 Activation By Cyclin E Length = 283 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|2B9R|A Chain A, Crystal Structure Of Human Cyclin B1 Length = 269 Back     alignment and structure
>pdb|2JGZ|B Chain B, Crystal Structure Of Phospho-Cdk2 In Complex With Cyclin B Length = 260 Back     alignment and structure
>pdb|2W9Z|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 257 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query371
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 3e-46
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 2e-41
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 8e-31
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 8e-26
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 7e-25
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 2e-23
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 1e-22
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 8e-21
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 4e-15
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 8e-15
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 3e-13
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 1e-11
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 2e-10
2ivx_A257 Cyclin-T2; transcription regulation, cell division 2e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-04
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} Length = 306 Back     alignment and structure
 Score =  159 bits (403), Expect = 3e-46
 Identities = 69/287 (24%), Positives = 111/287 (38%), Gaps = 18/287 (6%)

Query: 28  DEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENFVPS--- 84
           D++S       +  E  R   +  P P       L  D   L SL+  E++  +VP    
Sbjct: 7   DDKSPGGSMELLCCEGTRHAPRAGPDP------RLLGDQRVLQSLLRLEER--YVPRASY 58

Query: 85  -DPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQL 143
              +  EI    RK +  W+L V            LA+NY DR++     +K +    QL
Sbjct: 59  FQCVQREIKPHMRKMLAYWMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTRKAQL---QL 115

Query: 144 VAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISF 203
           +   C+ LA+K+ ET  PL ++       +    + ++  E+LVL  L+W +  V    F
Sbjct: 116 LGAVCMLLASKLRET-TPLTIEKLCIYTDHAVSPRQLRDWEVLVLGKLKWDLAAVIAHDF 174

Query: 204 FDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNP 263
              I+ RL L            +  L     D  F  Y PS +AT ++   +Q +  C+ 
Sbjct: 175 LAFILHRLSLPRDRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSM 234

Query: 264 VEHQ--NLLMGVLNISQDKLKECYLLILELSRGNGSQNQSCKRKHFP 308
              +   LL G+     D L+ C   I    R +  +         P
Sbjct: 235 SGDELTELLAGITGTEVDCLRACQEQIEAALRESLREAAQTSSSPAP 281
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A Length = 271 Back     alignment and structure
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 Length = 252 Back     alignment and structure
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Length = 257 Back     alignment and structure
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Length = 254 Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Length = 260 Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Length = 269 Back     alignment and structure
>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
>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
>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
>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
>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
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Length = 285 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
>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 ?
Query371
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 100.0
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 100.0
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 100.0
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 100.0
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 100.0
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 100.0
2ivx_A257 Cyclin-T2; transcription regulation, cell division 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 99.98
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.97
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.97
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.93
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.88
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.69
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.29
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 98.17
1ais_B200 TFB TFIIB, protein (transcription initiation facto 95.84
1c9b_A207 General transcription factor IIB; protein-DNA comp 95.11
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 90.93
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 88.46
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 86.07
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 84.78
2ivx_A257 Cyclin-T2; transcription regulation, cell division 82.92
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 81.83
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=1.4e-46  Score=363.05  Aligned_cols=233  Identities=26%  Similarity=0.331  Sum_probs=199.0

Q ss_pred             ccCCCCCCHHHHHHHHHHHhhcCC--CC-CCCCCchhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCccc
Q 017441           58 QEHDLFWDDNELLSLICKEKKENF--VP-SDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQ  134 (371)
Q Consensus        58 ~~~~~f~~~e~l~~Ll~~E~~~~~--~~-~~~q~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAV~ylDRfls~~~v~  134 (371)
                      -|++++|++|++.+|+++|.++.|  +| ...|.+ +++.+|..+|+||.+|+.+|+++++|+++||+|||||+++..+.
T Consensus        31 ~dp~l~~~~~i~~~l~~~E~~~~p~~~y~~~~q~~-i~~~~R~~lvdwl~ev~~~~~l~~~t~~lAv~~lDRfls~~~v~  109 (306)
T 3g33_B           31 PDPRLLGDQRVLQSLLRLEERYVPRASYFQCVQRE-IKPHMRKMLAYWMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTR  109 (306)
T ss_dssp             ------CHHHHHHHHHHHGGGGSCSSCCTTTSTTT-CCHHHHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHCCCC
T ss_pred             CCCcccchHHHHHHHHHHHHHhCCCcHHHhhcCcc-CCHHHHHHHHHHHHHHHHHhCCcHhHHHHHHHHHHHHHhcCCCc
Confidence            457788999999999999999987  45 445665 99999999999999999999999999999999999999999888


