Citrus Sinensis ID: 024567

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-----
MRQLTYRRKLYGPQPGPLAEGKSVKRSRTQKDYSNSGKGGVKKWLPISGHRRTTNSFWTKKTWMWRNLLTEKRASLLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVVSF
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcHHHHHcccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccEEEEEcccHHHHHHHHHHccccHHHHHHHHHHHHHHccccEEEEccHHHHHHHHHHHHHccccccccccHHHcccccccccc
cccEEEEHHcccccccccHcccEEEEEccccccccccccccccccccccHHHHccccccccccccHHHHccccccccccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccEEEEccccHHHHHHHHHccccHHHHHHHHHHHHHHccccEEEEEccHHHHHHHHHHHHHHHHccccccHHEEEcccHHHccc
mrqltyrrklygpqpgplaegksvkrsrtqkdysnsgkggvkkwlpisghrrttnsfwTKKTWMWRNLLTEKRASLLKITsslrcrcptIYRNLAQHVKVRQRVVATAVTYMRRCytrksmteydphlvaptclylasKAEESTVQARLLVFYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAgmndinmthlswgilndtykmdlilvhppHLIALACIYIASvyrekdntAWFEELRVDMNVVSF
mrqltyrrklygpqpgplaegksvkrsrtqkdysnsgkggvkkwlpisghrrttnsfwtkktWMWRNLLTEKRASLLKITSSLRCRCPTIYrnlaqhvkvrqrvVATAVTYMRRCYtrksmteydphLVAPTCLYLASKAEESTVQARLLVFYIKkiysdekyrYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVVSF
MRQLTYRRKLYGPQPGPLAEGKSVKRSRTQKDYSNSGKGGVKKWLPISGHRRTTNSFWTKKTWMWRNLLTEKRASLLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVVSF
****************************************VKKWLPISGHRRTTNSFWTKKTWMWRNLLTEKRASLLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMN****
*********************************************************W***TW****************TSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVVSF
MRQLTYRRKLYGPQPGP**********************GVKKWLPISGHRRTTNSFWTKKTWMWRNLLTEKRASLLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVVSF
*RQLTYRRKLYGPQPGPLAE*K*VKRSR********************************KT*MW***LTEKRASLLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMN*V*F
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MRQLTYRRKLYGPQPGPLAEGKSVKRSRTQKDYSNSGKGGVKKWLPISGHRRTTNSFWTKKTWMWRNLLTEKRASLLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVVSF
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 ?
Query265 2.2.26 [Sep-21-2011]
Q9FJK7253 Cyclin-C1-2 OS=Arabidopsi yes no 0.641 0.671 0.782 3e-79
P93411257 Cyclin-C1-1 OS=Oryza sati yes no 0.633 0.653 0.795 2e-75
Q9FJK6253 Cyclin-C1-1 OS=Arabidopsi no no 0.641 0.671 0.770 2e-74
P39947278 Cyclin-C OS=Rattus norveg yes no 0.781 0.744 0.392 3e-38
Q62447283 Cyclin-C OS=Mus musculus yes no 0.788 0.738 0.387 2e-37
P55168283 Cyclin-C OS=Gallus gallus yes no 0.788 0.738 0.387 3e-37
P24863283 Cyclin-C OS=Homo sapiens yes no 0.788 0.738 0.387 3e-37
Q3ZCK5283 Cyclin-C OS=Bos taurus GN yes no 0.788 0.738 0.383 3e-37
Q4KLA0283 Cyclin-C OS=Xenopus laevi N/A no 0.788 0.738 0.387 4e-37
Q28F72283 Cyclin-C OS=Xenopus tropi yes no 0.788 0.738 0.387 5e-37
>sp|Q9FJK7|CCC12_ARATH Cyclin-C1-2 OS=Arabidopsis thaliana GN=CYCC1-2 PE=2 SV=1 Back     alignment and function desciption
 Score =  294 bits (753), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 133/170 (78%), Positives = 157/170 (92%)

Query: 94  LAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFY 153
           LAQH+K+RQRVVATAVTYMRR YTRKS+TEY+P LVAPTCLYLA KAEES V A+LLVFY
Sbjct: 51  LAQHIKIRQRVVATAVTYMRRVYTRKSLTEYEPRLVAPTCLYLACKAEESVVHAKLLVFY 110

Query: 154 IKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSW 213
           +KK+Y+DEK+RYE+KDILEMEMK+LEALN+YLVVFHPYRSL +FLQD+G+ND +MTHL+W
Sbjct: 111 MKKLYADEKFRYEIKDILEMEMKVLEALNFYLVVFHPYRSLPEFLQDSGINDTSMTHLTW 170

Query: 214 GILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVV 263
           G++NDTY+MDLIL+HPP LI LACIYIASV++EKD   WFEEL VDMN+V
Sbjct: 171 GLVNDTYRMDLILIHPPFLITLACIYIASVHKEKDIKTWFEELSVDMNIV 220

Arabidopsis thaliana (taxid: 3702)
>sp|P93411|CCC11_ORYSJ Cyclin-C1-1 OS=Oryza sativa subsp. japonica GN=Os09g0504400 PE=2 SV=1 Back     alignment and function description
>sp|Q9FJK6|CCC11_ARATH Cyclin-C1-1 OS=Arabidopsis thaliana GN=CYCC1-1 PE=2 SV=2 Back     alignment and function description
>sp|P39947|CCNC_RAT Cyclin-C OS=Rattus norvegicus GN=Ccnc PE=2 SV=2 Back     alignment and function description
>sp|Q62447|CCNC_MOUSE Cyclin-C OS=Mus musculus GN=Ccnc PE=2 SV=4 Back     alignment and function description
>sp|P55168|CCNC_CHICK Cyclin-C OS=Gallus gallus GN=CCNC PE=2 SV=1 Back     alignment and function description
>sp|P24863|CCNC_HUMAN Cyclin-C OS=Homo sapiens GN=CCNC PE=1 SV=2 Back     alignment and function description
>sp|Q3ZCK5|CCNC_BOVIN Cyclin-C OS=Bos taurus GN=CCNC PE=2 SV=1 Back     alignment and function description
>sp|Q4KLA0|CCNC_XENLA Cyclin-C OS=Xenopus laevis GN=ccnc PE=2 SV=1 Back     alignment and function description
>sp|Q28F72|CCNC_XENTR Cyclin-C OS=Xenopus tropicalis GN=ccnc PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query265
356527332237 PREDICTED: cyclin-C1-2-like [Glycine max 0.641 0.717 0.888 2e-84
356567806253 PREDICTED: cyclin-C1-2-like isoform 1 [G 0.641 0.671 0.882 3e-84
356567808237 PREDICTED: cyclin-C1-2-like isoform 2 [G 0.641 0.717 0.882 3e-84
224129568251 predicted protein [Populus trichocarpa] 0.641 0.677 0.864 5e-84
224065411251 predicted protein [Populus trichocarpa] 0.641 0.677 0.888 7e-84
255637731237 unknown [Glycine max] 0.641 0.717 0.882 1e-83
449459194253 PREDICTED: cyclin-C1-1-like [Cucumis sat 0.641 0.671 0.864 2e-82
449497213264 PREDICTED: cyclin-C1-1-like [Cucumis sat 0.641 0.643 0.864 2e-82
357505151249 Cyclin-C1-2 [Medicago truncatula] gi|355 0.641 0.682 0.852 8e-82
217071926249 unknown [Medicago truncatula] gi|3884917 0.641 0.682 0.852 9e-82
>gi|356527332|ref|XP_003532265.1| PREDICTED: cyclin-C1-2-like [Glycine max] Back     alignment and taxonomy information
 Score =  318 bits (815), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 151/170 (88%), Positives = 160/170 (94%)

Query: 94  LAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFY 153
           LAQ VKVRQRVVATAVTYMRR YTRKSM EYDP LVAPTCLYLASKAEESTVQARLLVFY
Sbjct: 35  LAQQVKVRQRVVATAVTYMRRVYTRKSMAEYDPRLVAPTCLYLASKAEESTVQARLLVFY 94

Query: 154 IKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSW 213
           IKK+YSD+KYRYE+KDILEMEMKILEALNYYLVV+HPYRSL   LQDAG+ND+NMT L+W
Sbjct: 95  IKKLYSDDKYRYEIKDILEMEMKILEALNYYLVVYHPYRSLSPLLQDAGLNDLNMTQLTW 154

Query: 214 GILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVV 263
           G++NDTYKMDLILVHPPHLIALACIYIASV REKD TAWFEELRVDMNVV
Sbjct: 155 GLVNDTYKMDLILVHPPHLIALACIYIASVLREKDTTAWFEELRVDMNVV 204

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|356567806|ref|XP_003552106.1| PREDICTED: cyclin-C1-2-like isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|356567808|ref|XP_003552107.1| PREDICTED: cyclin-C1-2-like isoform 2 [Glycine max] Back     alignment and taxonomy information
>gi|224129568|ref|XP_002320618.1| predicted protein [Populus trichocarpa] gi|118488435|gb|ABK96032.1| unknown [Populus trichocarpa] gi|222861391|gb|EEE98933.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224065411|ref|XP_002301804.1| predicted protein [Populus trichocarpa] gi|222843530|gb|EEE81077.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255637731|gb|ACU19188.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|449459194|ref|XP_004147331.1| PREDICTED: cyclin-C1-1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449497213|ref|XP_004160343.1| PREDICTED: cyclin-C1-1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|357505151|ref|XP_003622864.1| Cyclin-C1-2 [Medicago truncatula] gi|355497879|gb|AES79082.1| Cyclin-C1-2 [Medicago truncatula] Back     alignment and taxonomy information
>gi|217071926|gb|ACJ84323.1| unknown [Medicago truncatula] gi|388491728|gb|AFK33930.1| unknown [Medicago truncatula] 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 ?
Query265
TAIR|locus:2152556253 AT5G48640 [Arabidopsis thalian 0.641 0.671 0.770 1.7e-68
RGD|70905278 Ccnc "cyclin C" [Rattus norveg 0.773 0.737 0.396 3.4e-38
UNIPROTKB|P39947278 Ccnc "Cyclin-C" [Rattus norveg 0.773 0.737 0.396 3.4e-38
UNIPROTKB|F1RXY0282 CCNC "Uncharacterized protein" 0.781 0.734 0.388 8.9e-38
MGI|MGI:1858199283 Ccnc "cyclin C" [Mus musculus 0.781 0.731 0.386 1.1e-37
UNIPROTKB|F1LNZ0333 Ccnc "Cyclin-C" [Rattus norveg 0.781 0.621 0.386 1.1e-37
UNIPROTKB|P55168283 CCNC "Cyclin-C" [Gallus gallus 0.781 0.731 0.386 1.9e-37
UNIPROTKB|Q3ZCK5283 CCNC "Cyclin-C" [Bos taurus (t 0.781 0.731 0.382 1.9e-37
UNIPROTKB|E5RFK5282 CCNC "Cyclin-C" [Homo sapiens 0.781 0.734 0.386 1.9e-37
UNIPROTKB|P24863283 CCNC "Cyclin-C" [Homo sapiens 0.781 0.731 0.386 1.9e-37
TAIR|locus:2152556 AT5G48640 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 695 (249.7 bits), Expect = 1.7e-68, P = 1.7e-68
 Identities = 131/170 (77%), Positives = 151/170 (88%)

Query:    94 LAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFY 153
             LAQH+KVRQRVVATA+TYMRR Y RKSM E++P LVA TCLYLASKAEES VQAR LVFY
Sbjct:    51 LAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFY 110

Query:   154 IKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSW 213
             IK++Y DE  +YE+KDIL MEMK+LEAL+YYLVVFHPYRSL +FLQDA +ND+NM  ++W
Sbjct:   111 IKRLYPDEYNKYELKDILGMEMKVLEALDYYLVVFHPYRSLSEFLQDAALNDVNMNQITW 170

Query:   214 GILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVV 263
             GI+NDTYKMDLILVHPP+ IALACIYIASV+REKD TAWFE+L  DMN+V
Sbjct:   171 GIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDLHEDMNLV 220
GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA
GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISM
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0016591 "DNA-directed RNA polymerase II, holoenzyme" evidence=IEA
GO:0019901 "protein kinase binding" evidence=IEA
GO:0051726 "regulation of cell cycle" evidence=IEA;ISS
GO:0010440 "stomatal lineage progression" evidence=RCA
RGD|70905 Ccnc "cyclin C" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|P39947 Ccnc "Cyclin-C" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F1RXY0 CCNC "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
MGI|MGI:1858199 Ccnc "cyclin C" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F1LNZ0 Ccnc "Cyclin-C" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|P55168 CCNC "Cyclin-C" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q3ZCK5 CCNC "Cyclin-C" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E5RFK5 CCNC "Cyclin-C" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|P24863 CCNC "Cyclin-C" [Homo sapiens (taxid:9606)] 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) ?
P93411CCC11_ORYSJNo assigned EC number0.79530.63390.6536yesno
Q9FJK7CCC12_ARATHNo assigned EC number0.78230.64150.6719yesno

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 ?
Query265
COG5333297 COG5333, CCL1, Cdk activating kinase (CAK)/RNA pol 4e-38
TIGR00569305 TIGR00569, ccl1, cyclin ccl1 3e-18
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 9e-18
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 4e-13
cd0004388 cd00043, CYCLIN, Cyclin box fold 7e-13
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 4e-05
cd0004388 cd00043, CYCLIN, Cyclin box fold 5e-04
>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 =  134 bits (340), Expect = 4e-38
 Identities = 57/167 (34%), Positives = 92/167 (55%), Gaps = 2/167 (1%)

Query: 76  LLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLY 135
            L+   +L      +  +L   + + Q V+ATA+ +  R Y + S+ E   + V  TC+Y
Sbjct: 37  TLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVY 96

Query: 136 LASKAEESTVQARLLVFYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLV 195
           LA K E++     +  F  + ++S+E      + ILE E ++LEAL++ L V HPY+ L 
Sbjct: 97  LACKVEDTPRDISIESFEARDLWSEEPKSSR-ERILEYEFELLEALDFDLHVHHPYKYLE 155

Query: 196 QFLQDAGMNDINMTH-LSWGILNDTYKMDLILVHPPHLIALACIYIA 241
            FL+D    D      ++W I+ND  + DL L++PPH+IALA + IA
Sbjct: 156 GFLKDLQEKDKYKLLQIAWKIINDALRTDLCLLYPPHIIALAALLIA 202

Length = 297
>gnl|CDD|129660 TIGR00569, ccl1, cyclin ccl1 Back     alignment and domain information
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 265
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 100.0
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 100.0
TIGR00569305 ccl1 cyclin ccl1. University). 100.0
KOG0835 367 consensus Cyclin L [General function prediction on 100.0
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.97
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 99.94
KOG0653391 consensus Cyclin B and related kinase-activating p 99.93
KOG0655408 consensus G1/S-specific cyclin E [Cell cycle contr 99.91
COG5024440 Cyclin [Cell division and chromosome partitioning] 99.89
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.87
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 99.87
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.8
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 99.76
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 99.66
KOG1597308 consensus Transcription initiation factor TFIIB [T 99.64
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.52
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.43
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 98.63
KOG1598 521 consensus Transcription initiation factor TFIIIB, 98.49
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 98.43
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 98.37
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 98.33
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.16
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.06
PRK00423310 tfb transcription initiation factor IIB; Reviewed 98.01
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 97.87
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 96.7
KOG1597308 consensus Transcription initiation factor TFIIB [T 95.88
KOG1674218 consensus Cyclin [General function prediction only 94.34
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 93.06
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 92.77
TIGR00569 305 ccl1 cyclin ccl1. University). 90.14
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 88.42
KOG0835367 consensus Cyclin L [General function prediction on 87.73
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 87.08
KOG1675343 consensus Predicted cyclin [General function predi 85.44
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] Back     alignment and domain information 
Probab=100.00  E-value=3.6e-42  Score=283.85  Aligned_cols=212  Identities=53%  Similarity=0.909  Sum_probs=189.4

Q ss_pred             ccccccccC---cccch-hhH-HHHhhhhhccCHH----HHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCc
Q 024567           53 TTNSFWTKK---TWMWR-NLL-TEKRASLLKITSS----LRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTE  123 (265)
Q Consensus        53 ~~~~~~~~~---~w~~~-~~~-~~~r~~~~~~~~~----~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~  123 (265)
                      ||+|||+|+   ||+++ .++ .++..+...++.+    .+..+.+.|..+++++++++++++||++||+|||.++|+++
T Consensus         1 MA~NFW~SSh~~qwl~dk~el~k~r~~D~r~l~~d~~~~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~   80 (264)
T KOG0794|consen    1 MAGNFWTSSHYQQWLLDKTELLKERQLDLRGLSEDEYSKLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKE   80 (264)
T ss_pred             CCcchhhhhhhhhHhcCHHHHhhhccchhhcccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            789999995   89994 333 4444455555553    24567899999999999999999999999999999999999


Q ss_pred             CCchhhhHHHHHHhhccccch-hhHHHHHHHHHHh-----cCcchhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHH
Q 024567          124 YDPHLVAPTCLYLASKAEEST-VQARLLVFYIKKI-----YSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQF  197 (265)
Q Consensus       124 ~~~~lva~acLflA~K~ee~~-~~i~~iv~~~~~~-----~~d~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~  197 (265)
                      .++.+++.||+|||||+||++ ..++.++..+..+     ..++.++++.++|.++|+.+|+.|++-|.|.|||+.|.++
T Consensus        81 ~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~  160 (264)
T KOG0794|consen   81 IEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQF  160 (264)
T ss_pred             cCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHH
Confidence            999999999999999999998 5688888887766     2466778889999999999999999999999999999999


Q ss_pred             HHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCCCc-hhhhhhhccCccccC
Q 024567          198 LQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDN-TAWFEELRVDMNVVS  264 (265)
Q Consensus       198 ~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~~~-~~W~~~~~~~~~~~~  264 (265)
                      +++.|..+.++.+.+|.++||++++++||.|+|..||.|||++|+...|.+. +.|+.++++|+++|.
T Consensus       161 ~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~~~w~~el~vD~ekV~  228 (264)
T KOG0794|consen  161 VQDMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDIPKAWFAELSVDMEKVK  228 (264)
T ss_pred             HHHhcccchhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCChHHHHHHHHhccHHHHH
Confidence            9999998777999999999999999999999999999999999999999997 899999999999874

>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>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
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, 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
>COG5024 Cyclin [Cell division and 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
>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
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning] 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
>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
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] 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
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>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
>KOG1674 consensus Cyclin [General function prediction only] 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
>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
>KOG0835 consensus Cyclin L [General function prediction only] 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
>KOG1675 consensus Predicted cyclin [General function prediction only] 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 ?
Query265
3rgf_B285 Crystal Structure Of Human Cdk8CYCC Length = 285 2e-38
1zp2_A235 Structure Of The Mediator Subunit Cyclin C Length = 6e-17
3tnh_B259 Cdk9CYCLIN T IN COMPLEX WITH CAN508 Length = 259 1e-11
3mi9_B266 Crystal Structure Of Hiv-1 Tat Complexed With Human 1e-11
2pk2_A 358 Cyclin Box Structure Of The P-Tefb Subunit Cyclin T 2e-11
2w2h_A264 Structural Basis Of Transcription Activation By The 3e-11
3blh_B260 Crystal Structure Of Human Cdk9CYCLINT1 Length = 26 6e-11
1kxu_A333 Cyclin H, A Positive Regulatory Subunit Of Cdk Acti 1e-10
1jkw_A323 Structure Of Cyclin Mcs2 Length = 323 1e-10
2ivx_A257 Crystal Structure Of Human Cyclin T2 At 1.8 A Resol 2e-10
2i53_A258 Crystal Structure Of Cyclin K Length = 258 5e-10
>pdb|3RGF|B Chain B, Crystal Structure Of Human Cdk8CYCC Length = 285 Back     alignment and structure 
Iteration: 1

 Score =  155 bits (392), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 88/230 (38%), Positives = 138/230 (60%), Gaps = 18/230 (7%)
Query: 51  RRTTNSFWTKKTWM-W----RNLLTEKRASLLKITSS----LRCRCPTIYRNLAQHVKVR 101
           +    +FW    ++ W    ++LL E++  L  ++      L+     + + L +H+K+R
Sbjct: 1   KAMAGNFWQSSHYLQWILDKQDLLKERQKDLKFLSEEEYWKLQIFFTNVIQALGEHLKLR 60
Query: 102 QRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTV--QARLL-----VFYI 154
           Q+V+ATA  Y +R Y R S+   DP L+APTC++LASK EE  V    RL+     V   
Sbjct: 61  QQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEFGVVSNTRLIAAATSVLKT 120
Query: 155 KKIYSDEK-YRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSW 213
           +  Y+  K + Y +  ILE E  +LE ++  L+V+HPYR L+Q++QD G  D+ +  L+W
Sbjct: 121 RFSYAFPKEFPYRMNHILECEFYLLELMDCCLIVYHPYRPLLQYVQDMGQEDM-LLPLAW 179
Query: 214 GILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVV 263
            I+NDTY+ DL L++PP +IALAC+++A V ++KD   WF EL VDM  +
Sbjct: 180 RIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDARQWFAELSVDMEKI 229
>pdb|1ZP2|A Chain A, Structure Of The Mediator Subunit Cyclin C Length = 235 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|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|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|3BLH|B Chain B, Crystal Structure Of Human Cdk9CYCLINT1 Length = 260 Back     alignment and structure
>pdb|1KXU|A Chain A, Cyclin H, A Positive Regulatory Subunit Of Cdk Activating Kinase Length = 333 Back     alignment and structure
>pdb|1JKW|A Chain A, Structure Of Cyclin Mcs2 Length = 323 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|2I53|A Chain A, Crystal Structure Of Cyclin K Length = 258 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 ?
Query265
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 2e-45
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 3e-45
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 2e-44
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 6e-43
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 5e-41
2ivx_A257 Cyclin-T2; transcription regulation, cell division 5e-38
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 2e-12
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 7e-12
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 2e-11
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 7e-11
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 8e-11
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 2e-10
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 1e-09
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 6e-09
1c9b_A207 General transcription factor IIB; protein-DNA comp 6e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
1ais_B200 TFB TFIIB, protein (transcription initiation facto 5e-04
1qzv_F154 Plant photosystem I: subunit PSAF; photosynthesis, 9e-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 =  152 bits (385), Expect = 2e-45
 Identities = 36/196 (18%), Positives = 83/196 (42%), Gaps = 16/196 (8%)

Query: 82  SLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAE 141
             R        ++   + +    +AT + Y  R Y   S  ++  ++    CL+LA K E
Sbjct: 39  RYRREGARFIFDVGTRLGLHYDTLATGIIYFHRFYMFHSFKQFPRYVTGACCLFLAGKVE 98

Query: 142 ESTVQARLLVFYIKKIY----SDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQF 197
           E+  + + ++   + +       +      ++++ +E  +L+ + + L V HPY+ L+++
Sbjct: 99  ETPKKCKDIIKTARSLLNDVQFGQFGDDPKEEVMVLERILLQTIKFDLQVEHPYQFLLKY 158

Query: 198 LQDAGMND---INMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVY---------R 245
            +    +      +  ++W  +ND+    L L   P +IA+A +Y+A             
Sbjct: 159 AKQLKGDKNKIQKLVQMAWTFVNDSLCTTLSLQWEPEIIAVAVMYLAGRLCKFEIQEWTS 218

Query: 246 EKDNTAWFEELRVDMN 261
           +     W+E+   D+ 
Sbjct: 219 KPMYRRWWEQFVQDVP 234
>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
>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
>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
>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
>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
>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
>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
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Length = 269 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
>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
>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
>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
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query265
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 100.0
2ivx_A257 Cyclin-T2; transcription regulation, cell division 100.0
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 100.0
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 100.0
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 100.0
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 100.0
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 100.0
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 100.0
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 100.0
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 100.0
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 100.0
1c9b_A207 General transcription factor IIB; protein-DNA comp 100.0
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 99.98
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.95
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.91
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.79
1ais_B200 TFB TFIIB, protein (transcription initiation facto 98.23
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 98.07
1c9b_A207 General transcription factor IIB; protein-DNA comp 97.8
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 95.84
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 95.79
3h4c_A260 Transcription factor TFIIB-like; cyclin, transcrip 94.33
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 93.93
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 93.55
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 92.27
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 91.5
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 91.45
2ivx_A 257 Cyclin-T2; transcription regulation, cell division 91.45
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 91.22
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 91.21
1jkw_A 323 Cyclin H; cell cycle, cell division, nuclear prote 90.93
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 89.62
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 86.57
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 85.84
3m03_A95 ORC6, origin recognition complex subunit 6; helix 84.09
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=1.2e-44  Score=319.62  Aligned_cols=211  Identities=39%  Similarity=0.731  Sum_probs=187.7

Q ss_pred             ccccccccC---cccc-hhhHHHHhhhhh-ccC----HHHHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCc
Q 024567           53 TTNSFWTKK---TWMW-RNLLTEKRASLL-KIT----SSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTE  123 (265)
Q Consensus        53 ~~~~~~~~~---~w~~-~~~~~~~r~~~~-~~~----~~~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~  123 (265)
                      ||+|||.|+   +|+| ++++...|.++. .++    .++|..+++||.++|.+|+|+++|+++|++|||||+..+++.+
T Consensus         3 m~~~~w~Ss~~~~Wlft~~el~~~~~~~~~~l~~~~e~~~R~~~~~~I~~v~~~l~L~~~t~~tA~~~~~RF~~~~s~~~   82 (285)
T 3rgf_B            3 MAGNFWQSSHYLQWILDKQDLLKERQKDLKFLSEEEYWKLQIFFTNVIQALGEHLKLRQQVIATATVYFKRFYARYSLKS   82 (285)
T ss_dssp             TTTCGGGSHHHHHHSCCHHHHHHHHTTGGGTSCHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHSCTTT
T ss_pred             ccchhhcccccCCcCcCHHHHHHhhhcccccCCHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHhCCchh
Confidence            899999994   8999 577766655332 233    2468899999999999999999999999999999999999999


Q ss_pred             CCchhhhHHHHHHhhccccchhh-HHHHHHHHHHhc-------CcchhcccHHHHHHHHHHHHHHcCcceeecCcHHHHH
Q 024567          124 YDPHLVAPTCLYLASKAEESTVQ-ARLLVFYIKKIY-------SDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLV  195 (265)
Q Consensus       124 ~~~~lva~acLflA~K~ee~~~~-i~~iv~~~~~~~-------~d~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~  195 (265)
                      ++++++|+||||||||+||++++ +++++.++..+.       .++.+.++.++|++||+.||++|||++.++||++||.
T Consensus        83 ~~~~lva~acLfLA~K~EE~~~~~~~di~~~~~~~~k~~~~~~~~~~~~~~~~~Il~~E~~iL~~L~f~l~v~~P~~fL~  162 (285)
T 3rgf_B           83 IDPVLMAPTCVFLASKVEEFGVVSNTRLIAAATSVLKTRFSYAFPKEFPYRMNHILECEFYLLELMDCCLIVYHPYRPLL  162 (285)
T ss_dssp             SCHHHHHHHHHHHHHHHTTSCCCCHHHHHHHHHHHHHHHCTTTCCSCCCCCHHHHHHHHHHHHHHTTTCCCCCCSHHHHH
T ss_pred             cCHHHHHHHHHHHHHhhhccccccHHHHHHHHHHHHcccccccCchhhHHHHHHHHHHHHHHHHHcCCCeEeCChHHHHH
Confidence            99999999999999999999985 889988775431       2333457889999999999999999999999999999


Q ss_pred             HHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCCCchhhhhhhccCccccC
Q 024567          196 QFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEELRVDMNVVS  264 (265)
Q Consensus       196 ~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~~~~~W~~~~~~~~~~~~  264 (265)
                      +|++.++.+. ++.+.|+.++++++.++.++.|+|+.||+||||+|..++|.+.+.||+.+++++++|.
T Consensus       163 ~~~~~l~~~~-~~~~~A~~~l~~sl~t~~~l~~~Ps~IAaAaiylA~~~~~~~~~~W~~~~~~~~~~l~  230 (285)
T 3rgf_B          163 QYVQDMGQED-MLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDARQWFAELSVDMEKIL  230 (285)
T ss_dssp             HHHHHHTCHH-HHHHHHHHHHHHHTTSSHHHHSCHHHHHHHHHHHHHHHTTCCCHHHHHTSCSCHHHHH
T ss_pred             HHHHHhCCCH-HHHHHHHHHHHHHHccChhhccCHHHHHHHHHHHHHHHcCCChhhHHHHHCCCHHHHH
Confidence            9999999754 5899999999999999999999999999999999999999999999999999998764
>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
>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
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_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
>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
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A Back     alignment and structure
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Back     alignment and structure
>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
>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
>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
>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
>3h4c_A Transcription factor TFIIB-like; cyclin, transcription factor TFIIB repeat; 2.30A {Trypanosoma brucei brucei} 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
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Back     alignment and structure
>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
>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
>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
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure
>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
>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
>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 265
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 1e-21
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 3e-19
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 6e-19
d1jkwa2126 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo 4e-15
d2i53a2110 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens 4e-15
d2ivxa2113 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapien 1e-14
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 6e-13
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 8e-10
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 2e-09
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 7e-09
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 9e-09
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 151 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Cyclin H (mcs2)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 86.2 bits (213), Expect = 1e-21
 Identities = 27/91 (29%), Positives = 48/91 (52%), Gaps = 2/91 (2%)

Query: 97  HVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKK 156
              + + VV TA  Y +R Y   S+ EY P ++  TC +LA K +E  V +   V  +++
Sbjct: 62  KPAMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRE 121

Query: 157 IYSDEKYRYEVKDILEMEMKILEALNYYLVV 187
                     ++ ILE E+ +++ LN++L+V
Sbjct: 122 SPLG--QEKALEQILEYELLLIQQLNFHLIV 150
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Length = 144 Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Length = 143 Back     information, alignment and structure
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 126 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
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Length = 113 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
>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
>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 ?
Query265
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.93
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.93
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.88
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.87
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.87
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.87
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.86
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.86
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.57
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.54
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 99.11
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 99.01
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 98.91
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 98.85
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 98.61
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 98.51
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 98.19
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 98.13
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.66
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.57
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 96.54
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 94.37
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 94.17
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 93.89
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 92.42
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 83.18
d2r7ga2142 Retinoblastoma tumor suppressor domains {Human (Ho 82.49
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 80.39
d1w98b1130 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 80.29
>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=99.93  E-value=1.6e-26  Score=181.71  Aligned_cols=128  Identities=21%  Similarity=0.440  Sum_probs=107.9

Q ss_pred             cCcccch-hhHHH--HhhhhhccC--HHHHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHH
Q 024567           60 KKTWMWR-NLLTE--KRASLLKIT--SSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCL  134 (265)
Q Consensus        60 ~~~w~~~-~~~~~--~r~~~~~~~--~~~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acL  134 (265)
                      +++|+|. +++..  .+.++.+.+  ...|..+++||.+++.+|++|+.|+++|++|||||+.++++.+++++++++|||
T Consensus         2 ~~~w~~t~~~l~~~pS~~~gi~~~~E~~~R~~~~~~i~~~~~~l~l~~~t~~~A~~l~~Rf~~~~s~~~~~~~~va~acl   81 (143)
T d2ivxa1           2 SSRWFFTREQLENTPSRRCGVEADKELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNKNIISSTAL   81 (143)
T ss_dssp             CGGGSCCHHHHHSCHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTSCTTTSCHHHHHHHHH
T ss_pred             CCCCCCCHHHHHhCcccccCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCccccCHHHHHHHHH
Confidence            4689983 55543  444443333  346889999999999999999999999999999999999999999999999999


Q ss_pred             HHhhccccchhhHHHHHHHHHHhcC---------cchhcccHHHHHHHHHHHHHHcCcceee
Q 024567          135 YLASKAEESTVQARLLVFYIKKIYS---------DEKYRYEVKDILEMEMKILEALNYYLVV  187 (265)
Q Consensus       135 flA~K~ee~~~~i~~iv~~~~~~~~---------d~~~~~~~~~i~~~E~~IL~~L~F~l~~  187 (265)
                      |||||+||+++++++++.+++.+..         ++.+.+.+++|+.||+.||++||||++|
T Consensus        82 ~LA~K~eE~~~~~~~ii~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~Fdl~V  143 (143)
T d2ivxa1          82 FLAAKVEEQARKLEHVIKVAHACLHPLEPLLDTKCDAYLQQTRELVILETIMLQTLGFEITI  143 (143)
T ss_dssp             HHHHHHTTCCCCHHHHHHHHHHHHCTTSCCCCTTSHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             HHHHHhccccccHHHHHHHHHHHhcccchhhhhchhhhHHHHHHHHHHHHHHHHHcCCeeeC
Confidence            9999999999999999999876652         2233456789999999999999999975
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {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
>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
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} 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
>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
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>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
>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
>d2i53a2 a.74.1.1 (A:158-267) 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
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 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
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 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