Citrus Sinensis ID: 021552

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-
MIYTAIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLYSLPKAKYIPVCKDGTSFTFSSKTVDSQPQSTPKEVLQSSPQANNHTTFPIEALVPINPESGGSKVKQHLID
ccccccccccccHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccEEEcccHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHcccccccccccHHHccccHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
cEEEEEcccEccHHHHcccccccccccHHHHHHHHHHHHHHHHHHccHccccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEccccHHHHHHHHHHcccHHHHHHHHHHHHcccccEEEEEccHHHHHHHHHHHHHHHccccccccccHHEEEcccHHHHHHHHHHHHHHHHccccccHHcccHHHHHHHccccHccccccccccccccccccccccccccccccccccccccccccccccc
miytaidnfyltdeqlkdspsrkdgideATETTLRIYGCDLiqesgillklpqAVMATGQVLFHRfyckrsfarFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMecrreglpiehLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARrfqiplpenppwwkafdaeKSGIDEVCRVLAHLyslpkakyipvckdgtsftfssktvdsqpqstpkevlqsspqannhttfpiealvpinpesggskvkqhlid
MIYTAidnfyltdeqlkdspsrkdgIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSVWlaskleesprkarQVIIVFHRmecrreglpiehlDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARrfqiplpenppWWKAFDAEKSGIDEVCRVLAHLYSLPKAKYIPVCKDGTSFTFSSKTVDSQPQSTPKEVLQSSPQANNHTTFPIEALvpinpesggskvkqhlid
MIYTAIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLYSLPKAKYIPVCKDGTSFTFSSKTVDSQPQSTPKEVLQSSPQANNHTTFPIEALVPINPESGGSKVKQHLID
**YTAIDNFYLT*****************TETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLYSLPKAKYIPVCKDGTSFTF****************************************************
*IYTAIDNFYLTDEQ************EATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLYSLP********************************************************************
MIYTAIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLYSLPKAKYIPVCKDGTSFTF*********************QANNHTTFPIEALVPINPESG**********
MIYTAIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLYSLPKAKYI*VC************************************************************
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MIYTAIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLYSLPKAKYIPVCKDGTSFTFSSKTVDSQPQSTPKEVLQSSPQANNHTTFPIEALVPINPESGGSKVKQHLID
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 ?
Query311 2.2.26 [Sep-21-2011]
Q8RWV3 416 Cyclin-L1-1 OS=Arabidopsi yes no 0.906 0.677 0.847 1e-145
Q9AS36 427 Cyclin-L1-1 OS=Oryza sati yes no 0.890 0.648 0.769 1e-129
Q7ZVX0 498 Cyclin-L1 OS=Danio rerio no no 0.768 0.479 0.465 3e-57
Q9JJA7 518 Cyclin-L2 OS=Mus musculus yes no 0.768 0.461 0.451 7e-56
Q5I0H5 520 Cyclin-L2 OS=Rattus norve yes no 0.768 0.459 0.451 9e-56
Q6GN15 496 Cyclin-L1 OS=Xenopus laev N/A no 0.778 0.487 0.446 1e-55
Q96S94 520 Cyclin-L2 OS=Homo sapiens yes no 0.774 0.463 0.451 1e-55
Q5BKF8 497 Cyclin-L2 OS=Xenopus trop yes no 0.781 0.488 0.447 6e-55
Q5ZJP9 534 Cyclin-L1 OS=Gallus gallu yes no 0.768 0.447 0.439 2e-54
Q52KE7 532 Cyclin-L1 OS=Mus musculus no no 0.778 0.454 0.450 8e-54
>sp|Q8RWV3|CCL11_ARATH Cyclin-L1-1 OS=Arabidopsis thaliana GN=CYCL1-1 PE=2 SV=2 Back     alignment and function desciption
 Score =  514 bits (1324), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 239/282 (84%), Positives = 262/282 (92%)

Query: 1   MIYTAIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQ 60
           MIYTAIDNFYL+DEQLK SPSRKDGIDE TE +LRIYGCDLIQE GILLKLPQAVMATGQ
Sbjct: 1   MIYTAIDNFYLSDEQLKASPSRKDGIDETTEISLRIYGCDLIQEGGILLKLPQAVMATGQ 60

Query: 61  VLFHRFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHL 120
           VLF RFYCK+S A+FDVKIVAAS VWLASKLEE+P+KARQVIIVFHRMECRRE LP+EHL
Sbjct: 61  VLFQRFYCKKSLAKFDVKIVAASCVWLASKLEENPKKARQVIIVFHRMECRRENLPLEHL 120

Query: 121 DLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLAN 180
           D+++KKFSELK+E+SRTERHILKEMGFVCHVEHPHKFISNYLATLETP ELRQEAWNLAN
Sbjct: 121 DMYAKKFSELKVELSRTERHILKEMGFVCHVEHPHKFISNYLATLETPPELRQEAWNLAN 180

Query: 181 DSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLY 240
           DSLRTTLCVRF+SEVVACGVVYAAARRFQ+PLPENPPWWKAFDA+KS IDEVCRVLAHLY
Sbjct: 181 DSLRTTLCVRFRSEVVACGVVYAAARRFQVPLPENPPWWKAFDADKSSIDEVCRVLAHLY 240

Query: 241 SLPKAKYIPVCKDGTSFTFSSKTVDSQPQSTPKEVLQSSPQA 282
           SLPKA+YI VCKDG  FTFSS++ +SQ QS  K++L  + +A
Sbjct: 241 SLPKAQYISVCKDGKPFTFSSRSGNSQGQSATKDLLPGAGEA 282

Arabidopsis thaliana (taxid: 3702)
>sp|Q9AS36|CCL11_ORYSJ Cyclin-L1-1 OS=Oryza sativa subsp. japonica GN=CYCL1-1 PE=2 SV=1 Back     alignment and function description
>sp|Q7ZVX0|CCNL1_DANRE Cyclin-L1 OS=Danio rerio GN=ccnl1 PE=1 SV=1 Back     alignment and function description
>sp|Q9JJA7|CCNL2_MOUSE Cyclin-L2 OS=Mus musculus GN=Ccnl2 PE=1 SV=1 Back     alignment and function description
>sp|Q5I0H5|CCNL2_RAT Cyclin-L2 OS=Rattus norvegicus GN=Ccnl2 PE=2 SV=2 Back     alignment and function description
>sp|Q6GN15|CCNL1_XENLA Cyclin-L1 OS=Xenopus laevis GN=ccnl1 PE=2 SV=2 Back     alignment and function description
>sp|Q96S94|CCNL2_HUMAN Cyclin-L2 OS=Homo sapiens GN=CCNL2 PE=1 SV=1 Back     alignment and function description
>sp|Q5BKF8|CCNL2_XENTR Cyclin-L2 OS=Xenopus tropicalis GN=ccnl2 PE=2 SV=1 Back     alignment and function description
>sp|Q5ZJP9|CCNL1_CHICK Cyclin-L1 OS=Gallus gallus GN=CCNL1 PE=2 SV=1 Back     alignment and function description
>sp|Q52KE7|CCNL1_MOUSE Cyclin-L1 OS=Mus musculus GN=Ccnl1 PE=1 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 ?
Query311
302143552 455 unnamed protein product [Vitis vinifera] 0.993 0.679 0.830 1e-150
356535127 448 PREDICTED: cyclin-L1-1-like [Glycine max 0.974 0.676 0.835 1e-150
359485199 451 PREDICTED: cyclin-L1-1 [Vitis vinifera] 0.983 0.678 0.826 1e-149
363806710 445 uncharacterized protein LOC100820383 [Gl 0.974 0.680 0.828 1e-149
224100837 421 predicted protein [Populus trichocarpa] 0.974 0.719 0.829 1e-146
449435667 443 PREDICTED: cyclin-L1-1-like [Cucumis sat 0.974 0.683 0.825 1e-146
297825815 415 ania-6a type cyclin [Arabidopsis lyrata 0.987 0.739 0.792 1e-145
357481581 448 Cyclin-L1-1 [Medicago truncatula] gi|355 0.987 0.685 0.8 1e-145
357481585 438 Cyclin-L1-1 [Medicago truncatula] gi|355 0.987 0.700 0.8 1e-145
255577667 446 Cyclin-L2, putative [Ricinus communis] g 0.964 0.672 0.825 1e-144
>gi|302143552|emb|CBI22113.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  538 bits (1387), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 259/312 (83%), Positives = 276/312 (88%), Gaps = 3/312 (0%)

Query: 1   MIYTAIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQ 60
           MIYTAID FYLTDEQLK+SPSRKDGIDEATE TLRIYGCDLIQESGILL+LPQ VMATGQ
Sbjct: 1   MIYTAIDTFYLTDEQLKNSPSRKDGIDEATEMTLRIYGCDLIQESGILLRLPQVVMATGQ 60

Query: 61  VLFHRFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHL 120
           VLFHRFYCK+SFARF+VK VAAS VWLASKLEES RKARQV+IVFHRMECRRE LP+ HL
Sbjct: 61  VLFHRFYCKKSFARFNVKRVAASCVWLASKLEESLRKARQVLIVFHRMECRRENLPVVHL 120

Query: 121 DLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLAN 180
           D FSKK++ELK  +SRTERHILKEMGF+CHVEHPHKFISNYLATL+TP ELRQEAWNLAN
Sbjct: 121 DPFSKKYAELKTHLSRTERHILKEMGFICHVEHPHKFISNYLATLKTPPELRQEAWNLAN 180

Query: 181 DSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLY 240
           DSLRTTLCVRFKSEVVACGVVYAAARRFQ+PLPEN PWW+ FDAEKS IDEVCRVLAHLY
Sbjct: 181 DSLRTTLCVRFKSEVVACGVVYAAARRFQVPLPENEPWWEVFDAEKSAIDEVCRVLAHLY 240

Query: 241 SLPKAKYIPVCKDGTSFTFSSKTVDSQPQSTPKEVLQSSPQANNHTTFPIEALVPINPES 300
           +LPKA+YIPVCKDG SFT S+K+ DSQ Q   KEVLQS P ANN T  P  A   INPES
Sbjct: 241 NLPKAQYIPVCKDGDSFTSSNKSQDSQTQPVSKEVLQSGPSANNDTVTPKAASALINPES 300

Query: 301 GGSK---VKQHL 309
           GGSK   VKQ L
Sbjct: 301 GGSKNSMVKQAL 312

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|356535127|ref|XP_003536100.1| PREDICTED: cyclin-L1-1-like [Glycine max] Back     alignment and taxonomy information
>gi|359485199|ref|XP_002279618.2| PREDICTED: cyclin-L1-1 [Vitis vinifera] Back     alignment and taxonomy information
>gi|363806710|ref|NP_001242524.1| uncharacterized protein LOC100820383 [Glycine max] gi|255640064|gb|ACU20323.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|224100837|ref|XP_002312033.1| predicted protein [Populus trichocarpa] gi|222851853|gb|EEE89400.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449435667|ref|XP_004135616.1| PREDICTED: cyclin-L1-1-like [Cucumis sativus] gi|449485709|ref|XP_004157252.1| PREDICTED: cyclin-L1-1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|297825815|ref|XP_002880790.1| ania-6a type cyclin [Arabidopsis lyrata subsp. lyrata] gi|297326629|gb|EFH57049.1| ania-6a type cyclin [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|357481581|ref|XP_003611076.1| Cyclin-L1-1 [Medicago truncatula] gi|355512411|gb|AES94034.1| Cyclin-L1-1 [Medicago truncatula] Back     alignment and taxonomy information
>gi|357481585|ref|XP_003611078.1| Cyclin-L1-1 [Medicago truncatula] gi|355512413|gb|AES94036.1| Cyclin-L1-1 [Medicago truncatula] Back     alignment and taxonomy information
>gi|255577667|ref|XP_002529710.1| Cyclin-L2, putative [Ricinus communis] gi|223530812|gb|EEF32676.1| Cyclin-L2, putative [Ricinus communis] 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 ?
Query311
TAIR|locus:2066185 416 RCY1 "arginine-rich cyclin 1" 0.906 0.677 0.847 7.3e-130
DICTYBASE|DDB_G0285553273 cycL "cyclin" [Dictyostelium d 0.781 0.890 0.446 1.8e-55
ZFIN|ZDB-GENE-050419-206 534 ccnl1a "cyclin L1a" [Danio rer 0.787 0.458 0.467 1.3e-54
ZFIN|ZDB-GENE-030131-4813 498 ccnl1b "cyclin L1b" [Danio rer 0.774 0.483 0.473 3.4e-54
UNIPROTKB|E1BJ67 526 CCNL1 "Uncharacterized protein 0.771 0.456 0.465 1.5e-53
UNIPROTKB|C9JPL0428 CCNL1 "Cyclin-L1" [Homo sapien 0.771 0.560 0.465 1.5e-53
UNIPROTKB|Q9UK58 526 CCNL1 "Cyclin-L1" [Homo sapien 0.771 0.456 0.465 1.5e-53
UNIPROTKB|I3LG02 526 CCNL1 "Uncharacterized protein 0.771 0.456 0.465 1.5e-53
MGI|MGI:1922664 532 Ccnl1 "cyclin L1" [Mus musculu 0.771 0.451 0.465 1.5e-53
RGD|620864 527 Ccnl1 "cyclin L1" [Rattus norv 0.771 0.455 0.465 1.5e-53
TAIR|locus:2066185 RCY1 "arginine-rich cyclin 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1274 (453.5 bits), Expect = 7.3e-130, P = 7.3e-130
 Identities = 239/282 (84%), Positives = 262/282 (92%)

Query:     1 MIYTAIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQ 60
             MIYTAIDNFYL+DEQLK SPSRKDGIDE TE +LRIYGCDLIQE GILLKLPQAVMATGQ
Sbjct:     1 MIYTAIDNFYLSDEQLKASPSRKDGIDETTEISLRIYGCDLIQEGGILLKLPQAVMATGQ 60

Query:    61 VLFHRFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHL 120
             VLF RFYCK+S A+FDVKIVAAS VWLASKLEE+P+KARQVIIVFHRMECRRE LP+EHL
Sbjct:    61 VLFQRFYCKKSLAKFDVKIVAASCVWLASKLEENPKKARQVIIVFHRMECRRENLPLEHL 120

Query:   121 DLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLAN 180
             D+++KKFSELK+E+SRTERHILKEMGFVCHVEHPHKFISNYLATLETP ELRQEAWNLAN
Sbjct:   121 DMYAKKFSELKVELSRTERHILKEMGFVCHVEHPHKFISNYLATLETPPELRQEAWNLAN 180

Query:   181 DSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLY 240
             DSLRTTLCVRF+SEVVACGVVYAAARRFQ+PLPENPPWWKAFDA+KS IDEVCRVLAHLY
Sbjct:   181 DSLRTTLCVRFRSEVVACGVVYAAARRFQVPLPENPPWWKAFDADKSSIDEVCRVLAHLY 240

Query:   241 SLPKAKYIPVCKDGTSFTFSSKTVDSQPQSTPKEVLQSSPQA 282
             SLPKA+YI VCKDG  FTFSS++ +SQ QS  K++L  + +A
Sbjct:   241 SLPKAQYISVCKDGKPFTFSSRSGNSQGQSATKDLLPGAGEA 282
GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;RCA;TAS
GO:0006396 "RNA processing" evidence=IEA
GO:0016538 "cyclin-dependent protein serine/threonine kinase regulator activity" evidence=ISS
GO:0019901 "protein kinase binding" evidence=IEA
GO:0051726 "regulation of cell cycle" evidence=ISS
GO:0009651 "response to salt stress" evidence=IDA
GO:0009506 "plasmodesma" evidence=IDA
GO:0010440 "stomatal lineage progression" evidence=RCA
GO:0043687 "post-translational protein modification" evidence=RCA
GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA
GO:0048573 "photoperiodism, flowering" evidence=RCA
DICTYBASE|DDB_G0285553 cycL "cyclin" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050419-206 ccnl1a "cyclin L1a" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-4813 ccnl1b "cyclin L1b" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|E1BJ67 CCNL1 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|C9JPL0 CCNL1 "Cyclin-L1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q9UK58 CCNL1 "Cyclin-L1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|I3LG02 CCNL1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
MGI|MGI:1922664 Ccnl1 "cyclin L1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|620864 Ccnl1 "cyclin L1" [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) ?
Q9AS36CCL11_ORYSJNo assigned EC number0.76970.89060.6487yesno
Q8RWV3CCL11_ARATHNo assigned EC number0.84750.90670.6778yesno

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 ?
Query311
COG5333297 COG5333, CCL1, Cdk activating kinase (CAK)/RNA pol 4e-24
cd0004388 cd00043, CYCLIN, Cyclin box fold 5e-12
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 1e-07
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 2e-07
COG1405285 COG1405, SUA7, Transcription initiation factor TFI 1e-06
cd0004388 cd00043, CYCLIN, Cyclin box fold 2e-05
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 3e-05
>gnl|CDD|227640 COG5333, CCL1, Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair] Back     alignment and domain information 
 Score = 99.0 bits (247), Expect = 4e-24
 Identities = 64/259 (24%), Positives = 102/259 (39%), Gaps = 30/259 (11%)

Query: 31  ETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSVWLASK 90
           E  L IY   LI +    L LPQ V+AT  + F RFY K S     +  V  + V+LA K
Sbjct: 41  ELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACK 100

Query: 91  LEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCH 150
           +E++PR     I  F            E  DL+S++    +  +   E  +L+ + F  H
Sbjct: 101 VEDTPRDIS--IESF------------EARDLWSEEPKSSRERILEYEFELLEALDFDLH 146

Query: 151 VEHPHKFISNYLATLET--PLELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRF 208
           V HP+K++  +L  L+     +L Q AW + ND+LRT LC+ +   ++A   +  A    
Sbjct: 147 VHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVL 206

Query: 209 QIPLPENPPWWKAFDAEKSGIDEVCRVLAHLYSLPKAKYIPVCKDGTSFTFSSKTVDSQP 268
            +P+ +           K  +       A  Y       I       +F     + D   
Sbjct: 207 GMPIIKL--LDFVSYETKEEVI------ALNYKSIVKNKI------KTFKAEHLSRDLPF 252

Query: 269 QSTPKEVLQSSPQANNHTT 287
                   Q +      + 
Sbjct: 253 TLQNIAEPQFALDKKPKSE 271

Length = 297
>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|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information
>gnl|CDD|224323 COG1405, SUA7, Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 311
KOG0835367 consensus Cyclin L [General function prediction on 100.0
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 100.0
TIGR00569305 ccl1 cyclin ccl1. University). 100.0
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 100.0
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 100.0
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 99.91
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.9
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.88
KOG0653391 consensus Cyclin B and related kinase-activating p 99.87
COG5024440 Cyclin [Cell division and chromosome partitioning] 99.84
KOG0655408 consensus G1/S-specific cyclin E [Cell cycle contr 99.83
KOG1597308 consensus Transcription initiation factor TFIIB [T 99.72
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 99.71
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.71
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 99.67
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.44
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.31
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 99.21
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.89
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.75
KOG1598 521 consensus Transcription initiation factor TFIIIB, 98.74
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 98.7
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 98.23
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 98.16
PRK00423310 tfb transcription initiation factor IIB; Reviewed 97.89
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 97.86
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 96.55
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 95.9
KOG1597308 consensus Transcription initiation factor TFIIB [T 95.66
TIGR00569305 ccl1 cyclin ccl1. University). 94.67
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 93.89
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 93.26
KOG1674218 consensus Cyclin [General function prediction only 92.41
KOG0835367 consensus Cyclin L [General function prediction on 91.53
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 89.79
KOG0834 323 consensus CDK9 kinase-activating protein cyclin T 89.34
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 89.1
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 88.86
KOG1598521 consensus Transcription initiation factor TFIIIB, 83.43
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 82.63
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 80.95
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information 
Probab=100.00  E-value=1.1e-52  Score=375.10  Aligned_cols=271  Identities=48%  Similarity=0.793  Sum_probs=249.2

Q ss_pred             HHhcCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhhcCCcccchHHHHHHHHHHHhhhhccC
Q 021552           15 QLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSVWLASKLEES   94 (311)
Q Consensus        15 ~l~~~pS~~~gi~~~~e~~~R~~~~~~I~~v~~~L~L~~~t~~tA~~~~~Rf~~~~s~~~~~~~lva~acLfLA~K~EE~   94 (311)
                      .|..+||..||++.+.|..+|.-||+||++.|..|+||+.+++|++++|+|||..+++..+++..+++||++||+|+||.
T Consensus         3 ~i~~~~s~qd~l~~e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~   82 (367)
T KOG0835|consen    3 KIDSTPSLQDGLSLETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEE   82 (367)
T ss_pred             cccCchhhhcccccchHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccc
Confidence            46678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccHHHHHHHHHHhhhhccCCCccccccchHHHHHHHHHHHHHHHHHHHHcCceeeecChHHHHHHHHHHcCCC--HHHH
Q 021552           95 PRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETP--LELR  172 (311)
Q Consensus        95 ~~~l~~i~~v~~~~~~~~~~~p~~~~~~~~~~y~~~~~~I~~~E~~IL~~L~F~l~v~~P~~~l~~~l~~l~~~--~~l~  172 (311)
                      |+++++|++|++++.++++..+.++. .....|..++..++.+|+.||++|||+++|.|||+++..|++.|+++  .++.
T Consensus        83 Prr~rdVinVFh~L~~r~~~~~~~~~-~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~  161 (367)
T KOG0835|consen   83 PRRIRDVINVFHYLEQRRESEAAEHL-ILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLL  161 (367)
T ss_pred             cccHhHHHHHHHHHHHHHhccCcchh-hhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHH
Confidence            99999999999999998887777766 56678888999999999999999999999999999999999999986  4579


Q ss_pred             HHHHHHHHhhhcCcccccCChHHHHHHHHHHHHHHcCCCCCCCccccccccCCHHHHHHHHHHHHHhhcC--CCCccccc
Q 021552          173 QEAWNLANDSLRTTLCVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLYSL--PKAKYIPV  250 (311)
Q Consensus       173 ~~A~~l~~ds~~t~~~l~~~P~~IA~AaI~lA~~~~~~~lp~~~~w~~~~~~~~~~l~~~~~~il~ly~~--~k~~~~~~  250 (311)
                      |.+|+|+||+++|++|+.|+|+.|||||||+|++.+++++|..++||.+|++++++++++|..++.+|..  ++...+.+
T Consensus       162 Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd~~k~eid~ic~~l~~lY~~~~p~~~li~~  241 (367)
T KOG0835|consen  162 QAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFDTTKREIDEICYRLIPLYKRAKPDETLIEA  241 (367)
T ss_pred             HHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcCCcHHHHHHHHHHHHHHHHhcccCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998  78888899


Q ss_pred             cCCCCcccccCCCCCCCCCCCCcccccCCCCCCCCCcCCC
Q 021552          251 CKDGTSFTFSSKTVDSQPQSTPKEVLQSSPQANNHTTFPI  290 (311)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  290 (311)
                      +.+..++.+++-+...+.+..+++.-    ++.+.++-++
T Consensus       242 ~vd~~k~~~~da~~k~~~~~ds~~~l----~g~~~a~~~~  277 (367)
T KOG0835|consen  242 FVDRLKRKFSDASGKAKGANDSASLL----GGFAPAVDPS  277 (367)
T ss_pred             HHHHhhHHHHhccCCccchhhHHHhh----cccccccCCC
Confidence            99998888888888777777655543    4455554444

>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
>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
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair] Back     alignment and domain information
>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
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning] 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
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/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
>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
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold 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
>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
>PRK00423 tfb transcription initiation factor IIB; Reviewed 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
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] 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
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation 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
>KOG1674 consensus Cyclin [General function prediction only] Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>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
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] Back     alignment and domain information
>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
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation Back     alignment and domain information
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] 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 ?
Query311
2i53_A258 Crystal Structure Of Cyclin K Length = 258 6e-27
2w2h_A264 Structural Basis Of Transcription Activation By The 2e-26
2pk2_A358 Cyclin Box Structure Of The P-Tefb Subunit Cyclin T 2e-26
2ivx_A257 Crystal Structure Of Human Cyclin T2 At 1.8 A Resol 2e-26
3tnh_B259 Cdk9CYCLIN T IN COMPLEX WITH CAN508 Length = 259 5e-26
3mi9_B266 Crystal Structure Of Hiv-1 Tat Complexed With Human 6e-26
3blh_B260 Crystal Structure Of Human Cdk9CYCLINT1 Length = 26 8e-26
3rgf_B285 Crystal Structure Of Human Cdk8CYCC Length = 285 1e-13
1zp2_A235 Structure Of The Mediator Subunit Cyclin C Length = 6e-07
>pdb|2I53|A Chain A, Crystal Structure Of Cyclin K Length = 258 Back     alignment and structure 
Iteration: 1

 Score =  117 bits (294), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 80/250 (32%), Positives = 126/250 (50%), Gaps = 21/250 (8%)
Query: 9   FYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYC 68
           +Y   + L  +PS+ +G+D ATE   R  G   I + G  L L    +ATG + FHRFY 
Sbjct: 15  WYWDKKDLAHTPSQLEGLDPATEARYRREGARFIFDVGTRLGLHYDTLATGIIYFHRFYM 74
Query: 69  KRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFS 128
             SF +F   +  A  ++LA K+EE+P+K + +I      +  R  L       F     
Sbjct: 75  FHSFKQFPRYVTGACCLFLAGKVEETPKKCKDII------KTARSLLNDVQFGQFG---D 125
Query: 129 ELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETP----LELRQEAWNLANDSLR 184
           + K E+   ER +L+ + F   VEHP++F+  Y   L+       +L Q AW   NDSL 
Sbjct: 126 DPKEEVMVLERILLQTIKFDLQVEHPYQFLLKYAKQLKGDKNKIQKLVQMAWTFVNDSLC 185
Query: 185 TTLCVRFKSEVVACGVVYAAAR--RFQIPLPENPP----WWKAF--DAEKSGIDEVCRVL 236
           TTL ++++ E++A  V+Y A R  +F+I    + P    WW+ F  D     ++++C  +
Sbjct: 186 TTLSLQWEPEIIAVAVMYLAGRLCKFEIQEWTSKPMYRRWWEQFVQDVPVDVLEDICHQI 245
Query: 237 AHLYSLPKAK 246
             LYS  K +
Sbjct: 246 LDLYSQGKQQ 255
>pdb|2W2H|A Chain A, Structural Basis Of Transcription Activation By The Cyclin T1-Tat-Tar Rna Complex From Eiav Length = 264 Back     alignment and structure
>pdb|2PK2|A Chain A, Cyclin Box Structure Of The P-Tefb Subunit Cyclin T1 Derived From A Fusion Complex With Eiav Tat Length = 358 Back     alignment and structure
>pdb|2IVX|A Chain A, Crystal Structure Of Human Cyclin T2 At 1.8 A Resolution (Casp Target) Length = 257 Back     alignment and structure
>pdb|3TNH|B Chain B, Cdk9CYCLIN T IN COMPLEX WITH CAN508 Length = 259 Back     alignment and structure
>pdb|3MI9|B Chain B, Crystal Structure Of Hiv-1 Tat Complexed With Human P-Tefb Length = 266 Back     alignment and structure
>pdb|3BLH|B Chain B, Crystal Structure Of Human Cdk9CYCLINT1 Length = 260 Back     alignment and structure
>pdb|3RGF|B Chain B, Crystal Structure Of Human Cdk8CYCC Length = 285 Back     alignment and structure
>pdb|1ZP2|A Chain A, Structure Of The Mediator Subunit Cyclin C Length = 235 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 ?
Query311
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 6e-75
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 1e-73
2ivx_A257 Cyclin-T2; transcription regulation, cell division 4e-69
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 5e-67
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 2e-65
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 4e-59
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-10
1c9b_A207 General transcription factor IIB; protein-DNA comp 5e-08
1ais_B200 TFB TFIIB, protein (transcription initiation facto 4e-07
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 1e-05
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 2e-05
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 5e-05
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 5e-04
>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
 Score =  229 bits (586), Expect = 6e-75
 Identities = 76/251 (30%), Positives = 122/251 (48%), Gaps = 21/251 (8%)

Query: 8   NFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFY 67
            +Y   + L  +PS+ +G+D ATE   R  G   I + G  L L    +ATG + FHRFY
Sbjct: 14  CWYWDKKDLAHTPSQLEGLDPATEARYRREGARFIFDVGTRLGLHYDTLATGIIYFHRFY 73

Query: 68  CKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKF 127
              SF +F   +  A  ++LA K+EE+P+K + +I     +    +         F +  
Sbjct: 74  MFHSFKQFPRYVTGACCLFLAGKVEETPKKCKDIIKTARSLLNDVQ---------FGQFG 124

Query: 128 SELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLE----LRQEAWNLANDSL 183
            + K E+   ER +L+ + F   VEHP++F+  Y   L+        L Q AW   NDSL
Sbjct: 125 DDPKEEVMVLERILLQTIKFDLQVEHPYQFLLKYAKQLKGDKNKIQKLVQMAWTFVNDSL 184

Query: 184 RTTLCVRFKSEVVACGVVYAAARRFQIPLPE------NPPWWKAF--DAEKSGIDEVCRV 235
            TTL ++++ E++A  V+Y A R  +  + E         WW+ F  D     ++++C  
Sbjct: 185 CTTLSLQWEPEIIAVAVMYLAGRLCKFEIQEWTSKPMYRRWWEQFVQDVPVDVLEDICHQ 244

Query: 236 LAHLYSLPKAK 246
           +  LYS  K +
Sbjct: 245 ILDLYSQGKQQ 255
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Length = 358 Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Length = 257 Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Length = 285 Back     alignment and structure
>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
>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
>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
>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* Length = 207 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* Length = 200 Back     alignment and structure
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} Length = 306 Back     alignment and structure
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 Length = 252 Back     alignment and structure
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Length = 257 Back     alignment and structure
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query311
2ivx_A257 Cyclin-T2; transcription regulation, cell division 100.0
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 100.0
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 100.0
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 100.0
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 100.0
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 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
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 100.0
1c9b_A207 General transcription factor IIB; protein-DNA comp 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 99.97
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 99.97
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.97
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.93
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.84
1ais_B200 TFB TFIIB, protein (transcription initiation facto 98.12
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 97.68
1c9b_A207 General transcription factor IIB; protein-DNA comp 97.63
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 96.72
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 96.18
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 95.96
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 95.56
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 95.29
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 95.01
2ivx_A257 Cyclin-T2; transcription regulation, cell division 94.68
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 94.48
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 94.29
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 94.22
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 94.11
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 93.98
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 93.85
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 93.74
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 93.51
3m03_A95 ORC6, origin recognition complex subunit 6; helix 90.69
3h4c_A260 Transcription factor TFIIB-like; cyclin, transcrip 90.45
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 90.32
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 83.44
3m03_A95 ORC6, origin recognition complex subunit 6; helix 81.23
>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
Probab=100.00  E-value=1.4e-49  Score=359.57  Aligned_cols=235  Identities=29%  Similarity=0.506  Sum_probs=217.4

Q ss_pred             CCCcccCHHHHhcCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhhcCCcccchHHHHHHHHH
Q 021552            6 IDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASSV   85 (311)
Q Consensus         6 ~~~wl~t~e~l~~~pS~~~gi~~~~e~~~R~~~~~~I~~v~~~L~L~~~t~~tA~~~~~Rf~~~~s~~~~~~~lva~acL   85 (311)
                      .++||||+|||+++||+++|++.+.|..+|..+++||.++|..|+|++.|+++|++|||||+.++++.+++++++|+|||
T Consensus         2 ~~~w~~t~e~l~~~ps~~~g~~~~~e~~~R~~~~~~i~~v~~~l~l~~~t~~~A~~~~dRf~~~~~~~~~~~qlv~~acL   81 (257)
T 2ivx_A            2 SSRWFFTREQLENTPSRRCGVEADKELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNKNIISSTAL   81 (257)
T ss_dssp             CGGGSCCHHHHHSCHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTSCTTTSCHHHHHHHHH
T ss_pred             CCCeeecHHHHHhChHhhcCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhCChhhhCHHHHHHHHH
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhccCcccHHHHHHHHHHhhhhccCCCccccccchHHHHHHHHHHHHHHHHHHHHcCceeeecChHHHHHHHHHHc
Q 021552           86 WLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATL  165 (311)
Q Consensus        86 fLA~K~EE~~~~l~~i~~v~~~~~~~~~~~p~~~~~~~~~~y~~~~~~I~~~E~~IL~~L~F~l~v~~P~~~l~~~l~~l  165 (311)
                      |||||+||.|+++++++.+++.+.++..    ..++..++.|...+++|+.+|+.||++|||++.++||+.|+.+|++.+
T Consensus        82 ~lA~K~EE~p~~l~d~~~~~~~~~~~~~----~~~~~~~~~y~~~~~~I~~~E~~iL~~L~f~l~~~~P~~fl~~~~~~l  157 (257)
T 2ivx_A           82 FLAAKVEEQARKLEHVIKVAHACLHPLE----PLLDTKCDAYLQQTRELVILETIMLQTLGFEITIEHPHTDVVKCTQLV  157 (257)
T ss_dssp             HHHHHHTTCCCCHHHHHHHHHHHHCTTS----CCCCTTSHHHHHHHHHHHHHHHHHHHHTTTCCCCCCHHHHHHHHHHHT
T ss_pred             HHHhccccCCcCHHHHHHHHHHHhccCC----CCCCcchHHHHHHHHHHHHHHHHHHHHcccceEeeCcHHHHHHHHHHh
Confidence            9999999999999999999887765422    123456788988899999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHhhhc-CcccccCChHHHHHHHHHHHHHHcCCCCCC---Cccccccc--cCCHHHHHHHHHHHHHh
Q 021552          166 ETPLELRQEAWNLANDSLR-TTLCVRFKSEVVACGVVYAAARRFQIPLPE---NPPWWKAF--DAEKSGIDEVCRVLAHL  239 (311)
Q Consensus       166 ~~~~~l~~~A~~l~~ds~~-t~~~l~~~P~~IA~AaI~lA~~~~~~~lp~---~~~w~~~~--~~~~~~l~~~~~~il~l  239 (311)
                      +.++++.+.||+++++++. +++|+.|+|+.||+||||+|++.+|.++|.   +.+||..|  ++++++|.++++.|+++
T Consensus       158 ~~~~~~~~~A~~~~~~sl~~~~~~l~~~Ps~IAaAai~lA~~~~~~~~p~~~~~~~W~~~~~~~~~~~~l~~~~~~i~~~  237 (257)
T 2ivx_A          158 RASKDLAQTSYFMATNSLHLTTFCLQYKPTVIACVCIHLACKWSNWEIPVSTDGKHWWEYVDPTVTLELLDELTHEFLQI  237 (257)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHCCGGGTSCHHHHHHHHHHHHHHHHTCCCCCCTTCCCGGGGTCSSCCHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhhhhcccHHHcCCHHHHHHHHHHHHHHHhCCCCCCCCCCchHHHHhCCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999984 889999999999999999999999988764   46799988  58999999999999999


Q ss_pred             hcCCC
Q 021552          240 YSLPK  244 (311)
Q Consensus       240 y~~~k  244 (311)
                      |....
T Consensus       238 ~~~~~  242 (257)
T 2ivx_A          238 LEKTP  242 (257)
T ss_dssp             HHTSH
T ss_pred             HHhCh
Confidence            97643
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure
>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
>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
>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
>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
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Back     alignment and structure
>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
>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
>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
>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
>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
>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
>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
>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
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* 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
>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
>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
>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
>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
>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
>3m03_A ORC6, origin recognition complex subunit 6; helix turn helix, DNA binding protein, origin recognition CO DNA replication; HET: MES; 2.50A {Homo sapiens} Back     alignment and structure
>3h4c_A Transcription factor TFIIB-like; cyclin, transcription factor TFIIB repeat; 2.30A {Trypanosoma brucei brucei} 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
>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
>3m03_A ORC6, origin recognition complex subunit 6; helix turn helix, DNA binding protein, origin recognition CO DNA replication; HET: MES; 2.50A {Homo sapiens} 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 311
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 1e-38
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 7e-37
d2ivxa2113 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapien 1e-26
d2i53a2110 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens 2e-26
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 6e-22
d1jkwa2126 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo 8e-18
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 4e-05
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 3e-04
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 7e-04
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 0.004
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Length = 143 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Cyclin-T2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  131 bits (331), Expect = 1e-38
 Identities = 47/143 (32%), Positives = 76/143 (53%), Gaps = 4/143 (2%)

Query: 5   AIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFH 64
           A   ++ T EQL+++PSR+ G++   E + R    +LIQE G  L + Q  + T  V  H
Sbjct: 1   ASSRWFFTREQLENTPSRRCGVEADKELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMH 60

Query: 65  RFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFS 124
           RFY   SF +F+  I+++++++LA+K+EE  RK   VI V H      E      LD   
Sbjct: 61  RFYMHHSFTKFNKNIISSTALFLAAKVEEQARKLEHVIKVAHACLHPLE----PLLDTKC 116

Query: 125 KKFSELKMEMSRTERHILKEMGF 147
             + +   E+   E  +L+ +GF
Sbjct: 117 DAYLQQTRELVILETIMLQTLGF 139
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Length = 144 Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Length = 113 Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Length = 110 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
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 126 Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Length = 141 Back     information, alignment and structure
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query311
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 100.0
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 100.0
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.92
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.86
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.85
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.77
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.76
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.76
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.75
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.74
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.29
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 99.03
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 98.95
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 98.93
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 98.8
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 98.65
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 98.64
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 98.52
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 98.5
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 98.43
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 96.95
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 96.17
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 95.94
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 95.39
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 94.88
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 94.66
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 94.5
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 94.0
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 93.92
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 93.75
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 91.38
d2r7ga2142 Retinoblastoma tumor suppressor domains {Human (Ho 84.11
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Cyclin-T2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.4e-35  Score=240.59  Aligned_cols=143  Identities=33%  Similarity=0.524  Sum_probs=132.8

Q ss_pred             cCCCcccCHHHHhcCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhhcCCcccchHHHHHHHH
Q 021552            5 AIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFARFDVKIVAASS   84 (311)
Q Consensus         5 ~~~~wl~t~e~l~~~pS~~~gi~~~~e~~~R~~~~~~I~~v~~~L~L~~~t~~tA~~~~~Rf~~~~s~~~~~~~lva~ac   84 (311)
                      +.++||||++||+++||+++|++.++|..+|..+++||.++|..|++|+.|+++|++||||||.++++.++++++|++||
T Consensus         1 ~~~~w~~t~~~l~~~pS~~~gi~~~~E~~~R~~~~~~i~~~~~~l~l~~~t~~~A~~l~~Rf~~~~s~~~~~~~~va~ac   80 (143)
T d2ivxa1           1 ASSRWFFTREQLENTPSRRCGVEADKELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNKNIISSTA   80 (143)
T ss_dssp             CCGGGSCCHHHHHSCHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTSCTTTSCHHHHHHHH
T ss_pred             CCCCCCCCHHHHHhCcccccCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCccccCHHHHHHHH
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhhccCcccHHHHHHHHHHhhhhccCCCccccccchHHHHHHHHHHHHHHHHHHHHcCceeee
Q 021552           85 VWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHV  151 (311)
Q Consensus        85 LfLA~K~EE~~~~l~~i~~v~~~~~~~~~~~p~~~~~~~~~~y~~~~~~I~~~E~~IL~~L~F~l~v  151 (311)
                      ||||||+||+++++++++.+++.+.++..    ...+..++.|...+++|+.+|..||++||||++|
T Consensus        81 l~LA~K~eE~~~~~~~ii~~~~~~~~~~~----~~~~~~~~~~~~~~~~i~~~E~~iL~~L~Fdl~V  143 (143)
T d2ivxa1          81 LFLAAKVEEQARKLEHVIKVAHACLHPLE----PLLDTKCDAYLQQTRELVILETIMLQTLGFEITI  143 (143)
T ss_dssp             HHHHHHHTTCCCCHHHHHHHHHHHHCTTS----CCCCTTSHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             HHHHHHhccccccHHHHHHHHHHHhcccc----hhhhhchhhhHHHHHHHHHHHHHHHHHcCCeeeC
Confidence            99999999999999999999888765532    2234567889999999999999999999999975
>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
>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
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Back     information, alignment and structure
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Back     information, alignment and structure
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} 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
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {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
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 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
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {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
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {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
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} 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
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} 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
>d2r7ga2 a.74.1.3 (A:644-785) Retinoblastoma tumor suppressor domains {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure