Citrus Sinensis ID: 007852

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------
MAENNLTTTTSPPKALQSPNPMPDPSSTSSSSSSSTTALVSTQTPATTSFSPSLDSQQQQQQQIPQLVQQQQQNNVNANVMSNYQIPHTLQRSPSISRLNQIHQPQQQQNSQYSNVLRQQAIYGQVNFGQQNQQQSSNQQLGSPTLSRSGLIGQTGHLPGMLSGQASAAAAQFNLQSPLMASPRQKPGVVPGSQFHPGNSPGQSLPGMQAMGILNLSSHLRANPLYAQQRMNQGQIRQQLSQQNPLTSPQIQNLSRTSSSLAFMNPQLSGLAQNGQPGMMQNSLSQQQWLKQMPAMSAPGSPSFRLQQHQRQSPVLLQQQLASSPQLQNSMGLNQQQLSQLVQQQPQMGHAQLHQPQPQPQPQQQQQLQQQQSQQQPSLHQQQQQQQSPRISGPAGQKSLSLTGSQPDATVSGTTTPGGSSSQGTEATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRALMEPSQSETITNDPREMIRQGLGNPVGVNTHMKSSASSEQLLMPSGSQMLQQLTRY
cccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHccHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHcccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccHHHHHcccccccccccccccccccccccccccHHHHHHHHHcc
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccHHHHccHHHHHHHHHHHcHHHHHHHHcEEEcccccccccHHHccccccHHHHHHHccccccHHHcccHHHHHHHHHcccHHHHccccccccEEEccccccccccccHHHHHHHHcHHcHcHccccccHHHHHHHcHHHcHHHHHHccccccHHHccccccHHHHHHHcccccccccccccccccccccHcHHccccccccccccccccHHHHcccccHHccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEccHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEHHHHHHHHHHcccEEEcccccccccccccccccHHHHHHHHHHHHHHHHcccccccccHHHHHccccccccccccccccccccHHcccccccHHHHHHHcc
maennlttttsppkalqspnpmpdpsstssssssstTALVstqtpattsfspsldsqQQQQQQIPQLVQQQQQNNvnanvmsnyqiphtlqrspsisrlnqihqpqqqqnsqYSNVLRQQAIYgqvnfgqqnqqqssnqqlgsptlsrsgligqtghlpgmlsgQASAAAAQFnlqsplmasprqkpgvvpgsqfhpgnspgqslpgmqAMGILNLSSHLRANPLYAQQRMNQGQIRQqlsqqnpltspqiqnlsrtssslafmnpqlsglaqngqpgmmqnSLSQQQWLKqmpamsapgspsfrlqqhqrqspvLLQQqlasspqlqnsmglnQQQLSQLVQQqpqmghaqlhqpqpqpqpqQQQQLQQQQsqqqpslhqqqqqqqsprisgpagqkslsltgsqpdatvsgtttpggsssqgteaTNQLLGKRKIQDLVSQvdsqgkvdpEVEDLLLEIADDFIDSVTSFACNLakhrksstleSKDILLHLeknwhltvpgfsseernhqrkslssdVHSKRLEMIRALmepsqsetitndpremirqglgnpvgvnthmkssasseqllmpsgsqmLQQLTRY
maennlttttsppkalqspnPMPDPSSTSSSSSSSTTALVSTQTPATTSFSPSLDSQQQQQQQIPQLVQQQQQNNVNANVMSNYQIPHTLQRSPSISRLNQIHQPQQQQNSQYSNVLRQQAIYGQVNFGQQNQQQSSNQQLGSPTLSRSGLIGQTGHLPGMLSGQASAAAAQFNLQSPLMASPRQKPGVVPGSQFHPGNSPGQSLPGMQAMGILNLSSHLRANPLYAQQRMNQGQIRQQLSQQNPLTSPQIQNLSRTSSSLAFMNPQLSGLAQNGQPGMMQNSLSQQQWLKQMPAMSAPGSPSFRLQQHQRQSPVLLQQQLASSPQLQNSMGLNQQQLSQLVQQQPQMGHAQLHQPQPQPQPQQQQQLQQQQSQQQPSLHQQQQQQQSPRISGPAGQKSLSLTGSQPDATVSgtttpggsssqgTEATNQLLGKRKIQDLVSQvdsqgkvdPEVEDLLLEIADDFIDSVTSFACNLAkhrksstleSKDILLHLEKNWHLTvpgfsseernhqrkslssdvhSKRLEMIRalmepsqsetitndprEMIRQGLGNPVGVNTHMKSSAsseqllmpsgsqmlqqltry
MAENNLTTTTSPPKALQSPNPMPDPsstsssssssttALVSTQTPATTSFSPSLDSqqqqqqqipqlvqqqqqNNVNANVMSNYQIPHTLQRSPSISRLNqihqpqqqqnsqYSNVLRQQAIYgqvnfgqqnqqqssnqqlgsPTLSRSGLIGQTGHLPGMLSGQASAAAAQFNLQSPLMASPRQKPGVVPGSQFHPGNSPGQSLPGMQAMGILNLSSHLRANPLYAqqrmnqgqirqqLSQQNPLTSPQIQNLSRTSSSLAFMNPQLSGLAQNGQPGMMQNSLSQQQWLKQMPAMSAPGSPSFRLQQHQRqspvllqqqlasspqlqnsMGlnqqqlsqlvqqqpqMGHAqlhqpqpqpqpqqqqqlqqqqsqqqpslhqqqqqqqspRISGPAGQKSLSLTGSQPDATVsgtttpggsssqgtEATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRALMEPSQSETITNDPREMIRQGLGNPVGVNTHMKSSASSEQLLMPSGSQMLQQLTRY
************************************************************************************************************************AIYG*****************************************************************************************************************************************************************************************************************************************************************************************************************************************VEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVP************************************************************************************
****************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************IQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEER**********************************************************************LQQLT*Y
**********************************************************************QQQNNVNANVMSNYQIPHTLQRSPSISRL**************SNVLRQQAIYGQVNFG***************TLSRSGLIGQTGHLPGMLSGQASAAAAQFNLQSPLMASPRQKPGVVPGSQFHPGNSPGQSLPGMQAMGILNLSSHLRANPLYAQQRMNQGQIRQQLSQQNPLTSPQIQNLSRTSSSLAFMNPQLSGLAQNGQPG**************************************LQQQLASSPQLQNSMGLNQQ******************************************************************************************ATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGF***************VHSKRLEMIRALMEPSQSETITNDPREMIRQGLGNPVGVNTHMKSSASSEQLLMPSGSQMLQQLTRY
*********************************************************************************************PSISRLNQIHQPQQQQNSQYSNVLRQQAIYGQVNFGQQ***********************TGHLPGMLSGQASAAAAQFNLQSPLMASPRQKPGVVPGSQFHPGNSPGQSLPGMQAMGILNLSSHLRANPLYAQQRMNQGQIRQQLSQ*******************************************************************************************************************************************************************************************QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRALMEP****************************************************
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAENNLTTTTSPPKALQSPNPMPDPSSTSSSSSSSTTALVSTQTPATTSFSPSLDSQQQQQQQIPQLVQQQQQNNVNANVMSNYQIPHTLQRSPSISRLNQIHQPQQQQNSQYSNVLRQQAIYGQVNFGQQNQQQSSNQQLGSPTLSRSGLIGQTGHLPGMLSGQASAAAAQFNLQSPLMASPRQKPGVVPGSQFHPGNSPGQSLPGMQAMGILNLSSHLRANPLYAQQRMNQGQIRQQLSQQNPLTSPQIQNLSRTSSSLAFMNPQLSGLAQNGQPGMMQNSLSQQQWLKQMPAMSAPGSPSFRLQQHQRQSPVLLQQQLASSPQLQNSMGLNQQQLSQLVQQQPQMGHAQLHQPQPQPQPQQQQQLQQQQSQQQPSLHQQQQQQQSPRISGPAGQKSLSLTGSQPDATVSGTTTPGGSSSQGTEATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRALMEPSQSETITNDPREMIRQGLGNPVGVNTHMKSSASSEQLLMPSGSQMLQQLTRY
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 ?
Query587 2.2.26 [Sep-21-2011]
Q8VE65161 Transcription initiation yes no 0.214 0.782 0.480 7e-29
Q16514161 Transcription initiation yes no 0.206 0.751 0.491 8e-29
Q3T174161 Transcription initiation yes no 0.216 0.788 0.469 1e-28
Q91858164 Transcription initiation N/A no 0.216 0.774 0.469 7e-28
Q03761539 Transcription initiation yes no 0.173 0.189 0.448 2e-23
O13722450 Transcription initiation yes no 0.183 0.24 0.531 3e-22
Q555L9627 Transcription initiation yes no 0.136 0.127 0.525 2e-21
P49905196 Transcription initiation no no 0.211 0.632 0.325 2e-17
>sp|Q8VE65|TAF12_MOUSE Transcription initiation factor TFIID subunit 12 OS=Mus musculus GN=Taf12 PE=1 SV=1 Back     alignment and function desciption
 Score =  129 bits (324), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 62/129 (48%), Positives = 90/129 (69%), Gaps = 3/129 (2%)

Query: 404 GSQPDATVSGTT--TPGGSSSQGTEATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEI 461
           GS  ++T  G    TPG       E  NQ+L K+K+QDLV +VD   ++D +VE++LL+I
Sbjct: 29  GSMANSTTVGKIAGTPGTGGRLSPE-NNQVLTKKKLQDLVREVDPNEQLDEDVEEMLLQI 87

Query: 462 ADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERNHQRKSLSSDV 521
           ADDFI+SV + AC LA+HRKSSTLE KD+ LHLE+ W++ +PGF SEE    +K+ +++ 
Sbjct: 88  ADDFIESVVTAACQLARHRKSSTLEVKDVQLHLERQWNMWIPGFGSEEIRPYKKACTTEA 147

Query: 522 HSKRLEMIR 530
           H +R+ +IR
Sbjct: 148 HKQRMALIR 156
TAFs are components of the transcription factor IID (TFIID) complex, PCAF histone acetylase complex and TBP-free TAFII complex (TFTC). TAFs components-TIIFD are essential for mediating regulation of RNA polymerase transcription.
Mus musculus (taxid: 10090)
>sp|Q16514|TAF12_HUMAN Transcription initiation factor TFIID subunit 12 OS=Homo sapiens GN=TAF12 PE=1 SV=1 Back     alignment and function description
>sp|Q3T174|TAF12_BOVIN Transcription initiation factor TFIID subunit 12 OS=Bos taurus GN=TAF12 PE=2 SV=1 Back     alignment and function description
>sp|Q91858|TAF12_XENLA Transcription initiation factor TFIID subunit 12 OS=Xenopus laevis GN=taf12 PE=2 SV=1 Back     alignment and function description
>sp|Q03761|TAF12_YEAST Transcription initiation factor TFIID subunit 12 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TAF12 PE=1 SV=1 Back     alignment and function description
>sp|O13722|TAF12_SCHPO Transcription initiation factor TFIID subunit 12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=taf12 PE=1 SV=1 Back     alignment and function description
>sp|Q555L9|TAF12_DICDI Transcription initiation factor TFIID subunit 12 OS=Dictyostelium discoideum GN=TAF12 PE=3 SV=2 Back     alignment and function description
>sp|P49905|TAF12_DROME Transcription initiation factor TFIID subunit 12 OS=Drosophila melanogaster GN=Taf12 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 ?
Query587
255560645523 protein with unknown function [Ricinus c 0.846 0.950 0.709 1e-148
302398673630 C2H2L domain class transcription factor 0.856 0.798 0.663 1e-143
449521733668 PREDICTED: uncharacterized protein LOC10 0.848 0.745 0.629 1e-140
449448116656 PREDICTED: uncharacterized protein LOC10 0.827 0.740 0.613 1e-133
357513949571 Transcription initiation factor TFIID su 0.850 0.873 0.597 1e-120
356519645599 PREDICTED: uncharacterized protein LOC10 0.838 0.821 0.606 1e-117
77403675638 TATA binding protein associated factor [ 0.798 0.735 0.572 1e-107
224073716655 predicted protein [Populus trichocarpa] 0.316 0.283 0.801 3e-81
359482656587 PREDICTED: uncharacterized protein LOC10 0.339 0.339 0.754 3e-79
224058669656 predicted protein [Populus trichocarpa] 0.340 0.304 0.602 1e-76
>gi|255560645|ref|XP_002521336.1| protein with unknown function [Ricinus communis] gi|223539414|gb|EEF41004.1| protein with unknown function [Ricinus communis] Back     alignment and taxonomy information
 Score =  533 bits (1372), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 378/533 (70%), Positives = 414/533 (77%), Gaps = 36/533 (6%)

Query: 81  MSNYQIPHTLQRSPSISRLNQIHQPQQQQNSQYSNVLRQQ------AIYGQVNF-GQQNQ 133
           MS YQI  TLQRSPS+SRL QI Q QQQQ +QY NVLRQQ       +YGQVNF G  + 
Sbjct: 1   MSTYQISQTLQRSPSMSRLTQITQQQQQQQNQYGNVLRQQQQQQQQGLYGQVNFSGSGSI 60

Query: 134 QQSS--NQQLGSPTLSRSGLIGQTGHLPGMLSGQASAAAAQFNLQSPLMASPRQKPGVVP 191
           QQ+S  NQQL     SRS L+GQ+GHLP ML+G  + AAA    Q  L+ASPRQK G+V 
Sbjct: 61  QQNSHQNQQL-----SRSALLGQSGHLP-MLTGAGAVAAAAAAAQLNLLASPRQKAGLVQ 114

Query: 192 GSQFHPGNSPGQSLPGMQAMGI---LNLSSHLRAN-PL-YAQQRMNQGQIRQQLSQQNPL 246
           G+QFHPG+SPGQ L GMQAMG+   LNL+S LR N PL +AQQR+N GQ+RQQL+QQNPL
Sbjct: 115 GTQFHPGSSPGQPLQGMQAMGMMGSLNLTSQLRPNGPLTFAQQRLNAGQMRQQLAQQNPL 174

Query: 247 TSPQIQNLSRTSSSLAFMNPQLSGLAQNGQPGMMQNSLSQQQWLKQMPAMSAPGSPSFRL 306
           TS Q+ NLSRTSS LAFMNPQLSGL QN QP MMQNSL QQQWLKQM  M  P SPS RL
Sbjct: 175 TSSQVPNLSRTSS-LAFMNPQLSGLTQNAQPSMMQNSLPQQQWLKQMTGMPGPASPSLRL 233

Query: 307 QQHQRQSPVLLQQQLASSPQL-QNSMGLNQQQLSQLVQQQPQMGHAQLHQPQPQPQPQQQ 365
           QQ Q Q  +  QQQLASS QL QNSM LN QQLSQLVQQQP M H QLHQ Q Q Q QQQ
Sbjct: 234 QQRQSQVLL--QQQLASSSQLHQNSMTLNPQQLSQLVQQQPAMTHQQLHQQQQQQQQQQQ 291

Query: 366 QQLQQQQSQQQPSLHQQQQQQQ----------SPRISGPAGQKSLSLTGSQPDATVSGTT 415
           QQ QQ Q  QQ    QQQ QQQ          SP + GP GQKSLSLTGSQPDAT SGTT
Sbjct: 292 QQQQQMQQMQQQQQPQQQLQQQLPLHQQQQQQSPMMQGPTGQKSLSLTGSQPDATASGTT 351

Query: 416 TPGGSSSQGTEATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACN 475
           TPGGSSSQGTEATNQLLGKRKIQDLVSQVDSQGKVDPEVE+LLLEIADDFID+VT FAC+
Sbjct: 352 TPGGSSSQGTEATNQLLGKRKIQDLVSQVDSQGKVDPEVEELLLEIADDFIDNVTMFACS 411

Query: 476 LAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRALMEP 535
           LAKHRKSSTLESKD+LLHLEKNWHLT+PGFS+EERN QRK LSSD+H KRL+MIRAL EP
Sbjct: 412 LAKHRKSSTLESKDLLLHLEKNWHLTIPGFSTEERNLQRKPLSSDLHKKRLDMIRALREP 471

Query: 536 SQSETITNDPREMIRQGLGNPVGVNTHMKSSASSEQLLMPS-GSQMLQQLTRY 587
           S SET  N+PREMIRQGLGNPV  N  ++SS SSEQL+  S  SQMLQQ+TR+
Sbjct: 472 SHSET-NNNPREMIRQGLGNPVVTNHLIRSSPSSEQLVSQSTSSQMLQQITRF 523

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|302398673|gb|ADL36631.1| C2H2L domain class transcription factor [Malus x domestica] Back     alignment and taxonomy information
>gi|449521733|ref|XP_004167884.1| PREDICTED: uncharacterized protein LOC101227692 [Cucumis sativus] Back     alignment and taxonomy information
>gi|449448116|ref|XP_004141812.1| PREDICTED: uncharacterized protein LOC101211341 [Cucumis sativus] Back     alignment and taxonomy information
>gi|357513949|ref|XP_003627263.1| Transcription initiation factor TFIID subunit [Medicago truncatula] gi|355521285|gb|AET01739.1| Transcription initiation factor TFIID subunit [Medicago truncatula] Back     alignment and taxonomy information
>gi|356519645|ref|XP_003528481.1| PREDICTED: uncharacterized protein LOC100783017 [Glycine max] Back     alignment and taxonomy information
>gi|77403675|dbj|BAE46416.1| TATA binding protein associated factor [Solanum tuberosum] Back     alignment and taxonomy information
>gi|224073716|ref|XP_002304140.1| predicted protein [Populus trichocarpa] gi|222841572|gb|EEE79119.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|359482656|ref|XP_002264851.2| PREDICTED: uncharacterized protein LOC100248501 [Vitis vinifera] gi|297743015|emb|CBI35882.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224058669|ref|XP_002299594.1| predicted protein [Populus trichocarpa] gi|222846852|gb|EEE84399.1| predicted protein [Populus trichocarpa] 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 ?
Query587
TAIR|locus:2018861683 EER4 "ENHANCED ETHYLENE RESPON 0.335 0.288 0.613 1.3e-115
TAIR|locus:2100053539 TAF12 "TBP-associated factor 1 0.260 0.283 0.419 4.9e-34
UNIPROTKB|Q3T174161 TAF12 "Transcription initiatio 0.173 0.633 0.529 9.4e-27
UNIPROTKB|E2QVZ3161 TAF12 "Uncharacterized protein 0.173 0.633 0.529 9.4e-27
UNIPROTKB|Q16514161 TAF12 "Transcription initiatio 0.173 0.633 0.529 9.4e-27
MGI|MGI:1913714161 Taf12 "TAF12 RNA polymerase II 0.173 0.633 0.529 9.4e-27
RGD|1592841161 Taf12 "TAF12 RNA polymerase II 0.173 0.633 0.529 9.4e-27
UNIPROTKB|Q5ZKX3161 TAF12 "Uncharacterized protein 0.175 0.639 0.514 1.5e-26
POMBASE|SPAC15A10.02450 taf12 "transcription factor TF 0.137 0.18 0.617 4.6e-26
ZFIN|ZDB-GENE-031030-5162 taf12 "TAF12 RNA polymerase II 0.172 0.623 0.504 6.6e-26
TAIR|locus:2018861 EER4 "ENHANCED ETHYLENE RESPONSE 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 592 (213.5 bits), Expect = 1.3e-115, Sum P(2) = 1.3e-115
 Identities = 122/199 (61%), Positives = 149/199 (74%)

Query:   390 RISGPAGQKSLSLTGSQPDATVXXXXXXXXXXXXXXEATNQLLGKRKIQDLVSQVDSQGK 449
             R+   AGQKS+SLTGSQP+AT               EATNQLLGKRKIQDLVSQVD   K
Sbjct:   486 RMLSHAGQKSVSLTGSQPEATQSGTTTPGGSSSQGTEATNQLLGKRKIQDLVSQVDVHAK 545

Query:   450 VDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEE 509
             +DP+VEDLLLE+ADDFIDSVTSFAC+LAKHRKSS LE KDILLHLEKN HLT+PGFSSE+
Sbjct:   546 LDPDVEDLLLEVADDFIDSVTSFACSLAKHRKSSVLEPKDILLHLEKNLHLTIPGFSSED 605

Query:   510 RNHQRKSLSSDVHSKRLEMIRALMEPSQSETITNDPREMIRQGLGNPVGVNTHMKSSASS 569
             +  Q K++ +D+H KRL M+RAL+E S+ ET  ++ +E +RQ + NP G N  ++ S SS
Sbjct:   606 KR-QTKTVPTDLHKKRLAMVRALLESSKPETNASNSKETMRQAMVNPNGPNHLLRPSQSS 664

Query:   570 EQLL-MPSGSQMLQQLTRY 587
             EQL+   SG  +LQ +TRY
Sbjct:   665 EQLVSQTSGPHILQHMTRY 683
GO:0003674 "molecular_function" evidence=ND
GO:0003677 "DNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0005669 "transcription factor TFIID complex" evidence=IEA;ISS
GO:0006352 "DNA-dependent transcription, initiation" evidence=IEA;ISS
GO:0009736 "cytokinin mediated signaling pathway" evidence=IMP
GO:0009867 "jasmonic acid mediated signaling pathway" evidence=IMP
GO:0010104 "regulation of ethylene mediated signaling pathway" evidence=IMP
GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA
GO:0006366 "transcription from RNA polymerase II promoter" evidence=RCA
TAIR|locus:2100053 TAF12 "TBP-associated factor 12" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q3T174 TAF12 "Transcription initiation factor TFIID subunit 12" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2QVZ3 TAF12 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q16514 TAF12 "Transcription initiation factor TFIID subunit 12" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:1913714 Taf12 "TAF12 RNA polymerase II, TATA box binding protein (TBP)-associated factor" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1592841 Taf12 "TAF12 RNA polymerase II, TATA box binding protein (TBP)-associated factor" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q5ZKX3 TAF12 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
POMBASE|SPAC15A10.02 taf12 "transcription factor TFIID complex subunit A/ SAGA complex subunit Taf12" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-031030-5 taf12 "TAF12 RNA polymerase II, TATA box binding protein (TBP)-associated factor" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query587
pfam0384767 pfam03847, TFIID_20kDa, Transcription initiation f 7e-34
cd0798172 cd07981, TAF12, TATA Binding Protein (TBP) Associa 3e-32
COG5624505 COG5624, TAF61, Transcription initiation factor TF 2e-15
pfam09770 804 pfam09770, PAT1, Topoisomerase II-associated prote 2e-08
pfam13779820 pfam13779, DUF4175, Domain of unknown function (DU 1e-07
pfam09770 804 pfam09770, PAT1, Topoisomerase II-associated prote 3e-07
pfam13779820 pfam13779, DUF4175, Domain of unknown function (DU 7e-07
COG203691 COG2036, HHT1, Histones H3 and H4 [Chromatin struc 1e-04
PRK10263 1355 PRK10263, PRK10263, DNA translocase FtsK; Provisio 1e-04
PRK03427333 PRK03427, PRK03427, cell division protein ZipA; Pr 2e-04
pfam13779820 pfam13779, DUF4175, Domain of unknown function (DU 0.001
pfam09606 768 pfam09606, Med15, ARC105 or Med15 subunit of Media 0.001
pfam0080865 pfam00808, CBFD_NFYB_HMF, Histone-like transcripti 0.001
pfam09606 768 pfam09606, Med15, ARC105 or Med15 subunit of Media 0.002
pfam0012575 pfam00125, Histone, Core histone H2A/H2B/H3/H4 0.002
TIGR01628562 TIGR01628, PABP-1234, polyadenylate binding protei 0.004
>gnl|CDD|112650 pfam03847, TFIID_20kDa, Transcription initiation factor TFIID subunit A Back     alignment and domain information 
 Score =  122 bits (309), Expect = 7e-34
 Identities = 47/67 (70%), Positives = 57/67 (85%)

Query: 433 GKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILL 492
            KRK+QDLV Q+DS  K+D +VEDLLLEIADDF++SVT+FAC LAKHRKS  LE +DI L
Sbjct: 1   SKRKLQDLVQQIDSNTKLDEDVEDLLLEIADDFVESVTTFACKLAKHRKSDKLEVRDIQL 60

Query: 493 HLEKNWH 499
           HLE+NW+
Sbjct: 61  HLERNWN 67

Length = 67
>gnl|CDD|173964 cd07981, TAF12, TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex Back     alignment and domain information
>gnl|CDD|227911 COG5624, TAF61, Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1 Back     alignment and domain information
>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175) Back     alignment and domain information
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1 Back     alignment and domain information
>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175) Back     alignment and domain information
>gnl|CDD|224947 COG2036, HHT1, Histones H3 and H4 [Chromatin structure and dynamics] Back     alignment and domain information
>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional Back     alignment and domain information
>gnl|CDD|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional Back     alignment and domain information
>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175) Back     alignment and domain information
>gnl|CDD|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal Back     alignment and domain information
>gnl|CDD|201453 pfam00808, CBFD_NFYB_HMF, Histone-like transcription factor (CBF/NF-Y) and archaeal histone Back     alignment and domain information
>gnl|CDD|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal Back     alignment and domain information
>gnl|CDD|201020 pfam00125, Histone, Core histone H2A/H2B/H3/H4 Back     alignment and domain information
>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 587
KOG1142258 consensus Transcription initiation factor TFIID, s 100.0
PF0384768 TFIID_20kDa: Transcription initiation factor TFIID 99.96
COG5624505 TAF61 Transcription initiation factor TFIID, subun 99.96
cd0798172 TAF12 TATA Binding Protein (TBP) Associated Factor 99.91
PLN00035103 histone H4; Provisional 98.66
PTZ00015102 histone H4; Provisional 98.56
cd0007685 H4 Histone H4, one of the four histones, along wit 98.55
COG203691 HHT1 Histones H3 and H4 [Chromatin structure and d 98.44
PF0012575 Histone: Core histone H2A/H2B/H3/H4 histone h2a si 98.2
smart0080365 TAF TATA box binding protein associated factor. TA 98.12
PF0080865 CBFD_NFYB_HMF: Histone-like transcription factor ( 97.94
smart0041774 H4 Histone H4. 97.89
cd07979117 TAF9 TATA Binding Protein (TBP) Associated Factor 97.88
KOG3467103 consensus Histone H4 [Chromatin structure and dyna 97.88
smart00428105 H3 Histone H3. 97.83
PLN00161135 histone H3; Provisional 97.56
smart0057677 BTP Bromodomain transcription factors and PHD doma 97.36
PLN00121136 histone H3; Provisional 97.31
PTZ00018136 histone H3; Provisional 97.25
PF02291129 TFIID-31kDa: Transcription initiation factor IID, 97.18
PLN0016097 histone H3; Provisional 97.15
cd08050 343 TAF6 TATA Binding Protein (TBP) Associated Factor 97.14
PF0226993 TFIID-18kDa: Transcription initiation factor IID, 96.99
smart0042789 H2B Histone H2B. 96.68
PF1563076 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 96.64
KOG0869168 consensus CCAAT-binding factor, subunit A (HAP3) [ 96.42
PF0296966 TAF: TATA box binding protein associated factor (T 96.34
PLN00158116 histone H2B; Provisional 96.19
PTZ00463117 histone H2B; Provisional 96.1
PF0752477 Bromo_TP: Bromodomain associated; InterPro: IPR006 95.9
cd0797892 TAF13 The TATA Binding Protein (TBP) Associated Fa 95.78
cd00074115 H2A Histone 2A; H2A is a subunit of the nucleosome 95.43
cd0804885 TAF11 TATA Binding Protein (TBP) Associated Factor 95.33
KOG0871156 consensus Class 2 transcription repressor NC2, bet 95.25
KOG3334148 consensus Transcription initiation factor TFIID, s 95.13
KOG1744127 consensus Histone H2B [Chromatin structure and dyn 94.73
PF0941572 CENP-X: CENP-S associating Centromere protein X; I 93.76
KOG2549 576 consensus Transcription initiation factor TFIID, s 93.08
PF15511414 CENP-T: Centromere kinetochore component CENP-T; P 93.01
KOG0870172 consensus DNA polymerase epsilon, subunit D [Trans 92.68
PF0471990 TAFII28: hTAFII28-like protein conserved region; I 92.4
PF0354051 TFIID_30kDa: Transcription initiation factor TFIID 91.63
COG5248126 TAF19 Transcription initiation factor TFIID, subun 90.5
cd08045212 TAF4 TATA Binding Protein (TBP) Associated Factor 90.39
PF05236264 TAF4: Transcription initiation factor TFIID compon 90.37
KOG3423176 consensus Transcription initiation factor TFIID, s 90.25
KOG1745137 consensus Histones H3 and H4 [Chromatin structure 90.09
COG5094145 TAF9 Transcription initiation factor TFIID, subuni 87.4
COG5150148 Class 2 transcription repressor NC2, beta subunit 87.06
KOG3901109 consensus Transcription initiation factor IID subu 86.15
COG5162197 Transcription initiation factor TFIID, subunit TAF 85.83
smart00414106 H2A Histone 2A. 80.88
PRK00411394 cdc6 cell division control protein 6; Reviewed 80.4
smart00350509 MCM minichromosome maintenance proteins. 80.03
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information 
Probab=100.00  E-value=1.3e-52  Score=411.35  Aligned_cols=252  Identities=44%  Similarity=0.605  Sum_probs=190.3

Q ss_pred             ccccccccCcccccCCcccccccchhHHHHHhhcCCCCCCCCCcccccccccchhHHHHHhhhchhhh-hhccCCCHHHH
Q 007852          260 SLAFMNPQLSGLAQNGQPGMMQNSLSQQQWLKQMPAMSAPGSPSFRLQQHQRQSPVLLQQQLASSPQL-QNSMGLNQQQL  338 (587)
Q Consensus       260 s~a~~n~ql~g~~qngq~~~~q~s~~qqqwlkqm~~~~~p~sps~~~Q~~q~~~~~~~qq~l~~s~ql-q~~~~Ln~qql  338 (587)
                      .+.+++++.++..++|+.++.|....|++||++++.+.+|.+.     +.++       ++ ..++.. ++ +.+|++.+
T Consensus         2 ~l~~~s~~~sp~~~~~~~~~~qlq~~qq~~~~~~~~~~s~~~~-----~s~~-------~q-~~~~~~~~~-~~~~qq~~   67 (258)
T KOG1142|consen    2 ELYEASPQPSPAEQAGQQGQQQLQARQQQWLRQIQGIPSPESY-----PSQR-------QQ-RFSPTCSIR-ENPNQQWI   67 (258)
T ss_pred             cccccCCCCCHHHHHHHHHHHHHHHHHhhhhccccCCCCCCCC-----hhhc-------cc-cCCCccccc-CCCCcccc
Confidence            5789999999999999999999999999999999999988864     1121       12 234555 55 88898888


Q ss_pred             HHHHhhccccCccccCCCCCCCChhHHHHHHHHhh--hcccchHHhhhhccCCCccCCCCCCcCc-cCCCCCCCCcc-cc
Q 007852          339 SQLVQQQPQMGHAQLHQPQPQPQPQQQQQLQQQQS--QQQPSLHQQQQQQQSPRISGPAGQKSLS-LTGSQPDATVS-GT  414 (587)
Q Consensus       339 ~q~~qq~~~~~~~ql~qqq~q~q~qqqqq~qqqq~--~qq~~~~qqqqqqqsprm~~p~~qk~~s-l~gsqp~at~~-g~  414 (587)
                      +....+.      +........+...++..++-..  +++|..+  .++..+-++.....++..+ ..|+  ...++ |.
T Consensus        68 s~~~~~~------~~~n~~~~s~~~~~~~~~~~~~~~~q~P~~~--~~q~~~~~~~~~~~~~~~~P~~~~--~g~~~g~~  137 (258)
T KOG1142|consen   68 STGYPQP------QVSNGGPPSQALNQQDSQQSAISQQQQPASS--PSQGSSMSNQTSSVQKDPAPVIGS--QGSVSGGG  137 (258)
T ss_pred             ccccCcc------ccccCCchHHhhhhhhHHhhccccCCCCccC--CCCCCCccccCcccccCCCCCCCC--CCccCCCC
Confidence            8775441      1222222111222222222111  2222211  1222233444444444433 2222  12222 56


Q ss_pred             cCCCCCCCCCcccccccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852          415 TTPGGSSSQGTEATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHL  494 (587)
Q Consensus       415 ~~~Ggs~s~g~e~tnqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhL  494 (587)
                      ++|+++++...++++++|+|+||+|||++||++++||+||||+|++|||||||+|++|||+||||||++|||+|||+|||
T Consensus       138 ~sp~~s~s~~~~~~~~il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhL  217 (258)
T KOG1142|consen  138 TSPAGSSSQDEPGNNPILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHL  217 (258)
T ss_pred             CCCCcccccccCCCCccccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeee
Confidence            67888888888889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCccccCCCccccccccCCCCcHHHHHHHHHHHHhhcc
Q 007852          495 EKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRALMEP  535 (587)
Q Consensus       495 ERnWNI~IPGFssDEir~yrK~~pTeaHkQRMAlIRK~m~s  535 (587)
                      ||+|||+||||++||+++|||+.|||+||+|||+|||.+++
T Consensus       218 Er~~Nm~iPgf~sd~~~~~~k~~pTe~hkqr~a~i~k~~~k  258 (258)
T KOG1142|consen  218 ERNFNMEIPGFSSDEKRSKKKALPTEEHKQRLALIRKQIKK  258 (258)
T ss_pred             eccccccCCCccccccccccccCCcHHHHHHHHHHHHhhcC
Confidence            99999999999999999999999999999999999999874

>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [] Back     alignment and domain information
>COG5624 TAF61 Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex Back     alignment and domain information
>PLN00035 histone H4; Provisional Back     alignment and domain information
>PTZ00015 histone H4; Provisional Back     alignment and domain information
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution Back     alignment and domain information
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics] Back     alignment and domain information
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ] Back     alignment and domain information
>smart00803 TAF TATA box binding protein associated factor Back     alignment and domain information
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin Back     alignment and domain information
>smart00417 H4 Histone H4 Back     alignment and domain information
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex Back     alignment and domain information
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics] Back     alignment and domain information
>smart00428 H3 Histone H3 Back     alignment and domain information
>PLN00161 histone H3; Provisional Back     alignment and domain information
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins Back     alignment and domain information
>PLN00121 histone H3; Provisional Back     alignment and domain information
>PTZ00018 histone H3; Provisional Back     alignment and domain information
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [] Back     alignment and domain information
>PLN00160 histone H3; Provisional Back     alignment and domain information
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex Back     alignment and domain information
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18) Back     alignment and domain information
>smart00427 H2B Histone H2B Back     alignment and domain information
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C Back     alignment and domain information
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription] Back     alignment and domain information
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex Back     alignment and domain information
>PLN00158 histone H2B; Provisional Back     alignment and domain information
>PTZ00463 histone H2B; Provisional Back     alignment and domain information
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO) Back     alignment and domain information
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex Back     alignment and domain information
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome Back     alignment and domain information
>cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex Back     alignment and domain information
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription] Back     alignment and domain information
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics] Back     alignment and domain information
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex Back     alignment and domain information
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T Back     alignment and domain information
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription] Back     alignment and domain information
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex Back     alignment and domain information
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors Back     alignment and domain information
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription] Back     alignment and domain information
>cd08045 TAF4 TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex Back     alignment and domain information
>PF05236 TAF4: Transcription initiation factor TFIID component TAF4 family; InterPro: IPR007900 Accurate transcription initiation at protein-coding genes by RNA polymerase II requires the assembly of a multiprotein complex around the mRNA start site Back     alignment and domain information
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics] Back     alignment and domain information
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription] Back     alignment and domain information
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription] Back     alignment and domain information
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information
>smart00414 H2A Histone 2A Back     alignment and domain information
>PRK00411 cdc6 cell division control protein 6; Reviewed Back     alignment and domain information
>smart00350 MCM minichromosome maintenance proteins 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 ?
Query587
1h3o_B76 Crystal Structure Of The Human Taf4-Taf12 (Tafii135 1e-18
>pdb|1H3O|B Chain B, Crystal Structure Of The Human Taf4-Taf12 (Tafii135-Tafii20) Complex Length = 76 Back     alignment and structure 
Iteration: 1

 Score = 91.7 bits (226), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 41/73 (56%), Positives = 58/73 (79%)
Query: 427 ATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLE 486
            ++ +L K+K+QDLV +VD   ++D +VE+ LL+IADDFI+SV + AC LA+HRKSSTLE
Sbjct: 1   GSHXVLTKKKLQDLVREVDPNEQLDEDVEEXLLQIADDFIESVVTAACQLARHRKSSTLE 60
Query: 487 SKDILLHLEKNWH 499
            KD+ LHLE+ W+
Sbjct: 61  VKDVQLHLERQWN 73
  Database: pdbaa

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query587
1h3o_B76 Transcription initiation factor TFIID 20/15 kDa su 1e-37
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 2e-06
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 3e-06
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 5e-06
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 2e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-05
1b67_A68 Protein (histone HMFA); DNA binding protein; 1.48A 7e-04
>1h3o_B Transcription initiation factor TFIID 20/15 kDa subunits; transcription/TBP-associated factors, TBP-associated factors; 2.3A {Homo sapiens} SCOP: a.22.1.3 Length = 76 Back     alignment and structure
 Score =  132 bits (335), Expect = 1e-37
 Identities = 41/76 (53%), Positives = 61/76 (80%)

Query: 427 ATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLE 486
            ++ +L K+K+QDLV +VD   ++D +VE++LL+IADDFI+SV + AC LA+HRKSSTLE
Sbjct: 1   GSHMVLTKKKLQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLE 60

Query: 487 SKDILLHLEKNWHLTV 502
            KD+ LHLE+ W++ +
Sbjct: 61  VKDVQLHLERQWNMWI 76
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 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
>1b67_A Protein (histone HMFA); DNA binding protein; 1.48A {Methanothermus fervidus} SCOP: a.22.1.2 PDB: 1hta_A 1a7w_A 1b6w_A 1bfm_A Length = 68 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query587
1h3o_B76 Transcription initiation factor TFIID 20/15 kDa su 99.97
2hue_C84 Histone H4; mini beta sheet, elongated beta sandwh 98.89
1id3_B102 Histone H4; nucleosome core particle, chromatin, p 98.83
1tzy_D103 Histone H4-VI; histone-fold, tetramer-dimer-dimer, 98.77
2yfw_B103 Histone H4, H4; cell cycle, kinetochore, centromer 98.72
1ku5_A70 HPHA, archaeal histon; histone fold, DNA binding p 98.63
1b67_A68 Protein (histone HMFA); DNA binding protein; 1.48A 98.55
3b0c_W76 CENP-W, centromere protein W; histone fold, DNA bi 98.5
3b0c_T111 CENP-T, centromere protein T; histone fold, DNA bi 98.47
1n1j_A93 NF-YB; histone-like PAIR, DNA binding protein; 1.6 98.27
1taf_A68 TFIID TBP associated factor 42; transcription init 98.22
2ly8_A121 Budding yeast chaperone SCM3; centromere protein, 98.2
1f1e_A154 Histone fold protein; archaeal histone protein, DN 98.12
1jfi_B179 DR1 protein, transcription regulator NC2 beta chai 98.05
3nqj_A82 Histone H3-like centromeric protein A; alpha helix 97.98
2l5a_A235 Histone H3-like centromeric protein CSE4, protein 97.97
2hue_B77 Histone H3; mini beta sheet, elongated beta sandwh 97.92
3r45_A156 Histone H3-like centromeric protein A; histone fol 97.89
2yfv_A100 Histone H3-like centromeric protein CSE4; cell cyc 97.87
3nqu_A140 Histone H3-like centromeric protein A; alpha helix 97.87
3b0b_B107 CENP-S, centromere protein S; histone fold, DNA bi 97.83
1f1e_A154 Histone fold protein; archaeal histone protein, DN 97.82
1tzy_C136 Histone H3; histone-fold, tetramer-dimer-dimer, DN 97.82
1taf_B70 TFIID TBP associated factor 62; transcription init 97.78
3v9r_A90 MHF1, uncharacterized protein YOL086W-A; histone f 97.77
2byk_B128 Chrac-14; nucleosome sliding, histone fold, DNA-bi 97.72
4dra_A113 Centromere protein S; DNA binding complex, DNA dam 97.5
1n1j_B97 NF-YC; histone-like PAIR, DNA binding protein; 1.6 97.43
3vh5_A140 CENP-S; histone fold, chromosome segregation, DNA 97.33
2nqb_D123 Histone H2B; nucleosome, NCP, chromatin, structura 97.3
1tzy_B126 Histone H2B; histone-fold, tetramer-dimer-dimer, D 97.21
4g92_C119 HAPE; transcription factor, nucleosome, minor groo 97.11
3b0b_C81 CENP-X, centromere protein X; histone fold, DNA bi 97.06
2jss_A192 Chimera of histone H2B.1 and histone H2A.Z; histon 96.98
2l5a_A235 Histone H3-like centromeric protein CSE4, protein 96.81
1jfi_A98 Transcription regulator NC2 alpha chain; histone, 96.79
2f8n_G120 Core histone macro-H2A.1; nucleosome, NCP, macroh2 96.26
2nqb_C123 Histone H2A; nucleosome, NCP, chromatin, structura 96.26
4dra_E84 Centromere protein X; DNA binding complex, DNA dam 96.15
1tzy_A129 Histone H2A-IV; histone-fold, tetramer-dimer-dimer 96.14
1id3_C131 Histone H2A.1; nucleosome core particle, chromatin 96.11
2f8n_K149 Histone H2A type 1; nucleosome, NCP, macroh2A, his 96.05
1f66_C128 Histone H2A.Z; nucleosome, chromatin, histone vari 95.64
2byk_A140 Chrac-16; nucleosome sliding, histone fold, DNA-bi 95.46
2jss_A192 Chimera of histone H2B.1 and histone H2A.Z; histon 95.3
1bh9_B89 TAFII28; histone fold, tata binding protein, trans 95.21
3uk6_A368 RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding 89.16
3v9r_B88 MHF2, uncharacterized protein YDL160C-A; histone f 87.35
1h3o_A75 Transcription initiation factor TFIID 135 kDa subu 86.26
2r44_A331 Uncharacterized protein; putative ATPase, structur 85.65
2qby_A386 CDC6 homolog 1, cell division control protein 6 ho 83.7
1g8p_A350 Magnesium-chelatase 38 kDa subunit; parallel beta 81.89
2v1u_A387 Cell division control protein 6 homolog; DNA repli 80.59
>1h3o_B Transcription initiation factor TFIID 20/15 kDa subunits; transcription/TBP-associated factors, TBP-associated factors; 2.3A {Homo sapiens} SCOP: a.22.1.3 Back     alignment and structure
Probab=99.97  E-value=3.3e-32  Score=225.91  Aligned_cols=75  Identities=55%  Similarity=0.928  Sum_probs=73.0

Q ss_pred             ccccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852          428 TNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV  502 (587)
Q Consensus       428 tnqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I  502 (587)
                      ..+||+|++|++||++|||++.||+||||+|++||||||++|+++||+||||||++|||+|||+|||||+|||+|
T Consensus         2 s~~vl~k~~L~~Lv~~idp~~~ld~~vee~ll~lADdFV~~V~~~ac~lAKhR~s~~le~kDvql~Ler~wni~i   76 (76)
T 1h3o_B            2 SHMVLTKKKLQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLERQWNMWI   76 (76)
T ss_dssp             -CCSSCHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHHHTCCCC
T ss_pred             CcccccHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHhhcCCcC
Confidence            468999999999999999999999999999999999999999999999999999999999999999999999996
>2hue_C Histone H4; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} SCOP: a.22.1.1 PDB: 3nqj_B 1aoi_B 3kwq_B* 1hio_D 2yfv_B Back     alignment and structure
>1id3_B Histone H4; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1 Back     alignment and structure
>1tzy_D Histone H4-VI; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1f66_B 1eqz_D 1hq3_D 1u35_B 2aro_D 2cv5_B* 2f8n_B 3nqu_B 3r45_B 3azg_B 3a6n_B 3an2_B 3av1_B 3av2_B 3ayw_B 3aze_B 3azf_B 3afa_B 3azh_B 3azk_B ... Back     alignment and structure
>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140} Back     alignment and structure
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A {Pyrococcus horikoshii} SCOP: a.22.1.2 Back     alignment and structure
>1b67_A Protein (histone HMFA); DNA binding protein; 1.48A {Methanothermus fervidus} SCOP: a.22.1.2 PDB: 1hta_A 1a7w_A 1b6w_A 1bfm_A Back     alignment and structure
>3b0c_W CENP-W, centromere protein W; histone fold, DNA binding, DNA binding protein; HET: CIT; 2.20A {Gallus gallus} PDB: 3b0d_W* 3vh5_W 3vh6_W Back     alignment and structure
>3b0c_T CENP-T, centromere protein T; histone fold, DNA binding, DNA binding protein; HET: CIT; 2.20A {Gallus gallus} PDB: 3b0d_T* 3vh5_T 3vh6_T Back     alignment and structure
>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3 Back     alignment and structure
>1taf_A TFIID TBP associated factor 42; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3 Back     alignment and structure
>2ly8_A Budding yeast chaperone SCM3; centromere protein, CENH3 variants, partially unfolded; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2 Back     alignment and structure
>1jfi_B DR1 protein, transcription regulator NC2 beta chain; histone, H2A/H2B, tata-DNA, transcription initiation, NC2, negative cofactor, structural genomics, PSI; 2.62A {Homo sapiens} SCOP: a.22.1.3 Back     alignment and structure
>3nqj_A Histone H3-like centromeric protein A; alpha helix, histone fold, centromere, DNA binding protein; 2.10A {Homo sapiens} Back     alignment and structure
>2l5a_A Histone H3-like centromeric protein CSE4, protein histone H4; A single chain of CSE4+SCM3+H4, fusion protein; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} Back     alignment and structure
>3r45_A Histone H3-like centromeric protein A; histone fold, centromere, CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens} Back     alignment and structure
>2yfv_A Histone H3-like centromeric protein CSE4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.32A {Kluyveromyces lactis nrrl y-1140} PDB: 2yfw_A Back     alignment and structure
>3nqu_A Histone H3-like centromeric protein A; alpha helix, histone fold, centromere, DNA binding protein; 2.50A {Homo sapiens} PDB: 3an2_A Back     alignment and structure
>3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA, nucleus, DNA binding protein; 2.15A {Gallus gallus} Back     alignment and structure
>1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2 Back     alignment and structure
>1tzy_C Histone H3; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_C 1hq3_C 2aro_C 2f8n_A 2hio_C 3av1_A 3lel_A 3afa_A 3azi_A 3azj_A 3azk_A 3azl_A 3azm_A 3azn_A 2cv5_A* 1u35_A* 2nqb_A 2io5_B 2pyo_A* 3c9k_C ... Back     alignment and structure
>1taf_B TFIID TBP associated factor 62; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3 Back     alignment and structure
>3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces cerevisiae} Back     alignment and structure
>2byk_B Chrac-14; nucleosome sliding, histone fold, DNA-binding protein; 2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB: 2bym_B Back     alignment and structure
>4dra_A Centromere protein S; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_A Back     alignment and structure
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3 Back     alignment and structure
>3vh5_A CENP-S; histone fold, chromosome segregation, DNA binding, nucleus, binding protein; 2.40A {Gallus gallus} PDB: 3vh6_A Back     alignment and structure
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D* Back     alignment and structure
>1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D 3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D 3azj_D 3azk_D 3azl_D 3azm_D ... Back     alignment and structure
>4g92_C HAPE; transcription factor, nucleosome, minor groove binding, CCAA complex, histone fold motif, specific binding to the ccaat- nucleus; HET: DNA; 1.80A {Aspergillus nidulans} PDB: 4g91_C* Back     alignment and structure
>3b0b_C CENP-X, centromere protein X; histone fold, DNA binding, DNA, nucleus, DNA binding protein; 2.15A {Gallus gallus} PDB: 3vh5_D 3vh6_D Back     alignment and structure
>2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone complex, intrinsically unfolded protein, chaperone/structural protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.22.1.1 a.22.1.1 Back     alignment and structure
>2l5a_A Histone H3-like centromeric protein CSE4, protein histone H4; A single chain of CSE4+SCM3+H4, fusion protein; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>1jfi_A Transcription regulator NC2 alpha chain; histone, H2A/H2B, tata-DNA, transcription initiation, NC2, negative cofactor, structural genomics, PSI; 2.62A {Homo sapiens} SCOP: a.22.1.3 Back     alignment and structure
>2f8n_G Core histone macro-H2A.1; nucleosome, NCP, macroh2A, histone variant, chromatin, X- RAY structure, crystallography, structural protein/DNA complex; 2.90A {Homo sapiens} SCOP: a.22.1.1 PDB: 1u35_C Back     alignment and structure
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C* Back     alignment and structure
>4dra_E Centromere protein X; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_J Back     alignment and structure
>1tzy_A Histone H2A-IV; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_A 1hq3_A 2aro_A 2hio_A 3c9k_A 3azg_C 3a6n_C 3an2_C 3av1_C 3av2_C 3ayw_C 3aze_C 3azf_C 3afa_C 3azh_C 3azi_C 3azj_C 3azk_C 3azl_C 3azm_C ... Back     alignment and structure
>1id3_C Histone H2A.1; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1 Back     alignment and structure
>2f8n_K Histone H2A type 1; nucleosome, NCP, macroh2A, histone variant, chromatin, X- RAY structure, crystallography, structural protein/DNA complex; 2.90A {Mus musculus} SCOP: a.22.1.1 Back     alignment and structure
>1f66_C Histone H2A.Z; nucleosome, chromatin, histone variant, protein DNA interaction, nucleoprotein, supercoiled DNA, complex (nucleosome core/DNA); 2.60A {Homo sapiens} SCOP: a.22.1.1 Back     alignment and structure
>2byk_A Chrac-16; nucleosome sliding, histone fold, DNA-binding protein; 2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB: 2bym_A Back     alignment and structure
>2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone complex, intrinsically unfolded protein, chaperone/structural protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.22.1.1 a.22.1.1 Back     alignment and structure
>1bh9_B TAFII28; histone fold, tata binding protein, transcription regulation complex; HET: PMB; 2.60A {Homo sapiens} SCOP: a.22.1.3 PDB: 1bh8_B* Back     alignment and structure
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D* Back     alignment and structure
>3v9r_B MHF2, uncharacterized protein YDL160C-A; histone fold, fanconi anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces cerevisiae} Back     alignment and structure
>1h3o_A Transcription initiation factor TFIID 135 kDa subunit; transcription/TBP-associated factors, TBP-associated factors; 2.3A {Homo sapiens} SCOP: a.22.1.3 Back     alignment and structure
>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406} Back     alignment and structure
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Back     alignment and structure
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G Back     alignment and structure
>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix} 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 587
d1h3ob_74 a.22.1.3 (B:) TAF(II)-20, (TAF(II)-15, hTAF12), hi 7e-37
d1f1ea_151 a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy 2e-05
d1f1ea_151 a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy 0.002
d1htaa_68 a.22.1.2 (A:) Archaeal histone {Archaeon Methanoth 2e-05
d1ku5a_66 a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococc 8e-05
d2huec182 a.22.1.1 (C:20-101) Histone H4 {African clawed fro 0.002
d1jfia_66 a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chai 0.002
>d1h3ob_ a.22.1.3 (B:) TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain {Human (Homo sapiens) [TaxId: 9606]} Length = 74 Back     information, alignment and structure

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  129 bits (326), Expect = 7e-37
 Identities = 41/74 (55%), Positives = 60/74 (81%)

Query: 429 NQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESK 488
           + +L K+K+QDLV +VD   ++D +VE++LL+IADDFI+SV + AC LA+HRKSSTLE K
Sbjct: 1   HMVLTKKKLQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVK 60

Query: 489 DILLHLEKNWHLTV 502
           D+ LHLE+ W++ +
Sbjct: 61  DVQLHLERQWNMWI 74
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Length = 151 Back     information, alignment and structure
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Length = 151 Back     information, alignment and structure
>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]} Length = 68 Back     information, alignment and structure
>d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]} Length = 66 Back     information, alignment and structure
>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Length = 82 Back     information, alignment and structure
>d1jfia_ a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chain {Human (Homo sapiens) [TaxId: 9606]} Length = 66 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 ?
Query587
d1h3ob_74 TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom 99.97
d2huec182 Histone H4 {African clawed frog (Xenopus laevis) [ 98.69
d1htaa_68 Archaeal histone {Archaeon Methanothermus fervidus 98.64
d1ku5a_66 Archaeal histone {Archaeon (Pyrococcus horikoshii) 98.37
d1f1ea_151 Archaeal histone {Archaeon Methanopyrus kandleri [ 98.05
d1tzyc_95 Histone H3 {Chicken (Gallus gallus), erythrocytes 97.92
d1n1ja_87 Nuclear transcription factor Y subunit beta (Nf-Yb 97.92
d1f1ea_151 Archaeal histone {Archaeon Methanopyrus kandleri [ 97.82
d1n1jb_78 Nuclear transcription factor Y subunit gamma (Nf-Y 97.73
d1jfib_135 Negative cofactor 2, NC2, beta chain {Human (Homo 97.63
d1jfia_66 Negative cofactor 2, NC2, alpha chain {Human (Homo 97.36
d1tafa_68 TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta 97.17
d2bykb189 Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax 96.99
d1tzyb_92 Histone H2B {Chicken (Gallus gallus), erythrocytes 96.49
d1tafb_70 TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta 96.07
d1q9ca_172 Histone domain of Son of sevenless protein {Human 95.99
d2byka172 Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax 94.54
d1fnna2276 CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T 91.93
d1w5sa2287 CDC6-like protein APE0152, N-terminal domain {Aero 88.74
d1bh9b_89 TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]} 87.03
d1tzya_106 Histone H2A {Chicken (Gallus gallus), erythrocytes 83.81
d1f66c_103 Histone H2A {Human (Homo sapiens), variant H2A.Z [ 80.16
>d1h3ob_ a.22.1.3 (B:) TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=7.8e-33  Score=227.07  Aligned_cols=74  Identities=55%  Similarity=0.934  Sum_probs=72.8

Q ss_pred             cccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852          429 NQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV  502 (587)
Q Consensus       429 nqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I  502 (587)
                      |.||+|++|++||++|||++.||+||||+|++||||||++|+++||+||||||+++||+|||+|||||+|||+|
T Consensus         1 ~~il~K~~L~eLv~~idp~~~ld~~vee~ll~iADdFV~~V~~~ac~lAKhR~s~~le~kDvql~LeR~wNm~i   74 (74)
T d1h3ob_           1 HMVLTKKKLQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLERQWNMWI   74 (74)
T ss_dssp             CCSSCHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHHHTCCCC
T ss_pred             CccccHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcHHHHHHHHHhhcCccC
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999997
>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Back     information, alignment and structure
>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]} Back     information, alignment and structure
>d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]} Back     information, alignment and structure
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Back     information, alignment and structure
>d1tzyc_ a.22.1.1 (C:) Histone H3 {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Back     information, alignment and structure
>d1n1ja_ a.22.1.3 (A:) Nuclear transcription factor Y subunit beta (Nf-Yb3) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Back     information, alignment and structure
>d1n1jb_ a.22.1.3 (B:) Nuclear transcription factor Y subunit gamma (Nf-Yc2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jfib_ a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jfia_ a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tafa_ a.22.1.3 (A:) TAF(II)42 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d2bykb1 a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1tzyb_ a.22.1.1 (B:) Histone H2B {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Back     information, alignment and structure
>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1q9ca_ a.22.1.3 (A:) Histone domain of Son of sevenless protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2byka1 a.22.1.3 (A:29-100) Chrac-16 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Back     information, alignment and structure
>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d1bh9b_ a.22.1.3 (B:) TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tzya_ a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Back     information, alignment and structure
>d1f66c_ a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), variant H2A.Z [TaxId: 9606]} Back     information, alignment and structure