Citrus Sinensis ID: 029598

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-
MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLIRKNRSQLLHINSVQKPEHVAVNDKLKVVFGGSCDD
cccccccHHHHHHHHHHHHHHHHccccccccccHHHHcccccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccc
ccccccHHHHHHHHHHHHHHHHHHccccccccccEcccccccEEEcHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHHHHHHHcccccccccccccccccccccEEEEcEcccc
mkpgkgwqwHLLSVACLAVAAKMeetsvpnlldlqliepssrflfkpktvHRMELLVMSSLKwrlctvtpfdFVHYFISKiscfnpqrdgfgsVFSHAAALIISTRTvidflacppsTIAAAVVLWATdhsvdeqnlgcfhkRLNKDMVRRCYNLIRKNRSQLLhinsvqkpehvavndKLKVVFGGSCDD
mkpgkgwqwhLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLIRKNRSqllhinsvqkpehvavndkLKVVFGGSCDD
MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLIRKNRSQLLHINSVQKPEHVAVNDKLKVVFGGSCDD
*****GWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLIRKNRSQLLHINSVQKPEHVAVNDKLKVVFG*****
****KGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLI****************************FG*SC**
MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLIRKNRSQLLHINSVQKPEHVAVNDKLKVVFGGSCDD
***GKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLIRKNRSQ***************NDKLKVVF*GSC**
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLIRKNRSQLLHINSVQKPEHVAVNDKLKVVFGGSCDD
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 ?
Query191 2.2.26 [Sep-21-2011]
Q8LGA1308 Cyclin-D4-1 OS=Arabidopsi yes no 0.816 0.506 0.402 1e-25
Q0WQN9298 Cyclin-D4-2 OS=Arabidopsi no no 0.884 0.567 0.384 3e-25
P42751339 Cyclin-D1-1 OS=Arabidopsi no no 0.874 0.492 0.389 5e-25
Q8H339354 Cyclin-D1-2 OS=Oryza sati yes no 0.837 0.451 0.382 6e-25
Q4KYM5383 Cyclin-D4-2 OS=Oryza sati yes no 0.863 0.430 0.406 1e-24
Q0J233308 Cyclin-D2-1 OS=Oryza sati no no 0.780 0.483 0.375 2e-22
Q69QB8342 Cyclin-D3-1 OS=Oryza sati no no 0.743 0.415 0.423 2e-22
P42752361 Cyclin-D2-1 OS=Arabidopsi no no 0.764 0.404 0.375 3e-22
Q10K98405 Putative cyclin-D2-3 OS=O no no 0.832 0.392 0.364 9e-22
Q67V81363 Cyclin-D1-1 OS=Oryza sati no no 0.638 0.336 0.450 3e-21
>sp|Q8LGA1|CCD41_ARATH Cyclin-D4-1 OS=Arabidopsis thaliana GN=CYCD4-1 PE=1 SV=2 Back     alignment and function desciption
 Score =  116 bits (290), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 66/164 (40%), Positives = 98/164 (59%), Gaps = 8/164 (4%)

Query: 4   GKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKW 63
           GKGW   LL+VACL++AAK+EET VP L+DLQ+ +P  +F+F+ K+V RMELLV++ LKW
Sbjct: 118 GKGWILQLLAVACLSLAAKIEETEVPMLIDLQVGDP--QFVFEAKSVQRMELLVLNKLKW 175

Query: 64  RLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAV 123
           RL  +TP  ++ YF+ K+S     ++   ++ S +  +I ST   IDFL   PS +AAAV
Sbjct: 176 RLRAITPCSYIRYFLRKMS--KCDQEPSNTLISRSLQVIASTTKGIDFLEFRPSEVAAAV 233

Query: 124 VLWATDH----SVDEQNLGCFHKRLNKDMVRRCYNLIRKNRSQL 163
            L  +        D  +       L K+ V++   +I  + S L
Sbjct: 234 ALSVSGELQRVHFDNSSFSPLFSLLQKERVKKIGEMIESDGSDL 277
May activate cell cycle in the root apical meristem (RAM) and promote embryonic root (radicle) protrusion.
Arabidopsis thaliana (taxid: 3702)
>sp|Q0WQN9|CCD42_ARATH Cyclin-D4-2 OS=Arabidopsis thaliana GN=CYCD4-2 PE=1 SV=2 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|Q8H339|CCD12_ORYSJ Cyclin-D1-2 OS=Oryza sativa subsp. japonica GN=CYCD1-2 PE=3 SV=2 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|Q0J233|CCD21_ORYSJ Cyclin-D2-1 OS=Oryza sativa subsp. japonica GN=CYCD2-1 PE=3 SV=2 Back     alignment and function description
>sp|Q69QB8|CCD31_ORYSJ Cyclin-D3-1 OS=Oryza sativa subsp. japonica GN=CYCD3-1 PE=2 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|Q67V81|CCD11_ORYSJ Cyclin-D1-1 OS=Oryza sativa subsp. japonica GN=CYCD1-1 PE=3 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query191
255568629 306 cyclin d, putative [Ricinus communis] gi 0.827 0.516 0.575 2e-48
224097248 309 predicted protein [Populus trichocarpa] 0.832 0.514 0.588 1e-47
356565485 319 PREDICTED: cyclin-D1-1-like [Glycine max 0.821 0.492 0.566 4e-43
356511976 318 PREDICTED: cyclin-D1-1-like [Glycine max 0.827 0.496 0.548 4e-41
359496416 305 PREDICTED: cyclin-D4-1-like [Vitis vinif 0.821 0.514 0.558 2e-39
356574327 324 PREDICTED: cyclin-D4-1-like [Glycine max 0.738 0.435 0.522 8e-33
224056264262 predicted protein [Populus trichocarpa] 0.806 0.587 0.493 1e-32
224056262 400 predicted protein [Populus trichocarpa] 0.806 0.385 0.493 2e-32
224103775285 predicted protein [Populus trichocarpa] 0.806 0.540 0.493 4e-32
356534274 299 PREDICTED: cyclin-D1-1-like [Glycine max 0.748 0.478 0.529 2e-31
>gi|255568629|ref|XP_002525288.1| cyclin d, putative [Ricinus communis] gi|223535446|gb|EEF37116.1| cyclin d, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  197 bits (500), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 92/160 (57%), Positives = 124/160 (77%), Gaps = 2/160 (1%)

Query: 4   GKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKW 63
           GKGW   LL+VACL+VAAK+EET+VP LL+LQ++EP  RFLFKP T+ RMELLVM+ LKW
Sbjct: 118 GKGWPMQLLAVACLSVAAKLEETNVPLLLELQILEP--RFLFKPSTIQRMELLVMAKLKW 175

Query: 64  RLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAV 123
           RL  +TPF F+HYFI+K+SC +P  + F SVF  ++ LII+   VI+FL   PS +AA+ 
Sbjct: 176 RLHIITPFYFLHYFIAKLSCASPDCNNFSSVFPRSSDLIINICRVINFLDYTPSAVAASA 235

Query: 124 VLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLIRKNRSQL 163
           VLW T+ +VD+  L C H+++N+D V+RCYNL++KN S+L
Sbjct: 236 VLWVTNQTVDDPKLECLHEKVNRDKVKRCYNLVKKNMSKL 275

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224097248|ref|XP_002310892.1| predicted protein [Populus trichocarpa] gi|159025705|emb|CAN88853.1| D1-type cyclin [Populus trichocarpa] gi|222853795|gb|EEE91342.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356565485|ref|XP_003550970.1| PREDICTED: cyclin-D1-1-like [Glycine max] Back     alignment and taxonomy information
>gi|356511976|ref|XP_003524697.1| PREDICTED: cyclin-D1-1-like [Glycine max] Back     alignment and taxonomy information
>gi|359496416|ref|XP_003635232.1| PREDICTED: cyclin-D4-1-like [Vitis vinifera] gi|296084691|emb|CBI25833.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356574327|ref|XP_003555300.1| PREDICTED: cyclin-D4-1-like [Glycine max] Back     alignment and taxonomy information
>gi|224056264|ref|XP_002298782.1| predicted protein [Populus trichocarpa] gi|159025703|emb|CAN88852.1| D1-type cyclin [Populus trichocarpa] gi|222846040|gb|EEE83587.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224056262|ref|XP_002298781.1| predicted protein [Populus trichocarpa] gi|222846039|gb|EEE83586.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224103775|ref|XP_002313188.1| predicted protein [Populus trichocarpa] gi|159025701|emb|CAN88851.1| D1-type cyclin [Populus trichocarpa] gi|222849596|gb|EEE87143.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356534274|ref|XP_003535682.1| PREDICTED: cyclin-D1-1-like [Glycine max] 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 ?
Query191
TAIR|locus:2142504298 CYCD4;2 "AT5G10440" [Arabidops 0.884 0.567 0.384 9.7e-25
TAIR|locus:2020663339 CYCD1;1 "CYCLIN D1;1" [Arabido 0.874 0.492 0.389 1.2e-24
TAIR|locus:2124331376 CYCD3;1 "CYCLIN D3;1" [Arabido 0.753 0.382 0.368 2.7e-19
TAIR|locus:2083128361 CYCD3;3 "AT3G50070" [Arabidops 0.848 0.448 0.348 1.8e-18
TAIR|locus:2157172367 CYCD3;2 "AT5G67260" [Arabidops 0.905 0.471 0.333 7.3e-18
UNIPROTKB|Q10QA2345 CYCD5-3 "Cyclin-D5-3" [Oryza s 0.764 0.423 0.345 3e-15
ZFIN|ZDB-GENE-980526-176291 ccnd1 "cyclin D1" [Danio rerio 0.890 0.584 0.303 7.1e-15
TAIR|locus:2120081323 CYCD5;1 "AT4G37630" [Arabidops 0.659 0.390 0.348 5.1e-14
TAIR|locus:2125522302 CYCD6;1 "AT4G03270" [Arabidops 0.785 0.496 0.317 8.2e-14
UNIPROTKB|A5A422295 I79_018318 "G1/S-specific cycl 0.628 0.406 0.328 8e-13
TAIR|locus:2142504 CYCD4;2 "AT5G10440" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 282 (104.3 bits), Expect = 9.7e-25, P = 9.7e-25
 Identities = 68/177 (38%), Positives = 104/177 (58%)

Query:     4 GKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKW 63
             GK W   LL+VACL++AAK+EET+VP L+ LQ+  P   F+F+ K+V RMELLV++ L+W
Sbjct:   109 GKAWTVQLLAVACLSLAAKIEETNVPELMQLQVGAPM--FVFEAKSVQRMELLVLNVLRW 166

Query:    64 RLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAV 123
             RL  VTP  +V YF+SKI+ ++  ++    + + +  +I ST   IDFL    S IAAAV
Sbjct:   167 RLRAVTPCSYVRYFLSKINGYD--QEPHSRLVTRSLQVIASTTKGIDFLEFRASEIAAAV 224

Query:   124 VLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLIRKNRSQLLHINSVQKPEHVAVNDK 180
              L  +    D+ +       L K+ V++   +I ++ S     +S Q P +  +  K
Sbjct:   225 ALSVSGEHFDKFSFSSSFSSLEKERVKKIGEMIERDGSS----SSSQTPNNTVLQFK 277
GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISM;IEA;IDA
GO:0051726 "regulation of cell cycle" evidence=ISS
GO:0010440 "stomatal lineage progression" evidence=RCA;IMP
GO:0005737 "cytoplasm" evidence=IDA
GO:0005515 "protein binding" evidence=IPI
GO:0000278 "mitotic cell cycle" evidence=RCA
GO:0042023 "DNA endoreduplication" evidence=RCA
GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=RCA
TAIR|locus:2020663 CYCD1;1 "CYCLIN D1;1" [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:2083128 CYCD3;3 "AT3G50070" [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
UNIPROTKB|Q10QA2 CYCD5-3 "Cyclin-D5-3" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-980526-176 ccnd1 "cyclin D1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
TAIR|locus:2120081 CYCD5;1 "AT4G37630" [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|A5A422 I79_018318 "G1/S-specific cyclin-D1" [Cricetulus griseus (taxid:10029)] 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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 ?
Query191
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 4e-16
COG5333297 COG5333, CCL1, Cdk activating kinase (CAK)/RNA pol 0.003
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score = 70.6 bits (174), Expect = 4e-16
 Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 3/66 (4%)

Query: 1   MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSS 60
            +P    +  L+ V CL +AAK EE   P++ D   I   +   +  + + RMELL++S+
Sbjct: 65  KQPVPRTKLQLVGVTCLLIAAKYEEIYPPSVEDFVYI---TDNAYTKEEILRMELLILST 121

Query: 61  LKWRLC 66
           L W L 
Sbjct: 122 LNWDLS 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|227640 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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 191
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 99.97
KOG0655408 consensus G1/S-specific cyclin E [Cell cycle contr 99.96
KOG0653391 consensus Cyclin B and related kinase-activating p 99.89
COG5024440 Cyclin [Cell division and chromosome partitioning] 99.87
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 99.83
TIGR00569305 ccl1 cyclin ccl1. University). 99.82
KOG0835 367 consensus Cyclin L [General function prediction on 99.76
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.69
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.67
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.58
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.45
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.41
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.33
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.21
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.58
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 98.57
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.44
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.4
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.28
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.23
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 97.21
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 96.17
KOG1598 521 consensus Transcription initiation factor TFIIIB, 95.29
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 95.09
PRK00423310 tfb transcription initiation factor IIB; Reviewed 92.77
KOG1675343 consensus Predicted cyclin [General function predi 87.3
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=99.97  E-value=3.7e-31  Score=219.98  Aligned_cols=149  Identities=44%  Similarity=0.641  Sum_probs=130.0

Q ss_pred             CCCCCCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHH
Q 029598            1 MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISK   80 (191)
Q Consensus         1 ~~~~~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~   80 (191)
                      +|++|+|-+||+|++||+||||+||+.+|.+.|+++.++  ++.|.+++|.+||+.||.+|+|+++.+||++|+++|+..
T Consensus       115 l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~--~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~k  192 (335)
T KOG0656|consen  115 LPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYT--DNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSK  192 (335)
T ss_pred             cCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccc--cccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHH
Confidence            689999999999999999999999999999999999988  899999999999999999999999999999999999999


Q ss_pred             hcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccCCchh-----hhHHhhcCCHhhHHHHHH
Q 029598           81 ISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQN-----LGCFHKRLNKDMVRRCYN  154 (191)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~~~~-----~~~~~~~~~~~~l~~C~~  154 (191)
                      ++..+.   ....++.++..+++.+..|..|+.|+||+||+|++..+...+.+.+.     ......+++++.++.|++
T Consensus       193 i~~~~~---~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~  268 (335)
T KOG0656|consen  193 ISQKDH---NKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD  268 (335)
T ss_pred             cCcccc---hHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence            987642   34568889999999999999999999999999999888665533321     122446677888888887

>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
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] Back     alignment and domain information
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>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
>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
>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
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold 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
>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
>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
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>KOG1675 consensus Predicted cyclin [General function prediction only] 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 ?
Query191
2w96_A271 Crystal Structure Of Cdk4 In Complex With A D-Type 6e-07
2w9z_A257 Crystal Structure Of Cdk4 In Complex With A D-Type 6e-07
3g33_B306 Crystal Structure Of Cdk4CYCLIN D3 Length = 306 2e-06
>pdb|2W96|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 271 Back     alignment and structure 
Iteration: 1

 Score = 50.4 bits (119), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 37/118 (31%), Positives = 64/118 (54%), Gaps = 8/118 (6%)
Query: 1   MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSS 60
           ++P K  +  LL   C+ VA+KM+ET       L +   +S    +P+ + +MELL+++ 
Sbjct: 91  LEPVKKSRLQLLGATCMFVASKMKETIPLTAEKLCIYTDNS---IRPEELLQMELLLVNK 147
Query: 61  LKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVF-SHAAALIISTRTVIDFLACPPS 117
           LKW L  +TP DF+ +F+SK+    P+ +    +   HA   +    T + F++ PPS
Sbjct: 148 LKWNLAAMTPHDFIEHFLSKM----PEAEENKQIIRKHAQTFVALCATDVKFISNPPS 201
>pdb|2W9Z|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 257 Back     alignment and structure
>pdb|3G33|B Chain B, Crystal Structure Of Cdk4CYCLIN D3 Length = 306 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query191
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 7e-23
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 1e-20
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 2e-17
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 4e-16
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 9e-16
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 1e-14
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 3e-13
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 4e-12
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 2e-11
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 4e-07
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 6e-06
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 8e-06
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 4e-05
2ivx_A257 Cyclin-T2; transcription regulation, cell division 5e-04
>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
 Score = 91.3 bits (227), Expect = 7e-23
 Identities = 45/181 (24%), Positives = 81/181 (44%), Gaps = 23/181 (12%)

Query: 11  LLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTP 70
           LL   C+ VA+KM+ET       L +    +    +P+ + +MELL+++ LKW L  +TP
Sbjct: 101 LLGATCMFVASKMKETIPLTAEKLCIY---TDNSIRPEELLQMELLLVNKLKWNLAAMTP 157

Query: 71  FDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWA--- 127
            DF+ +F+SK+      +     +  HA   +    T + F++ PPS +AA  V+ A   
Sbjct: 158 HDFIEHFLSKMPEAEENKQ---IIRKHAQTFVALCATDVKFISNPPSMVAAGSVVAAVQG 214

Query: 128 TDHSVDEQNLGCF--------HKRLNKDMVRRCYNLIRKNRSQLLHINSVQKPEHVAVND 179
            +       L  +          + + D +R C   I       L  +S+++     ++ 
Sbjct: 215 LNLRSPNNFLSYYRLTRFLSRVIKCDPDCLRACQEQIEA-----LLESSLRQA-QQNMDP 268

Query: 180 K 180
           K
Sbjct: 269 K 269
>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
>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
>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
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query191
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 100.0
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 99.97
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 99.97
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 99.97
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 99.97
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 99.95
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 99.95
2ivx_A257 Cyclin-T2; transcription regulation, cell division 99.95
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 99.95
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.92
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.92
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.87
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.77
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.54
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 98.93
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 97.19
1ais_B200 TFB TFIIB, protein (transcription initiation facto 95.88
1c9b_A207 General transcription factor IIB; protein-DNA comp 94.9
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 91.51
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 91.0
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 90.36
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=1.7e-33  Score=234.33  Aligned_cols=159  Identities=25%  Similarity=0.337  Sum_probs=132.6

Q ss_pred             CCCCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHHhc
Q 029598            3 PGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKIS   82 (191)
Q Consensus         3 ~~~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~   82 (191)
                      ..+++++||+|+||||||+|+||..+|.+.+++.++   ++.|++++|++||+.||++|+|+++.|||++|+.+|+..++
T Consensus       107 ~v~~~~lqLv~~tcL~lAsK~eE~~p~~~~~l~~~~---~~~~~~~~i~~mE~~IL~~L~f~l~~~tp~~fl~~~l~~l~  183 (306)
T 3g33_B          107 PTRKAQLQLLGAVCMLLASKLRETTPLTIEKLCIYT---DHAVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLS  183 (306)
T ss_dssp             CCCGGGHHHHHHHHHHHHHHHHCSSCCCTTHHHHHT---TTSSCHHHHHHHHHHHHHHTTTCCCCCCGGGGHHHHHHTSS
T ss_pred             CCcHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHh---ccCccHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHHcC
Confidence            346789999999999999999999888999999887   79999999999999999999999999999999999999886


Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccCCc----hhhhH---HhhcCCHhhHHHHHHH
Q 029598           83 CFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDE----QNLGC---FHKRLNKDMVRRCYNL  155 (191)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~~----~~~~~---~~~~~~~~~l~~C~~~  155 (191)
                      ....   ....+.+.+++++..++.++.|+.|+||+||+|||++|.+.+...    .+++.   ..+|++.++|++|++.
T Consensus       184 ~~~~---~~~~~~~~a~~~l~lsl~d~~~l~~~PS~IAaAai~lA~~~l~~~~~w~~~w~~~L~~~tg~~~~~l~~c~~~  260 (306)
T 3g33_B          184 LPRD---RQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITGTEVDCLRACQEQ  260 (306)
T ss_dssp             CCTT---THHHHHHHHHHHHHHHHHCGGGTTSCHHHHHHHHHHHHHHTCC---CCHHHHHHHHHHHHTCCHHHHHHHHHH
T ss_pred             CChh---HHHHHHHHHHHHHHHHHhhhhhccCCHHHHHHHHHHHHHHHhcCCCCchhhHHHHHHHHHCCCHHHHHHHHHH
Confidence            6532   233455667788888999999999999999999999997654321    12222   4589999999999999


Q ss_pred             HHHHHhhhcccC
Q 029598          156 IRKNRSQLLHIN  167 (191)
Q Consensus       156 m~~~~~~~~~~~  167 (191)
                      |.+++.+..+..
T Consensus       261 I~~l~~~~l~~~  272 (306)
T 3g33_B          261 IEAALRESLREA  272 (306)
T ss_dssp             HHHHHHTC----
T ss_pred             HHHHHHHHHHHH
Confidence            999998877543
>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
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* 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
>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
>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
>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
>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
>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
>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

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 191
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 9e-12
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 1e-10
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 3e-10
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 1e-09
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 7e-09
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 2e-06
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 2e-05
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 4e-05
>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 = 57.7 bits (139), Expect = 9e-12
 Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 3/65 (4%)

Query: 1   MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSS 60
            +        L+ ++ L +AAK+EE   P L     +   +        +  MEL++M +
Sbjct: 78  QENVVKTLLQLIGISSLFIAAKLEEIYPPKLHQFAYV---TDGACSGDEILTMELMIMKA 134

Query: 61  LKWRL 65
           LKWRL
Sbjct: 135 LKWRL 139
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Length = 132 Back     information, alignment and structure
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 128 Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Length = 141 Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Length = 127 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
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query191
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.64
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.64
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.62
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.61
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.58
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.51
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.27
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.23
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.17
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.12
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.95
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.89
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 98.35
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 97.95
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.94
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.08
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 96.89
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 95.7
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 94.87
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 92.3
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 91.47
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 87.41
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 86.55
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 83.61
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: G1/S-specific cyclin-E1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.5e-16  Score=116.13  Aligned_cols=60  Identities=30%  Similarity=0.453  Sum_probs=56.2

Q ss_pred             CCCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceec
Q 029598            4 GKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLC   66 (191)
Q Consensus         4 ~~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~   66 (191)
                      ..++++||+|+||||||+|+||..+|.+.+++..+   ++.|++++|.+||+.||++|+|+|+
T Consensus        81 v~~~~lqL~a~acL~IAsK~ee~~~~~~~~l~~~~---~~~~t~~ei~~mE~~IL~~L~~~Ln  140 (140)
T d1w98b2          81 VVKTLLQLIGISSLFIAAKLEEIYPPKLHQFAYVT---DGACSGDEILTMELMIMKALKWRLS  140 (140)
T ss_dssp             CCGGGHHHHHHHHHHHHHHHHCSSCCCHHHHHHTT---TTSSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             ccHHHHhHHHHHHHHHHHHHcccCCCCHHHHHHHH---cCCCCHHHHHHHHHHHHHHCCCcCC
Confidence            46789999999999999999999999999998876   7999999999999999999999985
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 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
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1w98b1 a.74.1.1 (B:228-357) G1/S-specific cyclin-E1 {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
>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
>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
>d1aisb2 a.74.1.2 (B:1206-1300) 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
>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
>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
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} 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