Citrus Sinensis ID: 017406

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--
MALPQGNTDAHHHQLETTPLALDGLFCDEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIIDANFSCDSSNDSWPAASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVDVLSSPR
ccccccccccccccccccccccccccccccccccHHHHccccHHcccccccccccccccccccccHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHccccccccccEEEEcccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccccccEEEEEcccccc
cccccccccccccccccccccHHHHcccHHHHccccccccccccccccccccccccHcHccHccHHHHHHHHHHHHHccccccHHHccccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHccccccHHHcEEEEccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccHccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccEEEEEcccccccccccccccccccccccccccccccccccccHHHHcccccccccccHcEEEEEEccccc
malpqgntdahhhqlettplaldglfcdeesfefEECCIDAEterceekesplppvlqehdlfwddNELLSLICKekkenfvpsdpisDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFilshsfqkdkpwmGQLVAVACLSLAAkvdetqvpllldlqvkdpkyvfEAKTIQRMELLVLSTLQwrmnpvtpisfFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIAdsrfmcylpstLATATMLHTiqevepcnpvehqnLLMGVLNISQQDKLKECYLLILELsrgngsqnqsckrkhfplpgspsciidanfscdssndswpaaspfssppeprfkrsrihvqqmrlpsltrTFVDVLSSPR
malpqgntdahhhqlETTPLALDGLFCDEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEkkenfvpsdpiSDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETqvpllldlqvkdpKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIIDANFSCDSSNDSWPAASPFSSPPEPRFKRSRIhvqqmrlpsltrtfvdvlsspr
MALPQGNTDAHHHQLETTPLALDGLfcdeesfefeeccIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIIDANFSCDSSNDswpaaspfssppeprfkrsrIHVQQMRLPSLTRTFVDVLSSPR
*****************TPLALDGLFCDEESFEFEECCIDAET************VLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELS**********************CIIDANF**************************************************
*************************FCDEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKE************DEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILE************************CIIDANFSCDSS***********************************TFVDVLSSP*
************HQLETTPLALDGLFCDEESFEFEECCIDAE**********LPPVLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSR************HFPLPGSPSCIIDANFSCDSS****************RFKRSRIHVQQMRLPSLTRTFVDVLSSPR
******************PLALDGLFCDEESFE*******AETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIID************************************RLPSLTRTFVDVLS***
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MALPQGNTDAHHHQLETTPLALDGLFCDEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIIDANFSCDSSNDSWPAASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVDVLSSPR
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 ?
Query372 2.2.26 [Sep-21-2011]
Q9FGQ7367 Cyclin-D3-2 OS=Arabidopsi yes no 0.908 0.920 0.547 1e-94
Q9SN11361 Cyclin-D3-3 OS=Arabidopsi no no 0.919 0.947 0.497 8e-85
P42753376 Cyclin-D3-1 OS=Arabidopsi no no 0.803 0.795 0.524 1e-83
P42752361 Cyclin-D2-1 OS=Arabidopsi no no 0.618 0.637 0.359 4e-38
Q10K98405 Putative cyclin-D2-3 OS=O yes no 0.435 0.4 0.445 2e-37
P42751339 Cyclin-D1-1 OS=Arabidopsi no no 0.688 0.755 0.349 4e-35
Q4KYM5383 Cyclin-D4-2 OS=Oryza sati yes no 0.427 0.415 0.415 1e-34
Q6YXH8356 Cyclin-D4-1 OS=Oryza sati no no 0.311 0.325 0.586 5e-34
Q8LHA8356 Cyclin-D2-2 OS=Oryza sati no no 0.586 0.612 0.367 5e-34
Q0J233308 Cyclin-D2-1 OS=Oryza sati no no 0.489 0.590 0.392 2e-32
>sp|Q9FGQ7|CCD32_ARATH Cyclin-D3-2 OS=Arabidopsis thaliana GN=CYCD3-2 PE=2 SV=1 Back     alignment and function desciption
 Score =  347 bits (889), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 200/365 (54%), Positives = 252/365 (69%), Gaps = 27/365 (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 TIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNGSQNQSCKR-KHFPLPG 312
             +E++PC+ VE+Q+ +  +L ++Q+ K+ ECY L+LE        N S KR  +     
Sbjct: 254 VFEELKPCDEVEYQSQITTLLKVNQE-KVNECYELLLE-------HNPSKKRMMNLVDQD 305

Query: 313 SPSCIIDANFSCDSSNDSW-----PAASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVDV 367
           SPS ++D +   DSSN SW      + S  SS PEP  KR R+  QQMRLPS+ R F+DV
Sbjct: 306 SPSGVLDFD---DSSNSSWNVSTTASVSSSSSSPEPLLKRRRVQEQQMRLPSINRMFLDV 362

Query: 368 LSSPR 372
           LSSPR
Sbjct: 363 LSSPR 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|Q6YXH8|CCD41_ORYSJ Cyclin-D4-1 OS=Oryza sativa subsp. japonica GN=CYCD4-1 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|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 ?
Query372
225438825372 PREDICTED: cyclin-D3-2 [Vitis vinifera] 0.948 0.948 0.666 1e-132
147810960372 hypothetical protein VITISV_038874 [Viti 0.948 0.948 0.666 1e-132
224081763371 predicted protein [Populus trichocarpa] 0.946 0.948 0.669 1e-128
118482952371 unknown [Populus trichocarpa] 0.946 0.948 0.666 1e-128
29374148371 cyclin D [Populus alba] 0.943 0.946 0.651 1e-124
224096702367 predicted protein [Populus trichocarpa] 0.946 0.959 0.653 1e-121
89111301372 cyclin D3-2 [Camellia sinensis] 0.975 0.975 0.613 1e-115
296087399309 unnamed protein product [Vitis vinifera] 0.755 0.909 0.727 1e-115
33517432355 cyclin D3-2 [Euphorbia esula] 0.927 0.971 0.620 1e-114
255567883276 cyclin d, putative [Ricinus communis] gi 0.739 0.996 0.756 1e-114
>gi|225438825|ref|XP_002283380.1| PREDICTED: cyclin-D3-2 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  478 bits (1230), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 244/366 (66%), Positives = 284/366 (77%), Gaps = 13/366 (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 LSSSCFQRDKPWMSQLAAVTCLSLAAKVDETDVPLLLDLQVEETKYVFEAKTIQRMELLV 187

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

Query: 248 TATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNG-SQNQSCKRK 306
           TATMLH I EVEPCNP+E+QN L+ VL IS+ D + +CY LILE    +G +QNQ+ KRK
Sbjct: 248 TATMLHIITEVEPCNPLEYQNQLLSVLKISKND-VDDCYKLILEFLGSHGHTQNQTHKRK 306

Query: 307 HFPLPGSPSCIIDANFSCDSSNDSWPAASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVD 366
           H  LP SPS I DA FSCDSS+DSW  A+  SS  +P FK+SR   QQMRLPSL R  VD
Sbjct: 307 HLSLPSSPSGIFDAPFSCDSSSDSWAMATSISSSSQPLFKKSRAQDQQMRLPSLNRVSVD 366

Query: 367 VLSSPR 372
           VLSSPR
Sbjct: 367 VLSSPR 372

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|147810960|emb|CAN59802.1| hypothetical protein VITISV_038874 [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|33517432|gb|AAQ19972.1| cyclin D3-2 [Euphorbia esula] 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

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 ?
Query372
TAIR|locus:2157172367 CYCD3;2 "AT5G67260" [Arabidops 0.817 0.828 0.547 9.4e-82
TAIR|locus:2124331376 CYCD3;1 "CYCLIN D3;1" [Arabido 0.768 0.760 0.557 2e-79
TAIR|locus:2083128361 CYCD3;3 "AT3G50070" [Arabidops 0.868 0.894 0.483 5.4e-79
TAIR|locus:2020663339 CYCD1;1 "CYCLIN D1;1" [Arabido 0.620 0.681 0.392 6.5e-35
TAIR|locus:2142504298 CYCD4;2 "AT5G10440" [Arabidops 0.422 0.526 0.405 1.5e-26
TAIR|locus:2120081323 CYCD5;1 "AT4G37630" [Arabidops 0.543 0.625 0.328 6.8e-24
TAIR|locus:2185178341 CYCD7;1 "AT5G02110" [Arabidops 0.534 0.583 0.281 1.1e-21
TAIR|locus:2125522302 CYCD6;1 "AT4G03270" [Arabidops 0.534 0.658 0.312 7.2e-20
UNIPROTKB|Q10QA2345 CYCD5-3 "Cyclin-D5-3" [Oryza s 0.505 0.544 0.323 3.3e-19
ZFIN|ZDB-GENE-070424-30298 ccnd2a "cyclin D2, a" [Danio r 0.583 0.728 0.288 4e-12
TAIR|locus:2157172 CYCD3;2 "AT5G67260" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 820 (293.7 bits), Expect = 9.4e-82, P = 9.4e-82
 Identities = 173/316 (54%), Positives = 220/316 (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 CYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNGSQ 299
              Y PS LATA M+   +E++PC+ VE+Q+ +  +L ++Q+ K+ ECY L+LE        
Sbjct:   240 RYFPSVLATAIMILVFEELKPCDEVEYQSQITTLLKVNQE-KVNECYELLLE-------H 291

Query:   300 NQSCKRK-HFPLPGSPSCIIDANFSCDSSNDXXXXXXXXXXXXXXX--XXXXXIHVQQMR 356
             N S KR  +     SPS ++D + S +SS +                      +  QQMR
Sbjct:   292 NPSKKRMMNLVDQDSPSGVLDFDDSSNSSWNVSTTASVSSSSSSPEPLLKRRRVQEQQMR 351

Query:   357 LPSLTRTFVDVLSSPR 372
             LPS+ R F+DVLSSPR
Sbjct:   352 LPSINRMFLDVLSSPR 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-070424-30 ccnd2a "cyclin D2, a" [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 number0.54790.90860.9209yesno

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

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 ?
Query372
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 2e-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-10
COG5024440 COG5024, COG5024, Cyclin [Cell division and chromo 1e-09
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score =  117 bits (296), Expect = 2e-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 372
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 99.98
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). 99.89
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.88
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.88
KOG0835367 consensus Cyclin L [General function prediction on 99.83
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.8
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.72
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.49
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.42
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.4
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.36
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.32
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 98.84
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.57
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 98.21
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 98.11
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.1
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.08
KOG1598 521 consensus Transcription initiation factor TFIIIB, 97.78
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 95.31
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 94.92
KOG1674218 consensus Cyclin [General function prediction only 94.52
PRK00423310 tfb transcription initiation factor IIB; Reviewed 91.57
PF09241106 Herp-Cyclin: Herpesviridae viral cyclin; InterPro: 83.9
PF09080106 K-cyclin_vir_C: K cyclin, C terminal; InterPro: IP 83.11
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 80.15
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=1.1e-56  Score=430.61  Aligned_cols=319  Identities=41%  Similarity=0.592  Sum_probs=254.0

Q ss_pred             cCcccccCCCCccccccccccccccccCCCCCCCCccccCCCCCCHHHHHHHHHHHHhcCC--CC-CCCCCchhhHHHHH
Q 017406           21 ALDGLFCDEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENF--VP-SDPISDEILILARK   97 (372)
Q Consensus        21 ~~~~l~c~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~e~l~~Ll~kE~~~~~--~~-~~~q~~~i~~~~R~   97 (372)
                      ..|.|+|+|+.+.++.+.  ...    ..+...+.+...+.++|++|.+.+|+++|.++.|  +| ..+++. +++.+|.
T Consensus         7 ~e~~l~c~E~~~~~~~~~--~~~----D~~~~~~~~~~~~~~~~~e~~i~~ll~kEe~~~p~~~~~~~~~~~-~~~~~R~   79 (335)
T KOG0656|consen    7 MESQLLCHEESTSDEQDR--ADN----DESSTESSIPQLGFLLWDERVLANLLEKEEQHNPSLDYFLCVQKL-ILSSMRK   79 (335)
T ss_pred             cccccccCCCCccccccc--ccC----CcccccccccccccccccHHHHHHHHHHHHHhCCCCchhhhcccc-cccHHHH
Confidence            456799999866543110  000    0111111111112278999999999999999998  33 333444 8899999


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccceeecCCCccccH
Q 017406           98 EVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEA  177 (372)
Q Consensus        98 ~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl~v~~~~~~ft~  177 (372)
                      ++++||++||+++++.++|++|||||||||++.+++++.+||++||+|+|||+||||+||+.+|.+.|++|.+.+|+|++
T Consensus        80 ~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~fea  159 (335)
T KOG0656|consen   80 QALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEA  159 (335)
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHh
Q 017406          178 KTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQE  257 (372)
Q Consensus       178 ~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~  257 (372)
                      ++|++||++||++|+|+|+++||++|+++|+++++........++.++..+++.+..|.+|++|+||+||+|+++.+...
T Consensus       160 ktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~  239 (335)
T KOG0656|consen  160 KTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSAS  239 (335)
T ss_pred             HHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999988777889999999999999999999999999999999999988


Q ss_pred             cCCCCCcCcccchhhhcCCChHHHHHHHHHHHHHHHhcCCCCCcccccccCCCCCCcccccccccccCCCCCCCCC----
Q 017406          258 VEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIIDANFSCDSSNDSWPA----  333 (372)
Q Consensus       258 l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i~el~~~~~~~~~~~~~k~~s~p~SP~~V~d~~~s~d~~~~s~~~----  333 (372)
                      +.+.....+.+.+..++++++ +.+..|+.  .. +.              ....++.++++.    +.++.+|..    
T Consensus       240 ~~~l~~~~~~~~~~~~~~l~~-e~~~~~~~--~~-~~--------------~~~~~~~~~l~~----~~~~~~~~~~~~~  297 (335)
T KOG0656|consen  240 VDGLDFREYENNLLSLLSLSK-EKVNRCYD--HF-LS--------------KILNSESDCLRG----EASNESGEASLRD  297 (335)
T ss_pred             hcchhhhhhhHHHHHHHHhhH-Hhhhcchh--hh-hh--------------hccCCccccccH----HHHhhhhcccccc
Confidence            876665556678888899999 99999998  00 00              123345555553    222222211    


Q ss_pred             --CCCCCCCCCCCCcccchhhhhccCCCCceEEeecc
Q 017406          334 --ASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVDVL  368 (372)
Q Consensus       334 --~s~~~s~~~~~~k~~~~~~~~~~~~~~~~~~~~~~  368 (372)
                        .++..++++|..|+||.+.++++..+..+..+..+
T Consensus       298 ~~~~s~~~~~~~~~~~rr~~~~~~~~~s~~~~~~~~l  334 (335)
T KOG0656|consen  298 SSSSSSQSPNSPSLKKRRVSSDKERKQSSPPTEVRDL  334 (335)
T ss_pred             cchhccCCCCcccccccccccccccccCCCCcccccc
Confidence              11222223677789999999999998888776654

