Citrus Sinensis ID: 016163

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390----
MAAHQQQPHNSTFLLDALYCSEENWEDELRVDCFQVQDGGLIEEEEEEEEGESFYFINKTKTIPVPVPMLHEQDLSWQDDELSTLLSKEVPNRLYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQLAEQVQGQGSQSIKRKFGSITVPVVPGSPNGVMDVSFSSSDSSNDSWSVASSVSSSPEPLSKKNRSQAQDHDQDQLLLQGATPDFLTIPRYL
cccccccccccccccccccccccccHHHHHHccccccccccccHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHccccccHHHcccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHccccccccccEEEEcccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccHHHHcHHccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccc
ccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccEEEccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccHHHccccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHcccccHHHEEEEEccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccccHHHHHHHHHcccHHHHHHHHHHHHHHHHccccccccHHEEHccccccccccccccccEcccEccccccccccEEEcccccccccccccccccccccccHHHHcccccccEccccccc
maahqqqphnstFLLDALycseenwedelrvdcfqvqdgglieeeeeeeegesfyfinktktipvpvpmlheqdlswqdDELStllskevpnRLYNIlktnpslsraRSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLfsfqlqrdkPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRMEILVLSTLQwkmnpvtplsFLDYIARRLGLKGYLCWEFLKRCDRILLSaisdssfmQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQLAEQVQGqgsqsikrkfgsitvpvvpgspngvmdvsfsssdssndswsvassvssspeplskknrsqaqdhdqdqlllqgatpdfltipryl
maahqqqphnstFLLDALYCSEENWEDELRVDCFQVQDGGLieeeeeeeegesFYFINKTKTIPVPVPMLHEQDLSWQDDELSTLlskevpnrlynilktnpslsraRSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQLAEQVQGQGSQSIKRKFGSITVPVVPGSPNGVMDVSFSSSDSSNDSWSVASsvssspeplSKKNRSQaqdhdqdqlllqgatpdfltipryl
MAAHQQQPHNSTFLLDALYCSEENWEDELRVDCFQVQDGGLIeeeeeeeegeSFYFINKTKTIPVPVPMLHEQDLSWQDDELSTLLSKEVPNRLYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQLAEQVQGQGSQSIKRKFGSITVPVVPGSPNGVMdvsfsssdssndswsvassvsssPEPLSKKNRSqaqdhdqdqlllqGATPDFLTIPRYL
***********TFLLDALYCSEENWEDELRVDCFQVQ****************FYFINKTKTIPVPVPMLHEQDLSWQDDELSTLLSKEVPNRLYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQLAE****************ITV**********************************************************************
***************DALYCSEENWEDELRVDCFQVQD***********EG**FYFINKTKTIPVPVPMLHEQDLSWQDDELSTLLSKEVPN*****LKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQL*****************************GVMDVSF********************************************TPDFLTIPRYL
*********NSTFLLDALYCSEENWEDELRVDCFQVQDGGLIE*********SFYFINKTKTIPVPVPMLHEQDLSWQDDELSTLLSKEVPNRLYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQLA**********IKRKFGSITVPVVPGSPNGVMDVS************************************QDQLLLQGATPDFLTIPRYL
**********STFLLDALYCSE******************************SFYFINKTKTIPVPVPMLHEQDLSWQDDELSTLLSKEVPNRLYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQLAEQVQGQGSQSIKRKFGSITVPVVPGSPNGVMDVSFSSSDSSN*S*************************DQDQLLLQGATPDFLTIPR*L
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAAHQQQPHNSTFLLDALYCSEENWEDELRVDCFQVQDGGLIEEEEEEEEGESFYFINKTKTIPVPVPMLHEQDLSWQDDELSTLLSKEVPNRLYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQLAEQVQGQGSQSIKRKFGSITVPVVPGSPNGVMDVSFSSSDSSNDSWSVASSVSSSPEPLSKKNRSQAQDHDQDQLLLQGATPDFLTIPRYL
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 ?
Query394 2.2.26 [Sep-21-2011]
P42753376 Cyclin-D3-1 OS=Arabidopsi yes no 0.725 0.760 0.496 3e-78
Q9FGQ7367 Cyclin-D3-2 OS=Arabidopsi no no 0.860 0.923 0.441 4e-72
Q9SN11361 Cyclin-D3-3 OS=Arabidopsi no no 0.812 0.886 0.459 7e-70
P42752361 Cyclin-D2-1 OS=Arabidopsi no no 0.677 0.739 0.389 1e-46
P42751339 Cyclin-D1-1 OS=Arabidopsi no no 0.581 0.675 0.412 2e-42
Q6YXH8356 Cyclin-D4-1 OS=Oryza sati yes no 0.621 0.688 0.420 7e-41
Q10K98405 Putative cyclin-D2-3 OS=O no no 0.494 0.481 0.445 8e-41
Q69QB8342 Cyclin-D3-1 OS=Oryza sati no no 0.703 0.809 0.357 1e-36
Q4KYM5383 Cyclin-D4-2 OS=Oryza sati no no 0.487 0.501 0.420 1e-36
Q8LHA8356 Cyclin-D2-2 OS=Oryza sati no no 0.563 0.623 0.378 6e-36
>sp|P42753|CCD31_ARATH Cyclin-D3-1 OS=Arabidopsis thaliana GN=CYCD3-1 PE=1 SV=3 Back     alignment and function desciption
 Score =  292 bits (748), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 158/318 (49%), Positives = 213/318 (66%), Gaps = 32/318 (10%)

Query: 6   QQPHNSTFLLDALYCSEENWEDELRVDCFQVQDGGLIEEEEEEEEGESFYFINKTKTIPV 65
           ++  +++FLLDALYC EE W+DE          G  +EE             N + +   
Sbjct: 10  REEQSNSFLLDALYCEEEKWDDE----------GEEVEE-------------NSSLSSSS 46

Query: 66  PVPMLHEQDLSWQDDELSTLLSKEVPNRLYNILKTNPSLSRARSEAVDWMLKVNAHYSFT 125
              ++ +QDL W+D++L TL SKE    L  +   +  LS  R EAV W+L+VNAHY F+
Sbjct: 47  SPFVVLQQDLFWEDEDLVTLFSKEEEQGLSCL--DDVYLSTDRKEAVGWILRVNAHYGFS 104

Query: 126 ALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKF 185
            L A+LA+ YLD+F+ S+ LQRDKPWM QL +VACLSLAAKVEETQVPLLLD QVE+ K+
Sbjct: 105 TLAAVLAITYLDKFICSYSLQRDKPWMLQLVSVACLSLAAKVEETQVPLLLDFQVEETKY 164

Query: 186 VFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAI 245
           VFEAKTIQRME+L+LSTL+WKM+ +TP+SF+D+I RRLGLK    W+FL +C R+LLS I
Sbjct: 165 VFEAKTIQRMELLILSTLEWKMHLITPISFVDHIIRRLGLKNNAHWDFLNKCHRLLLSVI 224

Query: 246 SDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQL-- 303
           SDS F+ YLPSV+A ATM+ +++ ++    + Y+  LL +L   K+KV+ C  LI+QL  
Sbjct: 225 SDSRFVGYLPSVVAAATMMRIIEQVDPFDPLSYQTNLLGVLNLTKEKVKTCYDLILQLPV 284

Query: 304 ---AEQVQGQGSQSIKRK 318
                Q+Q Q S+  KRK
Sbjct: 285 DRIGLQIQIQSSK--KRK 300
Involved in the control of the cell cycle at the G1/S (start) transition. Activates the G1/S phase transition in response to cytokinin hormone signal, but declines in response to sucrose starvation leading to G1 arrest. Involved in the induction of mitotic cell division. Plays an important role in the switch from cell proliferation to the final stages of differentiation during plant development. May not be involved in the activation of cell cycle in the root apical meristem (RAM) in the early phase of seed germination.
Arabidopsis thaliana (taxid: 3702)
>sp|Q9FGQ7|CCD32_ARATH Cyclin-D3-2 OS=Arabidopsis thaliana GN=CYCD3-2 PE=2 SV=1 Back     alignment and function description
>sp|Q9SN11|CCD33_ARATH Cyclin-D3-3 OS=Arabidopsis thaliana GN=CYCD3-3 PE=2 SV=1 Back     alignment and function description
>sp|P42752|CCD21_ARATH Cyclin-D2-1 OS=Arabidopsis thaliana GN=CYCD2-1 PE=1 SV=3 Back     alignment and function description
>sp|P42751|CCD11_ARATH Cyclin-D1-1 OS=Arabidopsis thaliana GN=CYCD1-1 PE=1 SV=3 Back     alignment and function description
>sp|Q6YXH8|CCD41_ORYSJ Cyclin-D4-1 OS=Oryza sativa subsp. japonica GN=CYCD4-1 PE=2 SV=2 Back     alignment and function description
>sp|Q10K98|CCD23_ORYSJ Putative cyclin-D2-3 OS=Oryza sativa subsp. japonica GN=CYCD2-3 PE=3 SV=1 Back     alignment and function description
>sp|Q69QB8|CCD31_ORYSJ Cyclin-D3-1 OS=Oryza sativa subsp. japonica GN=CYCD3-1 PE=2 SV=2 Back     alignment and function description
>sp|Q4KYM5|CCD42_ORYSJ Cyclin-D4-2 OS=Oryza sativa subsp. japonica GN=CYCD4-2 PE=2 SV=2 Back     alignment and function description
>sp|Q8LHA8|CCD22_ORYSJ Cyclin-D2-2 OS=Oryza sativa subsp. japonica GN=CYCD2-2 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query394
224067250371 predicted protein [Populus trichocarpa] 0.916 0.973 0.621 1e-120
255538192378 cyclin d, putative [Ricinus communis] gi 0.916 0.955 0.610 1e-116
159025713341 D3-type cyclin [Populus trichocarpa] 0.860 0.994 0.648 1e-116
224136828379 predicted protein [Populus trichocarpa] 0.860 0.894 0.660 1e-114
27435851376 cyclin D [Populus tremula x Populus trem 0.880 0.922 0.653 1e-114
359359234379 D3-type cyclin [Populus x canadensis] 0.860 0.894 0.660 1e-113
118486770379 unknown [Populus trichocarpa] 0.860 0.894 0.654 1e-112
357465613348 Cyclin D3-1 [Medicago truncatula] gi|355 0.860 0.974 0.593 1e-111
225458713372 PREDICTED: cyclin-D3-1 [Vitis vinifera] 0.916 0.970 0.607 1e-111
89111299371 cyclin D3-1 [Camellia sinensis] 0.878 0.932 0.602 1e-110
>gi|224067250|ref|XP_002302430.1| predicted protein [Populus trichocarpa] gi|222844156|gb|EEE81703.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  437 bits (1124), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 245/394 (62%), Positives = 290/394 (73%), Gaps = 33/394 (8%)

Query: 1   MAAHQQQPHNSTFLLDALYCSEENWEDELRVDCFQVQDGGLIEEEEEEEEGESFYFI--N 58
           ++  QQ   N TFL D LYCSEENWE E+R D FQ           +E +GE FY I  N
Sbjct: 9   ISEQQQYQQNPTFLYDGLYCSEENWEKEVREDYFQ-----------DEVKGEYFYSIDSN 57

Query: 59  KTKTIPVPVPMLHEQDLSWQDDELSTLLSKEVPNRLYNILKTNPSLSRARSEAVDWMLKV 118
           K  T PV V    +QDLSW+++ELS+L +KE  N+LY IL+ NPSL+RAR EAV+W+LKV
Sbjct: 58  KRNTFPVFV----QQDLSWEEEELSSLFAKEEQNQLYKILEINPSLARARCEAVEWILKV 113

Query: 119 NAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDL 178
           N HYSF+A+TA+LAVNYLDRFL S  L++DKPWMAQLAAVACLSLAAKVEETQVPLLLD 
Sbjct: 114 NVHYSFSAVTAVLAVNYLDRFLLSVHLEKDKPWMAQLAAVACLSLAAKVEETQVPLLLDF 173

Query: 179 QVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCD 238
           QVED K+VFEAKTIQRMEILVLSTL+WKMNP+TP+SFLDYI RRLGLK YLC EFLKRC+
Sbjct: 174 QVEDSKYVFEAKTIQRMEILVLSTLKWKMNPITPISFLDYIIRRLGLKDYLCLEFLKRCE 233

Query: 239 RILLSAISDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSK 298
           RI+LS +     M Y+PSVMA A ML+++  +E SL  EY+ QLL ILG DKD VE CSK
Sbjct: 234 RIVLSVVPGKLSMLYVPSVMATAVMLYIIDGVEPSLAAEYQSQLLGILGIDKDMVEDCSK 293

Query: 299 LIMQLAEQVQGQGSQSIKRKFGSITVPVVPGSPNGVMDVSFSSSDSSNDSWSVASSVSSS 358
           L+M+LA +   + S   KRK+ SI     PGSPNGV+DVSFSS  S+    SV SSVSSS
Sbjct: 294 LVMELAPRDHFKFSS--KRKYSSI-----PGSPNGVIDVSFSSDSSNYSW-SVVSSVSSS 345

Query: 359 PEPLSKKNRSQAQDHDQDQLLLQGATPDFLTIPR 392
           PEPLSKK R+    +D        AT DFL++PR
Sbjct: 346 PEPLSKKTRALQSLND--------ATTDFLSLPR 371

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255538192|ref|XP_002510161.1| cyclin d, putative [Ricinus communis] gi|223550862|gb|EEF52348.1| cyclin d, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|159025713|emb|CAN88857.1| D3-type cyclin [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224136828|ref|XP_002326955.1| predicted protein [Populus trichocarpa] gi|159025711|emb|CAN88856.1| D3-type cyclin [Populus trichocarpa] gi|222835270|gb|EEE73705.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|27435851|gb|AAO13248.1|AF181993_1 cyclin D [Populus tremula x Populus tremuloides] Back     alignment and taxonomy information
>gi|359359234|gb|AEV41135.1| D3-type cyclin [Populus x canadensis] Back     alignment and taxonomy information
>gi|118486770|gb|ABK95220.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information
>gi|357465613|ref|XP_003603091.1| Cyclin D3-1 [Medicago truncatula] gi|355492139|gb|AES73342.1| Cyclin D3-1 [Medicago truncatula] gi|388511523|gb|AFK43823.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|225458713|ref|XP_002285001.1| PREDICTED: cyclin-D3-1 [Vitis vinifera] gi|302142269|emb|CBI19472.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|89111299|dbj|BAE80324.1| cyclin D3-1 [Camellia sinensis] 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 ?
Query394
TAIR|locus:2124331376 CYCD3;1 "CYCLIN D3;1" [Arabido 0.621 0.651 0.56 1.2e-75
TAIR|locus:2083128361 CYCD3;3 "AT3G50070" [Arabidops 0.586 0.639 0.534 2.9e-66
TAIR|locus:2157172367 CYCD3;2 "AT5G67260" [Arabidops 0.850 0.912 0.418 4.1e-65
TAIR|locus:2020663339 CYCD1;1 "CYCLIN D1;1" [Arabido 0.581 0.675 0.412 1.7e-41
TAIR|locus:2142504298 CYCD4;2 "AT5G10440" [Arabidops 0.403 0.533 0.425 9.4e-27
TAIR|locus:2120081323 CYCD5;1 "AT4G37630" [Arabidops 0.522 0.637 0.336 7.6e-25
UNIPROTKB|Q10QA2345 CYCD5-3 "Cyclin-D5-3" [Oryza s 0.560 0.640 0.323 4.2e-24
TAIR|locus:2125522302 CYCD6;1 "AT4G03270" [Arabidops 0.535 0.698 0.318 9e-22
TAIR|locus:2185178341 CYCD7;1 "AT5G02110" [Arabidops 0.494 0.571 0.288 1.1e-19
ZFIN|ZDB-GENE-020418-1428 ccna2 "cyclin A2" [Danio rerio 0.558 0.514 0.285 7.3e-14
TAIR|locus:2124331 CYCD3;1 "CYCLIN D3;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 698 (250.8 bits), Expect = 1.2e-75, Sum P(2) = 1.2e-75
 Identities = 140/250 (56%), Positives = 185/250 (74%)

Query:    72 EQDLSWQDDELSTLLSKEVPNRLYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALL 131
             +QDL W+D++L TL SKE    L  +   +  LS  R EAV W+L+VNAHY F+ L A+L
Sbjct:    53 QQDLFWEDEDLVTLFSKEEEQGLSCL--DDVYLSTDRKEAVGWILRVNAHYGFSTLAAVL 110

Query:   132 AVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKT 191
             A+ YLD+F+ S+ LQRDKPWM QL +VACLSLAAKVEETQVPLLLD QVE+ K+VFEAKT
Sbjct:   111 AITYLDKFICSYSLQRDKPWMLQLVSVACLSLAAKVEETQVPLLLDFQVEETKYVFEAKT 170

Query:   192 IQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAISDSSFM 251
             IQRME+L+LSTL+WKM+ +TP+SF+D+I RRLGLK    W+FL +C R+LLS ISDS F+
Sbjct:   171 IQRMELLILSTLEWKMHLITPISFVDHIIRRLGLKNNAHWDFLNKCHRLLLSVISDSRFV 230

Query:   252 QYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQL-AEQV--Q 308
              YLPSV+A ATM+ +++ ++    + Y+  LL +L   K+KV+ C  LI+QL  +++  Q
Sbjct:   231 GYLPSVVAAATMMRIIEQVDPFDPLSYQTNLLGVLNLTKEKVKTCYDLILQLPVDRIGLQ 290

Query:   309 GQGSQSIKRK 318
              Q   S KRK
Sbjct:   291 IQIQSSKKRK 300
GO:0005634 "nucleus" evidence=ISM;IEA;IDA
GO:0016538 "cyclin-dependent protein serine/threonine kinase regulator activity" evidence=ISS
GO:0051726 "regulation of cell cycle" evidence=ISS
GO:0009735 "response to cytokinin stimulus" evidence=IGI;IMP
GO:0009744 "response to sucrose stimulus" evidence=IEP
GO:0005515 "protein binding" evidence=IPI
GO:0009741 "response to brassinosteroid stimulus" evidence=IGI
GO:0000082 "G1/S transition of mitotic cell cycle" evidence=IMP
GO:0042127 "regulation of cell proliferation" evidence=IGI;RCA
GO:0048316 "seed development" evidence=IGI
GO:0000280 "nuclear division" evidence=RCA
GO:0000911 "cytokinesis by cell plate formation" evidence=RCA
GO:0006275 "regulation of DNA replication" evidence=RCA
GO:0010075 "regulation of meristem growth" evidence=RCA
GO:0010103 "stomatal complex morphogenesis" evidence=RCA
GO:0010389 "regulation of G2/M transition of mitotic cell cycle" evidence=RCA
GO:0010583 "response to cyclopentenone" evidence=RCA
GO:0042023 "DNA endoreduplication" evidence=RCA
GO:0051225 "spindle assembly" evidence=RCA
TAIR|locus:2083128 CYCD3;3 "AT3G50070" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2157172 CYCD3;2 "AT5G67260" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2020663 CYCD1;1 "CYCLIN D1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2142504 CYCD4;2 "AT5G10440" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2120081 CYCD5;1 "AT4G37630" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q10QA2 CYCD5-3 "Cyclin-D5-3" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2125522 CYCD6;1 "AT4G03270" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2185178 CYCD7;1 "AT5G02110" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
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

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query394
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 7e-36
cd0004388 cd00043, CYCLIN, Cyclin box fold 6e-14
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 3e-12
pfam02984117 pfam02984, Cyclin_C, Cyclin, C-terminal domain 5e-12
COG5024440 COG5024, COG5024, Cyclin [Cell division and chromo 2e-11
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score =  127 bits (321), Expect = 7e-36
 Identities = 43/132 (32%), Positives = 61/132 (46%), Gaps = 8/132 (6%)

Query: 80  DELSTLLSKEV---PNRLYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYL 136
           D  + L   E    P   Y   +      + R+  +DW+++V+  +     T  LAVNYL
Sbjct: 1   DIYAYLRELEEEDRPPPDYLDQQP-DINPKMRAILIDWLVEVHEEFKLLPETLYLAVNYL 59

Query: 137 DRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRME 196
           DRFL     Q       QL  V CL +AAK EE   P + D         +  + I RME
Sbjct: 60  DRFL---SKQPVPRTKLQLVGVTCLLIAAKYEEIYPPSVEDFVYIT-DNAYTKEEILRME 115

Query: 197 ILVLSTLQWKMN 208
           +L+LSTL W ++
Sbjct: 116 LLILSTLNWDLS 127

Cyclins regulate cyclin dependent kinases (CDKs). Human cyclin-O is a Uracil-DNA glycosylase that is related to other cyclins. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the N-terminal domain. Length = 127
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>gnl|CDD|217307 pfam02984, Cyclin_C, Cyclin, C-terminal domain Back     alignment and domain information
>gnl|CDD|227357 COG5024, COG5024, Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 394
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] 99.97
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 99.95
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.91
TIGR00569305 ccl1 cyclin ccl1. University). 99.9
KOG0835367 consensus Cyclin L [General function prediction on 99.88
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.87
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.83
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.76
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.65
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.53
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.4
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.35
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.3
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 98.86
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.65
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.3
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.27
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 98.18
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 97.92
KOG1598 521 consensus Transcription initiation factor TFIIIB, 97.65
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 95.75
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 95.48
KOG1674218 consensus Cyclin [General function prediction only 94.1
PF09080106 K-cyclin_vir_C: K cyclin, C terminal; InterPro: IP 93.45
PRK00423310 tfb transcription initiation factor IIB; Reviewed 92.98
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 81.37
PF09241106 Herp-Cyclin: Herpesviridae viral cyclin; InterPro: 80.88
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=4.7e-53  Score=411.13  Aligned_cols=284  Identities=44%  Similarity=0.629  Sum_probs=239.1

Q ss_pred             CCCCcHHHHHHHHHhhccCC----ccccCCCCcccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccccccCCc
Q 016163           74 DLSWQDDELSTLLSKEVPNR----LYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDK  149 (394)
Q Consensus        74 d~~~~de~l~~Ll~kE~~~~----~~~~~q~~~i~~~~R~~lvdWi~~v~~~~~l~~~T~~lAV~~lDRFLs~~~v~~~~  149 (394)
                      +++|+++.+.+|+++|.++.    ++..+++. +++.+|.++++||++|++++++.++|+++||||||||++.+++++.+
T Consensus        41 ~~~~~e~~i~~ll~kEe~~~p~~~~~~~~~~~-~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k  119 (335)
T KOG0656|consen   41 FLLWDERVLANLLEKEEQHNPSLDYFLCVQKL-ILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDK  119 (335)
T ss_pred             cccccHHHHHHHHHHHHHhCCCCchhhhcccc-cccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCc
Confidence            37899999999999999866    24455555 88999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHHhhhcccccCCCccchhhcccccccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHHcCCCCcc
Q 016163          150 PWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYL  229 (394)
Q Consensus       150 p~~lqLvavaCL~LAaK~EE~~~p~l~dl~v~~~~~~f~~~~I~~mE~~IL~~L~w~l~~pTp~~FL~~~l~~l~~~~~~  229 (394)
                      ||++||+|+|||+||||+||+.+|.+.|+++.+..|.|.+++|+|||++||++|+|||+++||++|+++|+++++..+..
T Consensus       120 ~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~  199 (335)
T KOG0656|consen  120 PWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHN  199 (335)
T ss_pred             hHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999998877


Q ss_pred             cHHHHHHHHHHHHHhhchhcccCCCHHHHHHHHHHHHHHHhccccCcchhhhhHhHcCCCHHHHHHHHHHHHHHHHhhcc
Q 016163          230 CWEFLKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQLAEQVQG  309 (394)
Q Consensus       230 ~~~~l~~a~~ll~~sl~d~~~l~~~PS~IAaAai~lA~~~l~~~~~~~~~~~L~~~~~~~~~~l~~C~~~l~~l~~~~~~  309 (394)
                      ...++.+|..++..+..|.+|+.|+||+||+|++..+...+.+.....+...+..+.+++++.+..|+...  +      
T Consensus       200 ~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~~~--~------  271 (335)
T KOG0656|consen  200 KHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYDHF--L------  271 (335)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchhhh--h------
Confidence            78899999999999999999999999999999999999988877666677888889999999999998800  0      


Q ss_pred             CCchhhhhcccCCCCCCCCCCCcccccccccccCCCCCCCCcC------CccCCCCCCCCCCCCcccccchhhccccccc
Q 016163          310 QGSQSIKRKFGSITVPVVPGSPNGVMDVSFSSSDSSNDSWSVA------SSVSSSPEPLSKKNRSQAQDHDQDQLLLQGA  383 (394)
Q Consensus       310 ~~~~~~~~ky~s~~~~~~p~sP~~Vld~~~ss~~ss~ds~~~~------~s~~ss~~p~~kr~~~~~~~~~~~~~~~~~~  383 (394)
                                ...     ..++.++++..-  |   +.+|..+      ++.+++++|..|+||.+..++  +.++-.+.
T Consensus       272 ----------~~~-----~~~~~~~l~~~~--~---~~~~~~~~~~~~~~s~~~~~~~~~~~rr~~~~~~--~~~s~~~~  329 (335)
T KOG0656|consen  272 ----------SKI-----LNSESDCLRGEA--S---NESGEASLRDSSSSSSQSPNSPSLKKRRVSSDKE--RKQSSPPT  329 (335)
T ss_pred             ----------hhc-----cCCccccccHHH--H---hhhhcccccccchhccCCCCcccccccccccccc--cccCCCCc
Confidence                      001     234445555311  1   1111111      112223467888899988888  77777776


Q ss_pred             cCccc
Q 016163          384 TPDFL  388 (394)
Q Consensus       384 ~~~~~  388 (394)
                      .++.+
T Consensus       330 ~~~~l  334 (335)
T KOG0656|consen  330 EVRDL  334 (335)
T ss_pred             ccccc
Confidence            66543

>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
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>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
>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
>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
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair] Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] Back     alignment and domain information
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>KOG1674 consensus Cyclin [General function prediction only] Back     alignment and domain information
>PF09080 K-cyclin_vir_C: K cyclin, C terminal; InterPro: IPR015164 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>PF09241 Herp-Cyclin: Herpesviridae viral cyclin; InterPro: IPR015322 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query394
3g33_B306 Crystal Structure Of Cdk4CYCLIN D3 Length = 306 1e-12
1vyw_B265 Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 2e-11
1qmz_B259 Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Com 2e-11
1jst_B258 Phosphorylated Cyclin-Dependent Kinase-2 Bound To C 2e-11
1ogu_B260 Structure Of Human Thr160-phospho Cdk2/cyclin A Com 2e-11
2x1n_B261 Truncation And Optimisation Of Peptide Inhibitors O 2e-11
1fin_B260 Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 2e-11
1e9h_B261 Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex 3e-11
3f5x_B256 Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Boun 3e-11
4bco_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 4e-11
3dog_B264 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 9e-11
2g9x_B262 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 9e-11
1vin_A268 Bovine Cyclin A3 Length = 268 9e-11
4bcq_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 9e-11
3ddq_B269 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 1e-10
3ddp_B268 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 1e-10
3bht_B262 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 1e-10
4i3z_B257 Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNES 1e-10
4ii5_B258 Structure Of Pcdk2/cyclina Bound To Adp And 1 Magne 1e-10
3qhr_B261 Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic 2e-10
4bcq_D262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 8e-10
1w98_B283 The Structural Basis Of Cdk2 Activation By Cyclin E 2e-06
2b9r_A269 Crystal Structure Of Human Cyclin B1 Length = 269 1e-04
2jgz_B260 Crystal Structure Of Phospho-Cdk2 In Complex With C 2e-04
>pdb|3G33|B Chain B, Crystal Structure Of Cdk4CYCLIN D3 Length = 306 Back     alignment and structure 
Iteration: 1

 Score = 71.2 bits (173), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 61/222 (27%), Positives = 97/222 (43%), Gaps = 14/222 (6%)
Query: 114 WMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVP 173
           WML+V            LA+NYLDR+L     ++ +    QL    C+ LA+K+ ET  P
Sbjct: 77  WMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTRKAQ---LQLLGAVCMLLASKLRET-TP 132
Query: 174 LLLDLQVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEF 233
           L ++            + ++  E+LVL  L+W +  V    FL +I  RL L        
Sbjct: 133 LTIEKLCIYTDHAVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLSLPRDRQALV 192
Query: 234 LKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIE--SSLGVEYEKQLLNILGTDKD 291
            K     L    +D +F  Y PS++A  ++   VQ +   S  G E  + L  I GT+ D
Sbjct: 193 KKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITGTEVD 252
Query: 292 KVEHCSKLIMQLAEQVQGQGSQSIKRKFGSITVPVVPGSPNG 333
            +  C        EQ++    +S++    + + P  P +P G
Sbjct: 253 CLRACQ-------EQIEAALRESLREAAQTSSSP-APKAPRG 286
>pdb|1VYW|B Chain B, Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 265 Back     alignment and structure
>pdb|1QMZ|B Chain B, Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Complex Length = 259 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|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|2X1N|B Chain B, Truncation And Optimisation Of Peptide Inhibitors Of Cdk2, Cyclin A Through Structure Guided Design Length = 261 Back     alignment and structure
>pdb|1FIN|B Chain B, Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 260 Back     alignment and structure
>pdb|1E9H|B Chain B, Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex With The Inhibitor Indirubin-5-Sulphonate Bound Length = 261 Back     alignment and structure
>pdb|3F5X|B Chain B, Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Bound At Its Active Site Length = 256 Back     alignment and structure
>pdb|4BCO|B Chain B, Structure Of Cdk2 In Complex With Cyclin A And A 2-amino-4- Heteroaryl-pyrimidine Inhibitor Length = 262 Back     alignment and structure
>pdb|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|2G9X|B Chain B, Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN COMPLEX WITH THE Inhibitor Nu6271 Length = 262 Back     alignment and structure
>pdb|1VIN|A Chain A, Bovine Cyclin A3 Length = 268 Back     alignment and structure
>pdb|4BCQ|B Chain B, Structure Of Cdk2 In Complex With Cyclin A And A 2-amino-4- Heteroaryl-pyrimidine Inhibitor Length = 262 Back     alignment and structure
>pdb|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|4I3Z|B Chain B, Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNESIUM IONS Length = 257 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|3QHR|B Chain B, Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic Length = 261 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|1W98|B Chain B, The Structural Basis Of Cdk2 Activation By Cyclin E Length = 283 Back     alignment and structure
>pdb|2B9R|A Chain A, Crystal Structure Of Human Cyclin B1 Length = 269 Back     alignment and structure
>pdb|2JGZ|B Chain B, Crystal Structure Of Phospho-Cdk2 In Complex With Cyclin B Length = 260 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query394
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 1e-48
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 2e-43
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 4e-31
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 1e-29
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 1e-27
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 1e-25
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 1e-25
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 2e-25
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 1e-12
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 8e-11
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 7e-10
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-07
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 1e-07
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 6e-07
2ivx_A257 Cyclin-T2; transcription regulation, cell division 7e-06
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} Length = 306 Back     alignment and structure
 Score =  166 bits (421), Expect = 1e-48
 Identities = 69/279 (24%), Positives = 106/279 (37%), Gaps = 19/279 (6%)

Query: 75  LSWQDDELSTLLSKEV---PNRLYNILKTNPSLS-RARSEAVDWMLKVNAHYSFTALTAL 130
           L      L +LL  E    P   Y        +    R     WML+V            
Sbjct: 35  LLGDQRVLQSLLRLEERYVPRASY-FQCVQREIKPHMRKMLAYWMLEVCEEQRCEEEVFP 93

Query: 131 LAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVEDIKFVFEAK 190
           LA+NYLDR+L     ++ +    QL    C+ LA+K+ ET  PL ++            +
Sbjct: 94  LAMNYLDRYLSCVPTRKAQL---QLLGAVCMLLASKLRET-TPLTIEKLCIYTDHAVSPR 149

Query: 191 TIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLKGYLCWEFLKRCDRILLSAISDSSF 250
            ++  E+LVL  L+W +  V    FL +I  RL L         K     L    +D +F
Sbjct: 150 QLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLSLPRDRQALVKKHAQTFLALCATDYTF 209

Query: 251 MQYLPSVMANATMLHVVQ--NIESSLGVEYEKQLLNILGTDKDKVEHCSKLIMQLAEQVQ 308
             Y PS++A  ++   VQ     S  G E  + L  I GT+ D +  C + I     +  
Sbjct: 210 AMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITGTEVDCLRACQEQIEAALRESL 269

Query: 309 GQGSQSIKRKFGSITVPVVPGSPNGVMDVSFSSSDSSND 347
            + +Q+             P +P G      S + +  D
Sbjct: 270 REAAQTSSSP--------APKAPRGSSSQGPSQTSTPTD 300
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A Length = 271 Back     alignment and structure
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 Length = 252 Back     alignment and structure
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Length = 257 Back     alignment and structure
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Length = 254 Back     alignment and structure
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Length = 283 Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Length = 260 Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Length = 269 Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Length = 258 Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Length = 323 Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Length = 235 Back     alignment and structure
>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
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Length = 358 Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Length = 285 Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Length = 257 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query394
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 100.0
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 100.0
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 100.0
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 100.0
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 100.0
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 100.0
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 99.71
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.3
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 98.09
1ais_B200 TFB TFIIB, protein (transcription initiation facto 95.81
1c9b_A207 General transcription factor IIB; protein-DNA comp 95.09
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 91.15
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 88.53
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 87.62
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 84.25
3h4c_A260 Transcription factor TFIIB-like; cyclin, transcrip 82.05
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=1.1e-46  Score=368.53  Aligned_cols=231  Identities=26%  Similarity=0.358  Sum_probs=200.3

Q ss_pred             CCCCCCcHHHHHHHHHhhccCC----ccccCCCCcccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccccccC
Q 016163           72 EQDLSWQDDELSTLLSKEVPNR----LYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQR  147 (394)
Q Consensus        72 ~~d~~~~de~l~~Ll~kE~~~~----~~~~~q~~~i~~~~R~~lvdWi~~v~~~~~l~~~T~~lAV~~lDRFLs~~~v~~  147 (394)
                      +++++|+++++++|+++|.++.    ++...|.+ +++.+|.++|+||.+|+.+|+++++|+++||+|||||+++..+.+
T Consensus        32 dp~l~~~~~i~~~l~~~E~~~~p~~~y~~~~q~~-i~~~~R~~lvdwl~ev~~~~~l~~~t~~lAv~~lDRfls~~~v~~  110 (306)
T 3g33_B           32 DPRLLGDQRVLQSLLRLEERYVPRASYFQCVQRE-IKPHMRKMLAYWMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTRK  110 (306)
T ss_dssp             -----CHHHHHHHHHHHGGGGSCSSCCTTTSTTT-CCHHHHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHCCCCG
T ss_pred             CCcccchHHHHHHHHHHHHHhCCCcHHHhhcCcc-CCHHHHHHHHHHHHHHHHHhCCcHhHHHHHHHHHHHHHhcCCCcH
Confidence            6888999999999999999976    45556766 999999999999999999999999999999999999999999876


Q ss_pred             CcchhHHHHHHHHHHhhhcccccCCCccchh-hcccccccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHHcCCC
Q 016163          148 DKPWMAQLAAVACLSLAAKVEETQVPLLLDL-QVEDIKFVFEAKTIQRMEILVLSTLQWKMNPVTPLSFLDYIARRLGLK  226 (394)
Q Consensus       148 ~~p~~lqLvavaCL~LAaK~EE~~~p~l~dl-~v~~~~~~f~~~~I~~mE~~IL~~L~w~l~~pTp~~FL~~~l~~l~~~  226 (394)
                      .+   +||+|+|||+||+|+||+.+|.+.++ .++++.  |++++|++||+.||++|+|++++|||++||.+|++.++..
T Consensus       111 ~~---lqLv~~tcL~lAsK~eE~~p~~~~~l~~~~~~~--~~~~~i~~mE~~IL~~L~f~l~~~tp~~fl~~~l~~l~~~  185 (306)
T 3g33_B          111 AQ---LQLLGAVCMLLASKLRETTPLTIEKLCIYTDHA--VSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLSLP  185 (306)
T ss_dssp             GG---HHHHHHHHHHHHHHHHCSSCCCTTHHHHHTTTS--SCHHHHHHHHHHHHHHTTTCCCCCCGGGGHHHHHHTSSCC
T ss_pred             HH---HHHHHHHHHHHHHHhccCCCCCHHHHHHHhccC--ccHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHHcCCC
Confidence            66   99999999999999999999999998 455554  5899999999999999999999999999999999999876


Q ss_pred             CcccHHHHHHHHHHHHHhhchhcccCCCHHHHHHHHHHHHHHHhcccc-C-cchhhhhHhHcCCCHHHHHHHHHHHHHHH
Q 016163          227 GYLCWEFLKRCDRILLSAISDSSFMQYLPSVMANATMLHVVQNIESSL-G-VEYEKQLLNILGTDKDKVEHCSKLIMQLA  304 (394)
Q Consensus       227 ~~~~~~~l~~a~~ll~~sl~d~~~l~~~PS~IAaAai~lA~~~l~~~~-~-~~~~~~L~~~~~~~~~~l~~C~~~l~~l~  304 (394)
                      ......+...+.++++.++.++.|+.|+||+||||||++|+..++... + ..|...|..++|+++++|.+|++.|.+++
T Consensus       186 ~~~~~~~~~~a~~~l~lsl~d~~~l~~~PS~IAaAai~lA~~~l~~~~~w~~~w~~~L~~~tg~~~~~l~~c~~~I~~l~  265 (306)
T 3g33_B          186 RDRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITGTEVDCLRACQEQIEAAL  265 (306)
T ss_dssp             TTTHHHHHHHHHHHHHHHHHCGGGTTSCHHHHHHHHHHHHHHTCC---CCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHhhhhhccCCHHHHHHHHHHHHHHHhcCCCCchhhHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            554433446688999999999999999999999999999999887432 1 34678888999999999999999999999


Q ss_pred             Hhhc
Q 016163          305 EQVQ  308 (394)
Q Consensus       305 ~~~~  308 (394)
                      .+..
T Consensus       266 ~~~l  269 (306)
T 3g33_B          266 RESL  269 (306)
T ss_dssp             HTC-
T ss_pred             HHHH
Confidence            8753
>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
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Back     alignment and structure
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A Back     alignment and structure
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>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
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>3h4c_A Transcription factor TFIIB-like; cyclin, transcription factor TFIIB repeat; 2.30A {Trypanosoma brucei brucei} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 394
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 3e-27
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 8e-26
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 2e-24
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 1e-23
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 9e-23
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 3e-19
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 1e-17
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 2e-14
>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 =  103 bits (257), Expect = 3e-27
 Identities = 34/147 (23%), Positives = 73/147 (49%), Gaps = 12/147 (8%)

Query: 66  PVPMLHEQDLSWQDDELSTLLSKE---VPNRLYNILKTNPSLS-RARSEAVDWMLKVNAH 121
           P+P+L   +   +++    +L+KE   + ++ +  L+ +P L  + R+  +DW+++V   
Sbjct: 2   PLPVLSWAN---REEVWKIMLNKEKTYLRDQHF--LEQHPLLQPKMRAILLDWLMEVCEV 56

Query: 122 YSFTALTALLAVNYLDRFLFSFQLQRDKPWMAQLAAVACLSLAAKVEETQVPLLLDLQVE 181
           Y     T  LA ++ DR++ + +       + QL  ++ L +AAK+EE   P L      
Sbjct: 57  YKLHRETFYLAQDFFDRYMATQEN--VVKTLLQLIGISSLFIAAKLEEIYPPKLHQF-AY 113

Query: 182 DIKFVFEAKTIQRMEILVLSTLQWKMN 208
                     I  ME++++  L+W+++
Sbjct: 114 VTDGACSGDEILTMELMIMKALKWRLS 140
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Length = 141 Back     information, alignment and structure
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 128 Back     information, alignment and structure
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Length = 132 Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Length = 127 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 ?
Query394
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.96
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.96
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.95
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.95
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.94
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.81
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.78
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.77
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.65
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.85
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.67
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 98.41
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.96
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 97.85
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.56
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 97.42
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.35
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.26
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.11
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 96.79
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 95.76
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 95.41
d1f5qb2106 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 94.2
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 91.55
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Viral cyclin
species: Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]

Probab=99.96  E-value=6.3e-30  Score=218.46  Aligned_cols=126  Identities=23%  Similarity=0.333  Sum_probs=115.6

Q ss_pred             CcHHHHHHHHHhhccCC----ccccCCCCcccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccccccCCcchh
Q 016163           77 WQDDELSTLLSKEVPNR----LYNILKTNPSLSRARSEAVDWMLKVNAHYSFTALTALLAVNYLDRFLFSFQLQRDKPWM  152 (394)
Q Consensus        77 ~~de~l~~Ll~kE~~~~----~~~~~q~~~i~~~~R~~lvdWi~~v~~~~~l~~~T~~lAV~~lDRFLs~~~v~~~~p~~  152 (394)
                      ++++++++|++.|.++.    ++...|.+ +++.+|..+|+||.+|+.+++++++|+++||+|||||+++..+++++   
T Consensus         2 ~~~~i~~~l~~~E~~~~p~~~y~~~~q~~-it~~~R~~lidWl~~v~~~~~l~~et~~lAv~llDrfls~~~v~~~~---   77 (132)
T d1g3nc1           2 CEDRIFYNILEIEPRFLTSDSVFGTFQQS-LTSHMRKLLGTWMFSVCQEYNLEPNVVALALNLLDRLLLIKQVSKEH---   77 (132)
T ss_dssp             HHHHHHHHHHHHGGGGCCCGGGHHHHTSS-CCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTCCCCHHH---
T ss_pred             chHHHHHHHHHHHHHHCCChHHHHhcCcc-CCHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCcccCcHHH---
Confidence            57899999999999986    46666777 99999999999999999999999999999999999999999998777   


Q ss_pred             HHHHHHHHHHhhhcccccCCCccchh-hcccccccccHHHHHHHHHHHHHHcCcccc
Q 016163          153 AQLAAVACLSLAAKVEETQVPLLLDL-QVEDIKFVFEAKTIQRMEILVLSTLQWKMN  208 (394)
Q Consensus       153 lqLvavaCL~LAaK~EE~~~p~l~dl-~v~~~~~~f~~~~I~~mE~~IL~~L~w~l~  208 (394)
                      +||+|+|||+||+|+||+.+|.+.++ .++++.  |++++|.+||+.||++|+|++.
T Consensus        78 lqLia~tcl~iAsK~ee~~~~~~~~l~~~~~~~--~t~~ei~~mE~~IL~~L~w~l~  132 (132)
T d1g3nc1          78 FQKTGSACLLVASKLRSLTPISTSSLCYAAADS--FSRQELIDQEKELLEKLAWRTE  132 (132)
T ss_dssp             HHHHHHHHHHHHHHHHCSSCCCHHHHHHHTTTC--SCHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHHHHHHHHHHhcccCCCCHHHHHHHHcCC--CCHHHHHHHHHHHHHHcCCcCC
Confidence            99999999999999999999999998 355554  5999999999999999999974
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1w98b1 a.74.1.1 (B:228-357) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1f5qb2 a.74.1.1 (B:147-252) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure