Psyllid ID: psy11212

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 (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-------45
MDIYGTSFSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESISFKCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESIDPISKLGKKDKDTSGKPTSAKLEKLRNVETVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAIAGEGLVTERS
cccccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccEEcccccccHHHHHHccccccccccEEEEEEEEEccccccccccccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHcccccccccccccccccEEcccccccEEEcccccccHHHHHHcccccccccccEEEEEEEEccccccccccccccccccHHcccccccccccccccccccccccHHHHHHcccccEEEcccccccccHHHHHHHHHHHHHHccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccc
cccccccccHHHHHHHHHHcccccEcHHHHHHHHHHHHHHHHHHHHcccccccccccccEEccccccEEEEEccccccHHHHHHccccccccccEEEEEEEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHcccccccccccccccccccccccccEEEEEccccccHHHHHHccccccccccEEEEEEEEEccccccccccccccccccccHcccccccccccccccccccccccccccccccccccccccEEEHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccEEcccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccc
MDIYGTSFSIESMKVIAEsigipnlpddaaKELSDNITYCCKVIIqpiygltvsqflpfkhasgggrelhftdekevDFEDLltnlnpksaLETHLRTHWLAiegvqptvpenpppvdksaqKLESISFKcmshskrvkllpvdiddalnmkniepiygltvsqflpfkhasgggrelhftdekevDFEDLltnlnpksaLETHLRTHWLAiegvqptvpenpppvdksaqklesidpisklgkkdkdtsgkptsakleklrnvETVHVKQLATHELSVEQQLYYKEITEacvgsdegrRFEALQslatdpglhemLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVskqlcgrpeadnhWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSnaindpkinfpslygaiageglvters
MDIYGTSFSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESISfkcmshskrvklLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKlesidpisklgkkdkdtsgkptsakleklrnveTVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKnfntstnniqTRVTRLLSNAINDPKINFPSLYGAIAGEGLVTERS
MDIYGTSFSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESISFKCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESIDPISKLGKKDKDTSGKPTSAKLEKLRNVETVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAIAGEGLVTERS
*******FSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGV**********************FKCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGV************************************************VETVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAIAGEGL*****
******S*SIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLP******G**ELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKS**KLESISFKCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGV************************************************************ELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAIAGEGLVTE**
MDIYGTSFSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESISFKCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESIDPISK*************SAKLEKLRNVETVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAIAGEGLVTERS
*DIYGTSFSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESISFKCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVD**************************************TVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAIAGEGLVT***
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MDIYGTSFSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESISFKCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESIDPISKLGKKDKDTSGKPTSAKLEKLRNVETVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAIAGEGLVTERS
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 ?
Query448 2.2.26 [Sep-21-2011]
P49847 606 Transcription initiation yes N/A 0.694 0.513 0.682 1e-129
Q91857 618 Transcription initiation N/A N/A 0.696 0.504 0.577 1e-108
P49848 677 Transcription initiation yes N/A 0.698 0.462 0.549 1e-104
Q62311 678 Transcription initiation yes N/A 0.698 0.461 0.549 1e-104
Q63801 678 Transcription initiation yes N/A 0.698 0.461 0.549 1e-104
O74462452 Transcription initiation yes N/A 0.665 0.659 0.393 1e-51
P53040 516 Transcription initiation yes N/A 0.689 0.598 0.328 7e-40
Q8R2K4 616 TAF6-like RNA polymerase no N/A 0.584 0.425 0.248 1e-17
Q9Y6J9 622 TAF6-like RNA polymerase no N/A 0.584 0.421 0.248 1e-16
>sp|P49847|TAF6_DROME Transcription initiation factor TFIID subunit 6 OS=Drosophila melanogaster GN=Taf6 PE=1 SV=2 Back     alignment and function desciption
 Score =  461 bits (1187), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 213/312 (68%), Positives = 260/312 (83%), Gaps = 1/312 (0%)

Query: 130 KCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFE 189
           K M+H+KR KL   DID +L ++N+EP YG     F+PF+ ASGGGRELHFT++KE+D  
Sbjct: 63  KFMNHAKRQKLSVRDIDMSLKVRNVEPQYGFVAKDFIPFRFASGGGRELHFTEDKEIDLG 122

Query: 190 DLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESIDPISKLGKK-DKD 248
           ++ +  + K  L+  LR+HW  +EGVQPTVPENPPP+ K +Q L+S++P+ K+ +  +KD
Sbjct: 123 EITSTNSVKIPLDLTLRSHWFVVEGVQPTVPENPPPLSKDSQLLDSVNPVIKMDQGLNKD 182

Query: 249 TSGKPTSAKLEKLRNVETVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLA 308
            +GKPT+ K+ KL+NVET+HVKQLATHELSVEQQLYYKEITEACVGSDE RR EALQSL 
Sbjct: 183 AAGKPTTGKIHKLKNVETIHVKQLATHELSVEQQLYYKEITEACVGSDEPRRGEALQSLG 242

Query: 309 TDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPS 368
           +DPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMV+ALLDN SL+LEKYLHEL+PS
Sbjct: 243 SDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVRALLDNPSLFLEKYLHELIPS 302

Query: 369 ILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPK 428
           +++CIVSKQLC RPE DNHWALRDFASRL+ Q+ KNFNT TNN+QTRVTR+ S A+ + K
Sbjct: 303 VMTCIVSKQLCMRPELDNHWALRDFASRLMAQICKNFNTLTNNLQTRVTRIFSKALQNDK 362

Query: 429 INFPSLYGAIAG 440
            +  SLYG+IAG
Sbjct: 363 THLSSLYGSIAG 374
TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors.
Drosophila melanogaster (taxid: 7227)
>sp|Q91857|TAF6_XENLA Transcription initiation factor TFIID subunit 6 OS=Xenopus laevis GN=taf6 PE=2 SV=3 Back     alignment and function description
>sp|P49848|TAF6_HUMAN Transcription initiation factor TFIID subunit 6 OS=Homo sapiens GN=TAF6 PE=1 SV=1 Back     alignment and function description
>sp|Q62311|TAF6_MOUSE Transcription initiation factor TFIID subunit 6 OS=Mus musculus GN=Taf6 PE=2 SV=1 Back     alignment and function description
>sp|Q63801|TAF6_RAT Transcription initiation factor TFIID subunit 6 OS=Rattus norvegicus GN=Taf6 PE=2 SV=1 Back     alignment and function description
>sp|O74462|TAF6_SCHPO Transcription initiation factor TFIID subunit 6 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=taf6 PE=1 SV=1 Back     alignment and function description
>sp|P53040|TAF6_YEAST Transcription initiation factor TFIID subunit 6 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TAF6 PE=1 SV=1 Back     alignment and function description
>sp|Q8R2K4|TAF6L_MOUSE TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L OS=Mus musculus GN=Taf6l PE=2 SV=1 Back     alignment and function description
>sp|Q9Y6J9|TAF6L_HUMAN TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L OS=Homo sapiens GN=TAF6L 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 ?
Query448
189237918 599 PREDICTED: similar to transcription init 0.718 0.537 0.702 1e-133
193695219526 PREDICTED: transcription initiation fact 0.698 0.595 0.703 1e-129
242015350542 transcription initiation factor TFIID su 0.694 0.573 0.723 1e-129
195591563 611 GD14815 [Drosophila simulans] gi|1941975 0.698 0.512 0.684 1e-128
195354204 611 GM19603 [Drosophila sechellia] gi|194127 0.698 0.512 0.684 1e-128
195377535 616 GJ13501 [Drosophila virilis] gi|19415470 0.694 0.504 0.685 1e-127
157114938 619 transcription initiation factor TFIID su 0.723 0.523 0.657 1e-127
195496206 611 GE19612 [Drosophila yakuba] gi|194181696 0.694 0.509 0.689 1e-127
194874194 611 GG16046 [Drosophila erecta] gi|190655140 0.694 0.509 0.689 1e-127
170032690 614 transcription initiation factor TFIID su 0.720 0.526 0.672 1e-127
>gi|189237918|ref|XP_001811805.1| PREDICTED: similar to transcription initiation factor TFIID subunit 6 [Tribolium castaneum] gi|270006675|gb|EFA03123.1| hypothetical protein TcasGA2_TC013033 [Tribolium castaneum] Back     alignment and taxonomy information
 Score =  482 bits (1240), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 236/336 (70%), Positives = 272/336 (80%), Gaps = 14/336 (4%)

Query: 116 PVDKSAQKLESISFKC----------MSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQF 165
           P D + +  E ISFK           + H+KR KL+  DID AL  KN+EP YG   ++ 
Sbjct: 32  PDDAAKELAEDISFKLKHIIQDAAKFVHHAKRTKLMQSDIDAALKAKNLEPQYGFQSAEG 91

Query: 166 LPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPP 225
           LPF+ ASGGGRELHF +EKEV   DLL NLN K+ LE  LR+HWL I+GVQPT+PENPPP
Sbjct: 92  LPFRFASGGGRELHFIEEKEVVLNDLLQNLNAKAPLEVSLRSHWLCIDGVQPTIPENPPP 151

Query: 226 VDKSAQKLESIDPISKLGKKDKDTSGKPTSAKLEKLRNVETVHVKQLATHELSVEQQLYY 285
           V K+ QKLES+DPI+K  K +K+TSGKPT+ K +KLRNVETV +KQLATHELSVEQQLYY
Sbjct: 152 VAKNIQKLESVDPINK--KPNKETSGKPTTGK-QKLRNVETVQIKQLATHELSVEQQLYY 208

Query: 286 KEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMR 345
           KEITEACVGSDE RR EALQSLA+DPGLHEMLPRMCTFI EGV+VNVVQNNLALLIYLMR
Sbjct: 209 KEITEACVGSDEARRAEALQSLASDPGLHEMLPRMCTFIIEGVRVNVVQNNLALLIYLMR 268

Query: 346 MVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNF 405
           MVKALLDNQSLYLEKYLHEL+PS+ +CIVSKQLC RPE DNHWALRDFASRL++Q+ KNF
Sbjct: 269 MVKALLDNQSLYLEKYLHELIPSVTTCIVSKQLCMRPELDNHWALRDFASRLMSQICKNF 328

Query: 406 NTSTNNIQTRVTRLLSNAIND-PKINFPSLYGAIAG 440
           NTSTNNIQTR+TR+ +NA+    K+   SLYGA+ G
Sbjct: 329 NTSTNNIQTRITRMFTNALQQGDKVPLSSLYGALEG 364

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|193695219|ref|XP_001947762.1| PREDICTED: transcription initiation factor TFIID subunit 6-like [Acyrthosiphon pisum] Back     alignment and taxonomy information
>gi|242015350|ref|XP_002428322.1| transcription initiation factor TFIID subunit, putative [Pediculus humanus corporis] gi|212512918|gb|EEB15584.1| transcription initiation factor TFIID subunit, putative [Pediculus humanus corporis] Back     alignment and taxonomy information
>gi|195591563|ref|XP_002085509.1| GD14815 [Drosophila simulans] gi|194197518|gb|EDX11094.1| GD14815 [Drosophila simulans] Back     alignment and taxonomy information
>gi|195354204|ref|XP_002043589.1| GM19603 [Drosophila sechellia] gi|194127757|gb|EDW49800.1| GM19603 [Drosophila sechellia] Back     alignment and taxonomy information
>gi|195377535|ref|XP_002047544.1| GJ13501 [Drosophila virilis] gi|194154702|gb|EDW69886.1| GJ13501 [Drosophila virilis] Back     alignment and taxonomy information
>gi|157114938|ref|XP_001652495.1| transcription initiation factor TFIID subunit 6 [Aedes aegypti] gi|108877125|gb|EAT41350.1| AAEL006988-PA [Aedes aegypti] Back     alignment and taxonomy information
>gi|195496206|ref|XP_002095595.1| GE19612 [Drosophila yakuba] gi|194181696|gb|EDW95307.1| GE19612 [Drosophila yakuba] Back     alignment and taxonomy information
>gi|194874194|ref|XP_001973357.1| GG16046 [Drosophila erecta] gi|190655140|gb|EDV52383.1| GG16046 [Drosophila erecta] Back     alignment and taxonomy information
>gi|170032690|ref|XP_001844213.1| transcription initiation factor TFIID subunit 6 [Culex quinquefasciatus] gi|167873043|gb|EDS36426.1| transcription initiation factor TFIID subunit 6 [Culex quinquefasciatus] 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 ?
Query448
FB|FBgn0010417 606 Taf6 "TBP-associated factor 6" 0.694 0.513 0.682 1.5e-127
ZFIN|ZDB-GENE-040912-23 636 taf6 "TAF6 RNA polymerase II, 0.698 0.492 0.591 1.7e-105
UNIPROTKB|Q91857 618 taf6 "Transcription initiation 0.698 0.506 0.579 4.1e-102
UNIPROTKB|Q58DG7 678 TAF6 "TBP-associated factor 6 0.720 0.476 0.548 3.4e-93
UNIPROTKB|E2RFB9 698 TAF6 "Uncharacterized protein" 0.720 0.462 0.548 3.4e-93
UNIPROTKB|J9NS44 678 TAF6 "Uncharacterized protein" 0.720 0.476 0.548 3.4e-93
UNIPROTKB|J3KR72 734 TAF6 "Transcription initiation 0.720 0.440 0.545 5.5e-93
UNIPROTKB|P49848 677 TAF6 "Transcription initiation 0.720 0.477 0.545 5.5e-93
RGD|1311608 678 Taf6 "TAF6 RNA polymerase II, 0.720 0.476 0.536 1.1e-92
MGI|MGI:109129 678 Taf6 "TAF6 RNA polymerase II, 0.720 0.476 0.536 1.1e-92
FB|FBgn0010417 Taf6 "TBP-associated factor 6" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 1144 (407.8 bits), Expect = 1.5e-127, Sum P(2) = 1.5e-127
 Identities = 213/312 (68%), Positives = 260/312 (83%)

Query:   130 KCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFE 189
             K M+H+KR KL   DID +L ++N+EP YG     F+PF+ ASGGGRELHFT++KE+D  
Sbjct:    63 KFMNHAKRQKLSVRDIDMSLKVRNVEPQYGFVAKDFIPFRFASGGGRELHFTEDKEIDLG 122

Query:   190 DLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESIDPISKLGKK-DKD 248
             ++ +  + K  L+  LR+HW  +EGVQPTVPENPPP+ K +Q L+S++P+ K+ +  +KD
Sbjct:   123 EITSTNSVKIPLDLTLRSHWFVVEGVQPTVPENPPPLSKDSQLLDSVNPVIKMDQGLNKD 182

Query:   249 TSGKPTSAKLEKLRNVETVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLA 308
              +GKPT+ K+ KL+NVET+HVKQLATHELSVEQQLYYKEITEACVGSDE RR EALQSL 
Sbjct:   183 AAGKPTTGKIHKLKNVETIHVKQLATHELSVEQQLYYKEITEACVGSDEPRRGEALQSLG 242

Query:   309 TDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPS 368
             +DPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMV+ALLDN SL+LEKYLHEL+PS
Sbjct:   243 SDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVRALLDNPSLFLEKYLHELIPS 302

Query:   369 ILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPK 428
             +++CIVSKQLC RPE DNHWALRDFASRL+ Q+ KNFNT TNN+QTRVTR+ S A+ + K
Sbjct:   303 VMTCIVSKQLCMRPELDNHWALRDFASRLMAQICKNFNTLTNNLQTRVTRIFSKALQNDK 362

Query:   429 INFPSLYGAIAG 440
              +  SLYG+IAG
Sbjct:   363 THLSSLYGSIAG 374
GO:0005634 "nucleus" evidence=NAS;IDA
GO:0006366 "transcription from RNA polymerase II promoter" evidence=IDA
GO:0005669 "transcription factor TFIID complex" evidence=ISS;IDA;IPI
GO:0001075 "RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly" evidence=IDA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=NAS
GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=ISS
GO:0046982 "protein heterodimerization activity" evidence=IEA
GO:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA
GO:0000124 "SAGA complex" evidence=IDA
GO:0022008 "neurogenesis" evidence=IMP
ZFIN|ZDB-GENE-040912-23 taf6 "TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|Q91857 taf6 "Transcription initiation factor TFIID subunit 6" [Xenopus laevis (taxid:8355)] Back     alignment and assigned GO terms
UNIPROTKB|Q58DG7 TAF6 "TBP-associated factor 6 isoform alpha" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2RFB9 TAF6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|J9NS44 TAF6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|J3KR72 TAF6 "Transcription initiation factor TFIID subunit 6" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|P49848 TAF6 "Transcription initiation factor TFIID subunit 6" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
RGD|1311608 Taf6 "TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:109129 Taf6 "TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor" [Mus musculus (taxid:10090)] 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) ?
Q62311TAF6_MOUSENo assigned EC number0.54900.69860.4616yesN/A
Q63801TAF6_RATNo assigned EC number0.54900.69860.4616yesN/A
P49847TAF6_DROMENo assigned EC number0.68260.69410.5132yesN/A
O74462TAF6_SCHPONo assigned EC number0.39370.66510.6592yesN/A
P49848TAF6_HUMANNo assigned EC number0.54900.69860.4623yesN/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 ?
Query448
cd08050343 cd08050, TAF6, TATA Binding Protein (TBP) Associat 1e-135
COG5095450 COG5095, TAF6, Transcription initiation factor TFI 7e-67
cd08050343 cd08050, TAF6, TATA Binding Protein (TBP) Associat 2e-31
pfam0757192 pfam07571, DUF1546, Protein of unknown function (D 3e-26
COG5095450 COG5095, TAF6, Transcription initiation factor TFI 5e-20
pfam0296966 pfam02969, TAF, TATA box binding protein associate 8e-09
smart0080365 smart00803, TAF, TATA box binding protein associat 9e-08
>gnl|CDD|173968 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 
 Score =  390 bits (1005), Expect = e-135
 Identities = 164/311 (52%), Positives = 218/311 (70%), Gaps = 18/311 (5%)

Query: 130 KCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFE 189
           K M HSKR KL   D++ AL ++N+EP+YG + S+ LPF+ ++GGG+EL++ ++KE+D +
Sbjct: 42  KFMRHSKRRKLTTSDVNHALRLRNVEPLYGFSSSEPLPFRVSTGGGQELYYVEDKEIDLK 101

Query: 190 DLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESIDPISKLGKKDKDT 249
           DL+    PK  L+  ++ HWLAIEGVQP +PENPPP     QK ES              
Sbjct: 102 DLINTPLPKVPLDVSVKAHWLAIEGVQPLIPENPPPSAIEVQKKES-------------- 147

Query: 250 SGKPTSAKLEKLRNVETVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLAT 309
                +A +++L+  E V +K L  H LS E QLY++EITEA VGS+E +R EALQSL T
Sbjct: 148 ---LANAAVKRLKKDEQVLLKPLVRHVLSKELQLYFEEITEALVGSNEEKRREALQSLRT 204

Query: 310 DPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSI 369
           DPGL ++LP    FIAEGV VN+ QN LALLIYLMRMV+ALLDN +L+LE YLH+L+PS+
Sbjct: 205 DPGLQQLLPYFVRFIAEGVTVNLDQN-LALLIYLMRMVRALLDNPNLHLEPYLHQLIPSV 263

Query: 370 LSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKI 429
           L+C+V+KQLC RP  DNHWALRD+A+RLL Q+ + F+TS N +Q R+TR L  A+ DPK 
Sbjct: 264 LTCLVAKQLCSRPPDDNHWALRDYAARLLAQICRKFSTSYNTLQPRITRTLLKALLDPKK 323

Query: 430 NFPSLYGAIAG 440
              + YGAI G
Sbjct: 324 PLTTHYGAIVG 334

The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as activator-binding sites, core-promoter recognition or a role in essential catalytic activity. These TAFs, with the help of specific activators, are required only for expression of a subset of genes and are not universally involved for transcription as are GTFs. In yeast and human cells, TAFs have been found as components of other complexes besides TFIID. Several TAFs interact via histone-fold (HFD) motifs; the HFD is the interaction motif involved in heterodimerization of the core histones and their assembly into nucleosome octamers. The minimal HFD contains three alpha-helices linked by two loops and is found in core histones, TAFs and many other transcription factors. TFIID has a histone octamer-like substructure. TAF6 is a shared subunit of histone acetyltransferase complex SAGA and TFIID complexes. TAF6 domain interacts with TAF9 and makes a novel histone-like heterodimer that is structurally related to histones H4 and H3. TAF6 may also interact with the downstream core promoter element (DPE). Length = 343
>gnl|CDD|227426 COG5095, TAF6, Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information
>gnl|CDD|173968 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
>gnl|CDD|203686 pfam07571, DUF1546, Protein of unknown function (DUF1546) Back     alignment and domain information
>gnl|CDD|227426 COG5095, TAF6, Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information
>gnl|CDD|145884 pfam02969, TAF, TATA box binding protein associated factor (TAF) Back     alignment and domain information
>gnl|CDD|129039 smart00803, TAF, TATA box binding protein associated factor Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 448
KOG2549|consensus 576 100.0
COG5095450 TAF6 Transcription initiation factor TFIID, subuni 100.0
cd08050343 TAF6 TATA Binding Protein (TBP) Associated Factor 100.0
COG5095450 TAF6 Transcription initiation factor TFIID, subuni 100.0
KOG2549|consensus576 100.0
cd08050343 TAF6 TATA Binding Protein (TBP) Associated Factor 99.97
PF0757192 DUF1546: Protein of unknown function (DUF1546); In 99.93
PF0296966 TAF: TATA box binding protein associated factor (T 99.71
smart0080365 TAF TATA box binding protein associated factor. TA 99.35
PF0296966 TAF: TATA box binding protein associated factor (T 98.68
cd0007685 H4 Histone H4, one of the four histones, along wit 98.39
PLN00035103 histone H4; Provisional 98.32
PTZ00015102 histone H4; Provisional 98.26
smart0080365 TAF TATA box binding protein associated factor. TA 97.77
PF1275597 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region 96.99
cd07979117 TAF9 TATA Binding Protein (TBP) Associated Factor 96.35
cd0007685 H4 Histone H4, one of the four histones, along wit 95.22
PLN00035103 histone H4; Provisional 95.02
COG203691 HHT1 Histones H3 and H4 [Chromatin structure and d 94.83
PF0012575 Histone: Core histone H2A/H2B/H3/H4 histone h2a si 94.67
PTZ00015102 histone H4; Provisional 94.41
PF0298531 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT re 93.81
smart0041774 H4 Histone H4. 92.98
smart0057677 BTP Bromodomain transcription factors and PHD doma 92.54
PF1351355 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O 91.06
PF12348228 CLASP_N: CLASP N terminal; InterPro: IPR024395 Thi 90.09
KOG3467|consensus103 89.96
cd0798172 TAF12 TATA Binding Protein (TBP) Associated Factor 87.11
PF11864 464 DUF3384: Domain of unknown function (DUF3384); Int 84.43
smart00428105 H3 Histone H3. 83.22
PF0752477 Bromo_TP: Bromodomain associated; InterPro: IPR006 82.16
cd00020120 ARM Armadillo/beta-catenin-like repeats. An approx 80.88
PF0080865 CBFD_NFYB_HMF: Histone-like transcription factor ( 80.83
KOG2023|consensus 885 80.14
>KOG2549|consensus Back     alignment and domain information 
Probab=100.00  E-value=6.3e-102  Score=802.93  Aligned_cols=362  Identities=54%  Similarity=0.862  Sum_probs=335.8

Q ss_pred             cCCCCC-HHHHHHHHHhcCCCCccHHHHHHhHHhHHHHHHhhcccccCCCCCCCccccccCCCCcceeeccCccccHHHH
Q psy11212          4 YGTSFS-IESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDL   82 (448)
Q Consensus         4 ~~~~~~-~~~~~~~a~~~~~~~~~~~~~k~m~~d~~~~l~~~~ep~~g~~~~~~~~f~~~~~~~~~~~~~~d~e~d~~~~   82 (448)
                      ..+.++ .|..|.+||++||.+|.+|+++.+++|++|++|+.++-                                   
T Consensus         7 ~~~v~s~~Es~k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~-----------------------------------   51 (576)
T KOG2549|consen    7 SPTVVSPKESVKVVAESLGITNLNDEAALLLAEDVEYRIKEIVQD-----------------------------------   51 (576)
T ss_pred             cccccCcHHHHHHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHH-----------------------------------
Confidence            345556 99999999999999999999999999999999997766                                   


Q ss_pred             hhccCCCCCcccceeeeEEEeeccCCCCCCCCCCCCcchhhhhhhhhhhhcccCCccCChhHHHHHHHhcCCCCCcCCCC
Q psy11212         83 LTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESISFKCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTV  162 (448)
Q Consensus        83 ~~~~~p~~~~~~~~~~hwlaieg~qp~ip~np~~~~~~~q~l~~~A~Kfm~hskR~kLt~~DIn~AL~~~niEPLyGy~s  162 (448)
                                                                   |.|||+||||++||++||++|||++|+||+|||.+
T Consensus        52 ---------------------------------------------aaKfm~hskR~kLtv~DV~~ALr~~nVep~yg~~s   86 (576)
T KOG2549|consen   52 ---------------------------------------------AAKFMVHSKRTKLTVDDVDYALRSLNVEPLYGFGA   86 (576)
T ss_pred             ---------------------------------------------HHHHhhcCCCCcCcHHHHHHHHhhcccccccCccc
Confidence                                                         99999999999999999999999999999999999


Q ss_pred             CCccCceecCCCCceeEeeccccccHHHHHhccCCCCCCccceEEEEEEecCccCCCCCCCCCCCccccccccCCccccc
Q psy11212        163 SQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESIDPISKL  242 (448)
Q Consensus       163 ~~~~~f~~~s~~g~~l~~~~D~evdL~~ii~~~lpkiP~~~~~~aHWLaIeGvQP~IPeNp~~~~~~~~~~~~~~p~~~~  242 (448)
                      .+.++|+.++++|+++||.+|+||||++++++||||+|+++++++|||+||||||+|||||++.+++.++.+...+....
T Consensus        87 ~~~i~fr~a~~~~r~ly~~~d~EVD~d~~i~~plpkvP~d~~i~sHWL~iEGVQP~iPeNp~p~~~~~~~~~~~~~~~~~  166 (576)
T KOG2549|consen   87 QEIIPFRKASGGGRELYYPEDEEVDLDEIINAPLPKVPLDVSIKSHWLAIEGVQPAIPENPPPLEKNVQKKEVIEPAIKA  166 (576)
T ss_pred             CceeeccccCCCCceeecCchhhcchhhhhcCCCCCCCccceeeeeeeeeccccccCCCCCCccccchhhhcccchhhhc
Confidence            99999999998889999999999999999999999999999999999999999999999999999877665655554433


Q ss_pred             CCCCCCCCCCCc--hhHHhhhccccceeeeccccccchHHHHHHHHHHHHHhcCCCHHHHHHHHHhhhcCCCcccchhhH
Q psy11212        243 GKKDKDTSGKPT--SAKLEKLRNVETVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRM  320 (448)
Q Consensus       243 ~~~~~~~~g~~~--~~~~~~~~~~~~v~vkp~~~h~LSkElQlyf~~It~al~~~~e~~r~~aL~sL~tD~gL~qLlPyf  320 (448)
                      ..+.  ..++++  +.+...+...+++.+||+++|+||+|||+||++||++|+|+|+.+|++||++|+||+|||||||||
T Consensus       167 ~~~~--~~~~~~~~~~~~~~~k~~e~~~~Kp~~~h~LS~ElQlYy~~It~a~~g~~~~~r~eAL~sL~TDsGL~~LlPyF  244 (576)
T KOG2549|consen  167 PEGN--NPGASTKSSDAVKTLKIGEPVELKPSSKHVLSVELQLYYKEITEACTGSDEPLRQEALQSLETDSGLQQLLPYF  244 (576)
T ss_pred             cCCC--CCCccccccccccccccCCcccccccchhhccHHHHHHHHHHHHHHhcCCHHHHHHHHHhhccCccHHHHHHHH
Confidence            3322  222222  133444566789999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhhhccccCCHHHHHHHHHHHHHHhcCCCcccccchhhHHHHHHHHhhccccCCCCCCCcchHHHHHHHHHHHH
Q psy11212        321 CTFIAEGVKVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQ  400 (448)
Q Consensus       321 v~FI~e~V~~nl~~~nl~~L~~ll~~v~ALl~N~~l~iepYlHqLlp~lLtCll~k~l~~~~~~~~hw~LRd~AA~lL~~  400 (448)
                      ++||+++|+.|++++|+..|+++|+|++||++||+||+|||||+|||+||||+|+|++|.+|+.+|||+|||+||++|+.
T Consensus       245 v~fIae~vs~ni~~~nL~lL~~lm~m~rSLl~Np~i~lepYlh~L~PSvlTCvVsk~l~~~p~~dnhwaLRDfAA~ll~~  324 (576)
T KOG2549|consen  245 VTFIAEGVSVNIVQNNLELLIYLMRMVRSLLDNPNIFLEPYLHQLVPSVLTCVVSKNLCLRPELDNHWALRDFAARLLAQ  324 (576)
T ss_pred             HHHHhhheeeccccccHHHHHHHHHHHHHHhcCCccchhhHHHHHhhHHHHhhhhhhccCCccccchHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCCcchHHHHHHHHHHHhcCCCCCccchhhhhhhhcccCCC
Q psy11212        401 VSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAIAGEGLVTER  447 (448)
Q Consensus       401 I~~~~~~sy~~L~~RI~~tl~k~l~d~~~~l~t~YGAl~GL~alG~~  447 (448)
                      ||++|++.|++|++||++||.|+|.|+++++++|||||+||++||.+
T Consensus       325 i~k~f~~~y~~L~~Rit~tl~k~l~D~~~~~st~YGai~gL~~lg~~  371 (576)
T KOG2549|consen  325 ICKNFSTLYNNLQPRITRTLSKALLDNKKPLSTHYGAIAGLSELGHE  371 (576)
T ss_pred             HHHhhhhHHHHHHHHHHHHHHHHhcCCCCCchhhhhHHHHHHHhhhh
Confidence            99999999999999999999999999999999999999999999964

>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription] 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
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information
>KOG2549|consensus 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
>PF07571 DUF1546: Protein of unknown function (DUF1546); InterPro: IPR011442 These proteins are associated with IPR004823 from INTERPRO in transcription initiation factor TFIID subunit 6 (TAF6) 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
>smart00803 TAF TATA box binding protein associated factor 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
>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
>PLN00035 histone H4; Provisional Back     alignment and domain information
>PTZ00015 histone H4; Provisional Back     alignment and domain information
>smart00803 TAF TATA box binding protein associated factor Back     alignment and domain information
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region 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
>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
>PLN00035 histone H4; Provisional 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
>PTZ00015 histone H4; Provisional Back     alignment and domain information
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 [] Back     alignment and domain information
>smart00417 H4 Histone H4 Back     alignment and domain information
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins Back     alignment and domain information
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B Back     alignment and domain information
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ] Back     alignment and domain information
>KOG3467|consensus 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
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised Back     alignment and domain information
>smart00428 H3 Histone H3 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
>cd00020 ARM Armadillo/beta-catenin-like repeats 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
>KOG2023|consensus 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 ?
Query448
4atg_A196 Taf6 C-Terminal Domain From Antonospora Locustae Le 2e-08
1taf_B70 Drosophila Tbp Associated Factors Dtafii42DTAFII62 9e-08
>pdb|4ATG|A Chain A, Taf6 C-Terminal Domain From Antonospora Locustae Length = 196 Back     alignment and structure 
Iteration: 1

 Score = 57.4 bits (137), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 42/171 (24%), Positives = 87/171 (50%), Gaps = 22/171 (12%)
Query: 273 ATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGV---- 328
            +H L  E QLY+ +I  + + SD   +  A++ L  + GL +++P     I+E +    
Sbjct: 1   GSHMLPKELQLYFDKIL-SMIKSD--MKDIAIECLEKESGLQQLVPYFIQHISELILKSF 57
Query: 329 -KVNVVQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNH 387
            +  V++  +AL         +L+ N+ ++++ YLH++LPS+L+C++     G+   D+ 
Sbjct: 58  KEAEVLKTCIALYF-------SLIKNKHVFIDPYLHQILPSLLTCVI-----GKSIVDDD 105
Query: 388 WALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAI 438
             +R  ++ ++  +   ++ S   +  RV + L     DP  +  S YGA+
Sbjct: 106 --VRKMSADIVKYIYDTYSRSYKTLAPRVLKTLKGVWMDPNRSEDSQYGAL 154
>pdb|1TAF|B Chain B, Drosophila Tbp Associated Factors Dtafii42DTAFII62 HETEROTETRAMER Length = 70 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 ?
Query448
4atg_A196 TAF6; transcription, TFIID; HET: NHE; 1.89A {Anton 1e-60
1taf_B70 TFIID TBP associated factor 62; transcription init 1e-11
>4atg_A TAF6; transcription, TFIID; HET: NHE; 1.89A {Antonospora locustae} Length = 196 Back     alignment and structure
 Score =  195 bits (496), Expect = 1e-60
 Identities = 37/168 (22%), Positives = 79/168 (47%), Gaps = 12/168 (7%)

Query: 273 ATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNV 332
            +H L  E QLY+ +I           +  A++ L  + GL +++P     I+E +  + 
Sbjct: 1   GSHMLPKELQLYFDKILSMIKSD---MKDIAIECLEKESGLQQLVPYFIQHISELILKSF 57

Query: 333 VQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRD 392
                 +L   + +  +L+ N+ ++++ YLH++LPS+L+C++ K +           +R 
Sbjct: 58  --KEAEVLKTCIALYFSLIKNKHVFIDPYLHQILPSLLTCVIGKSIVDDD-------VRK 108

Query: 393 FASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAIAG 440
            ++ ++  +   ++ S   +  RV + L     DP  +  S YGA+  
Sbjct: 109 MSADIVKYIYDTYSRSYKTLAPRVLKTLKGVWMDPNRSEDSQYGALYC 156
>1taf_B TFIID TBP associated factor 62; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3 Length = 70 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query448
4atg_A196 TAF6; transcription, TFIID; HET: NHE; 1.89A {Anton 100.0
1taf_B70 TFIID TBP associated factor 62; transcription init 99.61
2hue_C84 Histone H4; mini beta sheet, elongated beta sandwh 99.15
1id3_B102 Histone H4; nucleosome core particle, chromatin, p 99.11
2yfw_B103 Histone H4, H4; cell cycle, kinetochore, centromer 98.98
1tzy_D103 Histone H4-VI; histone-fold, tetramer-dimer-dimer, 98.97
1taf_B70 TFIID TBP associated factor 62; transcription init 98.34
2hue_C84 Histone H4; mini beta sheet, elongated beta sandwh 98.09
1id3_B102 Histone H4; nucleosome core particle, chromatin, p 98.03
1tzy_D103 Histone H4-VI; histone-fold, tetramer-dimer-dimer, 97.67
2ly8_A121 Budding yeast chaperone SCM3; centromere protein, 97.64
2yfw_B103 Histone H4, H4; cell cycle, kinetochore, centromer 97.62
2l5a_A235 Histone H3-like centromeric protein CSE4, protein 97.12
1ku5_A70 HPHA, archaeal histon; histone fold, DNA binding p 96.95
2qk2_A242 LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2 96.72
1ibr_B462 P95, importin beta-1 subunit, nuclear factor; smal 96.35
4fdd_A 852 Transportin-1; heat repeats, karyopherin, nuclear 96.33
2bpt_A 861 Importin beta-1 subunit; nuclear transport, nucleo 95.52
1qgr_A 876 Protein (importin beta subunit); transport recepto 94.7
1b67_A68 Protein (histone HMFA); DNA binding protein; 1.48A 94.58
1ibr_B462 P95, importin beta-1 subunit, nuclear factor; smal 94.44
3b0c_T111 CENP-T, centromere protein T; histone fold, DNA bi 94.29
4fdd_A 852 Transportin-1; heat repeats, karyopherin, nuclear 93.21
1u6g_C 1230 TIP120 protein, CAND1; cullin repeat, heat repeat, 92.97
2bpt_A 861 Importin beta-1 subunit; nuclear transport, nucleo 92.6
1f1e_A154 Histone fold protein; archaeal histone protein, DN 92.33
1qgr_A 876 Protein (importin beta subunit); transport recepto 92.21
1u6g_C 1230 TIP120 protein, CAND1; cullin repeat, heat repeat, 91.85
2qk2_A242 LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2 91.83
1b3u_A 588 Protein (protein phosphatase PP2A); scaffold prote 91.76
1b3u_A 588 Protein (protein phosphatase PP2A); scaffold prote 91.67
2ly8_A121 Budding yeast chaperone SCM3; centromere protein, 91.61
4db8_A252 Armadillo-repeat protein; solenoid repeat, de novo 91.1
1taf_A68 TFIID TBP associated factor 42; transcription init 90.98
1f1e_A154 Histone fold protein; archaeal histone protein, DN 90.82
2qk1_A249 Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h 90.81
1n1j_A93 NF-YB; histone-like PAIR, DNA binding protein; 1.6 90.49
2qk1_A249 Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h 89.62
3b0c_W76 CENP-W, centromere protein W; histone fold, DNA bi 89.45
2vgl_B 591 AP-2 complex subunit beta-1; cytoplasmic vesicle, 89.12
4hxt_A252 De novo protein OR329; structural genomics, PSI-bi 88.18
3nqj_A82 Histone H3-like centromeric protein A; alpha helix 88.16
2hue_B77 Histone H3; mini beta sheet, elongated beta sandwh 87.61
1oyz_A 280 Hypothetical protein YIBA; structural genomics, PS 87.45
4db6_A210 Armadillo repeat protein; solenoid repeat, armadil 87.04
2jdq_A 450 Importin alpha-1 subunit; transport, PB2 subunit, 84.89
3ltj_A201 Alpharep-4; protein engineering, heat-like repeat, 84.64
1oyz_A280 Hypothetical protein YIBA; structural genomics, PS 84.4
3ltm_A211 Alpha-REP4; protein engineering, heat-like repeat, 83.7
3v9r_A90 MHF1, uncharacterized protein YOL086W-A; histone f 83.56
3b0b_B107 CENP-S, centromere protein S; histone fold, DNA bi 83.11
4ffb_C278 Protein STU2; tubulin fold, heat repeats, cytoskel 82.99
2jdq_A 450 Importin alpha-1 subunit; transport, PB2 subunit, 82.6
2byk_B128 Chrac-14; nucleosome sliding, histone fold, DNA-bi 82.16
4db8_A252 Armadillo-repeat protein; solenoid repeat, de novo 82.04
2vgl_A 621 Adaptor protein complex AP-2, alpha 2 subunit; cyt 80.86
3nqu_A140 Histone H3-like centromeric protein A; alpha helix 80.85
1tzy_C136 Histone H3; histone-fold, tetramer-dimer-dimer, DN 80.3
>4atg_A TAF6; transcription, TFIID; HET: NHE; 1.89A {Antonospora locustae} Back     alignment and structure
Probab=100.00  E-value=1.1e-54  Score=408.35  Aligned_cols=162  Identities=23%  Similarity=0.465  Sum_probs=157.9

Q ss_pred             cccchHHHHHHHHHHHHHhcCCCHHHHHHHHHhhhcCCCcccchhhHHHHHHhhhhhccccCCHHHHHHHHHHHHHHhcC
Q psy11212        274 THELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNVVQNNLALLIYLMRMVKALLDN  353 (448)
Q Consensus       274 ~h~LSkElQlyf~~It~al~~~~e~~r~~aL~sL~tD~gL~qLlPyfv~FI~e~V~~nl~~~nl~~L~~ll~~v~ALl~N  353 (448)
                      ||+||+|+|+||++||++|++   ..|++||++|++|||||||+|||++||+++|++|+  +|+..|.++|+|++||++|
T Consensus         2 kh~LS~Elq~yf~~It~a~~~---~~r~~aL~sL~~D~gL~~LlPyf~~fI~~~v~~nl--~~l~~L~~lm~~~~ALl~N   76 (196)
T 4atg_A            2 SHMLPKELQLYFDKILSMIKS---DMKDIAIECLEKESGLQQLVPYFIQHISELILKSF--KEAEVLKTCIALYFSLIKN   76 (196)
T ss_dssp             GGGSCHHHHHHHHHHHHHHTS---TTHHHHHHHHHHCSSCTTTHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHHHC
T ss_pred             CcccCHHHHHHHHHHHHHHHh---HHHHHHHHHHhcCCChhhhHHHHHHHHHHHHHhcc--CCHHHHHHHHHHHHHHHcC
Confidence            799999999999999999998   57999999999999999999999999999999998  7999999999999999999


Q ss_pred             CCcccccchhhHHHHHHHHhhccccCCCCCCCcchHHHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcCCCCCccc
Q psy11212        354 QSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPS  433 (448)
Q Consensus       354 ~~l~iepYlHqLlp~lLtCll~k~l~~~~~~~~hw~LRd~AA~lL~~I~~~~~~sy~~L~~RI~~tl~k~l~d~~~~l~t  433 (448)
                      |+++||||+|||+|++|||+|++++|.+       +|||+||++|+.||++|+++|++|++||+++|.|+|+||++|+++
T Consensus        77 ~~l~lepYlH~LipsvLtCll~k~l~~~-------~LRd~AA~lL~~I~~~~~~~y~~L~~RI~~tl~k~l~dp~~~l~t  149 (196)
T 4atg_A           77 KHVFIDPYLHQILPSLLTCVIGKSIVDD-------DVRKMSADIVKYIYDTYSRSYKTLAPRVLKTLKGVWMDPNRSEDS  149 (196)
T ss_dssp             TTCCCGGGHHHHHHHHHHHHHCTTCCCH-------HHHHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHTCTTSCHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHHhcccCHH-------HHHHHHHHHHHHHHHHhCccCchHHHHHHHHHHHHHcCCCCChHH
Confidence            9999999999999999999999999874       899999999999999999999999999999999999999999999


Q ss_pred             hhhhhhhhcccCCC
Q psy11212        434 LYGAIAGEGLVTER  447 (448)
Q Consensus       434 ~YGAl~GL~alG~~  447 (448)
                      |||||+||++||++
T Consensus       150 ~YGAi~GL~~lG~~  163 (196)
T 4atg_A          150 QYGALYCLSILSKN  163 (196)
T ss_dssp             HHHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHhHHH
Confidence            99999999999964
>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
>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
>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140} 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
>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
>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
>2ly8_A Budding yeast chaperone SCM3; centromere protein, CENH3 variants, partially unfolded; NMR {Saccharomyces cerevisiae} 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
>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
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A {Pyrococcus horikoshii} SCOP: a.22.1.2 Back     alignment and structure
>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster} Back     alignment and structure
>1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear transport receptor, cell cycle, translation; HET: GNP; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A 1f59_A 1o6o_A 1o6p_A Back     alignment and structure
>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B* Back     alignment and structure
>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A Back     alignment and structure
>1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A 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
>1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear transport receptor, cell cycle, translation; HET: GNP; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A 1f59_A 1o6o_A 1o6p_A 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
>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B* Back     alignment and structure
>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A Back     alignment and structure
>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A 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
>1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A Back     alignment and structure
>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A Back     alignment and structure
>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster} Back     alignment and structure
>1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A Back     alignment and structure
>1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A Back     alignment and structure
>2ly8_A Budding yeast chaperone SCM3; centromere protein, CENH3 variants, partially unfolded; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct} 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
>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
>2qk1_A Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, heat repeat, microtubule plus END, +TIP, protein binding; 1.70A {Saccharomyces cerevisiae} 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
>2qk1_A Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, heat repeat, microtubule plus END, +TIP, protein binding; 1.70A {Saccharomyces cerevisiae} 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
>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B 1w63_B Back     alignment and structure
>4hxt_A De novo protein OR329; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.95A {Artificial gene} 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
>2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} Back     alignment and structure
>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16 Back     alignment and structure
>4db6_A Armadillo repeat protein; solenoid repeat, armadillo repeat motif, de novo protein; 1.80A {Synthetic construct} PDB: 4db9_A 4dba_A Back     alignment and structure
>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A Back     alignment and structure
>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic} Back     alignment and structure
>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16 Back     alignment and structure
>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic} 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
>3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA, nucleus, DNA binding protein; 2.15A {Gallus gallus} Back     alignment and structure
>4ffb_C Protein STU2; tubulin fold, heat repeats, cytoskeleton, microtubule, tubul domain, hydrolase; HET: GTP; 2.88A {Saccharomyces cerevisiae} Back     alignment and structure
>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A 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
>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct} Back     alignment and structure
>2vgl_A Adaptor protein complex AP-2, alpha 2 subunit; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Rattus norvegicus} PDB: 2xa7_A 2jkr_A 2jkt_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
>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

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 448
d1tafb_70 a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila mel 7e-13
d1tafb_70 a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila mel 0.001
d2huec182 a.22.1.1 (C:20-101) Histone H4 {African clawed fro 0.004
>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 70 Back     information, alignment and structure

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)62
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 61.2 bits (149), Expect = 7e-13
 Identities = 26/44 (59%), Positives = 36/44 (81%)

Query: 3  IYGTSFSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQ 46
          +YG+S S ESMKVIAESIG+ +L DDAAKEL+++++   K I+Q
Sbjct: 2  LYGSSISAESMKVIAESIGVGSLSDDAAKELAEDVSIKLKRIVQ 45
>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 70 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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query448
d1tafb_70 TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta 99.8
d2huec182 Histone H4 {African clawed frog (Xenopus laevis) [ 99.35
d1tafb_70 TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta 98.89
d2huec182 Histone H4 {African clawed frog (Xenopus laevis) [ 98.52
d1htaa_68 Archaeal histone {Archaeon Methanothermus fervidus 98.03
d1f1ea_151 Archaeal histone {Archaeon Methanopyrus kandleri [ 97.16
d1ku5a_66 Archaeal histone {Archaeon (Pyrococcus horikoshii) 94.53
d1ibrb_458 Importin beta {Human (Homo sapiens) [TaxId: 9606]} 93.55
d1ibrb_458 Importin beta {Human (Homo sapiens) [TaxId: 9606]} 93.22
d2bpta1 861 Importin beta {Baker's yeast (Saccharomyces cerevi 92.86
d1qbkb_ 888 Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96 92.24
d1qbkb_ 888 Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96 92.0
d1b3ua_588 Constant regulatory domain of protein phosphatase 91.21
d1b3ua_588 Constant regulatory domain of protein phosphatase 90.77
d1oyza_ 276 Hypothetical protein YibA {Escherichia coli [TaxId 89.85
d1qgra_ 876 Importin beta {Human (Homo sapiens) [TaxId: 9606]} 86.86
d1htaa_68 Archaeal histone {Archaeon Methanothermus fervidus 86.6
d2bykb189 Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax 86.26
d1n1ja_87 Nuclear transcription factor Y subunit beta (Nf-Yb 85.89
d2bpta1 861 Importin beta {Baker's yeast (Saccharomyces cerevi 85.0
d2vglb_ 579 Adaptin beta subunit N-terminal fragment {Human (H 84.13
d1f1ea_151 Archaeal histone {Archaeon Methanopyrus kandleri [ 83.94
d1u6gc_ 1207 Cullin-associated NEDD8-dissociated protein 1 (Tip 83.81
d1qgra_ 876 Importin beta {Human (Homo sapiens) [TaxId: 9606]} 83.63
d1tzyc_95 Histone H3 {Chicken (Gallus gallus), erythrocytes 82.6
d1u6gc_ 1207 Cullin-associated NEDD8-dissociated protein 1 (Tip 82.54
d1tafa_68 TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta 81.32
d1n1jb_78 Nuclear transcription factor Y subunit gamma (Nf-Y 80.34
>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)62
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.80  E-value=2.2e-20  Score=144.50  Aligned_cols=69  Identities=54%  Similarity=0.723  Sum_probs=66.4

Q ss_pred             ccCCCCCHHHHHHHHHhcCCCCccHHHHHHhHHhHHHHHHhhcccccCCCCCCCccccccCCCCcceeeccCccccHHHH
Q psy11212          3 IYGTSFSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDL   82 (448)
Q Consensus         3 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~k~m~~d~~~~l~~~~ep~~g~~~~~~~~f~~~~~~~~~~~~~~d~e~d~~~~   82 (448)
                      ++|+.++.|++|.+||++||.++.+|+++.+++||+|+||..+|.                                   
T Consensus         2 ~~~S~~~~esik~iAeS~Gi~~l~de~a~~LA~DveYRl~eiiQe-----------------------------------   46 (70)
T d1tafb_           2 LYGSSISAESMKVIAESIGVGSLSDDAAKELAEDVSIKLKRIVQD-----------------------------------   46 (70)
T ss_dssp             CCSCCCCHHHHHHHHHHTTCCCBCHHHHHHHHHHHHHHHHHHHHH-----------------------------------
T ss_pred             CCcccCCHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHH-----------------------------------
Confidence            689999999999999999999999999999999999999998888                                   


Q ss_pred             hhccCCCCCcccceeeeEEEeeccCCCCCCCCCCCCcchhhhhhhhhhhhcccCCccCChhHHHHHHHh
Q psy11212         83 LTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESISFKCMSHSKRVKLLPVDIDDALNM  151 (448)
Q Consensus        83 ~~~~~p~~~~~~~~~~hwlaieg~qp~ip~np~~~~~~~q~l~~~A~Kfm~hskR~kLt~~DIn~AL~~  151 (448)
                                                                   |.||||||||++||++|||+|||+
T Consensus        47 ---------------------------------------------A~KFMrhskR~~Ltt~Did~ALkv   70 (70)
T d1tafb_          47 ---------------------------------------------AAKFMNHAKRQKLSVRDIDMSLKV   70 (70)
T ss_dssp             ---------------------------------------------HHHHHHHTTCSSBCHHHHHHHHC-
T ss_pred             ---------------------------------------------HHHHHHHhccCcCcHHHHHHHHcC
Confidence                                                         999999999999999999999985
>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} 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
>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
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Back     information, alignment and structure
>d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]} Back     information, alignment and structure
>d1ibrb_ a.118.1.1 (B:) Importin beta {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ibrb_ a.118.1.1 (B:) Importin beta {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1oyza_ a.118.1.16 (A:) Hypothetical protein YibA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1qgra_ a.118.1.1 (A:) Importin beta {Human (Homo sapiens) [TaxId: 9606]} 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
>d2bykb1 a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} 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
>d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Back     information, alignment and structure
>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1qgra_ a.118.1.1 (A:) Importin beta {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tzyc_ a.22.1.1 (C:) Histone H3 {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Back     information, alignment and structure
>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {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
>d1n1jb_ a.22.1.3 (B:) Nuclear transcription factor Y subunit gamma (Nf-Yc2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure