Citrus Sinensis ID: 019656

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------
MGDSDDGSFSVSSLMCQEDESCLSQESGDEKSCDGSYYCDPCCFVLGNGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLNTPNSVISHSLSSTSSIDVLKNSTLTSGAGTKRRLTFNGYARNCLPKKFCGP
cccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHccccccccccEEEccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccccccHHHHHHcccccccccccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccc
ccccccccccccccEcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccHHHHHcccccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHccccccHcHEEEEcccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHccHHcccHHHHHHHHHHHHHHHHcccccccccHHHHHHHccccHHHHHHHHHHHHHHHHcccccccHHHHHHHccccccccHccccccccccHccccccccccccccccccccc
mgdsddgsfsvsslmcqedesclsqesgdekscdgsyycdpccfvlgngdEEFIEKLVDKetdfgskgcgfsddcstrTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRflskrsiddGKLWAIRLLSVACLSLAAKMeecqvpalsefqvddfdFENKVIQRMELLVLSTLdwkmgsitpfAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMnvfpscgspeieHIYSCYSLMqgiemgklntpnsvishslsstssidvlknstltsgagtkrrltfngyarnclpkkfcgp
mgdsddgsfSVSSLMCQEDESCLSQESGDEKSCDGSYYCDPCCFVLGNGDEEFIEKLVDKETDFgskgcgfsddcstrTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLNTPNSVISHSLsstssidvlknstltsgagtkrrltfngyarnclpkkfcgp
MgdsddgsfsvssLMCQEDESCLSQESGDEKSCDGSYYCDPCCFVLGNGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSaiaaaavlaaSDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLNTPNsvishslsstssIDVLKNSTLTSGAGTKRRLTFNGYARNCLPKKFCGP
********************************CDGSYYCDPCCFVLGNGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMG******************************************************
********FSVSSLMCQEDESCLSQESGDEKSCDGSYYCDPCCFVLGNGDEEFIEKLVDKETDFGSKGCG***DCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQ***********************************************************
***********SSLMC*****************DGSYYCDPCCFVLGNGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLNTPNSVISHSLSSTSSIDVLKNSTLTSGAGTKRRLTFNGYARNCLPKKFCGP
*************************************YCDPCCFVLGNGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLNTPNSVISHSLSSTSSIDV*K*ST****************************
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGDSDDGSFSVSSLMCQEDESCLSQESGDEKSCDGSYYCDPCCFVLGNGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLNTPNSVISHSLSSTSSIDVLKNSTLTSGAGTKRRLTFNGYARNCLPKKFCGP
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 ?
Query337 2.2.26 [Sep-21-2011]
Q2V3B2323 Cyclin-D5-1 OS=Arabidopsi yes no 0.910 0.950 0.377 2e-44
Q10QA2345 Cyclin-D5-3 OS=Oryza sati yes no 0.632 0.617 0.425 2e-38
P42751339 Cyclin-D1-1 OS=Arabidopsi no no 0.658 0.654 0.410 5e-37
Q0DQA9367 Cyclin-D5-1 OS=Oryza sati no no 0.581 0.534 0.447 2e-36
Q2QMW1365 Cyclin-D5-2 OS=Oryza sati no no 0.670 0.619 0.417 1e-35
Q0J233308 Cyclin-D2-1 OS=Oryza sati no no 0.774 0.847 0.354 3e-35
Q67V81363 Cyclin-D1-1 OS=Oryza sati no no 0.560 0.520 0.418 1e-33
Q8H339354 Cyclin-D1-2 OS=Oryza sati no no 0.578 0.550 0.412 2e-33
Q8LGA1308 Cyclin-D4-1 OS=Arabidopsi no no 0.572 0.626 0.422 3e-33
Q4KYM5383 Cyclin-D4-2 OS=Oryza sati no no 0.525 0.462 0.404 7e-33
>sp|Q2V3B2|CCD51_ARATH Cyclin-D5-1 OS=Arabidopsis thaliana GN=CYCD5-1 PE=2 SV=2 Back     alignment and function desciption
 Score =  179 bits (455), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 130/344 (37%), Positives = 185/344 (53%), Gaps = 37/344 (10%)

Query: 1   MGDSDDGSFSVSSLMCQEDESCLSQESGDEKSCDGSYYCDPCCFVLGNGDEEFIEKLVDK 60
           MG+  D   S++  +C E ES L+++  D+++ + S   +P  F     DE+++  LV K
Sbjct: 1   MGEPKD---SLALFLCHESESSLNED--DDETIERSDKQEPH-FTTTIDDEDYVADLVLK 54

Query: 61  ETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLS 120
           E         F    S  T S     RL AI+WI   R  FGFQ +TAY+++ + D FL 
Sbjct: 55  E------NLRFETLPSKTTSS---SDRLIAIDWILTTRTRFGFQHQTAYIAISYFDLFLH 105

Query: 121 KRSI--DDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVD-DFDFENKVIQRMELLVL 177
           KR I     + WA+RLLSVACLSLAAKMEE  VP LS++  D DF F+  VI++ ELL+L
Sbjct: 106 KRFIGLQKDETWAMRLLSVACLSLAAKMEERIVPGLSQYPQDHDFVFKPDVIRKTELLIL 165

Query: 178 STLDWKMGSITPFAFLHYFMIKLCGECR--PKELV-SRAVELIMTITKVINLMNHRPSAI 234
           STLDWKM  ITPF + +YF+ K+  +     K+LV  R+ + ++ +TK I+   +R   +
Sbjct: 166 STLDWKMNLITPFHYFNYFLAKISQDNHSVSKDLVLLRSSDSLLALTKEISFTEYRQFVV 225

Query: 235 AAA-----AVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLNTPN 289
           AA      +   +SD +LTRE I  K        S E E++Y CY     IE  K  TP 
Sbjct: 226 AAVTTLLASSSTSSDIRLTREEIANKFGSISWWTSNENENVYLCYQRTLEIEERKHMTPP 285

Query: 290 SVISHSLSSTSSIDVLKNSTLTSGAGTKRRLTFNGYARNCLPKK 333
             I+ S    +           SG+G KRRL+F+   ++  P K
Sbjct: 286 PEIAVSREPPA-----------SGSGAKRRLSFDDSDQSSPPAK 318

Arabidopsis thaliana (taxid: 3702)
>sp|Q10QA2|CCD53_ORYSJ Cyclin-D5-3 OS=Oryza sativa subsp. japonica GN=CYCD5-3 PE=2 SV=1 Back     alignment and function description
>sp|P42751|CCD11_ARATH Cyclin-D1-1 OS=Arabidopsis thaliana GN=CYCD1-1 PE=1 SV=3 Back     alignment and function description
>sp|Q0DQA9|CCD51_ORYSJ Cyclin-D5-1 OS=Oryza sativa subsp. japonica GN=CYCD5-1 PE=2 SV=2 Back     alignment and function description
>sp|Q2QMW1|CCD52_ORYSJ Cyclin-D5-2 OS=Oryza sativa subsp. japonica GN=CYCD5-2 PE=2 SV=1 Back     alignment and function description
>sp|Q0J233|CCD21_ORYSJ Cyclin-D2-1 OS=Oryza sativa subsp. japonica GN=CYCD2-1 PE=3 SV=2 Back     alignment and function description
>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|Q8H339|CCD12_ORYSJ Cyclin-D1-2 OS=Oryza sativa subsp. japonica GN=CYCD1-2 PE=3 SV=2 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|Q4KYM5|CCD42_ORYSJ Cyclin-D4-2 OS=Oryza sativa subsp. japonica GN=CYCD4-2 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 ?
Query337
224071313337 predicted protein [Populus trichocarpa] 0.988 0.988 0.592 1e-93
359359236337 D5-type cyclin [Populus x canadensis] 0.988 0.988 0.589 1e-93
296087323330 unnamed protein product [Vitis vinifera] 0.958 0.978 0.541 3e-85
225458826317 PREDICTED: cyclin-D5-1 [Vitis vinifera] 0.851 0.905 0.537 1e-79
255538076327 cyclin d, putative [Ricinus communis] gi 0.910 0.938 0.495 2e-76
359480628270 PREDICTED: cyclin-D5-1-like [Vitis vinif 0.783 0.977 0.597 1e-74
357482617353 Cyclin-D5-1 [Medicago truncatula] gi|355 0.940 0.898 0.448 1e-70
356495506321 PREDICTED: cyclin-D5-1-like [Glycine max 0.940 0.987 0.486 4e-70
449447295317 PREDICTED: cyclin-D5-1-like [Cucumis sat 0.881 0.936 0.485 5e-70
356518130314 PREDICTED: cyclin-D5-1-like [Glycine max 0.869 0.933 0.471 1e-69
>gi|224071313|ref|XP_002303399.1| predicted protein [Populus trichocarpa] gi|159025723|emb|CAN88862.1| D5-type cyclin [Populus trichocarpa] gi|222840831|gb|EEE78378.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  349 bits (895), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 202/341 (59%), Positives = 249/341 (73%), Gaps = 8/341 (2%)

Query: 1   MGDSDDGSFSVSSLMCQEDESCLSQESGDEKSCDGSYYCDPCCFVLGNG-DEEFIEKLVD 59
           MGD D+   S+SSL+C E+ESC   +S  + S   +   D   F L    D E++EKLV+
Sbjct: 1   MGDFDNSL-SLSSLLCHENESCFFNDSISDHS---NIKHDRSRFGLETEVDVEYVEKLVE 56

Query: 60  KET-DFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRF 118
           +ET  FG +     DDC   + +WLK ARLDAIEWI N RA++GF+F TAYLSV + DRF
Sbjct: 57  RETITFGYRCHASFDDCLITSHNWLKFARLDAIEWILNTRAIYGFRFHTAYLSVTYFDRF 116

Query: 119 LSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVDDFDFENKVIQRMELLVLS 178
           +SKRSID+GKLWAIRLLSVACLSLAAKMEE +VP LSEF V+D+ F NKVIQRMELLVL+
Sbjct: 117 VSKRSIDEGKLWAIRLLSVACLSLAAKMEERKVPPLSEFPVEDYCFGNKVIQRMELLVLN 176

Query: 179 TLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAA 238
           TL+W+M SITPFA+LHYF+ K CGE  PKE VSRAVELI+ + K I+L++HRPS IAAAA
Sbjct: 177 TLEWRMNSITPFAYLHYFIHKTCGESTPKETVSRAVELIVAMIKEIDLLDHRPSIIAAAA 236

Query: 239 VLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLNTPNSVISHSLSS 298
           VLAAS+ QLTR+ +ELKM++  S GS E E+++SCY  MQ IEMGK  TP  V   + S+
Sbjct: 237 VLAASNRQLTRKELELKMDMISSWGSLENENVFSCYIAMQEIEMGKAKTPRLVFYPNSSA 296

Query: 299 --TSSIDVLKNSTLTSGAGTKRRLTFNGYARNCLPKKFCGP 337
             + S DVL+NS+L SGAG KR LTFN   + C  KK C P
Sbjct: 297 IHSGSFDVLENSSLVSGAGIKRSLTFNECDQTCPAKKICRP 337

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359359236|gb|AEV41136.1| D5-type cyclin [Populus x canadensis] Back     alignment and taxonomy information
>gi|296087323|emb|CBI33697.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|225458826|ref|XP_002283315.1| PREDICTED: cyclin-D5-1 [Vitis vinifera] gi|302142205|emb|CBI19408.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255538076|ref|XP_002510103.1| cyclin d, putative [Ricinus communis] gi|223550804|gb|EEF52290.1| cyclin d, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|359480628|ref|XP_003632504.1| PREDICTED: cyclin-D5-1-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|357482617|ref|XP_003611595.1| Cyclin-D5-1 [Medicago truncatula] gi|355512930|gb|AES94553.1| Cyclin-D5-1 [Medicago truncatula] Back     alignment and taxonomy information
>gi|356495506|ref|XP_003516618.1| PREDICTED: cyclin-D5-1-like [Glycine max] Back     alignment and taxonomy information
>gi|449447295|ref|XP_004141404.1| PREDICTED: cyclin-D5-1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356518130|ref|XP_003527735.1| PREDICTED: cyclin-D5-1-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 ?
Query337
TAIR|locus:2120081323 CYCD5;1 "AT4G37630" [Arabidops 0.878 0.916 0.375 4.8e-39
UNIPROTKB|Q10QA2345 CYCD5-3 "Cyclin-D5-3" [Oryza s 0.774 0.756 0.369 2.4e-37
TAIR|locus:2020663339 CYCD1;1 "CYCLIN D1;1" [Arabido 0.729 0.725 0.357 3.7e-32
TAIR|locus:2083128361 CYCD3;3 "AT3G50070" [Arabidops 0.448 0.418 0.409 1.5e-26
TAIR|locus:2124331376 CYCD3;1 "CYCLIN D3;1" [Arabido 0.768 0.688 0.293 1.9e-26
TAIR|locus:2142504298 CYCD4;2 "AT5G10440" [Arabidops 0.525 0.593 0.377 3.2e-26
TAIR|locus:2157172367 CYCD3;2 "AT5G67260" [Arabidops 0.655 0.602 0.290 4.2e-24
TAIR|locus:2125522302 CYCD6;1 "AT4G03270" [Arabidops 0.721 0.804 0.271 2.2e-18
TAIR|locus:2185178341 CYCD7;1 "AT5G02110" [Arabidops 0.599 0.592 0.232 2.3e-14
ZFIN|ZDB-GENE-020418-1428 ccna2 "cyclin A2" [Danio rerio 0.308 0.242 0.357 6.6e-10
TAIR|locus:2120081 CYCD5;1 "AT4G37630" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 417 (151.9 bits), Expect = 4.8e-39, P = 4.8e-39
 Identities = 124/330 (37%), Positives = 172/330 (52%)

Query:    15 MCQEDESCLSQESGDEKSCDGSYYCDPCCFVLGNGDEEFIEKLVDKETDFGSKGCGFSDD 74
             +C E ES L+++  D+++ + S   +P  F     DE+++  LV KE         F   
Sbjct:    12 LCHESESSLNED--DDETIERSDKQEPH-FTTTIDDEDYVADLVLKEN------LRFETL 62

Query:    75 CSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSI--DDGKLWAI 132
              S  T S     RL AI+WI   R  FGFQ +TAY+++ + D FL KR I     + WA+
Sbjct:    63 PSKTTSS---SDRLIAIDWILTTRTRFGFQHQTAYIAISYFDLFLHKRFIGLQKDETWAM 119

Query:   133 RLLSVACLSLAAKMEECQVPALSEFQVD-DFDFENKVIQRMELLVLSTLDWKMGSITPFA 191
             RLLSVACLSLAAKMEE  VP LS++  D DF F+  VI++ ELL+LSTLDWKM  ITPF 
Sbjct:   120 RLLSVACLSLAAKMEERIVPGLSQYPQDHDFVFKPDVIRKTELLILSTLDWKMNLITPFH 179

Query:   192 FLHYFMIKLCGECRP--KELVS-RAVELIMTITKVINLMNHRPSXXXX-----XXXXXXS 243
             + +YF+ K+  +     K+LV  R+ + ++ +TK I+   +R                 S
Sbjct:   180 YFNYFLAKISQDNHSVSKDLVLLRSSDSLLALTKEISFTEYRQFVVAAVTTLLASSSTSS 239

Query:   244 DGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLNTPNXXXXXXXXXXXXID 303
             D +LTRE I  K        S E E++Y CY     IE  K  TP             I 
Sbjct:   240 DIRLTREEIANKFGSISWWTSNENENVYLCYQRTLEIEERKHMTPPPE----------IA 289

Query:   304 VLKNSTLTSGAGTKRRLTFNGYARNCLPKK 333
             V +     SG+G KRRL+F+   ++  P K
Sbjct:   290 VSREPP-ASGSGAKRRLSFDDSDQSSPPAK 318
GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0051726 "regulation of cell cycle" evidence=ISS
GO:0005515 "protein binding" evidence=IPI
GO:0042023 "DNA endoreduplication" evidence=RCA;IMP
GO:0000278 "mitotic cell cycle" evidence=RCA
GO:0010440 "stomatal lineage progression" evidence=RCA
GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=RCA
UNIPROTKB|Q10QA2 CYCD5-3 "Cyclin-D5-3" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2020663 CYCD1;1 "CYCLIN D1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus: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:2142504 CYCD4;2 "AT5G10440" [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: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
ZFIN|ZDB-GENE-020418-1 ccna2 "cyclin A2" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q2V3B2CCD51_ARATHNo assigned EC number0.37790.91090.9504yesno

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 ?
Query337
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 5e-27
COG5024440 COG5024, COG5024, Cyclin [Cell division and chromo 2e-12
cd0004388 cd00043, CYCLIN, Cyclin box fold 1e-10
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 2e-08
COG5333297 COG5333, CCL1, Cdk activating kinase (CAK)/RNA pol 0.004
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score =  103 bits (258), Expect = 5e-27
 Identities = 38/100 (38%), Positives = 58/100 (58%), Gaps = 4/100 (4%)

Query: 87  RLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKM 146
           R   I+W+      F     T YL+V++LDRFLSK+ +       ++L+ V CL +AAK 
Sbjct: 31  RAILIDWLVEVHEEFKLLPETLYLAVNYLDRFLSKQPV---PRTKLQLVGVTCLLIAAKY 87

Query: 147 EECQVPALSEFQ-VDDFDFENKVIQRMELLVLSTLDWKMG 185
           EE   P++ +F  + D  +  + I RMELL+LSTL+W + 
Sbjct: 88  EEIYPPSVEDFVYITDNAYTKEEILRMELLILSTLNWDLS 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|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 337
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
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 99.94
TIGR00569305 ccl1 cyclin ccl1. University). 99.92
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.92
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.9
KOG0835367 consensus Cyclin L [General function prediction on 99.83
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.82
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.79
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.57
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.55
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.52
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.46
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.28
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 99.0
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.91
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 98.4
KOG1598 521 consensus Transcription initiation factor TFIIIB, 98.09
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 98.04
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 97.98
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 97.91
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 96.8
PRK00423310 tfb transcription initiation factor IIB; Reviewed 95.62
KOG1674218 consensus Cyclin [General function prediction only 95.12
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 93.55
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 88.75
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 87.92
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 85.54
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=2.4e-48  Score=362.02  Aligned_cols=223  Identities=35%  Similarity=0.532  Sum_probs=192.4

Q ss_pred             CChHHHHHHHHHHHhccCCCCCCCCCCcccccccchHHHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccc
Q 019656           48 NGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDG  127 (337)
Q Consensus        48 ~~~~e~~~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~  127 (337)
                      ..+||+++.|+++|.++.|..++    .......+++.+|..+++||++|+.++++.++|+++|+||||||++.+.+++.
T Consensus        43 ~~~e~~i~~ll~kEe~~~p~~~~----~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~  118 (335)
T KOG0656|consen   43 LWDERVLANLLEKEEQHNPSLDY----FLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKD  118 (335)
T ss_pred             cccHHHHHHHHHHHHHhCCCCch----hhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCC
Confidence            45899999999999999998763    23344557778999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHHhhhhccCCCCcccee--eccCCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCC
Q 019656          128 KLWAIRLLSVACLSLAAKMEECQVPALSEFQ--VDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECR  205 (337)
Q Consensus       128 ~~w~lqLla~acL~LAaK~EE~~~p~l~dl~--i~~~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~  205 (337)
                      ++|++||+|+|||+||||+||+.+|.+.|++  .+++.|.+++|++||+.||++|+|+|+++||++|+++|+.+++....
T Consensus       119 k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~  198 (335)
T KOG0656|consen  119 KPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDH  198 (335)
T ss_pred             chHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccc
Confidence            9999999999999999999999999999998  35699999999999999999999999999999999999999988765


Q ss_pred             hH-HHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcCCCCchhhhhhhcccccCCCCCHhHHHHHHH
Q 019656          206 PK-ELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYS  275 (337)
Q Consensus       206 ~~-~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~C~~  275 (337)
                      .+ .+..++..++..++.+..|++|+||+||+|++..+....... .+......+..+..++.+.+..|+.
T Consensus       199 ~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l-~~~~~~~~~~~~~~l~~e~~~~~~~  268 (335)
T KOG0656|consen  199 NKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGL-DFREYENNLLSLLSLSKEKVNRCYD  268 (335)
T ss_pred             hHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcch-hhhhhhHHHHHHHHhhHHhhhcchh
Confidence            54 455666778888999999999999999999998876433222 2222124455567788899999998

>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>COG5024 Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] Back     alignment and domain information
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>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
>cd00043 CYCLIN Cyclin box fold 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
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] Back     alignment and domain information
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning] 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
>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
>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
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] 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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query337
1vyw_B265 Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 3e-11
4bco_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 4e-11
4bcq_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 4e-11
1fin_B260 Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 4e-11
1e9h_B261 Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex 4e-11
2x1n_B261 Truncation And Optimisation Of Peptide Inhibitors O 4e-11
1ogu_B260 Structure Of Human Thr160-phospho Cdk2/cyclin A Com 4e-11
4bcq_D262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 4e-11
1jst_B258 Phosphorylated Cyclin-Dependent Kinase-2 Bound To C 4e-11
1qmz_B259 Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Com 4e-11
3f5x_B256 Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Boun 5e-11
2g9x_B262 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 5e-11
1vin_A268 Bovine Cyclin A3 Length = 268 5e-11
3dog_B264 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 5e-11
3ddq_B269 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 6e-11
3ddp_B268 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 6e-11
3bht_B262 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 6e-11
3qhr_B261 Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic 1e-10
4ii5_B258 Structure Of Pcdk2/cyclina Bound To Adp And 1 Magne 2e-10
4i3z_B257 Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNES 2e-10
2b9r_A269 Crystal Structure Of Human Cyclin B1 Length = 269 2e-07
1w98_B283 The Structural Basis Of Cdk2 Activation By Cyclin E 5e-07
2jgz_B260 Crystal Structure Of Phospho-Cdk2 In Complex With C 8e-07
2w9z_A257 Crystal Structure Of Cdk4 In Complex With A D-Type 4e-04
2w96_A271 Crystal Structure Of Cdk4 In Complex With A D-Type 5e-04
>pdb|1VYW|B Chain B, Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 265 Back     alignment and structure 
Iteration: 1

 Score = 65.9 bits (159), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 41/125 (32%), Positives = 67/125 (53%), Gaps = 5/125 (4%)
Query: 87  RLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKM 146
           R   ++W+      +  Q  T +L+V+++DRFLS  S+  GKL   +L+  A + LA+K 
Sbjct: 44  RAILVDWLVEVGEEYKLQNETLHLAVNYIDRFLSSMSVLRGKL---QLVGTAAMLLASKF 100
Query: 147 EECQVPALSEF-QVDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFL-HYFMIKLCGEC 204
           EE   P ++EF  + D  +  K + RME LVL  L + + + T   FL  YF+ +    C
Sbjct: 101 EEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLTFDLAAPTVNQFLTQYFLHQQPANC 160
Query: 205 RPKEL 209
           + + L
Sbjct: 161 KVESL 165
>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|B Chain B, Structure Of Cdk2 In Complex With Cyclin A And A 2-amino-4- Heteroaryl-pyrimidine Inhibitor Length = 262 Back     alignment and structure
>pdb|1FIN|B Chain B, Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 260 Back     alignment and structure
>pdb|1E9H|B Chain B, Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex With The Inhibitor Indirubin-5-Sulphonate Bound Length = 261 Back     alignment and structure
>pdb|2X1N|B Chain B, Truncation And Optimisation Of Peptide Inhibitors Of Cdk2, Cyclin A Through Structure Guided Design Length = 261 Back     alignment and structure
>pdb|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|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|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|3F5X|B Chain B, Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Bound At Its Active Site Length = 256 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|3QHR|B Chain B, Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic Length = 261 Back     alignment and structure
>pdb|4II5|B Chain B, Structure Of Pcdk2/cyclina Bound To Adp And 1 Magnesium Ion Length = 258 Back     alignment and structure
>pdb|4I3Z|B Chain B, Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNESIUM IONS Length = 257 Back     alignment and structure
>pdb|2B9R|A Chain A, Crystal Structure Of Human Cyclin B1 Length = 269 Back     alignment and structure
>pdb|1W98|B Chain B, The Structural Basis Of Cdk2 Activation By Cyclin E Length = 283 Back     alignment and structure
>pdb|2JGZ|B Chain B, Crystal Structure Of Phospho-Cdk2 In Complex With Cyclin B Length = 260 Back     alignment and structure
>pdb|2W9Z|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 257 Back     alignment and structure
>pdb|2W96|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 271 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 ?
Query337
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 4e-33
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 8e-33
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 4e-28
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 8e-28
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 8e-26
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 1e-25
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 2e-25
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 4e-23
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 8e-13
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 2e-12
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 3e-10
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 4e-10
2ivx_A257 Cyclin-T2; transcription regulation, cell division 4e-09
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 1e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-05
>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 =  122 bits (309), Expect = 4e-33
 Identities = 38/158 (24%), Positives = 76/158 (48%), Gaps = 5/158 (3%)

Query: 87  RLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKM 146
           R     W+         +     L++++LDRFLS   +   +L   +LL   C+ +A+KM
Sbjct: 57  RKIVATWMLEVCEEQKCEEEVFPLAMNYLDRFLSLEPVKKSRL---QLLGATCMFVASKM 113

Query: 147 EECQVPALSEFQ-VDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECR 205
           +E       +     D     + + +MELL+++ L W + ++TP  F+ +F+ K+     
Sbjct: 114 KETIPLTAEKLCIYTDNSIRPEELLQMELLLVNKLKWNLAAMTPHDFIEHFLSKMPEAEE 173

Query: 206 PKELV-SRAVELIMTITKVINLMNHRPSAIAAAAVLAA 242
            K+++   A   +      +  +++ PS +AA +V+AA
Sbjct: 174 NKQIIRKHAQTFVALCATDVKFISNPPSMVAAGSVVAA 211
>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
>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
>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
>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
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Length = 258 Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Length = 235 Back     alignment and structure
>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 ?
Query337
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 100.0
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 100.0
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 100.0
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 100.0
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 100.0
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 100.0
2ivx_A257 Cyclin-T2; transcription regulation, cell division 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 100.0
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.98
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.97
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.94
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.88
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.72
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.39
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 98.22
1ais_B200 TFB TFIIB, protein (transcription initiation facto 96.93
1c9b_A207 General transcription factor IIB; protein-DNA comp 95.01
2ivx_A257 Cyclin-T2; transcription regulation, cell division 89.86
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 89.86
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 86.42
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 86.03
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 85.5
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 85.11
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 83.49
>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=3.1e-48  Score=364.94  Aligned_cols=264  Identities=20%  Similarity=0.293  Sum_probs=199.8

Q ss_pred             CCCCCCCccC-ccccccCccccCCCCCCCCCCCCCCCCCCCCCCCCCChHHHHHHHHHHHhccCCCCCCCCCCccccccc
Q 019656            3 DSDDGSFSVS-SLMCQEDESCLSQESGDEKSCDGSYYCDPCCFVLGNGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQS   81 (337)
Q Consensus         3 ~~~~~~~~~~-~L~c~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~L~~~E~~~~~~~~~~~~~~~~~~~~   81 (337)
                      |+||.+.+-. .|+|.|+....           .....||.++.    ++|++++|+++|.++.|+++|+...    +.+
T Consensus         5 ~~~~~~~~~~~~l~~~e~~~~~-----------~~a~~dp~l~~----~~~i~~~l~~~E~~~~p~~~y~~~~----q~~   65 (306)
T 3g33_B            5 DDDDKSPGGSMELLCCEGTRHA-----------PRAGPDPRLLG----DQRVLQSLLRLEERYVPRASYFQCV----QRE   65 (306)
T ss_dssp             -------------------------------------------C----HHHHHHHHHHHGGGGSCSSCCTTTS----TTT
T ss_pred             cccccCCCCCcceeeecccccc-----------cccCCCCcccc----hHHHHHHHHHHHHHhCCCcHHHhhc----Ccc
Confidence            4445444433 79999941100           01123455444    7899999999999999998887531    234


Q ss_pred             chHHHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-ec
Q 019656           82 WLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VD  160 (337)
Q Consensus        82 ~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~  160 (337)
                      ++..||..+|+||++|+.+|+++++|+++||+|||||+++..+.+.++   ||+|+||||||+|+||..+|.+.+|+ ++
T Consensus        66 i~~~~R~~lvdwl~ev~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~l---qLv~~tcL~lAsK~eE~~p~~~~~l~~~~  142 (306)
T 3g33_B           66 IKPHMRKMLAYWMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTRKAQL---QLLGAVCMLLASKLRETTPLTIEKLCIYT  142 (306)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHCCCCGGGH---HHHHHHHHHHHHHHHCSSCCCTTHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHhCCcHhHHHHHHHHHHHHHhcCCCcHHHH---HHHHHHHHHHHHHhccCCCCCHHHHHHHh
Confidence            677999999999999999999999999999999999999999988876   99999999999999999999999999 89


Q ss_pred             cCCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCChHHHHHH-HHHHHHHHHhhhhccCCcHHHHHHHHH
Q 019656          161 DFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSR-AVELIMTITKVINLMNHRPSAIAAAAV  239 (337)
Q Consensus       161 ~~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~~~~~~~~-~~~~l~~~l~~~~~l~~~PS~IAaAal  239 (337)
                      ++.|++++|++||+.||++|+|+++.|||++||.+|++.++........+.. +..++..++.++.|+.|+||+||||||
T Consensus       143 ~~~~~~~~i~~mE~~IL~~L~f~l~~~tp~~fl~~~l~~l~~~~~~~~~~~~~a~~~l~lsl~d~~~l~~~PS~IAaAai  222 (306)
T 3g33_B          143 DHAVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLSLPRDRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSI  222 (306)
T ss_dssp             TTSSCHHHHHHHHHHHHHHTTTCCCCCCGGGGHHHHHHTSSCCTTTHHHHHHHHHHHHHHHHHCGGGTTSCHHHHHHHHH
T ss_pred             ccCccHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHHHHhhhhhccCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999988776554444443 445677789999999999999999999


Q ss_pred             HHHHcCCCCchhh-hhhhcccccCCCCCHhHHHHHHHHHHHhHhccCCCC
Q 019656          240 LAASDGQLTRETI-ELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLNTP  288 (337)
Q Consensus       240 ~lA~~~~~~~~~~-~~~~~~l~~~~~~~~~~l~~C~~~i~~l~~~~~~~~  288 (337)
                      ++|+........| ..|...+..++|++.++|++|++.|.+++.+..+..
T Consensus       223 ~lA~~~l~~~~~w~~~w~~~L~~~tg~~~~~l~~c~~~I~~l~~~~l~~~  272 (306)
T 3g33_B          223 GAAVQGLGACSMSGDELTELLAGITGTEVDCLRACQEQIEAALRESLREA  272 (306)
T ss_dssp             HHHHHTCC---CCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHTC----
T ss_pred             HHHHHHhcCCCCchhhHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9998765544344 344556667789999999999999999998865544
>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
>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
>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
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Back     alignment and structure
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>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
>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
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M 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 337
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 1e-21
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 5e-21
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 7e-21
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 2e-20
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 2e-20
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 1e-16
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 3e-14
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 1e-13
>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 = 87.3 bits (216), Expect = 1e-21
 Identities = 26/99 (26%), Positives = 49/99 (49%), Gaps = 3/99 (3%)

Query: 87  RLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKM 146
           R   ++W+     ++     T YL+ DF DR+++ +         ++L+ ++ L +AAK+
Sbjct: 43  RAILLDWLMEVCEVYKLHRETFYLAQDFFDRYMATQENV--VKTLLQLIGISSLFIAAKL 100

Query: 147 EECQVPALSEFQVD-DFDFENKVIQRMELLVLSTLDWKM 184
           EE   P L +F    D       I  MEL+++  L W++
Sbjct: 101 EEIYPPKLHQFAYVTDGACSGDEILTMELMIMKALKWRL 139
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 128 Back     information, alignment and structure
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Length = 132 Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Length = 127 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 ?
Query337
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.97
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.97
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.97
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.96
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.95
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.84
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.8
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.78
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.1
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.63
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 98.57
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.54
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 98.1
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.97
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 97.91
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.67
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.61
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 97.56
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 97.13
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 96.82
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 96.58
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 96.52
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 94.02
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 80.9
d1f5qb2106 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 80.64
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Viral cyclin
species: Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]

Probab=99.97  E-value=4.9e-32  Score=222.35  Aligned_cols=129  Identities=19%  Similarity=0.307  Sum_probs=120.0

Q ss_pred             hHHHHHHHHHHHhccCCCCCCCCCCcccccccchHHHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchh
Q 019656           50 DEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKL  129 (337)
Q Consensus        50 ~~e~~~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~  129 (337)
                      +++++++|++.|.++.|+++|+..    .+.++++.+|..+|+||.+|+..|+++++|+++||+|||||+++..+++++.
T Consensus         3 ~~~i~~~l~~~E~~~~p~~~y~~~----~q~~it~~~R~~lidWl~~v~~~~~l~~et~~lAv~llDrfls~~~v~~~~l   78 (132)
T d1g3nc1           3 EDRIFYNILEIEPRFLTSDSVFGT----FQQSLTSHMRKLLGTWMFSVCQEYNLEPNVVALALNLLDRLLLIKQVSKEHF   78 (132)
T ss_dssp             HHHHHHHHHHHGGGGCCCGGGHHH----HTSSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTCCCCHHHH
T ss_pred             hHHHHHHHHHHHHHHCCChHHHHh----cCccCCHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCcccCcHHHH
Confidence            678999999999999998776532    2346889999999999999999999999999999999999999999999887


Q ss_pred             hHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCHHHHHHHHHHHHHHcCCccc
Q 019656          130 WAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFENKVIQRMELLVLSTLDWKMG  185 (337)
Q Consensus       130 w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~~~I~~mE~~IL~~L~~~l~  185 (337)
                         ||+|+|||+||+|+||..+|.+++++ ++++.|++++|.+||+.||++|+|++.
T Consensus        79 ---qLia~tcl~iAsK~ee~~~~~~~~l~~~~~~~~t~~ei~~mE~~IL~~L~w~l~  132 (132)
T d1g3nc1          79 ---QKTGSACLLVASKLRSLTPISTSSLCYAAADSFSRQELIDQEKELLEKLAWRTE  132 (132)
T ss_dssp             ---HHHHHHHHHHHHHHHCSSCCCHHHHHHHTTTCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             ---HHHHHHHHHHHHHhcccCCCCHHHHHHHHcCCCCHHHHHHHHHHHHHHcCCcCC
Confidence               99999999999999999999999999 999999999999999999999999974
>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
>d1w98b1 a.74.1.1 (B:228-357) G1/S-specific cyclin-E1 {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
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) 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
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {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
>d1f5qb2 a.74.1.1 (B:147-252) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure