Psyllid ID: psy7372

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350--
MHQFPRGHRSITLCVVKIWTSDPLKFFSEGQSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDESAARRYSQLSQKENAILEHMKGISKLS
ccccccccccccccccEEEEcccccccHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHcccHHHcccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHcHHHHHHHHHHHHHHHHHHccccEEEEcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHccccHHHHHHHHHccccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccccccccc
cccccccccEEEEEEEEEEEEcccccccccccccccccHHHHHHHHHHHccccHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcHHHcccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccEEEcccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccc
mhqfprghrsiTLCVVKIwtsdplkffsegqsygqCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFckrfsppmpkvvIGTAFHYLKRFylnnsvmdyhpkeILVTCVYLACKVEEFNLSISQFVSNikgdqqkaSDIILNNELLLMQQLKYHLtvhnpyrpvegflidiktrsqlrdpdrlrpgiDEFLDKMfltdacllfspSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLvskpiespsREMFKQLEKRLEKCRnqannpdshiYKERMLeslndddeSAARRYSQLSQKENAILEHMKGISKLS
mhqfprghrsitLCVVKIWTSDPLKFFSEGQSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIktrsqlrdpdrlRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRtlvskpiespsreMFKQLEKRLEKCrnqannpdshiykERMLESLNDDDESAARRYSQLSQKENAILehmkgiskls
MHQFPRGHRSITLCVVKIWTSDPLKFFSEGQSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDESAARRYSQLSQKENAILEHMKGISKLS
********RSITLCVVKIWTSDPLKFFSEGQSYGQCSVEAELIALREAANQNFILEHRAEL********FLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLV**************************************************************************
*****************************G**YGQCSVEAEL**LREA**********************LSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLVSKPIESP*REMFKQLEKRLEK**********************************************KGIS***
MHQFPRGHRSITLCVVKIWTSDPLKFFSEGQSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESL***********SQLSQKENAILEHMKGISKLS
*****RGHRSITLCVVKIWTSDPLKFFSEGQSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCR***************************************************
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SSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MHQFPRGHRSITLCVVKIWTSDPLKFFSEGQSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMxxxxxxxxxxxxxxxxxxxxxENAILEHMKGISKLS
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 ?
Query352 2.2.26 [Sep-21-2011]
Q9R1A0323 Cyclin-H OS=Rattus norveg yes N/A 0.741 0.808 0.469 1e-60
P51946323 Cyclin-H OS=Homo sapiens yes N/A 0.747 0.814 0.466 1e-60
Q4R7U4323 Cyclin-H OS=Macaca fascic N/A N/A 0.747 0.814 0.466 2e-60
Q3ZBL9320 Cyclin-H OS=Bos taurus GN yes N/A 0.741 0.815 0.462 6e-60
Q61458323 Cyclin-H OS=Mus musculus yes N/A 0.741 0.808 0.462 7e-60
P51947323 Cyclin-H OS=Xenopus laevi N/A N/A 0.647 0.705 0.506 2e-59
Q9GP34335 Probable cyclin-H OS=Echi N/A N/A 0.710 0.746 0.336 7e-36
Q10D80330 Cyclin-H1-1 OS=Oryza sati yes N/A 0.630 0.672 0.337 3e-32
Q8W5S1336 Cyclin-H1-1 OS=Arabidopsi yes N/A 0.676 0.708 0.342 9e-32
P37366393 Cyclin CCL1 OS=Saccharomy yes N/A 0.522 0.468 0.311 1e-19
>sp|Q9R1A0|CCNH_RAT Cyclin-H OS=Rattus norvegicus GN=Ccnh PE=2 SV=2 Back     alignment and function desciption
 Score =  233 bits (595), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 125/266 (46%), Positives = 175/266 (65%), Gaps = 5/266 (1%)

Query: 39  EAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPM 98
           E +L  LR  AN+ F  +  A          FL   EE  L ++Y+ +L +FC  F P M
Sbjct: 16  EEQLARLRADANRKFKCKAVANGKVLPNDPLFLEPHEEMTLCKYYEKRLLEFCSVFKPAM 75

Query: 99  PKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGD--- 155
           P+ V+GTA  Y KRFYLNNSVM+YHP+ I++TC +LACKV+EFN+S  QFV N++     
Sbjct: 76  PRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLG 135

Query: 156 QQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTR-SQLRDPDRLRPGIDEFL 214
           Q+KA + IL  ELLL+QQL +HL VHNPYRP EGFLIDIKTR   L +P+ LR   D+FL
Sbjct: 136 QEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDIKTRYPMLENPEILRKTADDFL 195

Query: 215 DKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKI 274
            ++ LTDA LL++PSQIAL A+L SAS+    +++Y++++L+ +     L  L++ ++ +
Sbjct: 196 SRIALTDAYLLYTPSQIALTAILSSASRAGITMESYLSESLMLKENRTCLSQLLDIMKSM 255

Query: 275 RTLVSKPIESPSREMFKQLEKRLEKC 300
           R LV K  E P  E    L+++LE+C
Sbjct: 256 RNLVKK-YEPPRSEEVAILKQKLERC 280
Regulates CDK7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CAK activates the cyclin-associated kinases CDK1, CDK2, CDK4 and CDK6 by threonine phosphorylation. CAK complexed to the core-TFIIH basal transcription factor activates RNA polymerase II by serine phosphorylation of the repetitive C-terminus domain (CTD) of its large subunit (POLR2A), allowing its escape from the promoter and elongation of the transcripts. Involved in cell cycle control and in RNA transcription by RNA polymerase II. Its expression and activity are constant throughout the cell cycle.
Rattus norvegicus (taxid: 10116)
>sp|P51946|CCNH_HUMAN Cyclin-H OS=Homo sapiens GN=CCNH PE=1 SV=1 Back     alignment and function description
>sp|Q4R7U4|CCNH_MACFA Cyclin-H OS=Macaca fascicularis GN=CCNH PE=2 SV=1 Back     alignment and function description
>sp|Q3ZBL9|CCNH_BOVIN Cyclin-H OS=Bos taurus GN=CCNH PE=2 SV=1 Back     alignment and function description
>sp|Q61458|CCNH_MOUSE Cyclin-H OS=Mus musculus GN=Ccnh PE=2 SV=2 Back     alignment and function description
>sp|P51947|CCNH_XENLA Cyclin-H OS=Xenopus laevis GN=ccnh PE=1 SV=1 Back     alignment and function description
>sp|Q9GP34|CCNH_ECHMU Probable cyclin-H OS=Echinococcus multilocularis GN=CYCH PE=2 SV=1 Back     alignment and function description
>sp|Q10D80|CCH11_ORYSJ Cyclin-H1-1 OS=Oryza sativa subsp. japonica GN=CYCH1-1 PE=1 SV=1 Back     alignment and function description
>sp|Q8W5S1|CCH11_ARATH Cyclin-H1-1 OS=Arabidopsis thaliana GN=CYCH1-1 PE=1 SV=1 Back     alignment and function description
>sp|P37366|CCL1_YEAST Cyclin CCL1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CCL1 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 ?
Query352
383857537331 PREDICTED: cyclin-H-like [Megachile rotu 0.909 0.966 0.618 1e-110
340723306331 PREDICTED: cyclin-H-like [Bombus terrest 0.909 0.966 0.612 1e-109
328779611331 PREDICTED: cyclin-H [Apis mellifera] 0.909 0.966 0.612 1e-109
157135164333 cyclin h [Aedes aegypti] gi|157135166|re 0.840 0.888 0.637 1e-109
350403323331 PREDICTED: cyclin-H-like [Bombus impatie 0.909 0.966 0.612 1e-108
170037315333 cyclin-H [Culex quinquefasciatus] gi|167 0.843 0.891 0.632 1e-108
158296679333 AGAP008417-PA [Anopheles gambiae str. PE 0.843 0.891 0.635 1e-108
332019564331 Cyclin-H [Acromyrmex echinatior] 0.909 0.966 0.603 1e-108
380017506331 PREDICTED: LOW QUALITY PROTEIN: cyclin-H 0.883 0.939 0.623 1e-108
322796688330 hypothetical protein SINV_00861 [Solenop 0.909 0.969 0.596 1e-108
>gi|383857537|ref|XP_003704261.1| PREDICTED: cyclin-H-like [Megachile rotundata] Back     alignment and taxonomy information
 Score =  404 bits (1038), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 201/325 (61%), Positives = 250/325 (76%), Gaps = 5/325 (1%)

Query: 28  SEGQSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQL 87
           S  + Y   S E +L ALRE  N  FI  H A +T EE  E+FLS +EER L+R Y+LQL
Sbjct: 5   SSQRKYWMFSDENDLTALREKTNAEFIERHGANMTPEEREEYFLSHTEERTLLRFYELQL 64

Query: 88  RDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQ 147
           RDFC+RFSPPMP+  I TA HY KRFYL NSVMDYHPKEILVTCVYLACKVEEFN+SI Q
Sbjct: 65  RDFCRRFSPPMPRATIATALHYFKRFYLRNSVMDYHPKEILVTCVYLACKVEEFNVSIYQ 124

Query: 148 FVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTR-SQLRDPDRL 206
           FV+NIKGD++KASDIILNNELLLMQQL Y+LTVHNP+RPVEG +IDIKTR + L +P+RL
Sbjct: 125 FVANIKGDREKASDIILNNELLLMQQLNYNLTVHNPFRPVEGLMIDIKTRYTSLENPERL 184

Query: 207 RPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVD 266
           RP IDEFL+++FLTD+ LL++PSQ+ALAA L +AS+   NLD YVT  L  +     L  
Sbjct: 185 RPYIDEFLERVFLTDSVLLYTPSQVALAATLHAASRASANLDNYVTDILFSKE---HLGC 241

Query: 267 LIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDES 326
           +IEAVRKIR++ +K +E PSRE+ + LEK+LEKCRNQ NNPDS IYK+RM E L+++D  
Sbjct: 242 IIEAVRKIRSM-AKCVEPPSREVVRSLEKKLEKCRNQENNPDSEIYKQRMQEMLDEEDLQ 300

Query: 327 AARRYSQLSQKENAILEHMKGISKL 351
              +Y+++ Q + A  E + G+SK+
Sbjct: 301 DNEKYAKIMQDQAAHDEKILGVSKV 325

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|340723306|ref|XP_003400032.1| PREDICTED: cyclin-H-like [Bombus terrestris] Back     alignment and taxonomy information
>gi|328779611|ref|XP_393939.3| PREDICTED: cyclin-H [Apis mellifera] Back     alignment and taxonomy information
>gi|157135164|ref|XP_001656552.1| cyclin h [Aedes aegypti] gi|157135166|ref|XP_001656553.1| cyclin h [Aedes aegypti] gi|157135168|ref|XP_001656554.1| cyclin h [Aedes aegypti] gi|157135170|ref|XP_001656555.1| cyclin h [Aedes aegypti] gi|108870282|gb|EAT34507.1| AAEL013248-PB [Aedes aegypti] gi|108870285|gb|EAT34510.1| AAEL013248-PD [Aedes aegypti] Back     alignment and taxonomy information
>gi|350403323|ref|XP_003486767.1| PREDICTED: cyclin-H-like [Bombus impatiens] Back     alignment and taxonomy information
>gi|170037315|ref|XP_001846504.1| cyclin-H [Culex quinquefasciatus] gi|167880413|gb|EDS43796.1| cyclin-H [Culex quinquefasciatus] Back     alignment and taxonomy information
>gi|158296679|ref|XP_317030.3| AGAP008417-PA [Anopheles gambiae str. PEST] gi|157014827|gb|EAA12839.3| AGAP008417-PA [Anopheles gambiae str. PEST] Back     alignment and taxonomy information
>gi|332019564|gb|EGI60043.1| Cyclin-H [Acromyrmex echinatior] Back     alignment and taxonomy information
>gi|380017506|ref|XP_003692696.1| PREDICTED: LOW QUALITY PROTEIN: cyclin-H-like [Apis florea] Back     alignment and taxonomy information
>gi|322796688|gb|EFZ19121.1| hypothetical protein SINV_00861 [Solenopsis invicta] 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 ?
Query352
FB|FBgn0022936325 CycH "Cyclin H" [Drosophila me 0.818 0.886 0.606 3e-94
UNIPROTKB|E1C948322 CCNH "Uncharacterized protein" 0.872 0.953 0.418 3.9e-60
UNIPROTKB|E2R5P2323 CCNH "Uncharacterized protein" 0.801 0.873 0.448 1.2e-58
UNIPROTKB|P51946323 CCNH "Cyclin-H" [Homo sapiens 0.806 0.879 0.452 3.2e-58
UNIPROTKB|Q4R7U4323 CCNH "Cyclin-H" [Macaca fascic 0.806 0.879 0.452 3.2e-58
ZFIN|ZDB-GENE-050320-13319 ccnh "cyclin H" [Danio rerio ( 0.818 0.902 0.440 3.2e-58
UNIPROTKB|C9K506323 CCNH "Uncharacterized protein" 0.747 0.814 0.462 5.1e-58
RGD|69419323 Ccnh "cyclin H" [Rattus norveg 0.801 0.873 0.448 5.1e-58
UNIPROTKB|F1MG12320 CCNH "Cyclin-H" [Bos taurus (t 0.801 0.881 0.448 8.4e-58
UNIPROTKB|Q3ZBL9320 CCNH "Cyclin-H" [Bos taurus (t 0.801 0.881 0.444 2.2e-57
FB|FBgn0022936 CycH "Cyclin H" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 938 (335.3 bits), Expect = 3.0e-94, P = 3.0e-94
 Identities = 176/290 (60%), Positives = 226/290 (77%)

Query:    39 EAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPM 98
             E +L+  R   N  +I  H  E    + +EHFL+++EER+L++ Y++ L DFC+RF P M
Sbjct:    17 EGQLMEFRVEQNSKYIESHEEEAQGRDLNEHFLTSAEERLLLKQYEIYLFDFCRRFEPTM 76

Query:    99 PKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQK 158
             PK V+GTAFHY KRFYLNNS MDYHPKEIL TCV++ACKVEEFN+SI+QFV+NIKGD+ K
Sbjct:    77 PKCVVGTAFHYFKRFYLNNSPMDYHPKEILATCVFVACKVEEFNVSINQFVNNIKGDRNK 136

Query:   159 ASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMF 218
             A+DI+L+NELLL+ QL Y+LT+HNP+RP+EGFLIDIKTRS +++PDRLRP ID F+D  +
Sbjct:   137 ATDIVLSNELLLIGQLNYYLTIHNPFRPIEGFLIDIKTRSNMQNPDRLRPHIDSFIDSTY 196

Query:   219 LTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLV 278
              +DACLL +PSQIALAAVL +AS+ QENLD+YVT  LL   A  +L  LI+AVRKIR +V
Sbjct:   197 YSDACLLHTPSQIALAAVLHAASREQENLDSYVTD-LLFVSAREKLPGLIDAVRKIRIMV 255

Query:   279 SKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDESAA 328
              K  + P RE  K +EK+L+KCRNQANNPDS +YKER+     D+D+  A
Sbjct:   256 -KQYQQPDREKVKAIEKKLDKCRNQANNPDSELYKERLRRLYTDEDDMPA 304
GO:0016538 "cyclin-dependent protein serine/threonine kinase regulator activity" evidence=ISS
GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=ISS
GO:0005675 "holo TFIIH complex" evidence=ISS;IDA
GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IDA
GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=IDA
GO:0032806 "carboxy-terminal domain protein kinase complex" evidence=IDA
GO:0070985 "TFIIK complex" evidence=IEA
GO:0019901 "protein kinase binding" evidence=IEA
GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0006366 "transcription from RNA polymerase II promoter" evidence=IDA
UNIPROTKB|E1C948 CCNH "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|E2R5P2 CCNH "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|P51946 CCNH "Cyclin-H" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q4R7U4 CCNH "Cyclin-H" [Macaca fascicularis (taxid:9541)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050320-13 ccnh "cyclin H" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|C9K506 CCNH "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
RGD|69419 Ccnh "cyclin H" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F1MG12 CCNH "Cyclin-H" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q3ZBL9 CCNH "Cyclin-H" [Bos taurus (taxid:9913)] 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) ?
P51946CCNH_HUMANNo assigned EC number0.46640.74710.8142yesN/A
Q10D80CCH11_ORYSJNo assigned EC number0.33750.63060.6727yesN/A
Q8W5S1CCH11_ARATHNo assigned EC number0.34260.67610.7083yesN/A
Q3ZBL9CCNH_BOVINNo assigned EC number0.46240.74140.8156yesN/A
Q9R1A0CCNH_RATNo assigned EC number0.46990.74140.8080yesN/A
Q61458CCNH_MOUSENo assigned EC number0.46240.74140.8080yesN/A

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query352
TIGR00569305 TIGR00569, ccl1, cyclin ccl1 1e-106
COG5333297 COG5333, CCL1, Cdk activating kinase (CAK)/RNA pol 6e-28
cd0004388 cd00043, CYCLIN, Cyclin box fold 2e-13
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 1e-11
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 4e-10
>gnl|CDD|129660 TIGR00569, ccl1, cyclin ccl1 Back     alignment and domain information 
 Score =  314 bits (806), Expect = e-106
 Identities = 141/289 (48%), Positives = 186/289 (64%), Gaps = 4/289 (1%)

Query: 37  SVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSP 96
           + E +L   R  AN  F   H  E    EA   FL+  EE  LV++Y+ +L DFC  F P
Sbjct: 13  TSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKP 72

Query: 97  PMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQ 156
            MP  V+GTA  Y KRFYLNNSVM+YHPK I++TCV+LACKVEEFN+SI QFV N+K   
Sbjct: 73  TMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETP 132

Query: 157 QKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRS-QLRDPDRLRPGIDEFLD 215
            KA + +L  ELLL+QQL +HL VHNPYRP+EGFLIDIKTR   L +P+ LR   D+FL+
Sbjct: 133 LKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLN 192

Query: 216 KMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIR 275
           +  LTDA LL++PSQIALAA+L +AS+   N+++Y+T+ L        L  LI+ +R++R
Sbjct: 193 RTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPGNREELPQLIDIMRELR 252

Query: 276 TLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDD 324
            LV K  E P  E    L+K+L++C +   N  S   ++R      DD 
Sbjct: 253 ILVKKYEE-PRSEKVAALKKKLDECHSIEENLSSVKIRKRKGYE--DDT 298

All proteins in this family for which functions are known are cyclins that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, StanfordUniversity) [DNA metabolism, DNA replication, recombination, and repair]. Length = 305
>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
>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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 352
TIGR00569305 ccl1 cyclin ccl1. University). 100.0
KOG2496|consensus325 100.0
KOG0794|consensus264 100.0
KOG0834|consensus323 100.0
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 100.0
KOG0835|consensus367 100.0
KOG0656|consensus335 99.79
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.74
KOG0653|consensus391 99.65
KOG0655|consensus408 99.62
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.59
COG5024440 Cyclin [Cell division and chromosome partitioning] 99.52
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.37
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.27
KOG0654|consensus359 99.23
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 99.19
KOG1597|consensus308 98.79
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 98.39
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 98.31
KOG4164|consensus497 98.04
KOG1598|consensus 521 97.96
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 97.66
PRK00423310 tfb transcription initiation factor IIB; Reviewed 97.55
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 97.31
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 97.16
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 95.61
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 93.35
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 92.56
KOG1597|consensus308 92.16
KOG0835|consensus367 87.54
KOG1674|consensus218 86.68
KOG0834|consensus323 84.19
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 81.78
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information 
Probab=100.00  E-value=1.4e-72  Score=541.61  Aligned_cols=302  Identities=47%  Similarity=0.739  Sum_probs=281.3

Q ss_pred             hhhc--ccCcccCCHHHHHHHHHHHhHHHHHHHhhhcCccccccCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy7372          27 FSEG--QSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIG  104 (352)
Q Consensus        27 y~~S--~r~W~Ft~e~~L~~~R~~~n~~~~~~~~~~~~~~~~~~~~lt~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~a  104 (352)
                      ||+|  +|+|+|+++++|+++|.++|+++++++.+++++.+....+||+|||+.++.||+.+|+++|.+|+|+||+.|++
T Consensus         1 y~~StQ~r~W~F~~~~~L~~~R~~~N~~~~~~~~~~~~~~~~~~~~Lt~eeE~~l~~~y~~~i~~~~~~lkp~Lpq~via   80 (305)
T TIGR00569         1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG   80 (305)
T ss_pred             CCCCcccccCcCCCHHHHHHHHHHHHHHHHHHHhhhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHH
Confidence            7888  99999997789999999999999999877766666677899999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhHHHHHHHHHHHHHHcCccccccCCh
Q psy7372         105 TAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPY  184 (352)
Q Consensus       105 TAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~e~Il~~E~~lL~~L~F~L~v~~P~  184 (352)
                      ||++||||||+++|+++|||++|++||||||||+||+++++++|++.++.++..++++|+++|+.||++|+|+|.|+|||
T Consensus        81 TAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~~~~~~~~~Il~~E~~lL~~L~F~L~V~hPy  160 (305)
T TIGR00569        81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKALEQVLEYELLLIQQLNFHLIVHNPY  160 (305)
T ss_pred             HHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhccCCchhhHHHHHHHHHHHHHHCCCcEEeeCcc
Confidence            99999999999999999999999999999999999999999999998875555677899999999999999999999999


Q ss_pred             HHHHHHHHHhhcc-cCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccchhhHHHHHhcCCCcccc
Q psy7372         185 RPVEGFLIDIKTR-SQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVR  263 (352)
Q Consensus       185 r~L~~~l~~l~~~-~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~~~y~~~~~~~~~~~~~  263 (352)
                      ++|.+|+.+++++ ++..+.+.+.+.||.++||+++||+||+|+|++||+|||++|++..|++++++..+.+..+++++.
T Consensus       161 r~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~~~~l~~~~~e~~~~~~~~~~  240 (305)
T TIGR00569       161 RPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPGNREE  240 (305)
T ss_pred             HHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHhCCCCcccchhhhcccccHHH
Confidence            9999999999875 355566788999999999999999999999999999999999999999999988888777678899


Q ss_pred             HHHHHHHHHHHHHHHhCcCCCCCHHhHHHHHHHHHHhcCCCCCCCcHHHHHHHhhccCCcchHHHHhh
Q psy7372         264 LVDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDESAARRY  331 (352)
Q Consensus       264 l~~l~~~i~~i~~l~~~~~~~~~~~~v~~i~~KL~~c~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (352)
                      ++.|++.|++|..++ +++++|+.++++.|++||++|+||+++++|+  +.|+|++|||||++.+.++
T Consensus       241 ~~~l~~~~~~~~~~~-~~~~~~~~~~~~~i~~kl~~c~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~  305 (305)
T TIGR00569       241 LPQLIDIMRELRILV-KKYEEPRSEKVAALKKKLDECHSIEENLSSV--KIRKRKGYEDDTYISKKAK  305 (305)
T ss_pred             HHHHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHHHhChhhCcchH--HHHHHhccccccccccccC
Confidence            999999999999999 9999999999999999999999999999996  6789999999999887653

University).
>KOG2496|consensus Back     alignment and domain information
>KOG0794|consensus Back     alignment and domain information
>KOG0834|consensus 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
>KOG0835|consensus Back     alignment and domain information
>KOG0656|consensus Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>KOG0653|consensus Back     alignment and domain information
>KOG0655|consensus 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
>COG5024 Cyclin [Cell division and 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
>KOG0654|consensus 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 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
>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
>KOG4164|consensus Back     alignment and domain information
>KOG1598|consensus 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
>PRK00423 tfb transcription initiation factor IIB; Reviewed 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
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [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
>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
>KOG1597|consensus Back     alignment and domain information
>KOG0835|consensus Back     alignment and domain information
>KOG1674|consensus Back     alignment and domain information
>KOG0834|consensus Back     alignment and domain information
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query352
1kxu_A333 Cyclin H, A Positive Regulatory Subunit Of Cdk Acti 1e-61
1jkw_A323 Structure Of Cyclin Mcs2 Length = 323 3e-61
3rgf_B285 Crystal Structure Of Human Cdk8CYCC Length = 285 8e-11
1zp2_A235 Structure Of The Mediator Subunit Cyclin C Length = 7e-05
2ivx_A257 Crystal Structure Of Human Cyclin T2 At 1.8 A Resol 2e-04
>pdb|1KXU|A Chain A, Cyclin H, A Positive Regulatory Subunit Of Cdk Activating Kinase Length = 333 Back     alignment and structure 
Iteration: 1

 Score =  233 bits (595), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 125/268 (46%), Positives = 177/268 (66%), Gaps = 5/268 (1%)
Query: 37  SVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSP 96
           S E +L  LR  AN+ F  +  A          FL   EE  L ++Y+ +L +FC  F P
Sbjct: 24  SSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKP 83
Query: 97  PMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGD- 155
            MP+ V+GTA  Y KRFYLNNSVM+YHP+ I++TC +LACKV+EFN+S  QFV N++   
Sbjct: 84  AMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESP 143
Query: 156 --QQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQ-LRDPDRLRPGIDE 212
             Q+KA + IL  ELLL+QQL +HL VHNPYRP EGFLID+KTR   L +P+ LR   D+
Sbjct: 144 LGQEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKTRYPILENPEILRKTADD 203
Query: 213 FLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVR 272
           FL+++ LTDA LL++PSQIAL A+L SAS+    +++Y++++L+ +     L  L++ ++
Sbjct: 204 FLNRIALTDAYLLYTPSQIALTAILSSASRAGITMESYLSESLMLKENRTCLSQLLDIMK 263
Query: 273 KIRTLVSKPIESPSREMFKQLEKRLEKC 300
            +R LV K  E P  E    L+++LE+C
Sbjct: 264 SMRNLVKK-YEPPRSEEVAVLKQKLERC 290
>pdb|1JKW|A Chain A, Structure Of Cyclin Mcs2 Length = 323 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
>pdb|2IVX|A Chain A, Crystal Structure Of Human Cyclin T2 At 1.8 A Resolution (Casp Target) Length = 257 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 ?
Query352
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 2e-75
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 4e-47
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 7e-42
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 3e-39
2ivx_A257 Cyclin-T2; transcription regulation, cell division 3e-35
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 1e-34
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 1e-08
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 3e-08
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 6e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 4e-07
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 4e-05
1c9b_A207 General transcription factor IIB; protein-DNA comp 8e-05
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 1e-04
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 5e-04
1ais_B200 TFB TFIIB, protein (transcription initiation facto 6e-04
>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
 Score =  234 bits (599), Expect = 2e-75
 Identities = 129/298 (43%), Positives = 187/298 (62%), Gaps = 8/298 (2%)

Query: 37  SVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSP 96
           S E +L  LR  AN+ F  +  A          FL   EE  L ++Y+ +L +FC  F P
Sbjct: 14  SSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKP 73

Query: 97  PMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGD- 155
            MP+ V+GTA  Y KRFYLNNSVM+YHP+ I++TC +LACKV+EFN+S  QFV N++   
Sbjct: 74  AMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESP 133

Query: 156 --QQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQ-LRDPDRLRPGIDE 212
             Q+KA + IL  ELLL+QQL +HL VHNPYRP EGFLID+KTR   L +P+ LR   D+
Sbjct: 134 LGQEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKTRYPILENPEILRKTADD 193

Query: 213 FLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVR 272
           FL+++ LTDA LL++PSQIAL A+L SAS+    +++Y++++L+ +     L  L++ ++
Sbjct: 194 FLNRIALTDAYLLYTPSQIALTAILSSASRAGITMESYLSESLMLKENRTCLSQLLDIMK 253

Query: 273 KIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDESAARR 330
            +R LV K  E P  E    L+++L++C +     +    K +  E   DDD  + + 
Sbjct: 254 SMRNLVKKY-EPPRSEEVAVLKQKLDRCHSAELALNVITKKRKGYE---DDDYVSKKS 307
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Length = 283 Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Length = 260 Back     alignment and structure
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query352
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 100.0
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 100.0
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
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 99.96
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.96
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 99.96
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 99.96
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 99.96
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 99.96
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 99.95
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 99.94
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 99.93
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.91
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.82
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.59
1ais_B200 TFB TFIIB, protein (transcription initiation facto 97.84
1c9b_A207 General transcription factor IIB; protein-DNA comp 97.45
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 97.18
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 94.81
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 94.01
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 93.49
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 92.14
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 91.45
2ivx_A257 Cyclin-T2; transcription regulation, cell division 89.82
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 87.33
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 85.37
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 84.26
3m03_A95 ORC6, origin recognition complex subunit 6; helix 83.71
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 82.0
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 81.17
>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
Probab=100.00  E-value=9.4e-66  Score=499.08  Aligned_cols=306  Identities=42%  Similarity=0.702  Sum_probs=254.1

Q ss_pred             chhhc--ccCcccCCHHHHHHHHHHHhHHHHHHHhhhcCccccccCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy7372          26 FFSEG--QSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVI  103 (352)
Q Consensus        26 ~y~~S--~r~W~Ft~e~~L~~~R~~~n~~~~~~~~~~~~~~~~~~~~lt~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~  103 (352)
                      |||+|  +|+|+|+++++|+++|.++|+++++++.+++.+.++..++||+++|+.+|.+|+.+|+++|.+|+|+||+.|+
T Consensus         1 ~y~~Stq~~~W~f~~~~~L~~~r~~~n~~~~~~~~~~~~~~~~~~~~lt~eeE~~lr~~~~~~I~ev~~~l~~~Lp~~t~   80 (323)
T 1jkw_A            1 MYHNSSQKRHWTFSSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVV   80 (323)
T ss_dssp             ----------CCCSCHHHHHHHHHHHHHHHHHHHHHTSSSCTTCTTSCCHHHHHHHHHHHHHHHHHHHHHCTTTCCHHHH
T ss_pred             CCCCCccccccccCCHHHHHHHHHHHHHHHHHHHhhccCCCccccCCCCHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHH
Confidence            79999  9999999878999999999999999987666667789999999999999999999999999999988999999


Q ss_pred             HHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccc---hhhhHHHHHHHHHHHHHHcCccccc
Q psy7372         104 GTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGD---QQKASDIILNNELLLMQQLKYHLTV  180 (352)
Q Consensus       104 aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d---~~~~~e~Il~~E~~lL~~L~F~L~v  180 (352)
                      +||++||||||+++|++++++++|++||||||||+||+++++++|+.+++++   ++.++++|+.+|+.||++|+|+|.+
T Consensus        81 ~tA~~~~~RF~~~~s~~~~~~~lva~acLfLA~K~EE~~~~l~d~v~~~~~~p~~~~~~~~~Il~~E~~iL~~L~f~l~v  160 (323)
T 1jkw_A           81 GTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLGQEKALEQILEYELLLIQQLNFHLIV  160 (323)
T ss_dssp             HHHHHHHHHHGGGSCTTTSCHHHHHHHHHHHHHHHTTCCCCHHHHGGGSSSCHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             HHHHHHHHHHhhhCChhhcCHHHHHHHHHHHHHhhhcCCCCHHHHHHHhccChhhhHHHHHHHHHHHHHHHHHCCCcEEc
Confidence            9999999999999999999999999999999999999999999999888655   2456899999999999999999999


Q ss_pred             cCChHHHHHHHHHhhcc-cCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccchhhHHHHHhcCCC
Q psy7372         181 HNPYRPVEGFLIDIKTR-SQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQH  259 (352)
Q Consensus       181 ~~P~r~L~~~l~~l~~~-~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~~~y~~~~~~~~~  259 (352)
                      +|||++|.+|+.+++.+ +++++++.+.+.||.+++++++||+|+.|+|++||+||||+|+...|..++.|+...+..++
T Consensus       161 ~~P~~~L~~~l~~l~~~~~~~~~~~~l~~~A~~~l~~sl~t~~~l~~~Ps~IAaAai~lA~~~~~~~~~~w~~~l~~~~~  240 (323)
T 1jkw_A          161 HNPYRPFEGFLIDLKTRYPILENPEILRKTADDFLNRIALTDAYLLYTPSQIALTAILSSASRAGITMESYLSESLMLKE  240 (323)
T ss_dssp             CCSHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHTTSTHHHHSCHHHHHHHHHHHHHHHHSCCCTTHHHHHTTSCS
T ss_pred             CChHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhccHHHcCCHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc
Confidence            99999999999998654 34556678889999999999999999999999999999999999999999999998876655


Q ss_pred             ccccHHHHHHHHHHHHHHHhCcCCCCCHHhHHHHHHHHHHhcCCCCCCCcHHHHHHHhhccCCcchHHHHhhhhHH
Q psy7372         260 ANVRLVDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDESAARRYSQLS  335 (352)
Q Consensus       260 ~~~~l~~l~~~i~~i~~l~~~~~~~~~~~~v~~i~~KL~~c~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  335 (352)
                      +++++++|++++++|..++ +.+++|+.++++.|++||++|+||+++|++++|+   |++++|||+.++++++..+
T Consensus       241 ~~~~~~~l~~~~~~i~~l~-~~~~~~~~~~~k~i~~KL~~c~~p~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~  312 (323)
T 1jkw_A          241 NRTCLSQLLDIMKSMRNLV-KKYEPPRSEEVAVLKQKLDRCHSAELALNVITKK---RKGYEDDDYVSKKSKHEEE  312 (323)
T ss_dssp             SSCCTHHHHHHHHHHHHHH-HTCCCCCHHHHHHHHHHHHHHHHSCSCC----------------------------
T ss_pred             ccccHHHHHHHHHHHHHHH-HccCCCCHHHHHHHHHHHHHHhChhcCCcHHHHH---Hhhhcccchhhhhhhhhhh
Confidence            6788999999999999999 8888999999999999999999999999998887   6689999999998887554
>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
>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
>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
>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
>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
>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
>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
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Back     alignment and structure
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A Back     alignment and structure
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>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
>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
>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
>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
>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
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Back     alignment and structure
>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
>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
>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
>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
>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

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 352
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 4e-37
d1jkwa2126 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo 5e-33
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 2e-17
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 1e-15
d1aisb198 a.74.1.2 (B:1108-1205) Transcription factor IIB (T 4e-04
d1vola195 a.74.1.2 (A:113-207) Transcription factor IIB (TFI 0.001
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 0.001
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 0.001
d1aisb295 a.74.1.2 (B:1206-1300) Transcription factor IIB (T 0.001
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 0.004
>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 =  128 bits (323), Expect = 4e-37
 Identities = 71/146 (48%), Positives = 94/146 (64%), Gaps = 3/146 (2%)

Query: 39  EAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPM 98
           E +L  LR  AN+ F  +  A          FL   EE  L ++Y+ +L +FC  F P M
Sbjct: 6   EEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAM 65

Query: 99  PKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKG---D 155
           P+ V+GTA  Y KRFYLNNSVM+YHP+ I++TC +LACKV+EFN+S  QFV N++     
Sbjct: 66  PRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLG 125

Query: 156 QQKASDIILNNELLLMQQLKYHLTVH 181
           Q+KA + IL  ELLL+QQL +HL VH
Sbjct: 126 QEKALEQILEYELLLIQQLNFHLIVH 151
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 126 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
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Length = 144 Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 98 Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Length = 95 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
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Length = 132 Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 95 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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query352
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 100.0
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.96
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.95
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.94
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.58
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.57
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.56
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.55
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.54
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.53
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.52
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 98.92
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 98.82
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 98.57
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 98.28
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 98.18
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 96.57
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 95.52
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 95.14
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 95.05
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 93.37
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 93.2
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 88.79
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 87.04
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 83.73
d2r7ga2142 Retinoblastoma tumor suppressor domains {Human (Ho 83.25
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} 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]

Probab=100.00  E-value=9.3e-36  Score=256.57  Aligned_cols=148  Identities=49%  Similarity=0.787  Sum_probs=138.5

Q ss_pred             cccCCHHHHHHHHHHHhHHHHHHHhhhcCccccccCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q psy7372          34 GQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRF  113 (352)
Q Consensus        34 W~Ft~e~~L~~~R~~~n~~~~~~~~~~~~~~~~~~~~lt~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RF  113 (352)
                      |+|+++++|+++|.++|++++++..+.....++...++|+++|..+|.+|+.+|+++|.+|++.||+.|++||++|||||
T Consensus         1 W~F~~~~~l~~lr~~~n~~~~~~~~~~~~~~~~~~~~l~~~ee~~l~~~~~~~l~~~~~~~k~~l~~~~~~tA~~~~~RF   80 (151)
T d1jkwa1           1 WTFSSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVGTACMYFKRF   80 (151)
T ss_dssp             CCCSCHHHHHHHHHHHHHHHHHHHHHTSSSCTTCTTSCCHHHHHHHHHHHHHHHHHHHHHCTTTCCHHHHHHHHHHHHHH
T ss_pred             CcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcccccCCCHHHHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHH
Confidence            99999889999999999999999888777788899999999999999999999999999988779999999999999999


Q ss_pred             hccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhcc---chhhhHHHHHHHHHHHHHHcCcccccc
Q psy7372         114 YLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKG---DQQKASDIILNNELLLMQQLKYHLTVH  181 (352)
Q Consensus       114 yl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~---d~~~~~e~Il~~E~~lL~~L~F~L~v~  181 (352)
                      |+++|+++++|++|++||||||||+||+++++++++..+..   +...++++|+.+|+.||++|+|+|.||
T Consensus        81 ~~~~s~~~~~~~li~~acl~LA~K~ee~~~~~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~L~Vh  151 (151)
T d1jkwa1          81 YLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLGQEKALEQILEYELLLIQQLNFHLIVH  151 (151)
T ss_dssp             GGGSCTTTSCHHHHHHHHHHHHHHHTTCCCCHHHHGGGSSSCHHHHHHHHHHHHHHHHHHHHHTTTCCCCC
T ss_pred             hhcCccccccHHHHHHHHHHHHHHHcccCCCHHHHHHHHHhhcccccccHHHHHHHHHHHHHHcCCeeeeC
Confidence            99999999999999999999999999999999999987652   334678999999999999999999987
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {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
>d2i53a2 a.74.1.1 (A:158-267) 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
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} 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
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} 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
>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
>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
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {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
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} 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
>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
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {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