>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
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning] 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
>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
>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
>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
>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 ?
Query372
3g33_B306 Crystal Structure Of Cdk4CYCLIN D3 Length = 306 3e-09
1vyw_B265 Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 1e-06
3dog_B264 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 1e-06
4bco_B262 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
4bcq_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 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
4bcq_D262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 1e-06
1e9h_B261 Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex 1e-06
2x1n_B261 Truncation And Optimisation Of Peptide Inhibitors O 1e-06
1qmz_B259 Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Com 1e-06
1ogu_B260 Structure Of Human Thr160-phospho Cdk2/cyclin A Com 2e-06
1jst_B258 Phosphorylated Cyclin-Dependent Kinase-2 Bound To C 2e-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 = 59.7 bits (143), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 65/246 (26%), Positives = 101/246 (41%), Gaps = 13/246 (5%)
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--EHQNLLMGVLNISQQ 279
               +  L     D  F  Y PS +AT ++   +Q +  C+    E   LL G+   ++ 
Sbjct: 193 KKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITG-TEV 251
Query: 280 DKLKEC 285
           D L+ C
Sbjct: 252 DCLRAC 257
>pdb|1VYW|B Chain B, Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 265 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|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|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|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|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|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|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|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|1QMZ|B Chain B, Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Complex Length = 259 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|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 ?
Query372
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 1e-44
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 2e-40
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 2e-29
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 2e-24
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 3e-23
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 2e-22
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 1e-21
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 1e-20
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 8e-14
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 2e-13
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 5e-13
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 3e-10
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 6e-09
2ivx_A257 Cyclin-T2; transcription regulation, cell division 8e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-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 =  155 bits (393), Expect = 1e-44
 Identities = 68/288 (23%), Positives = 110/288 (38%), Gaps = 19/288 (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--NLLMGVLNISQQDKLKECYLLILELSRGNGSQNQSCKRKHFP 309
              +   LL G+        L+ C   I    R +  +         P
Sbjct: 235 SGDELTELLAGITGTEVDC-LRACQEQIEAALRESLREAAQTSSSPAP 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 ?
Query372
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
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 100.0
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 100.0
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 100.0
2ivx_A257 Cyclin-T2; transcription regulation, cell division 100.0
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 99.97
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.97
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.96
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.93
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.86
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.68
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.28
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 98.12
1ais_B200 TFB TFIIB, protein (transcription initiation facto 95.3
1c9b_A207 General transcription factor IIB; protein-DNA comp 94.62
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 89.48
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 86.22
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 84.21
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 81.81
3h4c_A260 Transcription factor TFIIB-like; cyclin, transcrip 80.32
>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=2.3e-46  Score=361.82  Aligned_cols=234  Identities=26%  Similarity=0.322  Sum_probs=197.8

Q ss_pred             cccCCCCCCHHHHHHHHHHHHhcCC--CC-CCCCCchhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcc
Q 017406           57 LQEHDLFWDDNELLSLICKEKKENF--VP-SDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSF  133 (372)
Q Consensus        57 ~~~~~~f~~~e~l~~Ll~kE~~~~~--~~-~~~q~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v  133 (372)
                      .-|++++|++|++.+|+++|.++.|  +| ...|.+ +++.+|..+|+||.+|+.+|+++++|+++||+|||||++...+
T Consensus        30 ~~dp~l~~~~~i~~~l~~~E~~~~p~~~y~~~~q~~-i~~~~R~~lvdwl~ev~~~~~l~~~t~~lAv~~lDRfls~~~v  108 (306)
T 3g33_B           30 GPDPRLLGDQRVLQSLLRLEERYVPRASYFQCVQRE-IKPHMRKMLAYWMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPT  108 (306)
T ss_dssp             -------CHHHHHHHHHHHGGGGSCSSCCTTTSTTT-CCHHHHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHCCC
T ss_pred             CCCCcccchHHHHHHHHHHHHHhCCCcHHHhhcCcc-CCHHHHHHHHHHHHHHHHHhCCcHhHHHHHHHHHHHHHhcCCC
Confidence            3467778999999999999999987  45 445655 9999999999999999999999999999999999999999988


Q ss_pred             cCCCCchhHHHHHHHHHhhhhccccCCccccce-eecCCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhC
Q 017406          134 QKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL-QVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLG  212 (372)
Q Consensus       134 ~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl-~v~~~~~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~  212 (372)
                      .+.+   +||+|+|||+||+|+||..+|.+.++ .+++  +.|++++|++||+.||++|+|++++|||++||.+|++.++
T Consensus       109 ~~~~---lqLv~~tcL~lAsK~eE~~p~~~~~l~~~~~--~~~~~~~i~~mE~~IL~~L~f~l~~~tp~~fl~~~l~~l~  183 (306)
T 3g33_B          109 RKAQ---LQLLGAVCMLLASKLRETTPLTIEKLCIYTD--HAVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLS  183 (306)
T ss_dssp             CGGG---HHHHHHHHHHHHHHHHCSSCCCTTHHHHHTT--TSSCHHHHHHHHHHHHHHTTTCCCCCCGGGGHHHHHHTSS
T ss_pred             cHHH---HHHHHHHHHHHHHHhccCCCCCHHHHHHHhc--cCccHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHHcC
Confidence            7655   99999999999999999988899998 5554  4568999999999999999999999999999999999988


Q ss_pred             CCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcCCCCC--cCcccchhhhcCCChHHHHHHHHHHHH
Q 017406          213 LKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNP--VEHQNLLMGVLNISQQDKLKECYLLIL  290 (372)
Q Consensus       213 ~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~~~~~--~~~~~~L~~~~~i~~~e~v~~C~~~i~  290 (372)
                      ............+.+++..++.++.|++|+||+||||||++|+..++....  ..|.+.|..++|++. ++|.+|++.|.
T Consensus       184 ~~~~~~~~~~~~a~~~l~lsl~d~~~l~~~PS~IAaAai~lA~~~l~~~~~w~~~w~~~L~~~tg~~~-~~l~~c~~~I~  262 (306)
T 3g33_B          184 LPRDRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITGTEV-DCLRACQEQIE  262 (306)
T ss_dssp             CCTTTHHHHHHHHHHHHHHHHHCGGGTTSCHHHHHHHHHHHHHHTCC---CCHHHHHHHHHHHHTCCH-HHHHHHHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHHHHhhhhhccCCHHHHHHHHHHHHHHHhcCCCCchhhHHHHHHHHHCCCH-HHHHHHHHHHH
Confidence            765433223355778888899999999999999999999999999885432  235677888999999 99999999999


Q ss_pred             HHHhcCC
Q 017406          291 ELSRGNG  297 (372)
Q Consensus       291 el~~~~~  297 (372)
                      +++.+..
T Consensus       263 ~l~~~~l  269 (306)
T 3g33_B          263 AALRESL  269 (306)
T ss_dssp             HHHHTC-
T ss_pred             HHHHHHH
Confidence            9998754
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Back     alignment and structure
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>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
>3h4c_A Transcription factor TFIIB-like; cyclin, transcription factor TFIIB repeat; 2.30A {Trypanosoma brucei brucei} 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 372
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 ?
Query372
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]} 99.94
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.94
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.81
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.78
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.77
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.35
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.54
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.35
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 98.17
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.93
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 97.77
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.6
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.35
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.11
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 96.92
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 96.86
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 96.8
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 95.84
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 95.09
d1f5qb2106 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 94.0
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 90.8
d1bu2a2102 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 83.6
>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=4.2e-30  Score=216.78  Aligned_cols=126  Identities=21%  Similarity=0.277  Sum_probs=114.8

Q ss_pred             CHHHHHHHHHHHHhcCCC--C-CCCCCchhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchh
Q 017406           65 DDNELLSLICKEKKENFV--P-SDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMG  141 (372)
Q Consensus        65 ~~e~l~~Ll~kE~~~~~~--~-~~~q~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~l  141 (372)
                      +++++.+|++.|.+++|+  | ...|.+ +++.+|..+|+||.+|+.+++++.+|+++||+|||||+++..+++++   +
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 555666 99999999999999999999999999999999999999999998777   9


Q ss_pred             HHHHHHHHHhhhhccccCCccccce-eecCCCccccHHHHHHHHHHHHHHcCcccc
Q 017406          142 QLVAVACLSLAAKVDETQVPLLLDL-QVKDPKYVFEAKTIQRMELLVLSTLQWRMN  196 (372)
Q Consensus       142 qLvavaCL~LAaK~eE~~vP~l~dl-~v~~~~~~ft~~~I~~mE~~IL~~L~w~l~  196 (372)
                      ||+|+|||+||+|+||..+|.+.++ .++++  .|++++|.+||+.||++|+|++.
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            9999999999999999999988888 45554  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
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>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
>d1bu2a2 a.74.1.1 (A:149-250) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Back     information, alignment and structure