Q ss_pred             CCCCchhHHHHHHHHHHhhcccccCccccchh-hccCCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCC
Q 017441          135 KDKPWMGQLVAVACLSLAAKVDETQVPLLLDL-QVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGL  213 (371)
Q Consensus       135 ~~~p~~lqLlavaCL~LAaK~eE~~vp~l~dl-~v~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~  213 (371)
                      +.+   +||+|+|||+||+|+||..+|.+.++ .+++  +.|++++|++||+.||++|+|++++|||++||.+|++.++.
T Consensus       110 ~~~---lqLv~~tcL~lAsK~eE~~p~~~~~l~~~~~--~~~~~~~i~~mE~~IL~~L~f~l~~~tp~~fl~~~l~~l~~  184 (306)
T 3g33_B          110 KAQ---LQLLGAVCMLLASKLRETTPLTIEKLCIYTD--HAVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLSL  184 (306)
T ss_dssp             GGG---HHHHHHHHHHHHHHHHCSSCCCTTHHHHHTT--TSSCHHHHHHHHHHHHHHTTTCCCCCCGGGGHHHHHHTSSC
T ss_pred             HHH---HHHHHHHHHHHHHHhccCCCCCHHHHHHHhc--cCccHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHHcCC
Confidence            655   99999999999999999999999998 5554  45689999999999999999999999999999999999887


Q ss_pred             CCcccHHHHHHHHHHHHHHhchhhccCCcHHHHHHHHHHHHHHhcCCCC--ccchHHHHHHHhCCCHHHHHHHHHHHHHH
Q 017441          214 KTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCN--PVEHQNLLMGVLNISQDKLKECYLLILEL  291 (371)
Q Consensus       214 ~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAai~~a~~~l~~~~--~~~~~~~L~~~~~i~~e~l~~C~~~i~el  291 (371)
                      ...........+.+++..++.++.|+.|+||+||||||++|+..++...  ...|.+.|..++|++.++|.+|++.|.++
T Consensus       185 ~~~~~~~~~~~a~~~l~lsl~d~~~l~~~PS~IAaAai~lA~~~l~~~~~w~~~w~~~L~~~tg~~~~~l~~c~~~I~~l  264 (306)
T 3g33_B          185 PRDRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITGTEVDCLRACQEQIEAA  264 (306)
T ss_dssp             CTTTHHHHHHHHHHHHHHHHHCGGGTTSCHHHHHHHHHHHHHHTCC---CCHHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHHHHHhhhhhccCCHHHHHHHHHHHHHHHhcCCCCchhhHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            6543322335577888889999999999999999999999999887432  23467888899999999999999999999


Q ss_pred             HhccC
Q 017441          292 SRGNG  296 (371)
Q Consensus       292 ~~~~~  296 (371)
                      +.+..
T Consensus       265 ~~~~l  269 (306)
T 3g33_B          265 LRESL  269 (306)
T ss_dssp             HHTC-
T ss_pred             HHHHH
Confidence            98753
>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
>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
>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
>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
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>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
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} 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
>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

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 371
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 8e-27
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 2e-26
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 4e-23
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 3e-22
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 6e-21
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 8e-21
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 3e-19
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 8e-18
>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

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: G1/S-specific cyclin-E1
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  101 bits (253), Expect = 8e-27
 Identities = 34/149 (22%), Positives = 66/149 (44%), Gaps = 12/149 (8%)

Query: 51  SPLPPVLQEHDLFWDDNELLSLICKEKKENFVPSD---PISDEILILARKEVVEWVLRVK 107
           SPLP       L W + E +  I   K++ ++           +    R  +++W++ V 
Sbjct: 1   SPLP------VLSWANREEVWKIMLNKEKTYLRDQHFLEQHPLLQPKMRAILLDWLMEVC 54

Query: 108 AHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQ 167
             +     T  LA ++FDR++ +   +     + QL+ ++ L +AAK++E   P L    
Sbjct: 55  EVYKLHRETFYLAQDFFDRYMATQ--ENVVKTLLQLIGISSLFIAAKLEEIYPPKLHQF- 111

Query: 168 VKDPKYVFEAKTIQRMELLVLSTLQWRMN 196
                       I  MEL+++  L+WR++
Sbjct: 112 AYVTDGACSGDEILTMELMIMKALKWRLS 140
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Length = 141 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
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Length = 132 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
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Length = 127 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 ?
Query371
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.96
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.96
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.95
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.95
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.94
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.82
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.79
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.77
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.33
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.6
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.44
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 98.32
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 98.08
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 97.94
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.66
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.44
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.32
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 97.12
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.12
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 96.97
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 96.12
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 95.62
d1f5qb2106 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 94.94
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 91.56
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Viral cyclin
species: Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]

Probab=99.96  E-value=3.4e-30  Score=217.16  Aligned_cols=126  Identities=21%  Similarity=0.277  Sum_probs=115.0

Q ss_pred             CHHHHHHHHHHHhhcCCC--C-CCCCCchhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchh
Q 017441           65 DDNELLSLICKEKKENFV--P-SDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMG  141 (371)
Q Consensus        65 ~~e~l~~Ll~~E~~~~~~--~-~~~q~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAV~ylDRfls~~~v~~~~p~~l  141 (371)
                      +++++.+|++.|.++.|+  | ...|.+ +++.+|..+|+||.+|+.+|+++.+|+++||+|||||+++..+++.+   +
T Consensus         3 ~~~i~~~l~~~E~~~~p~~~y~~~~q~~-it~~~R~~lidWl~~v~~~~~l~~et~~lAv~llDrfls~~~v~~~~---l   78 (132)
T d1g3nc1           3 EDRIFYNILEIEPRFLTSDSVFGTFQQS-LTSHMRKLLGTWMFSVCQEYNLEPNVVALALNLLDRLLLIKQVSKEH---F   78 (132)
T ss_dssp             HHHHHHHHHHHGGGGCCCGGGHHHHTSS-CCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTCCCCHHH---H
T ss_pred             hHHHHHHHHHHHHHHCCChHHHHhcCcc-CCHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCcccCcHHH---H
Confidence            689999999999999983  3 555776 99999999999999999999999999999999999999999998777   9


Q ss_pred             HHHHHHHHHHhhcccccCccccchh-hccCCCccccHHHHHHHHHHHHHHcCcccc
Q 017441          142 QLVAVACLSLAAKVDETQVPLLLDL-QVKDPKYVFEAKTIQRMELLVLSTLQWRMN  196 (371)
Q Consensus       142 qLlavaCL~LAaK~eE~~vp~l~dl-~v~~~~~~f~~~~I~~mE~~IL~~L~w~l~  196 (371)
                      ||+|+|||+||+|+||..+|.+.++ .++++  .|++++|.+||+.||++|+|++.
T Consensus        79 qLia~tcl~iAsK~ee~~~~~~~~l~~~~~~--~~t~~ei~~mE~~IL~~L~w~l~  132 (132)
T d1g3nc1          79 QKTGSACLLVASKLRSLTPISTSSLCYAAAD--SFSRQELIDQEKELLEKLAWRTE  132 (132)
T ss_dssp             HHHHHHHHHHHHHHHCSSCCCHHHHHHHTTT--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHHHHHHHHHhcccCCCCHHHHHHHHcC--CCCHHHHHHHHHHHHHHcCCcCC
Confidence            9999999999999999999999998 55554  56899999999999999999974
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} 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
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1w98b1 a.74.1.1 (B:228-357) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {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
>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
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1f5qb2 a.74.1.1 (B:147-252) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure