Citrus Sinensis ID: 017247

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-----
MAFGDEQYPSSFLLDALYCEEEELEDEVIDQEDDECSQNKNPACLFSLLLLEQDLFWEDEELLSLFSKEEQQLLKQETQTHYKDSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHIIDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILELANAKTNANSNPHKRKFEAIPGSPGGVIDATVFSCDESSNDSWSVASSSVLSSPSSPEPLFKKSRVQDPQMTLPMPSLNLNRVIVGSPS
cccccccccccccccccccccccccccccccccHHHHccccccccHHHHHHcccccccHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHccccccccccEEEEcccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHcccccccccHHHHHHHccccHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccc
cccccccccccHHHHHHcccHHccHHHccccccccccccccccccccccccccccccHHHHHHHHHHHHHHccccccHHHHHccccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHcccccHccEEEEEccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcHHHcccHHHHHHHHHHHHHHHccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHHccccccccEEEEccccccccEEEEcccHHcccccccccccccccccccccccccccccccccccccccccccccEEEEEEccccc
mafgdeqypssflldalyceeeeledevidqeddecsqnknpacLFSLLLLEQDLFWEDEELLSLFSKEEQQLLKQETqthykdsdVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRsfhfqidkpWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEwkmhpvtpisFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSdsrsvsylPSVLATATMMHIIdqvepvnpvdyqNQLLGVLKISKEKVSDCYKLILELANAktnansnphkrkfeaipgspggvidatvfscdessndswsvasssvlsspsspeplfkksrvqdpqmtlpmpslnlnrvivgsps
mafgdeqypssFLLDALYCEEEELEDEVIDQEDDECSQNKNPACLFSLLLLEQDLFWEDEELLSLFSKEEQQLLKQETqthykdsdvLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHIIDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILELANaktnansnphkRKFEAIPGSPGGVIDATVFSCDESSNDSWSVASSSvlsspsspeplfKKSRVQDpqmtlpmpslnlnrvivgsps
MAFGDEQYPSSFlldalyceeeeledevidqeddeCSQNKNPAClfslllleqdlfwedeellSLFSkeeqqllkqetqtHYKDSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHIIDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILELANAKTNANSNPHKRKFEAIPGSPGGVIDATVFSCDEssndswsvasssvlsspssPEPLFKKSRVQDPQMTLPMPSLNLNRVIVGSPS
***********FLLDALYCEE********************PACLFSLLLLEQDLFWEDEELLSLFSK****LL***TQTHYKDSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHIIDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILELAN***********************VIDATVF********************************************************
**************DALYCEEEELEDEVIDQEDDECSQNKNPACLFSLLLLEQDLFWEDEELLSLFSKEEQ**************DVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHIIDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILEL************************GVIDATV********************************************SLNLNRVIVGSP*
********PSSFLLDALYCEEEE**************QNKNPACLFSLLLLEQDLFWEDEELLSLFSKEEQQLLKQETQTHYKDSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHIIDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILELANAKTNANSNPHKRKFEAIPGSPGGVIDATVFSC**************************KKSRVQDPQMTLPMPSLNLNRVIVGSPS
*********SSFLLDALYCEEEEL******************ACLFSLLLLEQDLFWEDEELLSLFSKEEQQLLKQETQTHYKDSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHIIDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILELANAKTNANSNPHKRKFEAIPGSPGGVIDATVFSCD************************************LPMPSLNLNRVIV****
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MAFGDEQYPSSFLxxxxxxxxxxxxxxxxxxxxxECSQNKNPACLFSLLLLEQDLFWEDEELLSLFSKEEQQLLKQETQTHYKDSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHIIDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILELANAKTNANSNPHKRKFEAIPGSPGGVIDATVFSCDESSNDSWSVASSSVLSSPSSPEPLFKKSRVQDPQMTLPMPSLNLNRVIVGSPS
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 ?
Query375 2.2.26 [Sep-21-2011]
P42753376 Cyclin-D3-1 OS=Arabidopsi yes no 0.818 0.816 0.578 1e-95
Q9FGQ7367 Cyclin-D3-2 OS=Arabidopsi no no 0.901 0.920 0.489 7e-85
Q9SN11361 Cyclin-D3-3 OS=Arabidopsi no no 0.917 0.952 0.484 1e-78
Q8LHA8356 Cyclin-D2-2 OS=Oryza sati yes no 0.589 0.620 0.411 9e-41
Q10K98405 Putative cyclin-D2-3 OS=O no no 0.621 0.575 0.365 1e-40
Q6YXH8356 Cyclin-D4-1 OS=Oryza sati no no 0.781 0.823 0.350 4e-40
P42752361 Cyclin-D2-1 OS=Arabidopsi no no 0.621 0.645 0.387 2e-39
P42751339 Cyclin-D1-1 OS=Arabidopsi no no 0.634 0.702 0.344 1e-37
Q69QB8342 Cyclin-D3-1 OS=Oryza sati no no 0.757 0.830 0.352 8e-36
Q4KYM5383 Cyclin-D4-2 OS=Oryza sati no no 0.485 0.475 0.396 9e-35
>sp|P42753|CCD31_ARATH Cyclin-D3-1 OS=Arabidopsis thaliana GN=CYCD3-1 PE=1 SV=3 Back     alignment and function desciption
 Score =  350 bits (897), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 188/325 (57%), Positives = 232/325 (71%), Gaps = 18/325 (5%)

Query: 6   EQYPSSFLLDALYCEEEELEDEVIDQEDDECSQNKNPACLFS-LLLLEQDLFWEDEELLS 64
           E+  +SFLLDALYCEEE+ +DE      +E  +N + +   S  ++L+QDLFWEDE+L++
Sbjct: 11  EEQSNSFLLDALYCEEEKWDDE-----GEEVEENSSLSSSSSPFVVLQQDLFWEDEDLVT 65

Query: 65  LFSKEEQQLLKQETQTHYKDSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFL 124
           LFSKEE+Q L         D   L   R EAV W+L+VNAHYGFSTL A+LAI YLD+F+
Sbjct: 66  LFSKEEEQGLS------CLDDVYLSTDRKEAVGWILRVNAHYGFSTLAAVLAITYLDKFI 119

Query: 125 RSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVL 184
            S+  Q DKPWM+QL++V CLSLAAKVEETQVPLLLD QVE  KYVFE K IQRMELL+L
Sbjct: 120 CSYSLQRDKPWMLQLVSVACLSLAAKVEETQVPLLLDFQVEETKYVFEAKTIQRMELLIL 179

Query: 185 STLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLAT 244
           STLEWKMH +TPISF+DHIIRRLGLK + HW+FL +C RLLL+++SDSR V YLPSV+A 
Sbjct: 180 STLEWKMHLITPISFVDHIIRRLGLKNNAHWDFLNKCHRLLLSVISDSRFVGYLPSVVAA 239

Query: 245 ATMMHIIDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILELANAKTNAN---SNPHKR 301
           ATMM II+QV+P +P+ YQ  LLGVL ++KEKV  CY LIL+L   +        +  KR
Sbjct: 240 ATMMRIIEQVDPFDPLSYQTNLLGVLNLTKEKVKTCYDLILQLPVDRIGLQIQIQSSKKR 299

Query: 302 KFEAIPGSPGG---VIDATVFSCDE 323
           K      S      VIDA  F+ DE
Sbjct: 300 KSHDSSSSLNSPSCVIDANPFNSDE 324
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|Q8LHA8|CCD22_ORYSJ Cyclin-D2-2 OS=Oryza sativa subsp. japonica GN=CYCD2-2 PE=2 SV=1 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|Q6YXH8|CCD41_ORYSJ Cyclin-D4-1 OS=Oryza sativa subsp. japonica GN=CYCD4-1 PE=2 SV=2 Back     alignment and function description
>sp|P42752|CCD21_ARATH Cyclin-D2-1 OS=Arabidopsis thaliana GN=CYCD2-1 PE=1 SV=3 Back     alignment and function description
>sp|P42751|CCD11_ARATH Cyclin-D1-1 OS=Arabidopsis thaliana GN=CYCD1-1 PE=1 SV=3 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

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 ?
Query375
255555331395 cyclin d, putative [Ricinus communis] gi 0.92 0.873 0.660 1e-122
296090459374 unnamed protein product [Vitis vinifera] 0.930 0.933 0.674 1e-120
224056182386 predicted protein [Populus trichocarpa] 0.896 0.870 0.702 1e-120
159025715347 D3-type cyclin [Populus trichocarpa] 0.896 0.968 0.702 1e-120
225428885386 PREDICTED: cyclin-D3-2-like [Vitis vinif 0.936 0.909 0.658 1e-120
225438825372 PREDICTED: cyclin-D3-2 [Vitis vinifera] 0.922 0.930 0.630 1e-120
147810960372 hypothetical protein VITISV_038874 [Viti 0.922 0.930 0.630 1e-120
4586801368 NtcycD3-1 [Nicotiana tabacum] 0.92 0.937 0.623 1e-116
4583990378 cyclin D3 [Medicago sativa] 0.909 0.902 0.632 1e-115
90991353369 cyclin [Nicotiana tabacum] 0.906 0.921 0.622 1e-115
>gi|255555331|ref|XP_002518702.1| cyclin d, putative [Ricinus communis] gi|223542083|gb|EEF43627.1| cyclin d, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  445 bits (1145), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 245/371 (66%), Positives = 281/371 (75%), Gaps = 26/371 (7%)

Query: 6   EQYPSSFLLDALYCEEEE-------LEDEVIDQEDDE-------CSQN---KNPACLFSL 48
           EQ  S  LLD LYCEEE+       L+DEV   E          C +N   +    +F+L
Sbjct: 16  EQNSSFMLLDTLYCEEEKWEDEEQELKDEVCQNESSSVMCGEHYCLKNGTTRKDLSVFAL 75

Query: 49  L-LLEQDLFWEDEELLSLFSKEEQQLLKQETQTHYKDSDVLVVARSEAVEWVLKVNAHYG 107
             LLEQDLFWED ELLSLFSKEE+Q  +     + +    L  A  EAVEW+ KVNAHYG
Sbjct: 76  SNLLEQDLFWEDGELLSLFSKEEEQKSQVFNVKNVEKDPSLSTAHQEAVEWMFKVNAHYG 135

Query: 108 FSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGA 167
           FS LTAILA+NY DRFL S ++Q DKPWMIQL+AVTCLS+AAKVEETQVPLLLDLQVE  
Sbjct: 136 FSALTAILAVNYFDRFLFSSYYQRDKPWMIQLVAVTCLSIAAKVEETQVPLLLDLQVEDT 195

Query: 168 KYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLT 227
           KYVFE K IQRMELLVLS L+WKMHPVTP+SFLDHIIRRLGLK  LHWEFL+RCERLLLT
Sbjct: 196 KYVFEAKTIQRMELLVLSALKWKMHPVTPLSFLDHIIRRLGLKNHLHWEFLRRCERLLLT 255

Query: 228 LVSDSR-SVSYLPSVLATATMMHIIDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILE 286
           +VS     +SYLPSVLATATMM++IDQVEP NPVDYQNQLLGVLK+SKEKV+DCY+LILE
Sbjct: 256 VVSVIYLXISYLPSVLATATMMYVIDQVEPFNPVDYQNQLLGVLKLSKEKVNDCYELILE 315

Query: 287 LANAKTN---ANSNPHKRKFEAIPGSPGGVIDATVFSCDESSNDSWSVASSSVLSSPSSP 343
           L+  ++N     +  +KRKFE +P SP GVIDA VFSCD SSNDSW++  S+V+S  SSP
Sbjct: 316 LSKGRSNGCYGYNKSNKRKFEPMPSSPSGVIDA-VFSCD-SSNDSWALGGSAVVS--SSP 371

Query: 344 EPLFKKSRVQD 354
           EPLFKKSR QD
Sbjct: 372 EPLFKKSRAQD 382

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|296090459|emb|CBI40278.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224056182|ref|XP_002298743.1| predicted protein [Populus trichocarpa] gi|222846001|gb|EEE83548.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|159025715|emb|CAN88858.1| D3-type cyclin [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225428885|ref|XP_002285320.1| PREDICTED: cyclin-D3-2-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|225438825|ref|XP_002283380.1| PREDICTED: cyclin-D3-2 [Vitis vinifera] Back     alignment and taxonomy information
>gi|147810960|emb|CAN59802.1| hypothetical protein VITISV_038874 [Vitis vinifera] Back     alignment and taxonomy information
>gi|4586801|dbj|BAA76478.1| NtcycD3-1 [Nicotiana tabacum] Back     alignment and taxonomy information
>gi|4583990|emb|CAB40540.1| cyclin D3 [Medicago sativa] Back     alignment and taxonomy information
>gi|90991353|dbj|BAE93057.1| cyclin [Nicotiana tabacum] 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 ?
Query375
TAIR|locus:2124331376 CYCD3;1 "CYCLIN D3;1" [Arabido 0.773 0.771 0.541 1.6e-77
TAIR|locus:2157172367 CYCD3;2 "AT5G67260" [Arabidops 0.72 0.735 0.503 3.7e-71
TAIR|locus:2083128361 CYCD3;3 "AT3G50070" [Arabidops 0.754 0.783 0.498 8e-69
TAIR|locus:2020663339 CYCD1;1 "CYCLIN D1;1" [Arabido 0.549 0.607 0.384 2.7e-36
TAIR|locus:2142504298 CYCD4;2 "AT5G10440" [Arabidops 0.448 0.563 0.372 3.2e-26
UNIPROTKB|Q10QA2345 CYCD5-3 "Cyclin-D5-3" [Oryza s 0.504 0.547 0.346 1.1e-23
TAIR|locus:2125522302 CYCD6;1 "AT4G03270" [Arabidops 0.533 0.662 0.317 1.8e-23
TAIR|locus:2120081323 CYCD5;1 "AT4G37630" [Arabidops 0.408 0.473 0.360 1e-20
TAIR|locus:2185178341 CYCD7;1 "AT5G02110" [Arabidops 0.474 0.521 0.311 1e-20
UNIPROTKB|G3V8M9288 Ccnd2 "G1/S-specific cyclin-D2 0.525 0.684 0.298 1e-12
TAIR|locus:2124331 CYCD3;1 "CYCLIN D3;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 780 (279.6 bits), Expect = 1.6e-77, P = 1.6e-77
 Identities = 162/299 (54%), Positives = 200/299 (66%)

Query:    84 DSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVT 143
             D   L   R EAV W+L+VNAHYGFSTL A+LAI YLD+F+ S+  Q DKPWM+QL++V 
Sbjct:    79 DDVYLSTDRKEAVGWILRVNAHYGFSTLAAVLAITYLDKFICSYSLQRDKPWMLQLVSVA 138

Query:   144 CLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHI 203
             CLSLAAKVEETQVPLLLD QVE  KYVFE K IQRMELL+LSTLEWKMH +TPISF+DHI
Sbjct:   139 CLSLAAKVEETQVPLLLDFQVEETKYVFEAKTIQRMELLILSTLEWKMHLITPISFVDHI 198

Query:   204 IRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHIIDQVEPVNPVDYQ 263
             IRRLGLK + HW+FL +C RLLL+++SDSR V YLPSV+A ATMM II+QV+P +P+ YQ
Sbjct:   199 IRRLGLKNNAHWDFLNKCHRLLLSVISDSRFVGYLPSVVAAATMMRIIEQVDPFDPLSYQ 258

Query:   264 NQLLGVLKISKEKVSDCYKLILELA----NAKTNANSNPHKRKFEAIPG--SPGGVIDAT 317
               LLGVL ++KEKV  CY LIL+L       +    S+  ++  ++     SP  VIDA 
Sbjct:   259 TNLLGVLNLTKEKVKTCYDLILQLPVDRIGLQIQIQSSKKRKSHDSSSSLNSPSCVIDAN 318

Query:   318 VFSCDEXXXXXXXXXXXXXXXXXXXPE--PLFKKSRVQDPQMTLPMPSLNLNRVIVGSP 374
              F+ DE                   P+  P  KK R  + +     P L+L   IV +P
Sbjct:   319 PFNSDESSNDSWSASSCNPPTSSSSPQQQPPLKKMRGAE-ENEKKKPILHLPWAIVATP 376
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:2157172 CYCD3;2 "AT5G67260" [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: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
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:2120081 CYCD5;1 "AT4G37630" [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
UNIPROTKB|G3V8M9 Ccnd2 "G1/S-specific cyclin-D2" [Rattus norvegicus (taxid:10116)] 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) ?
P42753CCD31_ARATHNo assigned EC number0.57840.81860.8164yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00036638001
SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (374 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query375
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 2e-34
cd0004388 cd00043, CYCLIN, Cyclin box fold 3e-13
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 4e-12
pfam02984117 pfam02984, Cyclin_C, Cyclin, C-terminal domain 3e-11
COG5024440 COG5024, COG5024, Cyclin [Cell division and chromo 4e-09
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score =  123 bits (310), Expect = 2e-34
 Identities = 43/134 (32%), Positives = 64/134 (47%), Gaps = 10/134 (7%)

Query: 60  EELLSLFSKEEQQLLKQETQTHY--KDSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAI 117
           +    L   EE+          Y  +  D+    R+  ++W+++V+  +     T  LA+
Sbjct: 1   DIYAYLRELEEEDRPPP----DYLDQQPDINPKMRAILIDWLVEVHEEFKLLPETLYLAV 56

Query: 118 NYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQ 177
           NYLDRFL     Q      +QL+ VTCL +AAK EE   P + D         +  + I 
Sbjct: 57  NYLDRFL---SKQPVPRTKLQLVGVTCLLIAAKYEEIYPPSVEDFVYI-TDNAYTKEEIL 112

Query: 178 RMELLVLSTLEWKM 191
           RMELL+LSTL W +
Sbjct: 113 RMELLILSTLNWDL 126

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 375
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 99.94
TIGR00569305 ccl1 cyclin ccl1. University). 99.9
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.88
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.87
KOG0835367 consensus Cyclin L [General function prediction on 99.84
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 99.82
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.74
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.62
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.52
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.41
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.38
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.33
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 99.17
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.95
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.38
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.37
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 98.23
KOG1598 521 consensus Transcription initiation factor TFIIIB, 98.08
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 97.94
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 96.6
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 96.2
PRK00423310 tfb transcription initiation factor IIB; Reviewed 94.72
KOG1674218 consensus Cyclin [General function prediction only 94.55
PF09080106 K-cyclin_vir_C: K cyclin, C terminal; InterPro: IP 90.81
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 87.72
PF09241106 Herp-Cyclin: Herpesviridae viral cyclin; InterPro: 84.68
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 82.92
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 81.09
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=1.9e-55  Score=422.46  Aligned_cols=261  Identities=44%  Similarity=0.717  Sum_probs=230.3

Q ss_pred             cccccccccccccchhc-cccccccccCCCCCCCccccccccCCCCcHHHHHHHHHHHHhccCCcccccccCCCcchHHH
Q 017247           13 LLDALYCEEEELEDEVI-DQEDDECSQNKNPACLFSLLLLEQDLFWEDEELLSLFSKEEQQLLKQETQTHYKDSDVLVVA   91 (375)
Q Consensus        13 ~~~~l~c~e~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~e~l~~Ll~kE~~~~~~~~y~~~lq~~~~~~~~   91 (375)
                      ..|.|+|.|+.+.++-+ ..++      +... ..+. .-.+.++|++|.+.+|+++|.++.|..+|..++++. +++.+
T Consensus         7 ~e~~l~c~E~~~~~~~~~~~~D------~~~~-~~~~-~~~~~~~~~e~~i~~ll~kEe~~~p~~~~~~~~~~~-~~~~~   77 (335)
T KOG0656|consen    7 MESQLLCHEESTSDEQDRADND------ESST-ESSI-PQLGFLLWDERVLANLLEKEEQHNPSLDYFLCVQKL-ILSSM   77 (335)
T ss_pred             cccccccCCCCcccccccccCC------cccc-cccc-cccccccccHHHHHHHHHHHHHhCCCCchhhhcccc-cccHH
Confidence            45679999987765421 1111      0111 1111 111227899999999999999999988888888766 89999


Q ss_pred             HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHHhhhhhcccCCCcccceeeeCCCccc
Q 017247           92 RSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVF  171 (375)
Q Consensus        92 R~~~v~Wi~~v~~~~~l~~~T~~lAV~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vp~l~dl~v~~~~~~f  171 (375)
                      |..+++||++|++++++.++|++||+||||||++.+++++.+|||+||+|+|||+||||+||+.+|.+.|+++.+.+|.|
T Consensus        78 R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~f  157 (335)
T KOG0656|consen   78 RKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVF  157 (335)
T ss_pred             HHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHHhCCCCcchHHHHHHHHHHHHhhcccccccCCCHHHHHHHHHHHHH
Q 017247          172 ETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHII  251 (375)
Q Consensus       172 ~~~~I~~mE~~IL~~L~w~l~~~Tp~~FL~~fl~~l~~~~~~~~~~l~~~~~ll~~~l~d~~~l~~~PS~IAaAal~~a~  251 (375)
                      .+++|+|||++||++|+|||+.+||++|+++|+++++..++....++.+|..++..+..|.+|++|+||+||+|++..+.
T Consensus       158 eaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~  237 (335)
T KOG0656|consen  158 EAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVS  237 (335)
T ss_pred             cHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999888778899999999999999999999999999999999999


Q ss_pred             HHhCCCCCCCcccchhhccCCCHHHHHHHHH
Q 017247          252 DQVEPVNPVDYQNQLLGVLKISKEKVSDCYK  282 (375)
Q Consensus       252 ~~l~~~~~~~~~~~L~~~~~i~~~~l~~C~~  282 (375)
                      ..+.+.....+...+..+++++++.+.+|+.
T Consensus       238 ~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~  268 (335)
T KOG0656|consen  238 ASVDGLDFREYENNLLSLLSLSKEKVNRCYD  268 (335)
T ss_pred             HhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence            8888777666778888899999999999988

>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
>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
>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
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma 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
>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
>PRK00423 tfb transcription initiation factor IIB; Reviewed 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
>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
>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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query375
3g33_B306 Crystal Structure Of Cdk4CYCLIN D3 Length = 306 8e-09
1vyw_B265 Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 4e-08
4bco_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 5e-08
4bcq_B262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 6e-08
1fin_B260 Cyclin A-Cyclin-Dependent Kinase 2 Complex Length = 6e-08
4bcq_D262 Structure Of Cdk2 In Complex With Cyclin A And A 2- 6e-08
3ddq_B269 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 6e-08
3ddp_B268 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 6e-08
3bht_B262 Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN 6e-08
1qmz_B259 Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Com 6e-08
2g9x_B262 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 6e-08
1vin_A268 Bovine Cyclin A3 Length = 268 6e-08
2x1n_B261 Truncation And Optimisation Of Peptide Inhibitors O 6e-08
1ogu_B260 Structure Of Human Thr160-phospho Cdk2/cyclin A Com 6e-08
1e9h_B261 Thr 160 Phosphorylated Cdk2-Human Cyclin A3 Complex 6e-08
3dog_B264 Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN 6e-08
1jst_B258 Phosphorylated Cyclin-Dependent Kinase-2 Bound To C 7e-08
3f5x_B256 Cdk-2-Cyclin Complex With Indazole Inhibitor 9 Boun 9e-08
3qhr_B261 Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic 1e-07
4i3z_B257 Structure Of Pcdk2CYCLINA BOUND TO ADP AND 2 MAGNES 1e-07
4ii5_B258 Structure Of Pcdk2/cyclina Bound To Adp And 1 Magne 1e-07
2w9z_A257 Crystal Structure Of Cdk4 In Complex With A D-Type 9e-06
1w98_B283 The Structural Basis Of Cdk2 Activation By Cyclin E 1e-05
2w96_A271 Crystal Structure Of Cdk4 In Complex With A D-Type 1e-05
>pdb|3G33|B Chain B, Crystal Structure Of Cdk4CYCLIN D3 Length = 306 Back     alignment and structure 
Iteration: 1

 Score = 58.2 bits (139), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 43/150 (28%), Positives = 68/150 (45%), Gaps = 4/150 (2%)
Query: 98  WVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVP 157
           W+L+V            LA+NYLDR+L        +   +QLL   C+ LA+K+ ET  P
Sbjct: 77  WMLEVCEEQRCEEEVFPLAMNYLDRYLSCVP---TRKAQLQLLGAVCMLLASKLRET-TP 132
Query: 158 LLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGLKTSLHWEF 217
           L ++       +    + ++  E+LVL  L+W +  V    FL  I+ RL L        
Sbjct: 133 LTIEKLCIYTDHAVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLSLPRDRQALV 192
Query: 218 LKRCERLLLTLVSDSRSVSYLPSVLATATM 247
            K  +  L    +D     Y PS++AT ++
Sbjct: 193 KKHAQTFLALCATDYTFAMYPPSMIATGSI 222
>pdb|1VYW|B Chain B, Structure Of Cdk2CYCLIN A WITH PNU-292137 Length = 265 Back     alignment and structure
>pdb|4BCO|B Chain B, Structure Of Cdk2 In Complex With Cyclin A And A 2-amino-4- Heteroaryl-pyrimidine Inhibitor Length = 262 Back     alignment and structure
>pdb|4BCQ|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|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|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|1QMZ|B Chain B, Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Complex Length = 259 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|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|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|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|1JST|B Chain B, Phosphorylated Cyclin-Dependent Kinase-2 Bound To Cyclin A Length = 258 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|3QHR|B Chain B, Structure Of A Pcdk2CYCLINA TRANSITION-State Mimic Length = 261 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|2W9Z|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin Length = 257 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|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 ?
Query375
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 1e-46
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 2e-37
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 1e-27
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 1e-25
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 4e-24
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 2e-23
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 5e-23
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 1e-20
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 1e-14
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 7e-14
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 7e-11
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 2e-10
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 6e-10
2ivx_A257 Cyclin-T2; transcription regulation, cell division 3e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-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 =  160 bits (407), Expect = 1e-46
 Identities = 67/308 (21%), Positives = 114/308 (37%), Gaps = 34/308 (11%)

Query: 29  IDQEDDECSQNKNPACLFSLLLLEQD-----------LFWEDEELLSLFSKEEQQLLKQE 77
           +D +DD+    K+P     LL  E             L  +   L SL   EE+ + +  
Sbjct: 1   MDYKDDDD---KSPGGSMELLCCEGTRHAPRAGPDPRLLGDQRVLQSLLRLEERYVPR-- 55

Query: 78  TQTHYKD---SDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKP 134
               Y      ++    R     W+L+V            LA+NYLDR+L     +  + 
Sbjct: 56  --ASYFQCVQREIKPHMRKMLAYWMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTRKAQ- 112

Query: 135 WMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGAKYVFETKAIQRMELLVLSTLEWKMHPV 194
             +QLL   C+ LA+K+ ET  PL ++       +    + ++  E+LVL  L+W +  V
Sbjct: 113 --LQLLGAVCMLLASKLRET-TPLTIEKLCIYTDHAVSPRQLRDWEVLVLGKLKWDLAAV 169

Query: 195 TPISFLDHIIRRLGLKTSLHWEFLKRCERLL-LTLVSDSRSVSYLPSVLATATM---MHI 250
               FL  I+ RL L         K  +  L L    D     Y PS++AT ++   +  
Sbjct: 170 IAHDFLAFILHRLSLPRDRQALVKKHAQTFLALCAT-DYTFAMYPPSMIATGSIGAAVQG 228

Query: 251 IDQVEPVNPVDYQNQLLGVLKISKEKVSDCYKLILELANAKTNANSNPHKRKFEAIPGSP 310
           +     ++  +    L G+     + +  C + I         +     +      P +P
Sbjct: 229 LGA-CSMSGDELTELLAGITGTEVDCLRACQEQIEAALR---ESLREAAQTSSSPAPKAP 284

Query: 311 GGVIDATV 318
            G      
Sbjct: 285 RGSSSQGP 292
>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
>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
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Length = 254 Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Length = 260 Back     alignment and structure
>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
>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
>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
>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
>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 ?
Query375
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 100.0
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 100.0
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 100.0
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 100.0
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 100.0
2ivx_A257 Cyclin-T2; transcription regulation, cell division 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
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 100.0
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.97
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 99.89
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.74
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.44
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 98.16
1ais_B200 TFB TFIIB, protein (transcription initiation facto 96.46
1c9b_A207 General transcription factor IIB; protein-DNA comp 95.93
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 93.54
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 91.59
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 90.99
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 86.92
2ivx_A257 Cyclin-T2; transcription regulation, cell division 86.07
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 84.39
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 83.68
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 83.14
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 82.87
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 82.79
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 81.3
3h4c_A260 Transcription factor TFIIB-like; cyclin, transcrip 80.92
>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=4.4e-47  Score=367.24  Aligned_cols=235  Identities=23%  Similarity=0.319  Sum_probs=204.7

Q ss_pred             cccCCCCcHHHHHHHHHHHHhccCCcccccccCCCcchHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhccccc
Q 017247           51 LEQDLFWEDEELLSLFSKEEQQLLKQETQTHYKDSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQ  130 (375)
Q Consensus        51 l~~~~~~~~e~l~~Ll~kE~~~~~~~~y~~~lq~~~~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAV~ylDRfLs~~~v~  130 (375)
                      -|++++|++|++.+|+++|.++.|..+|+...|.+ ++..+|..+|+||++|+.+|+++++|+++||+|||||+++..+.
T Consensus        31 ~dp~l~~~~~i~~~l~~~E~~~~p~~~y~~~~q~~-i~~~~R~~lvdwl~ev~~~~~l~~~t~~lAv~~lDRfls~~~v~  109 (306)
T 3g33_B           31 PDPRLLGDQRVLQSLLRLEERYVPRASYFQCVQRE-IKPHMRKMLAYWMLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTR  109 (306)
T ss_dssp             ------CHHHHHHHHHHHGGGGSCSSCCTTTSTTT-CCHHHHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHCCCC
T ss_pred             CCCcccchHHHHHHHHHHHHHhCCCcHHHhhcCcc-CCHHHHHHHHHHHHHHHHHhCCcHhHHHHHHHHHHHHHhcCCCc
Confidence            56778899999999999999999988898877776 99999999999999999999999999999999999999999887


Q ss_pred             cCCchhHHHHHHHHHHhhhhhcccCCCcccce-eeeCCCccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHHhCC
Q 017247          131 IDKPWMIQLLAVTCLSLAAKVEETQVPLLLDL-QVEGAKYVFETKAIQRMELLVLSTLEWKMHPVTPISFLDHIIRRLGL  209 (375)
Q Consensus       131 ~~~~~~lqLvavaCL~LAaK~eE~~vp~l~dl-~v~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~FL~~fl~~l~~  209 (375)
                      +.+   +||+|+|||+||+|+||..+|.+.++ .+++.  .|++++|.+||+.||++|+|+++.|||++||.+|++.++.
T Consensus       110 ~~~---lqLv~~tcL~lAsK~eE~~p~~~~~l~~~~~~--~~~~~~i~~mE~~IL~~L~f~l~~~tp~~fl~~~l~~l~~  184 (306)
T 3g33_B          110 KAQ---LQLLGAVCMLLASKLRETTPLTIEKLCIYTDH--AVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAFILHRLSL  184 (306)
T ss_dssp             GGG---HHHHHHHHHHHHHHHHCSSCCCTTHHHHHTTT--SSCHHHHHHHHHHHHHHTTTCCCCCCGGGGHHHHHHTSSC
T ss_pred             HHH---HHHHHHHHHHHHHHhccCCCCCHHHHHHHhcc--CccHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHHcCC
Confidence            666   99999999999999999989999998 55444  5589999999999999999999999999999999999987


Q ss_pred             CCcchHHHHHHHHHHHHhhcccccccCCCHHHHHHHHHHHHHHHhCCCCC--CCcccchhhccCCCHHHHHHHHHHHHHH
Q 017247          210 KTSLHWEFLKRCERLLLTLVSDSRSVSYLPSVLATATMMHIIDQVEPVNP--VDYQNQLLGVLKISKEKVSDCYKLILEL  287 (375)
Q Consensus       210 ~~~~~~~~l~~~~~ll~~~l~d~~~l~~~PS~IAaAal~~a~~~l~~~~~--~~~~~~L~~~~~i~~~~l~~C~~~i~~l  287 (375)
                      ...........+.++++.++.++.|++|+||+||||||++|+..++....  ..|...|..++||+.++|++|++.|.++
T Consensus       185 ~~~~~~~~~~~a~~~l~lsl~d~~~l~~~PS~IAaAai~lA~~~l~~~~~w~~~w~~~L~~~tg~~~~~l~~c~~~I~~l  264 (306)
T 3g33_B          185 PRDRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITGTEVDCLRACQEQIEAA  264 (306)
T ss_dssp             CTTTHHHHHHHHHHHHHHHHHCGGGTTSCHHHHHHHHHHHHHHTCC---CCHHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHHHHHhhhhhccCCHHHHHHHHHHHHHHHhcCCCCchhhHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            75543334456788999999999999999999999999999998874321  2356788899999999999999999999


Q ss_pred             HHhc
Q 017247          288 ANAK  291 (375)
Q Consensus       288 ~~~~  291 (375)
                      +.+.
T Consensus       265 ~~~~  268 (306)
T 3g33_B          265 LRES  268 (306)
T ss_dssp             HHTC
T ss_pred             HHHH
Confidence            9765
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Back     alignment and structure
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Back     alignment and structure
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Back     alignment and structure
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>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
>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
>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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} 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
>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
>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
>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
>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 375
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 2e-26
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 1e-25
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 6e-23
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 1e-21
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 1e-21
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 1e-20
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 2e-18
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 6e-15
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Length = 141 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Viral cyclin
species: Murine herpesvirus 68 [TaxId: 33708]

 Score =  100 bits (251), Expect = 2e-26
 Identities = 25/145 (17%), Positives = 39/145 (26%), Gaps = 10/145 (6%)

Query: 50  LLEQDLFWEDEELLSLFSKEEQQLLKQETQTHY--KDSDVLVVARSEAVEWVLKVNAHYG 107
            L+  L  E++    ++  E +     + +      D       R     W+  V     
Sbjct: 4   FLDSSLLNEEDCRQMIYRSEREH----DARMVGVNVDQHFTSQYRKVLTTWMFCVCKDLR 59

Query: 108 FSTLTAILAINYLDRFLRSFHFQIDKPWMIQLLAVTCLSLAAKVEETQVPLLLDLQVEGA 167
                  LA+  LD    S           Q  A   L +A KV          L     
Sbjct: 60  QDNNVFPLAVALLDELFLSTRID---RENYQSTAAVALHIAGKVRAYMPIKATQL-AYLC 115

Query: 168 KYVFETKAIQRMELLVLSTLEWKMH 192
                   +  +E+  L TL W   
Sbjct: 116 GGATTADKLLTLEVKSLDTLSWVAD 140
>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
>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
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Length = 144 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
>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 ?
Query375
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.97
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.96
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.96
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]} 99.79
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.76
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.75
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.48
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.68
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.6
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 98.32
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 98.27
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 98.15
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.81
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.67
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.61
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.57
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 97.47
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.19
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 96.43
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 95.75
d1f5qb2106 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 92.31
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 91.88
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 85.88
d1bu2a2102 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 84.98
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 82.29
>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=3.4e-31  Score=223.69  Aligned_cols=130  Identities=21%  Similarity=0.309  Sum_probs=121.1

Q ss_pred             CcHHHHHHHHHHHHhccCCcccccccCCCcchHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhccccccCCchh
Q 017247           57 WEDEELLSLFSKEEQQLLKQETQTHYKDSDVLVVARSEAVEWVLKVNAHYGFSTLTAILAINYLDRFLRSFHFQIDKPWM  136 (375)
Q Consensus        57 ~~~e~l~~Ll~kE~~~~~~~~y~~~lq~~~~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAV~ylDRfLs~~~v~~~~~~~  136 (375)
                      ++++++++|++.|.++.|..+|+...|.+ +++.+|..+|+||.+|+.+++++++|+++||+|||||+++..+++++   
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            57899999999999999999999988876 99999999999999999999999999999999999999999998777   


Q ss_pred             HHHHHHHHHHhhhhhcccCCCcccce-eeeCCCccccHHHHHHHHHHHHHHcCcccc
Q 017247          137 IQLLAVTCLSLAAKVEETQVPLLLDL-QVEGAKYVFETKAIQRMELLVLSTLEWKMH  192 (375)
Q Consensus       137 lqLvavaCL~LAaK~eE~~vp~l~dl-~v~~~~~~f~~~~I~~mE~~IL~~L~w~l~  192 (375)
                      +||+|+|||+||+|+||..+|.+.++ .++++  .|++++|.+||+.||++|+|++.
T Consensus        78 lqLia~tcl~iAsK~ee~~~~~~~~l~~~~~~--~~t~~ei~~mE~~IL~~L~w~l~  132 (132)
T d1g3nc1          78 FQKTGSACLLVASKLRSLTPISTSSLCYAAAD--SFSRQELIDQEKELLEKLAWRTE  132 (132)
T ss_dssp             HHHHHHHHHHHHHHHHCSSCCCHHHHHHHTTT--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHHHHHHHHHHhcccCCCCHHHHHHHHcC--CCCHHHHHHHHHHHHHHcCCcCC
Confidence            99999999999999999999999998 45544  56999999999999999999974
>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
>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
>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
>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
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1bu2a2 a.74.1.1 (A:149-250) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 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