Citrus Sinensis ID: 025012

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-------26
MSVTCSGSFPDLLCGEDSGIFAGESSPACSSSDLESSASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKVSE
ccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHcccccccccccEEEcccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHcc
cccccccccHHHHHHccccEEEccccHcccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHccccccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHcccccHccEEEEEEcccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHccc
msvtcsgsfpdllcgedsgifagesspacsssdlessaSIEESIAGFiedernfvpgfdyltrfqthsldasAREESVAWILKVQAYYNFLPLTSYLSVNYMDrflysrrlpdnngwpwQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWrlrsvtpfsFIYFFAckldptgtfMGFLISRATKIILSNIQeasfleyrpsSIAAAAILCAAneipnlslvnpehaeswcdglskvse
msvtcsgsfpdLLCGEDSGIFAGESSPACSSSDLESSASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLslvnpehaeswcdglskvse
MSVTCSGSFPDLLCGEDSGIFAGesspacsssdlessasieesiagfieDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSiaaaailcaaNEIPNLSLVNPEHAESWCDGLSKVSE
************LC*****************************IAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWC********
******G*FPDLLCGEDSGIFAGESSPACSSSDLESSASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKV**
********FPDLLCGEDSGIFAG****************IEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKVSE
*******SFPDLLCGEDSGIFAGESSPACSSSDLESSASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKVS*
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSVTCSGSFPDLLCGEDSGIFAGESSPACSSSDLESSASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKVSE
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 ?
Query259 2.2.26 [Sep-21-2011]
P42751339 Cyclin-D1-1 OS=Arabidopsi yes no 0.976 0.746 0.744 1e-104
Q0J233308 Cyclin-D2-1 OS=Oryza sati yes no 0.884 0.743 0.534 8e-65
Q8H339354 Cyclin-D1-2 OS=Oryza sati yes no 0.803 0.587 0.561 5e-60
Q67V81363 Cyclin-D1-1 OS=Oryza sati yes no 0.694 0.495 0.589 2e-50
Q8LGA1308 Cyclin-D4-1 OS=Arabidopsi no no 0.880 0.740 0.415 1e-44
P42752361 Cyclin-D2-1 OS=Arabidopsi no no 0.694 0.498 0.494 2e-44
Q10K98 405 Putative cyclin-D2-3 OS=O yes no 0.718 0.459 0.471 6e-44
Q4KYM5383 Cyclin-D4-2 OS=Oryza sati yes no 0.710 0.480 0.473 4e-43
Q8LHA8356 Cyclin-D2-2 OS=Oryza sati no no 0.710 0.516 0.467 1e-42
Q6YXH8356 Cyclin-D4-1 OS=Oryza sati no no 0.783 0.570 0.447 9e-42
>sp|P42751|CCD11_ARATH Cyclin-D1-1 OS=Arabidopsis thaliana GN=CYCD1-1 PE=1 SV=3 Back     alignment and function desciption
 Score =  379 bits (972), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 192/258 (74%), Positives = 221/258 (85%), Gaps = 5/258 (1%)

Query: 1   MSVTCSGSFPDLLCGEDSGIFAGESSPACSSSDLESSASIEESIAGFIEDERNFVPGFDY 60
           MSV+ S    DL CGEDSG+F+GES+   SSS+++S     +SIA FIEDER+FVPG DY
Sbjct: 12  MSVSFSNDM-DLFCGEDSGVFSGESTVDFSSSEVDSWPG--DSIACFIEDERHFVPGHDY 68

Query: 61  LTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQ 120
           L+RFQT SLDASARE+SVAWILKVQAYYNF PLT+YL+VNYMDRFLY+RRLP+ +GWP Q
Sbjct: 69  LSRFQTRSLDASAREDSVAWILKVQAYYNFQPLTAYLAVNYMDRFLYARRLPETSGWPMQ 128

Query: 121 LLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFS 180
           LL+VACLSLAAKMEE +VPSL D QV G KY+FE KTI+RMELLVLSVLDWRLRSVTPF 
Sbjct: 129 LLAVACLSLAAKMEEILVPSLFDFQVAGVKYLFEAKTIKRMELLVLSVLDWRLRSVTPFD 188

Query: 181 FIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNL- 239
           FI FFA K+DP+GTF+GF IS AT+IILSNI+EASFLEY PSSIAAAAILC ANE+P+L 
Sbjct: 189 FISFFAYKIDPSGTFLGFFISHATEIILSNIKEASFLEYWPSSIAAAAILCVANELPSLS 248

Query: 240 SLVNP-EHAESWCDGLSK 256
           S+VNP E  E+WCDGLSK
Sbjct: 249 SVVNPHESPETWCDGLSK 266
May activate cell cycle in the root apical meristem (RAM) and promote embryonic root (radicle) protrusion.
Arabidopsis thaliana (taxid: 3702)
>sp|Q0J233|CCD21_ORYSJ Cyclin-D2-1 OS=Oryza sativa subsp. japonica GN=CYCD2-1 PE=3 SV=2 Back     alignment and function description
>sp|Q8H339|CCD12_ORYSJ Cyclin-D1-2 OS=Oryza sativa subsp. japonica GN=CYCD1-2 PE=3 SV=2 Back     alignment and function description
>sp|Q67V81|CCD11_ORYSJ Cyclin-D1-1 OS=Oryza sativa subsp. japonica GN=CYCD1-1 PE=3 SV=1 Back     alignment and function description
>sp|Q8LGA1|CCD41_ARATH Cyclin-D4-1 OS=Arabidopsis thaliana GN=CYCD4-1 PE=1 SV=2 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|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

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 ?
Query259
356501290339 PREDICTED: cyclin-D1-1-like [Glycine max 0.976 0.746 0.784 1e-107
255581192 386 cyclin d, putative [Ricinus communis] gi 0.996 0.668 0.811 1e-107
225424764324 PREDICTED: cyclin-D1-1 [Vitis vinifera] 0.980 0.783 0.816 1e-107
224102013328 predicted protein [Populus trichocarpa] 0.961 0.759 0.822 1e-106
359359230327 D1-type cyclin [Populus x canadensis] 0.961 0.761 0.818 1e-105
224108117327 predicted protein [Populus trichocarpa] 0.961 0.761 0.814 1e-105
25989347315 cyclin D1 [Helianthus tuberosus] 0.984 0.809 0.726 1e-103
296046565331 cyclin D1 [Passiflora morifolia] 0.988 0.773 0.797 1e-103
2995130335 cyclin delta-1 [Arabidopsis thaliana] 0.976 0.755 0.744 1e-103
15223075339 cyclin-D1-1 [Arabidopsis thaliana] gi|59 0.976 0.746 0.744 1e-102
>gi|356501290|ref|XP_003519458.1| PREDICTED: cyclin-D1-1-like [Glycine max] Back     alignment and taxonomy information
 Score =  395 bits (1014), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 208/265 (78%), Positives = 223/265 (84%), Gaps = 12/265 (4%)

Query: 1   MSVTCSGSFPD-----LLCGEDS-GIFAGESSPACSSSDLESSASIE---ESIAGFIEDE 51
           MSV+CS  FPD     LLCGEDS GI   +SSP CSS DL+S    E   ESIAGFIEDE
Sbjct: 1   MSVSCSNCFPDDDDSFLLCGEDSSGII--DSSPECSS-DLDSPPPSEAEAESIAGFIEDE 57

Query: 52  RNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRL 111
           RNFVPGF+YL RFQ+ SLDASAREESVAWILKVQAYY F PLT+YLSVNY+DRFL SR+L
Sbjct: 58  RNFVPGFEYLNRFQSRSLDASAREESVAWILKVQAYYAFQPLTAYLSVNYLDRFLNSRQL 117

Query: 112 PDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDW 171
           P  NGWP QLLSVACLSLAAKMEE +VPSLLDLQVEGAKY+FE KTIRRMELLVL VLDW
Sbjct: 118 PQTNGWPLQLLSVACLSLAAKMEEPLVPSLLDLQVEGAKYVFEPKTIRRMELLVLGVLDW 177

Query: 172 RLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILC 231
           RLRSVTPFSF+ FFACKLD +GTF GFLISRAT+IILSNIQEASFL Y PS IAAA+IL 
Sbjct: 178 RLRSVTPFSFLDFFACKLDSSGTFTGFLISRATQIILSNIQEASFLAYWPSCIAAASILH 237

Query: 232 AANEIPNLSLVNPEHAESWCDGLSK 256
           AANEIPN S V PEHAESWC+GL K
Sbjct: 238 AANEIPNWSFVRPEHAESWCEGLRK 262

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255581192|ref|XP_002531409.1| cyclin d, putative [Ricinus communis] gi|223529002|gb|EEF30993.1| cyclin d, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|225424764|ref|XP_002268394.1| PREDICTED: cyclin-D1-1 [Vitis vinifera] gi|296086502|emb|CBI32091.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224102013|ref|XP_002312511.1| predicted protein [Populus trichocarpa] gi|159025697|emb|CAN88849.1| D1-type cyclin [Populus trichocarpa] gi|222852331|gb|EEE89878.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|359359230|gb|AEV41133.1| D1-type cyclin [Populus x canadensis] Back     alignment and taxonomy information
>gi|224108117|ref|XP_002314728.1| predicted protein [Populus trichocarpa] gi|159025699|emb|CAN88850.1| D1-type cyclin [Populus trichocarpa] gi|222863768|gb|EEF00899.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|25989347|gb|AAL47479.1| cyclin D1 [Helianthus tuberosus] Back     alignment and taxonomy information
>gi|296046565|gb|ADG86424.1| cyclin D1 [Passiflora morifolia] Back     alignment and taxonomy information
>gi|2995130|emb|CAA58285.1| cyclin delta-1 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|15223075|ref|NP_177178.1| cyclin-D1-1 [Arabidopsis thaliana] gi|59802916|sp|P42751.3|CCD11_ARATH RecName: Full=Cyclin-D1-1; AltName: Full=Cyclin-delta-1; Short=Cyclin-d1; AltName: Full=G1/S-specific cyclin-D1-1; Short=CycD1;1 gi|2194121|gb|AAB61096.1| Strong similarity to Arabidopsis cyclin delta-1 (gb|ATCD1). EST gb|ATTS4338 comes from this gene [Arabidopsis thaliana] gi|26449478|dbj|BAC41865.1| unknown protein [Arabidopsis thaliana] gi|28950911|gb|AAO63379.1| At1g70210 [Arabidopsis thaliana] gi|332196913|gb|AEE35034.1| cyclin-D1-1 [Arabidopsis thaliana] 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 ?
Query259
TAIR|locus:2020663339 CYCD1;1 "CYCLIN D1;1" [Arabido 0.976 0.746 0.662 8e-85
TAIR|locus:2142504298 CYCD4;2 "AT5G10440" [Arabidops 0.714 0.620 0.424 1.5e-33
TAIR|locus:2083128361 CYCD3;3 "AT3G50070" [Arabidops 0.575 0.412 0.489 1.8e-32
TAIR|locus:2124331 376 CYCD3;1 "CYCLIN D3;1" [Arabido 0.575 0.396 0.463 3.7e-32
TAIR|locus:2157172367 CYCD3;2 "AT5G67260" [Arabidops 0.583 0.411 0.456 1.8e-30
TAIR|locus:2120081323 CYCD5;1 "AT4G37630" [Arabidops 0.606 0.486 0.369 5.3e-24
UNIPROTKB|Q10QA2345 CYCD5-3 "Cyclin-D5-3" [Oryza s 0.667 0.501 0.348 4.3e-22
TAIR|locus:2125522302 CYCD6;1 "AT4G03270" [Arabidops 0.644 0.552 0.361 9e-22
TAIR|locus:2185178341 CYCD7;1 "AT5G02110" [Arabidops 0.567 0.431 0.302 4.5e-18
TAIR|locus:2031407442 CYCA1;2 "CYCLIN A1;2" [Arabido 0.625 0.366 0.331 2.2e-13
TAIR|locus:2020663 CYCD1;1 "CYCLIN D1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 849 (303.9 bits), Expect = 8.0e-85, P = 8.0e-85
 Identities = 171/258 (66%), Positives = 195/258 (75%)

Query:     1 MSVTCSGSFPDLLCGEDSGIFAGXXXXXXXXXXXXXXXXXXXXXXXXXXDERNFVPGFDY 60
             MSV+ S    DL CGEDSG+F+G                          DER+FVPG DY
Sbjct:    12 MSVSFSNDM-DLFCGEDSGVFSGESTVDFSSSEVDSWPGDSIACFIE--DERHFVPGHDY 68

Query:    61 LTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQ 120
             L+RFQT SLDASARE+SVAWILKVQAYYNF PLT+YL+VNYMDRFLY+RRLP+ +GWP Q
Sbjct:    69 LSRFQTRSLDASAREDSVAWILKVQAYYNFQPLTAYLAVNYMDRFLYARRLPETSGWPMQ 128

Query:   121 LLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFS 180
             LL+VACLSLAAKMEE +VPSL D QV G KY+FE KTI+RMELLVLSVLDWRLRSVTPF 
Sbjct:   129 LLAVACLSLAAKMEEILVPSLFDFQVAGVKYLFEAKTIKRMELLVLSVLDWRLRSVTPFD 188

Query:   181 FIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSXXXXXXXXXXNEIPNLS 240
             FI FFA K+DP+GTF+GF IS AT+IILSNI+EASFLEY PSS          NE+P+LS
Sbjct:   189 FISFFAYKIDPSGTFLGFFISHATEIILSNIKEASFLEYWPSSIAAAAILCVANELPSLS 248

Query:   241 -LVNP-EHAESWCDGLSK 256
              +VNP E  E+WCDGLSK
Sbjct:   249 SVVNPHESPETWCDGLSK 266
GO:0005634 "nucleus" evidence=ISM;IEA
GO:0016538 "cyclin-dependent protein serine/threonine kinase regulator activity" evidence=ISS
GO:0051726 "regulation of cell cycle" evidence=ISS
GO:0005515 "protein binding" evidence=IPI
GO:0000278 "mitotic cell cycle" evidence=RCA
GO:0010440 "stomatal lineage progression" evidence=RCA
GO:0042023 "DNA endoreduplication" evidence=RCA
GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=RCA
TAIR|locus:2142504 CYCD4;2 "AT5G10440" [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:2124331 CYCD3;1 "CYCLIN D3;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2157172 CYCD3;2 "AT5G67260" [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
UNIPROTKB|Q10QA2 CYCD5-3 "Cyclin-D5-3" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2125522 CYCD6;1 "AT4G03270" [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:2031407 CYCA1;2 "CYCLIN A1;2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
P42751CCD11_ARATHNo assigned EC number0.74410.97680.7463yesno
Q0J233CCD21_ORYSJNo assigned EC number0.53480.88410.7435yesno

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 ?
Query259
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 2e-36
COG5024440 COG5024, COG5024, Cyclin [Cell division and chromo 2e-16
cd0004388 cd00043, CYCLIN, Cyclin box fold 5e-14
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 8e-14
pfam02984117 pfam02984, Cyclin_C, Cyclin, C-terminal domain 6e-04
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score =  125 bits (317), Expect = 2e-36
 Identities = 47/133 (35%), Positives = 67/133 (50%), Gaps = 6/133 (4%)

Query: 42  ESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNY 101
           +  A   E E    P  DYL +     ++   R   + W+++V   +  LP T YL+VNY
Sbjct: 1   DIYAYLRELEEEDRPPPDYLDQQPD--INPKMRAILIDWLVEVHEEFKLLPETLYLAVNY 58

Query: 102 MDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRM 161
           +DRFL  + +P       QL+ V CL +AAK EE   PS+ D         +  + I RM
Sbjct: 59  LDRFLSKQPVPRTK---LQLVGVTCLLIAAKYEEIYPPSVEDFVYI-TDNAYTKEEILRM 114

Query: 162 ELLVLSVLDWRLR 174
           ELL+LS L+W L 
Sbjct: 115 ELLILSTLNWDLS 127

Cyclins regulate cyclin dependent kinases (CDKs). Human cyclin-O is a Uracil-DNA glycosylase that is related to other cyclins. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the N-terminal domain. Length = 127
>gnl|CDD|227357 COG5024, COG5024, Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information
>gnl|CDD|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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 259
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 100.0
COG5024440 Cyclin [Cell division and chromosome partitioning] 100.0
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.95
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 99.94
TIGR00569305 ccl1 cyclin ccl1. University). 99.91
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.88
KOG0835 367 consensus Cyclin L [General function prediction on 99.84
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.78
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.72
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.51
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.48
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.46
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.42
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 98.95
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 98.93
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 98.75
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.66
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 97.95
KOG1598 521 consensus Transcription initiation factor TFIIIB, 97.66
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 97.47
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 97.22
KOG1674218 consensus Cyclin [General function prediction only 97.04
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 96.79
PRK00423310 tfb transcription initiation factor IIB; Reviewed 95.24
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 93.85
KOG1675343 consensus Predicted cyclin [General function predi 93.19
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 89.36
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 85.94
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 82.87
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=9e-45  Score=316.66  Aligned_cols=248  Identities=44%  Similarity=0.644  Sum_probs=214.2

Q ss_pred             cccccccccccccC---CCCCCCCCCCC---CCCCchHHHHHHHHHHHHhhCCCCCccccccCCCCCHHHHHHHHHHHHH
Q 025012           10 PDLLCGEDSGIFAG---ESSPACSSSDL---ESSASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILK   83 (259)
Q Consensus        10 ~~l~c~e~~~~~~~---~~~~~~~~~~~---~~~~~~~e~l~~ll~~E~~~~~~~~y~~~~q~~~i~~~~R~~lvdwl~~   83 (259)
                      +.|+|+|.+....+   .+++.-...++   ++..+++|.+.+|+++|+++.|..+|+..+|. .+++.+|.++++||.+
T Consensus         9 ~~l~c~E~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~e~~i~~ll~kEe~~~p~~~~~~~~~~-~~~~~~R~~A~~WIl~   87 (335)
T KOG0656|consen    9 SQLLCHEESTSDEQDRADNDESSTESSIPQLGFLLWDERVLANLLEKEEQHNPSLDYFLCVQK-LILSSMRKQALDWILK   87 (335)
T ss_pred             cccccCCCCcccccccccCCcccccccccccccccccHHHHHHHHHHHHHhCCCCchhhhccc-ccccHHHHHHHHHHHH
Confidence            45899996555432   11121111111   12357889999999999999999997776664 5899999999999999


Q ss_pred             HHHHhCCchhHHHHHHHHHHHHhcCCccCCCCCCchHHHHHHHHHHHHHhhcccCCchhhhhhhccCccccHHHHHHHHH
Q 025012           84 VQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMEL  163 (259)
Q Consensus        84 v~~~~~l~~~t~~~Av~l~DRfl~~~~i~~~~~~~lqL~a~acL~IAsK~eE~~~p~~~~l~~~~~~~~~s~~~i~~~E~  163 (259)
                      |+.++++.++|+++|+||||||++..++++.++|-+||+|+|||+||||++|+.+|.+.++.....++.|.++.|.+||.
T Consensus        88 V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmEL  167 (335)
T KOG0656|consen   88 VCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMEL  167 (335)
T ss_pred             HHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHH
Confidence            99999999999999999999999999999998899999999999999999999999999999888899999999999999


Q ss_pred             HHHHHcCCccccCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHhcchhccCccHHHHHHHHHHHHHhcCCCCCCCC
Q 025012          164 LVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVN  243 (259)
Q Consensus       164 ~IL~~L~f~l~~~tp~~fl~~~l~~l~~~~~~~~~~~~~a~~~l~~~l~d~~~~~~~PS~iAaAai~la~~~~~~~~~~~  243 (259)
                      .||++|+|++..+||++|+++|+++++..+.....+...+..++..+..|..|+.|+||+||+|++.++...+..-..+.
T Consensus       168 LVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~  247 (335)
T KOG0656|consen  168 LVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFRE  247 (335)
T ss_pred             HHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhh
Confidence            99999999999999999999999999998888889999999999999999999999999999999988877776555555


Q ss_pred             CCchhhHhhhhhccc
Q 025012          244 PEHAESWCDGLSKVS  258 (259)
Q Consensus       244 ~~~~~~w~~~l~~~~  258 (259)
                      -++...++..+.+++
T Consensus       248 ~~~~~~~~~~l~~e~  262 (335)
T KOG0656|consen  248 YENNLLSLLSLSKEK  262 (335)
T ss_pred             hhHHHHHHHHhhHHh
Confidence            456777777776664

>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
>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
>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
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed 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
>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
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] 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
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>KOG1674 consensus Cyclin [General function prediction only] 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
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>KOG1675 consensus Predicted cyclin [General function prediction only] Back     alignment and domain information
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] 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 ?
Query259
3qhr_B261 Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic 2e-08
4ii5_B258 Structure Of Pcdk2/cyclina Bound To Adp And 1 Magne 3e-08
4i3z_B257 Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNES 3e-08
1vyw_B265 Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 3e-08
1jst_B258 Phosphorylated Cyclin-Dependent Kinase-2 Bound To C 3e-08
1qmz_B259 Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Com 3e-08
1ogu_B260 Structure Of Human Thr160-phospho Cdk2/cyclin A Com 3e-08
3f5x_B256 Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Boun 3e-08
2x1n_B261 Truncation And Optimisation Of Peptide Inhibitors O 3e-08
1fin_B260 Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 3e-08
1e9h_B261 Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex 3e-08
4bcq_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 4e-08
4bco_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 4e-08
4bcq_D262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 4e-08
2g9x_B262 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 4e-08
1vin_A268 Bovine Cyclin A3 Length = 268 4e-08
3dog_B264 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 4e-08
3ddq_B269 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 5e-08
3ddp_B268 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 5e-08
3bht_B262 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 5e-08
2b9r_A269 Crystal Structure Of Human Cyclin B1 Length = 269 4e-06
2jgz_B260 Crystal Structure Of Phospho-Cdk2 In Complex With C 7e-06
3g33_B306 Crystal Structure Of Cdk4CYCLIN D3 Length = 306 1e-05
2w9z_A257 Crystal Structure Of Cdk4 In Complex With A D-Type 3e-04
2w96_A271 Crystal Structure Of Cdk4 In Complex With A D-Type 3e-04
1w98_B283 The Structural Basis Of Cdk2 Activation By Cyclin E 6e-04
>pdb|3QHR|B Chain B, Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic Length = 261 Back     alignment and structure 
Iteration: 1

 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 54/174 (31%), Positives = 78/174 (44%), Gaps = 22/174 (12%)
Query: 56  PGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNN 115
           P   Y+ R     +  S R   V W+++V   Y     T +L+VNY+DRFL S  +    
Sbjct: 24  PKVGYMKR--QPDITNSMRAILVDWLVEVGEEYKLQNETLHLAVNYIDRFLSSMSVLRGK 81
Query: 116 GWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRS 175
               QL+  A + LA+K EE   P + +  V      +  K + RME LVL VL + L +
Sbjct: 82  ---LQLVGTAAMLLASKFEEIYPPEVAEF-VYITDDTYSKKQVLRMEHLVLKVLAFDLAA 137
Query: 176 VTPFSFI--YFFA-----CKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPS 222
            T   F+  YF       CK++    F+G          LS I    +L+Y PS
Sbjct: 138 PTVNQFLTQYFLHLQPANCKVESLAMFLGE---------LSLIDADPYLKYLPS 182
>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|1VYW|B Chain B, Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 265 Back     alignment and structure
>pdb|1JST|B Chain B, Phosphorylated Cyclin-Dependent Kinase-2 Bound To Cyclin A Length = 258 Back     alignment and structure
>pdb|1QMZ|B Chain B, Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Complex Length = 259 Back     alignment and structure
>pdb|1OGU|B Chain B, Structure Of Human Thr160-phospho Cdk2/cyclin A Complexed With A 2-arylamino-4-cyclohexylmethyl-5-nitroso-6- aminopyrimidine Inhibitor Length = 260 Back     alignment and structure
>pdb|3F5X|B Chain B, Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Bound At Its Active Site Length = 256 Back     alignment and structure
>pdb|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|1FIN|B Chain B, Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 260 Back     alignment and structure
>pdb|1E9H|B Chain B, Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex With The Inhibitor Indirubin-5-Sulphonate Bound Length = 261 Back     alignment and structure
>pdb|4BCQ|B Chain B, Structure Of Cdk2 In Complex With Cyclin A And A 2-amino-4- Heteroaryl-pyrimidine Inhibitor Length = 262 Back     alignment and structure
>pdb|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|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|3DOG|B Chain B, Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN Complex With The Inhibitor N-&-N1 Length = 264 Back     alignment and structure
>pdb|3DDQ|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX With The Inhibitor Roscovitine Length = 269 Back     alignment and structure
>pdb|3DDP|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX With The Inhibitor Cr8 Length = 268 Back     alignment and structure
>pdb|3BHT|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX WITH THE Inhibitor Meriolin 3 Length = 262 Back     alignment and structure
>pdb|2B9R|A Chain A, Crystal Structure Of Human Cyclin B1 Length = 269 Back     alignment and structure
>pdb|2JGZ|B Chain B, Crystal Structure Of Phospho-Cdk2 In Complex With Cyclin B Length = 260 Back     alignment and structure
>pdb|3G33|B Chain B, Crystal Structure Of Cdk4CYCLIN D3 Length = 306 Back     alignment and structure
>pdb|2W9Z|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 257 Back     alignment and structure
>pdb|2W96|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 271 Back     alignment and structure
>pdb|1W98|B Chain B, The Structural Basis Of Cdk2 Activation By Cyclin E Length = 283 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 ?
Query259
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 3e-49
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 2e-46
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 1e-34
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 1e-30
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 1e-29
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 3e-29
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 1e-28
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 2e-28
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 8e-16
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 3e-12
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 5e-12
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 4e-11
2ivx_A257 Cyclin-T2; transcription regulation, cell division 2e-09
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 9e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-05
>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 =  163 bits (414), Expect = 3e-49
 Identities = 52/248 (20%), Positives = 90/248 (36%), Gaps = 16/248 (6%)

Query: 11  DLLCGEDSGIFAGESSPACSSSDLESSASIEESIAGFIEDERNFVPGFDYLTRFQTHSLD 70
           +LLC E +         A  +         +  +   +  E  +VP   Y    Q   + 
Sbjct: 16  ELLCCEGT-------RHAPRAGPDPRLLGDQRVLQSLLRLEERYVPRASYFQCVQRE-IK 67

Query: 71  ASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLA 130
              R+    W+L+V            L++NY+DR+L             QLL   C+ LA
Sbjct: 68  PHMRKMLAYWMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTRKAQ---LQLLGAVCMLLA 124

Query: 131 AKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLD 190
           +K+ ET   ++  L      +    + +R  E+LVL  L W L +V    F+ F   +L 
Sbjct: 125 SKLRETTPLTIEKL-CIYTDHAVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLS 183

Query: 191 PTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESW 250
                   +   A   +     + +F  Y PS IA  +I  A   +           +  
Sbjct: 184 LPRDRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGA----CSMSGDEL 239

Query: 251 CDGLSKVS 258
            + L+ ++
Sbjct: 240 TELLAGIT 247
>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
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Length = 257 Back     alignment and structure
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 Length = 252 Back     alignment and structure
>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
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Length = 269 Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Length = 258 Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Length = 323 Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Length = 235 Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Length = 358 Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Length = 257 Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Length = 285 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query259
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 100.0
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 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 99.98
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.97
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 99.97
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.96
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.91
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.83
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.63
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.27
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 98.68
1ais_B200 TFB TFIIB, protein (transcription initiation facto 96.74
1c9b_A207 General transcription factor IIB; protein-DNA comp 94.93
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 90.04
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 89.99
2ivx_A257 Cyclin-T2; transcription regulation, cell division 89.32
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 87.32
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 83.08
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 82.47
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 81.22
>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=2.7e-48  Score=342.33  Aligned_cols=219  Identities=25%  Similarity=0.386  Sum_probs=182.9

Q ss_pred             CCCCCcccccccc--ccccccCCCCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCCccccccCCCCCHHHHHHHHHHH
Q 025012            4 TCSGSFPDLLCGE--DSGIFAGESSPACSSSDLESSASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWI   81 (259)
Q Consensus         4 ~~~~~~~~l~c~e--~~~~~~~~~~~~~~~~~~~~~~~~~e~l~~ll~~E~~~~~~~~y~~~~q~~~i~~~~R~~lvdwl   81 (259)
                      +.||.| +|+|+|  +......+| |...        +++|++++|+++|.++.|+++|++..| +++++.+|.++++||
T Consensus        10 ~~~~~~-~l~~~e~~~~~~~a~~d-p~l~--------~~~~i~~~l~~~E~~~~p~~~y~~~~q-~~i~~~~R~~lvdwl   78 (306)
T 3g33_B           10 SPGGSM-ELLCCEGTRHAPRAGPD-PRLL--------GDQRVLQSLLRLEERYVPRASYFQCVQ-REIKPHMRKMLAYWM   78 (306)
T ss_dssp             -------------------------------------CHHHHHHHHHHHGGGGSCSSCCTTTST-TTCCHHHHHHHHHHH
T ss_pred             CCCCCc-ceeeecccccccccCCC-Cccc--------chHHHHHHHHHHHHHhCCCcHHHhhcC-ccCCHHHHHHHHHHH
Confidence            467775 699999  333445444 5554        889999999999999999999998655 579999999999999


Q ss_pred             HHHHHHhCCchhHHHHHHHHHHHHhcCCccCCCCCCchHHHHHHHHHHHHHhhcccCCchhhhhhhccCccccHHHHHHH
Q 025012           82 LKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRM  161 (259)
Q Consensus        82 ~~v~~~~~l~~~t~~~Av~l~DRfl~~~~i~~~~~~~lqL~a~acL~IAsK~eE~~~p~~~~l~~~~~~~~~s~~~i~~~  161 (259)
                      ++|+..|+++++|+++||+|||||+++.++.+.   ++|++|+||||||+|+||..||.+.+++.. +++.|++++|++|
T Consensus        79 ~ev~~~~~l~~~t~~lAv~~lDRfls~~~v~~~---~lqLv~~tcL~lAsK~eE~~p~~~~~l~~~-~~~~~~~~~i~~m  154 (306)
T 3g33_B           79 LEVCEEQRCEEEVFPLAMNYLDRYLSCVPTRKA---QLQLLGAVCMLLASKLRETTPLTIEKLCIY-TDHAVSPRQLRDW  154 (306)
T ss_dssp             HHHHHHTTCCTTHHHHHHHHHHHHHHHCCCCGG---GHHHHHHHHHHHHHHHHCSSCCCTTHHHHH-TTTSSCHHHHHHH
T ss_pred             HHHHHHhCCcHhHHHHHHHHHHHHHhcCCCcHH---HHHHHHHHHHHHHHHhccCCCCCHHHHHHH-hccCccHHHHHHH
Confidence            999999999999999999999999999999887   899999999999999999999999999765 7789999999999


Q ss_pred             HHHHHHHcCCccccCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHhcchhccCccHHHHHHHHHHHHHhcCC
Q 025012          162 ELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIP  237 (259)
Q Consensus       162 E~~IL~~L~f~l~~~tp~~fl~~~l~~l~~~~~~~~~~~~~a~~~l~~~l~d~~~~~~~PS~iAaAai~la~~~~~  237 (259)
                      |+.||++|+|++++|||++|+.+|++.++...+....+...+.++++.++.++.|+.|+||+||+|||++|++.++
T Consensus       155 E~~IL~~L~f~l~~~tp~~fl~~~l~~l~~~~~~~~~~~~~a~~~l~lsl~d~~~l~~~PS~IAaAai~lA~~~l~  230 (306)
T 3g33_B          155 EVLVLGKLKWDLAAVIAHDFLAFILHRLSLPRDRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLG  230 (306)
T ss_dssp             HHHHHHHTTTCCCCCCGGGGHHHHHHTSSCCTTTHHHHHHHHHHHHHHHHHCGGGTTSCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHcCCccCCCCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHHHHhhhhhccCCHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999988877666667778899999999999999999999999999999999886
>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
>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
>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
>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
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure
>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

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 259
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 6e-28
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 7e-28
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 1e-26
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 2e-26
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 7e-25
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 3e-20
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 3e-17
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 3e-15
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Length = 132 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]

 Score =  101 bits (254), Expect = 6e-28
 Identities = 32/133 (24%), Positives = 52/133 (39%), Gaps = 5/133 (3%)

Query: 41  EESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVN 100
           +      +E E  F+        FQ   L +  R+    W+  V   YN  P    L++N
Sbjct: 4   DRIFYNILEIEPRFLTSDSVFGTFQQS-LTSHMRKLLGTWMFSVCQEYNLEPNVVALALN 62

Query: 101 YMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRR 160
            +DR L  +++   +   +Q    ACL +A+K+      S   L    A   F  + +  
Sbjct: 63  LLDRLLLIKQVSKEH---FQKTGSACLLVASKLRSLTPISTSSL-CYAAADSFSRQELID 118

Query: 161 MELLVLSVLDWRL 173
            E  +L  L WR 
Sbjct: 119 QEKELLEKLAWRT 131
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 128 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
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Length = 140 Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Length = 141 Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Length = 144 Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Length = 143 Back     information, alignment and structure
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 151 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query259
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 100.0
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 100.0
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 100.0
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.97
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.96
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.84
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.81
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.78
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 98.89
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.51
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.39
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 98.08
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 98.01
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.64
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 97.13
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 97.1
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 96.99
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 96.34
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 96.3
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 96.2
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 94.38
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 93.23
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 92.9
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 85.65
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 83.14
>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=100.00  E-value=4.7e-35  Score=225.60  Aligned_cols=131  Identities=25%  Similarity=0.359  Sum_probs=124.3

Q ss_pred             chHHHHHHHHHHHHhhCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCccCCCCCCc
Q 025012           39 SIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWP  118 (259)
Q Consensus        39 ~~~e~l~~ll~~E~~~~~~~~y~~~~q~~~i~~~~R~~lvdwl~~v~~~~~l~~~t~~~Av~l~DRfl~~~~i~~~~~~~  118 (259)
                      .+++++++|++.|.++.|+++|+..+|+ ++|+++|..+++||.+|+..++++++|+|+||+|+|||+++.++++.   +
T Consensus         2 ~~~~i~~~l~~~E~~~~p~~~y~~~~q~-~it~~~R~~lidWl~~v~~~~~l~~et~~lAv~llDrfls~~~v~~~---~   77 (132)
T d1g3nc1           2 CEDRIFYNILEIEPRFLTSDSVFGTFQQ-SLTSHMRKLLGTWMFSVCQEYNLEPNVVALALNLLDRLLLIKQVSKE---H   77 (132)
T ss_dssp             HHHHHHHHHHHHGGGGCCCGGGHHHHTS-SCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTCCCCHH---H
T ss_pred             chHHHHHHHHHHHHHHCCChHHHHhcCc-cCCHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCcccCcHH---H
Confidence            3678999999999999999999998876 59999999999999999999999999999999999999999999988   8


Q ss_pred             hHHHHHHHHHHHHHhhcccCCchhhhhhhccCccccHHHHHHHHHHHHHHcCCccc
Q 025012          119 WQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLR  174 (259)
Q Consensus       119 lqL~a~acL~IAsK~eE~~~p~~~~l~~~~~~~~~s~~~i~~~E~~IL~~L~f~l~  174 (259)
                      +|++|+||||||+|++|..||.+++++.. +++.|++++|.+||+.||++|+|++.
T Consensus        78 lqLia~tcl~iAsK~ee~~~~~~~~l~~~-~~~~~t~~ei~~mE~~IL~~L~w~l~  132 (132)
T d1g3nc1          78 FQKTGSACLLVASKLRSLTPISTSSLCYA-AADSFSRQELIDQEKELLEKLAWRTE  132 (132)
T ss_dssp             HHHHHHHHHHHHHHHHCSSCCCHHHHHHH-TTTCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHHHHHHHHHHhcccCCCCHHHHHHH-HcCCCCHHHHHHHHHHHHHHcCCcCC
Confidence            99999999999999999999999999864 78899999999999999999999973
>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
>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
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} 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
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>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
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {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