Citrus Sinensis ID: 028611

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------
MAELENPNVMTKLITFLSSFLQRVSESNDINCRFQPQKISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVAESSLSIARSAKLHSCFNEDETTSQQKQQQQLAV
cccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHcccccccccccEEccccHHHHHHHHHHHHHHccccEEEcHHHHHHHHHHHHHHHHHHccccccccccccHHHHHcccccccccccHHHHHHHHHHcc
ccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccEEEEcccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcccccEEccHHHHHHHHHHHHHHHHHHHHccccccHEEEEccccHHHHHHHHHHHHHHcccEEEccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccHcEEccc
maelenpnVMTKLITFLSSFLQRvsesndincrfqpqkisvfhgltrpsisIQSYLERIFKYANCSPSCFIVAYVYLDRfvqrqpslpinsfnVHRLLITSVMVAAKFLDdmyynnayyaKVGGISTIEMNFLELDFLFGLsfhlnvtpnaFHTYCTYLQREMlllqpplnvaeSSLSIARSAKlhscfnedettSQQKQQQQLAV
maelenpnvMTKLITFLSSFLQRVSESNDINCRFQPqkisvfhgltrPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVAESSLSIARSAKLHSCFNEDettsqqkqqqqlav
MAELENPNVMTKLITFLSSFLQRVSESNDINCRFQPQKISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVAESSLSIARSAKLHSCFNEDETTSqqkqqqqLAV
********VMTKLITFLSSFLQRVSESNDINCRFQPQKISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVA*********************************
******PNVMTKLITFLSSFLQR***********************RPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQRE********************************************
MAELENPNVMTKLITFLSSFLQRVSESNDINCRFQPQKISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVAESSLSIARSAKLHSCF*****************
*******NVMTKLITFLSSFLQRVSESNDINCRFQPQKISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVAESS******************************
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAELENPNVMTKLITFLSSFLQRVSESNDINCRFQPQKISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVAESSLSIARSAKLHSCFNEDETTSQQKQQQQLAV
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 ?
Query206 2.2.26 [Sep-21-2011]
O80513202 Cyclin-U4-1 OS=Arabidopsi yes no 0.970 0.990 0.735 1e-80
Q9FKF6219 Cyclin-U4-3 OS=Arabidopsi no no 0.980 0.922 0.581 5e-60
Q9LY16216 Cyclin-U4-2 OS=Arabidopsi no no 0.893 0.851 0.560 1e-56
Q7XC35212 Cyclin-P4-1 OS=Oryza sati yes no 0.922 0.896 0.519 9e-55
Q75HV0236 Cyclin-P3-1 OS=Oryza sati no no 0.747 0.652 0.490 4e-40
Q8LB60221 Cyclin-U3-1 OS=Arabidopsi no no 0.611 0.570 0.527 2e-37
Q9SHD3222 Cyclin-U2-1 OS=Arabidopsi no no 0.883 0.819 0.413 8e-35
Q9LJ45210 Cyclin-U1-1 OS=Arabidopsi no no 0.781 0.766 0.443 3e-34
Q9M205230 Cyclin-U2-2 OS=Arabidopsi no no 0.733 0.656 0.452 4e-34
Q0J9W0264 Cyclin-P1-1 OS=Oryza sati no no 0.577 0.450 0.428 5e-27
>sp|O80513|CCU41_ARATH Cyclin-U4-1 OS=Arabidopsis thaliana GN=CYCU4-1 PE=1 SV=1 Back     alignment and function desciption
 Score =  299 bits (765), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 153/208 (73%), Positives = 175/208 (84%), Gaps = 8/208 (3%)

Query: 1   MAELENPNVMTKLITFLSSFLQRVSESNDINCRF--QPQKISVFHGLTRPSISIQSYLER 58
           MAELENP+VM+KLI FLSS L+RV+ESND+  R   Q Q++SVFHGL+RP+I+IQSYLER
Sbjct: 1   MAELENPSVMSKLIAFLSSLLERVAESNDLTRRVATQSQRVSVFHGLSRPTITIQSYLER 60

Query: 59  IFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAY 118
           IFKYANCSPSCF+VAYVYLDRF  RQPSLPINSFNVHRLLITSVMVAAKFLDD+YYNNAY
Sbjct: 61  IFKYANCSPSCFVVAYVYLDRFTHRQPSLPINSFNVHRLLITSVMVAAKFLDDLYYNNAY 120

Query: 119 YAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVAESSLS 178
           YAKVGGIST EMNFLELDFLFGL F LNVTPN F+ Y +YLQ+EM LLQP       SL 
Sbjct: 121 YAKVGGISTKEMNFLELDFLFGLGFELNVTPNTFNAYFSYLQKEMTLLQP------LSLV 174

Query: 179 IARSAKLHSCFNEDETTSQQKQQQQLAV 206
           +  S++    FN+DE + Q++QQQQLAV
Sbjct: 175 VVPSSRSLITFNDDEASHQKQQQQQLAV 202

Arabidopsis thaliana (taxid: 3702)
>sp|Q9FKF6|CCU43_ARATH Cyclin-U4-3 OS=Arabidopsis thaliana GN=CYCU4-3 PE=1 SV=1 Back     alignment and function description
>sp|Q9LY16|CCU42_ARATH Cyclin-U4-2 OS=Arabidopsis thaliana GN=CYCU4-2 PE=1 SV=1 Back     alignment and function description
>sp|Q7XC35|CCP41_ORYSJ Cyclin-P4-1 OS=Oryza sativa subsp. japonica GN=CYCP4-1 PE=2 SV=1 Back     alignment and function description
>sp|Q75HV0|CCP31_ORYSJ Cyclin-P3-1 OS=Oryza sativa subsp. japonica GN=CYCP3-1 PE=3 SV=1 Back     alignment and function description
>sp|Q8LB60|CCU31_ARATH Cyclin-U3-1 OS=Arabidopsis thaliana GN=CYCU3-1 PE=1 SV=2 Back     alignment and function description
>sp|Q9SHD3|CCU21_ARATH Cyclin-U2-1 OS=Arabidopsis thaliana GN=CYCU2-1 PE=1 SV=1 Back     alignment and function description
>sp|Q9LJ45|CCU11_ARATH Cyclin-U1-1 OS=Arabidopsis thaliana GN=CYCU1-1 PE=1 SV=1 Back     alignment and function description
>sp|Q9M205|CCU22_ARATH Cyclin-U2-2 OS=Arabidopsis thaliana GN=CYCU2-2 PE=1 SV=1 Back     alignment and function description
>sp|Q0J9W0|CCP11_ORYSJ Cyclin-P1-1 OS=Oryza sativa subsp. japonica GN=CYCP1-1 PE=3 SV=2 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query206
255571045203 cyclin-dependent protein kinase, putativ 0.980 0.995 0.806 1e-92
224137114202 predicted protein [Populus trichocarpa] 0.980 1.0 0.796 8e-92
356568557205 PREDICTED: cyclin-U4-1-like [Glycine max 0.990 0.995 0.787 2e-89
356520736202 PREDICTED: cyclin-U4-1-like [Glycine max 0.980 1.0 0.776 7e-88
357507963203 Cyclin-dependent protein kinase regulato 0.985 1.0 0.776 1e-87
225453342204 PREDICTED: cyclin-U4-1 [Vitis vinifera] 0.966 0.975 0.787 4e-87
388507758207 unknown [Lotus japonicus] 0.995 0.990 0.769 3e-85
449432309211 PREDICTED: cyclin-U4-1-like [Cucumis sat 0.990 0.966 0.723 4e-83
255539923203 cyclin-dependent protein kinase, putativ 0.980 0.995 0.719 2e-82
351726323209 uncharacterized protein LOC100305689 [Gl 0.941 0.928 0.755 9e-82
>gi|255571045|ref|XP_002526473.1| cyclin-dependent protein kinase, putative [Ricinus communis] gi|223534148|gb|EEF35864.1| cyclin-dependent protein kinase, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  344 bits (882), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 167/207 (80%), Positives = 187/207 (90%), Gaps = 5/207 (2%)

Query: 1   MAELENPNVMTKLITFLSSFLQRVSESNDINCRFQPQKISVFHGLTRPSISIQSYLERIF 60
           MAELE+PN+M KLITFLSS LQRV+ESND+N +   QKISVFHGLTRP+ISIQ+YLERIF
Sbjct: 1   MAELESPNLMPKLITFLSSLLQRVAESNDLNLQIHTQKISVFHGLTRPTISIQNYLERIF 60

Query: 61  KYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYA 120
           KYANCSPSCFIVAYVYLDRF QRQPSLP+NSFNVHRLLITSVMVAAKF+DDMYYNNAYYA
Sbjct: 61  KYANCSPSCFIVAYVYLDRFAQRQPSLPLNSFNVHRLLITSVMVAAKFMDDMYYNNAYYA 120

Query: 121 KVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVAE-SSLSI 179
           KVGGISTIEMN+LE+DFLFGL FHLNVTPN FHTY +YLQREM +LQPPL++ E SSL++
Sbjct: 121 KVGGISTIEMNYLEVDFLFGLGFHLNVTPNTFHTYSSYLQREM-MLQPPLSLVESSSLNL 179

Query: 180 ARSAKLHSCFNEDETTSQQKQQQQLAV 206
            RS K+H CFNEDET+    Q+QQLAV
Sbjct: 180 GRSLKVHLCFNEDETS---HQKQQLAV 203

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224137114|ref|XP_002327025.1| predicted protein [Populus trichocarpa] gi|222835340|gb|EEE73775.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356568557|ref|XP_003552477.1| PREDICTED: cyclin-U4-1-like [Glycine max] Back     alignment and taxonomy information
>gi|356520736|ref|XP_003529016.1| PREDICTED: cyclin-U4-1-like [Glycine max] Back     alignment and taxonomy information
>gi|357507963|ref|XP_003624270.1| Cyclin-dependent protein kinase regulator Pho80 [Medicago truncatula] gi|355499285|gb|AES80488.1| Cyclin-dependent protein kinase regulator Pho80 [Medicago truncatula] Back     alignment and taxonomy information
>gi|225453342|ref|XP_002271136.1| PREDICTED: cyclin-U4-1 [Vitis vinifera] gi|297734633|emb|CBI16684.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|388507758|gb|AFK41945.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|449432309|ref|XP_004133942.1| PREDICTED: cyclin-U4-1-like [Cucumis sativus] gi|449521166|ref|XP_004167601.1| PREDICTED: cyclin-U4-1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|255539923|ref|XP_002511026.1| cyclin-dependent protein kinase, putative [Ricinus communis] gi|223550141|gb|EEF51628.1| cyclin-dependent protein kinase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|351726323|ref|NP_001235331.1| uncharacterized protein LOC100305689 [Glycine max] gi|255626323|gb|ACU13506.1| unknown [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 ?
Query206
TAIR|locus:2042421202 CYCP4;1 "AT2G44740" [Arabidops 0.970 0.990 0.711 2e-72
TAIR|locus:2151656219 CYCP4;2 "CYCLIN P4;2" [Arabido 0.975 0.917 0.579 1.4e-55
TAIR|locus:2183394216 CYCP4;3 "cyclin p4;3" [Arabido 0.912 0.870 0.572 1e-52
TAIR|locus:2088743210 CYCP2;1 "cyclin p2;1" [Arabido 0.781 0.766 0.443 4.4e-36
TAIR|locus:2099192221 CYCP1;1 "cyclin p1;1" [Arabido 0.723 0.674 0.480 9.2e-36
TAIR|locus:2055552222 cycp3;1 "cyclin p3;1" [Arabido 0.883 0.819 0.413 1.2e-33
TAIR|locus:1009023243212 AT3G05327 [Arabidopsis thalian 0.733 0.712 0.468 4.1e-33
TAIR|locus:2103391230 CYCP3;2 "cyclin p3;2" [Arabido 0.757 0.678 0.453 8.5e-33
DICTYBASE|DDB_G0286485 398 DDB_G0286485 "PHO85 cyclin-2" 0.742 0.384 0.401 2.1e-29
DICTYBASE|DDB_G0277481 391 DDB_G0277481 [Dictyostelium di 0.548 0.289 0.447 2.2e-25
TAIR|locus:2042421 CYCP4;1 "AT2G44740" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 732 (262.7 bits), Expect = 2.0e-72, P = 2.0e-72
 Identities = 148/208 (71%), Positives = 168/208 (80%)

Query:     1 MAELENPNVMTKLITFLSSFLQRVSESNDINCRF--QPQKISVFHGLTRPSISIQSYLER 58
             MAELENP+VM+KLI FLSS L+RV+ESND+  R   Q Q++SVFHGL+RP+I+IQSYLER
Sbjct:     1 MAELENPSVMSKLIAFLSSLLERVAESNDLTRRVATQSQRVSVFHGLSRPTITIQSYLER 60

Query:    59 IFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAY 118
             IFKYANCSPSCF+VAYVYLDRF  RQPSLPINSFNVHRLLITSVMVAAKFLDD+YYNNAY
Sbjct:    61 IFKYANCSPSCFVVAYVYLDRFTHRQPSLPINSFNVHRLLITSVMVAAKFLDDLYYNNAY 120

Query:   119 YAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVAESSLS 178
             YAKVGGIST EMNFLELDFLFGL F LNVTPN F+ Y +YLQ+EM LLQP       SL 
Sbjct:   121 YAKVGGISTKEMNFLELDFLFGLGFELNVTPNTFNAYFSYLQKEMTLLQP------LSLV 174

Query:   179 IARSAKLHSCFNEDETTSXXXXXXXLAV 206
             +  S++    FN+DE +        LAV
Sbjct:   175 VVPSSRSLITFNDDEASHQKQQQQQLAV 202
GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=ISS
GO:0051726 "regulation of cell cycle" evidence=ISS
GO:0005515 "protein binding" evidence=IPI
GO:0010440 "stomatal lineage progression" evidence=RCA
TAIR|locus:2151656 CYCP4;2 "CYCLIN P4;2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2183394 CYCP4;3 "cyclin p4;3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2088743 CYCP2;1 "cyclin p2;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2099192 CYCP1;1 "cyclin p1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2055552 cycp3;1 "cyclin p3;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:1009023243 AT3G05327 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2103391 CYCP3;2 "cyclin p3;2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0286485 DDB_G0286485 "PHO85 cyclin-2" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0277481 DDB_G0277481 [Dictyostelium discoideum (taxid:44689)] 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) ?
O80513CCU41_ARATHNo assigned EC number0.73550.97080.9900yesno
Q7XC35CCP41_ORYSJNo assigned EC number0.51940.92230.8962yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
eugene3.00400102
hypothetical protein (202 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query206
pfam08613140 pfam08613, Cyclin, Cyclin 2e-38
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 1e-12
>gnl|CDD|204002 pfam08613, Cyclin, Cyclin Back     alignment and domain information 
 Score =  129 bits (325), Expect = 2e-38
 Identities = 61/140 (43%), Positives = 83/140 (59%), Gaps = 5/140 (3%)

Query: 11  TKLITFLSSFLQRVSESND-INCR--FQPQKISVFHGLTRPSISIQSYLERIFKYANCSP 67
            +LI  +S  L R+   ND            +  F+    PSIS+  YL RI KY   SP
Sbjct: 1   DELIESISRVLDRIPALNDSTATASSSASSPLEPFYSKAVPSISLTQYLSRIQKYCPTSP 60

Query: 68  SCFIVAYVYLDRFVQR--QPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGI 125
              + A +YLDR V+R  +P++ + S NVHRLL+T++ VA KFL D  Y+N+ +AKVGGI
Sbjct: 61  DVLLSALIYLDRIVKRCDKPTITVTSLNVHRLLLTALTVATKFLSDGSYSNSRFAKVGGI 120

Query: 126 STIEMNFLELDFLFGLSFHL 145
           S  E+N LE+DFLF + F L
Sbjct: 121 SLHELNHLEIDFLFLVDFDL 140

This family includes many different cyclin proteins. Members include the G1/S-specific cyclin pas1, and the phosphate system cyclin PHO80/PHO85. Length = 140
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-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 206
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 100.0
KOG1674218 consensus Cyclin [General function prediction only 99.95
KOG1675343 consensus Predicted cyclin [General function predi 99.65
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.41
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.9
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.67
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 98.3
KOG0653391 consensus Cyclin B and related kinase-activating p 98.01
TIGR00569305 ccl1 cyclin ccl1. University). 97.85
KOG0655 408 consensus G1/S-specific cyclin E [Cell cycle contr 97.42
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 97.26
COG5024440 Cyclin [Cell division and chromosome partitioning] 97.16
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 96.83
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 95.24
KOG0834 323 consensus CDK9 kinase-activating protein cyclin T 95.12
PRK00423310 tfb transcription initiation factor IIB; Reviewed 95.11
KOG1674218 consensus Cyclin [General function prediction only 94.82
KOG0835 367 consensus Cyclin L [General function prediction on 93.77
KOG2496 325 consensus Cdk activating kinase (CAK)/RNA polymera 93.67
PRK00423310 tfb transcription initiation factor IIB; Reviewed 91.85
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 91.63
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 87.71
>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 
Probab=100.00  E-value=3.1e-34  Score=230.12  Aligned_cols=135  Identities=48%  Similarity=0.822  Sum_probs=101.5

Q ss_pred             hHHHHHHHHHHHHHHHhcccCCcC------------CCCCcccccCCCCCChhHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 028611           11 TKLITFLSSFLQRVSESNDINCRF------------QPQKISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLD   78 (206)
Q Consensus        11 ~~~~~~ia~~L~~~~~~nd~~~~~------------~~~~~~~F~~~~~P~isi~~fl~rI~~~~~ls~~~~i~ALiYld   78 (206)
                      +.++..|+.++++++..|+.....            .....+.|++..+|.+++.+|+.||+++++|+++|+++|++||+
T Consensus         1 ~~~~~~i~~~l~~~~~~n~~~~~~s~~~~~~~~~~~~~~~~~~F~~~~~p~i~i~~fl~ri~~~~~~s~~~~i~aliYl~   80 (149)
T PF08613_consen    1 DKLVQSIARQLDRLINNNESTAQSSSSSSSPSSPFQQSPKISQFHSQSVPSISIRDFLSRILKYTQCSPECLILALIYLD   80 (149)
T ss_dssp             -HHHHHHHHHHHHHHHHHH--------------T---------T--SS--SS-HHHHHHHHHHHTT--HHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHhccCchhhhhcccccccccccccccccccccCCCCCCCcHHHHHHHHHHHcCCChHHHHHHHHHHH
Confidence            368999999999999998886532            12456789999999999999999999999999999999999999


Q ss_pred             HHhh--hCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCCCHHHHHHHHHHHHHhCCCce
Q 028611           79 RFVQ--RQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHL  145 (206)
Q Consensus        79 Rl~~--~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gvs~~eLN~LE~~fL~lLdy~L  145 (206)
                      |+..  ..+++.+++.|+||++++|+|||+||+||.+|+|++|++++|++++|||.||++||.+|||+|
T Consensus        81 Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis~~eln~lE~~fL~~l~~~L  149 (149)
T PF08613_consen   81 RLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGISLKELNELEREFLKLLDYNL  149 (149)
T ss_dssp             HHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-HHHHHHHHHHHHHHTTT--
T ss_pred             HHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCCHHHHHHHHHHHHHHCCCcC
Confidence            9999  567888999999999999999999999999999999999999999999999999999999997

Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
>KOG1674 consensus Cyclin [General function prediction only] Back     alignment and domain information
>KOG1675 consensus Predicted cyclin [General function prediction only] 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
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>KOG0656 consensus G1/S-specific cyclin D [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
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning] 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
>COG5024 Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>KOG4164 consensus Cyclin ik3-1/CABLES [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
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>KOG1674 consensus Cyclin [General function prediction only] Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] 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
>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
>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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query206
2pk9_B293 Structure Of The Pho85-pho80 Cdk-cyclin Complex Of 3e-13
>pdb|2PK9|B Chain B, Structure Of The Pho85-pho80 Cdk-cyclin Complex Of The Phosphate-responsive Signal Transduction Pathway Length = 293 Back     alignment and structure 
Iteration: 1

 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 41/125 (32%), Positives = 68/125 (54%), Gaps = 3/125 (2%)
Query: 39  ISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLL 98
           ++ +H    P+ISI +Y  R+ K+++      + +  Y+D      P   +NS   HR L
Sbjct: 64  LTRYHSKIPPNISIFNYFIRLTKFSSLEHCVLMTSLYYIDLLQTVYPDFTLNSLTAHRFL 123
Query: 99  ITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFH-TYCT 157
           +T+  VA K L D +  NA+YAKVGG+   E+N LE DFL  +++   + P   + T C+
Sbjct: 124 LTATTVATKGLCDSFSTNAHYAKVGGVRCHELNILENDFLKRVNYR--IIPRDHNITLCS 181
Query: 158 YLQRE 162
             Q++
Sbjct: 182 IEQKQ 186
  Database: pdbaa

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query206
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 4e-44
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
>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* Length = 293 Back     alignment and structure
 Score =  148 bits (373), Expect = 4e-44
 Identities = 45/184 (24%), Positives = 82/184 (44%), Gaps = 3/184 (1%)

Query: 10  MTKLITFLSSFLQRVSESND---INCRFQPQKISVFHGLTRPSISIQSYLERIFKYANCS 66
            T L+  +S  L  +   N+            ++ +H    P+ISI +Y  R+ K+++  
Sbjct: 32  RTDLVVLISRMLVSLIAINENSATKKSDDQITLTRYHSKIPPNISIFNYFIRLTKFSSLE 91

Query: 67  PSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGIS 126
               + +  Y+D      P   +NS   HR L+T+  VA K L D +  NA+YAKVGG+ 
Sbjct: 92  HCVLMTSLYYIDLLQTVYPDFTLNSLTAHRFLLTATTVATKGLCDSFSTNAHYAKVGGVR 151

Query: 127 TIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQPPLNVAESSLSIARSAKLH 186
             E+N LE DFL  +++ +    +         +++  ++      +    S +   +  
Sbjct: 152 CHELNILENDFLKRVNYRIIPRDHNITLCSIEQKQKKFVIDKNALGSLDLDSYSYVNRPK 211

Query: 187 SCFN 190
           S +N
Sbjct: 212 SGYN 215
>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 ?
Query206
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 98.91
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 98.87
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 98.86
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 98.85
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 98.83
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 98.83
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 98.82
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 98.8
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 98.5
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 98.49
2ivx_A257 Cyclin-T2; transcription regulation, cell division 98.44
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 98.34
1jkw_A 323 Cyclin H; cell cycle, cell division, nuclear prote 98.29
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 98.21
1c9b_A207 General transcription factor IIB; protein-DNA comp 98.15
1ais_B200 TFB TFIIB, protein (transcription initiation facto 97.61
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 95.55
1ais_B200 TFB TFIIB, protein (transcription initiation facto 94.89
1c9b_A207 General transcription factor IIB; protein-DNA comp 93.83
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 93.6
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 87.69
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 85.67
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 81.67
>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
Probab=100.00  E-value=1.6e-38  Score=277.75  Aligned_cols=150  Identities=28%  Similarity=0.441  Sum_probs=139.4

Q ss_pred             hhHHHHHHHHHHHHHHHhcccCCcC---CCCCcccccCCCCCChhHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCC
Q 028611           10 MTKLITFLSSFLQRVSESNDINCRF---QPQKISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPS   86 (206)
Q Consensus        10 ~~~~~~~ia~~L~~~~~~nd~~~~~---~~~~~~~F~~~~~P~isi~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~   86 (206)
                      ...++..||.+|+++++.||..+..   .+..++.||+..+|.|+|.+|+.||+++++|+++|+++|++||+||+.++|+
T Consensus        32 ~~dlv~~IA~~L~~LI~~Nd~~~~~~~~~~~~~t~F~~~~~P~ISI~~Yl~RI~k~t~ls~~~ll~ALvYLdRL~~~~p~  111 (293)
T 2pmi_B           32 RTDLVVLISRMLVSLIAINENSATKKSDDQITLTRYHSKIPPNISIFNYFIRLTKFSSLEHCVLMTSLYYIDLLQTVYPD  111 (293)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCC--------CCCCTTCCSSCCSSCHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccccccccccccccccccCCCCCCCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhhCCC
Confidence            5689999999999999999998632   3456889999999999999999999999999999999999999999999899


Q ss_pred             CCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCCCHHHHHHHHHHHHHhCCCceeeCHHHHHHHHHHH
Q 028611           87 LPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYL  159 (206)
Q Consensus        87 ~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gvs~~eLN~LE~~fL~lLdy~L~Vs~~~y~~y~~~L  159 (206)
                      +.+++.||||+|++|+|||+|||||.+|+|++||++||++++|||.||++||.+|||+|+|+.++|..|+..+
T Consensus       112 ~~l~~~nvHRLlLtALmlAsK~ldD~~ysN~~wAkVgGisl~ELN~LE~eFL~lLdf~L~V~~ee~~~cy~E~  184 (293)
T 2pmi_B          112 FTLNSLTAHRFLLTATTVATKGLCDSFSTNAHYAKVGGVRCHELNILENDFLKRVNYRIIPRDHNITLCSIEQ  184 (293)
T ss_dssp             CCCSTTTHHHHHHHHHHHHHHHHCSSCCCHHHHHHHHTSCHHHHHHHHHHHHHTTTTCCSCCTTHHHHHHHHS
T ss_pred             CccCCchHHHHHHHHHHHHHHhccccccChhHhhhccCcCHHHHHHHHHHHHHHcCCceeeCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999877654
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} 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
>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
>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

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query206
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.12
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.1
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.09
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.06
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.0
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.77
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 98.64
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.54
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 96.3
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 96.21
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 95.94
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 95.23
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 87.48
>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=99.12  E-value=2.5e-10  Score=87.42  Aligned_cols=94  Identities=20%  Similarity=0.241  Sum_probs=83.4

Q ss_pred             hHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhcc--CCCHH
Q 028611           51 SIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVG--GISTI  128 (206)
Q Consensus        51 si~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~--gvs~~  128 (206)
                      .+-+++.++....+++++++.+|..|+||+....+.  +.....+.+-++|+.||+|+-+......+.+..++  .++.+
T Consensus        45 ~lidW~~~v~~~~~l~~et~~lAv~llDryl~~~~~--v~~~~lqL~a~acL~IAsK~ee~~~~~~~~l~~~~~~~~t~~  122 (140)
T d1w98b2          45 ILLDWLMEVCEVYKLHRETFYLAQDFFDRYMATQEN--VVKTLLQLIGISSLFIAAKLEEIYPPKLHQFAYVTDGACSGD  122 (140)
T ss_dssp             HHHHHHHHHHHHTTCBHHHHHHHHHHHHHHHHHCCC--CCGGGHHHHHHHHHHHHHHHHCSSCCCHHHHHHTTTTSSCHH
T ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHHHHhcccc--ccHHHHhHHHHHHHHHHHHHcccCCCCHHHHHHHHcCCCCHH
Confidence            378899999999999999999999999999875443  45678899999999999999988888888888774  37999


Q ss_pred             HHHHHHHHHHHhCCCcee
Q 028611          129 EMNFLELDFLFGLSFHLN  146 (206)
Q Consensus       129 eLN~LE~~fL~lLdy~L~  146 (206)
                      |+.+||+.+|..|+|+|+
T Consensus       123 ei~~mE~~IL~~L~~~Ln  140 (140)
T d1w98b2         123 EILTMELMIMKALKWRLS  140 (140)
T ss_dssp             HHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHHHHHHHHCCCcCC
Confidence            999999999999999984
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} 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
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure