Citrus Sinensis ID: 011039

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-----
MRHSRRTTLTTDDVDEALKLRNVEPVYGFASGGPLRFRRAIGYRDLFYLDDKDVEFKDVIEAPLPRAPLDTSIVCHWLAIEGVQPVIPENAPVQAIAAPSNGTNNEQKDGLPVEIKLPVKHILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLNNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVRLLLLPNLGPYLSLLEPEMLLEKQKNEVKRHEAWRVYGALLQAAGQCIYDRLKIFPPLSSLPARSVWKTNGIVATLSNKRKTSMDLEEQPPLKKIATDGPVDAVSTSSMPTPMEEDATAATPLDNSDADHPSPSSVQIPPDSGSESRSKRDKGDSQAQKLSAILPQVWKDDLNSGKLLVSLFELFGEGILSFIPAPEMSLFL
ccccccccccHHHHHHHHHHccccccccccccccccEEEccccccEEEEccccccHHHHHHccccccccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccccHHcHHHHHHHHHcHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccHHHHHHHHHHccccccccccccccccc
cccccccEccHHHHHHHHHHccccccccccccccccccccccccEEEEEccccccHHHHHHccccccccccEEEEEEEEEcccccccccccccHHccccccccccccccccccccccccEEHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcHHccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcHHHHHHHHcHcHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccEEcccccccccccccccccccHHcccccccccEcccccccccccccccccccccccccccccccccccccccccccccccccccHccHHHHHHHHHHHHccccHHHHHHHHHHHcHHHccccccccEEEcc
mrhsrrttlttdDVDEALklrnvepvygfasggplrfrraigyrdlfylddkdvefkdvieaplprapldtsivCHWLAiegvqpvipenapvqaiaapsngtnneqkdglpveiklpVKHILSRELQLYFDKITELAVSRSDSVLFKQALVSLatdsglhplvpyfTYFVADEVSRGLNNYSLLFALMRVVWNLLqnphiqiepylhqlMPSVVTCLVAKRLGNRLADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVRLLLlpnlgpylsllepemLLEKQKNEVKRHEAWRVYGALLQAAGQCIYdrlkifpplsslparsvwkTNGIVATLSNkrktsmdleeqpplkkiatdgpvdavstssmptpmeedataatpldnsdadhpspssvqippdsgsesrskrdkgdsQAQKLSAILPQvwkddlnsgKLLVSLFELFGegilsfipapemslfl
mrhsrrttlttddvdealklrnvepvygfasggplrfrRAIGYRDLFYLDDKDVEFKDVIEAPLPRAPLDTSIVCHWLAIEGVQPVIPENAPVQAIAAPSNGTNNEQKDGLPVEIKLPVKHILSRELQLYFDKITELAVSRSDSVLFKQALVSlatdsglhpLVPYFTYFVADEVSRGLNNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVRLLLLPNLGPYLSLLEPEMLLEKQKNEVKRHEAWRVYGALLQAAGQCIYDRLKIFpplsslparsvwkTNGIVAtlsnkrktsmdleeqpplkkiatdgpvDAVSTSSMPTPMEEDATAATPLDNSDADhpspssvqippdsgsesrskrdkgdsqAQKLSAILPQVWKDDLNSGKLLVSLFELFGEGilsfipapemslfl
MRHSRRTTLTTDDVDEALKLRNVEPVYGFASGGPLRFRRAIGYRDLFYLDDKDVEFKDVIEAPLPRAPLDTSIVCHWLAIEGVQPVIPENAPVQAIAAPSNGTNNEQKDGLPVEIKLPVKHILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLNNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAAlgpnvvrllllpnlgpylsllEPEMLLEKQKNEVKRHEAWRVYGALLQAAGQCIYDRLKIFPPLSSLPARSVWKTNGIVATLSNKRKTSMDLEEQPPLKKIATDGPVDAVSTSSMPTPMEEDATAATPLDNSDADHPSPSSVQIPPDSGSESRSKRDKGDSQAQKLSAILPQVWKDDLNSGKLLVSLFELFGEGILSFIPAPEMSLFL
****************ALKLRNVEPVYGFASGGPLRFRRAIGYRDLFYLDDKDVEFKDVIEAPLPRAPLDTSIVCHWLAIEGVQPVIPENAPV*****************LPVEIKLPVKHILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLNNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVRLLLLPNLGPYLSLLEPEMLLEKQKNEVKRHEAWRVYGALLQAAGQCIYDRLKIFPPLSSLPARSVWKTNGIVATL*************************************************************************************AILPQVWKDDLNSGKLLVSLFELFGEGILSFIPA*******
*****RT**TTDDVDEALKLRNVEPVYGFASGGPLRFRRAIGYRDLFYLDDKDVEFKDVIEAPLPRAPLDTSIVCHWLAIEGV****************************************SRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLNNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVRLLLLPNLGPYLSLLE****************AWRVYGALLQAAGQCIY*********************GIVA*************************************************************************************************LNSGKLLVSLFELFGEGILSFIPAPEMSLFL
*********TTDDVDEALKLRNVEPVYGFASGGPLRFRRAIGYRDLFYLDDKDVEFKDVIEAPLPRAPLDTSIVCHWLAIEGVQPVIPENAPVQAIAAPSNGTNNEQKDGLPVEIKLPVKHILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLNNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVRLLLLPNLGPYLSLLEPEMLLEKQKNEVKRHEAWRVYGALLQAAGQCIYDRLKIFPPLSSLPARSVWKTNGIVATLSNKRKTSMDLEEQPPLKKIATDGPVDAVSTSSMPTPMEEDATAATPLD**********************************KLSAILPQVWKDDLNSGKLLVSLFELFGEGILSFIPAPEMSLFL
*****RTTLTTDDVDEALKLRNVEPVYGFASGGPLRFRRAIGYRDLFYLDDKDVEFKDVIEAPLPRAPLDTSIVCHWLAIEGVQPVIPENAPVQAI***************PVEIKLPVKHILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLNNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVRLLLLPNLGPYLSLLEPEMLLEKQKNEVKRHEAWRVYGALLQAAGQCIYDRLKIFPPLSSLPARSV**T******************************PVD********************************************************KLSAILPQVWKDDLNSGKLLVSLFELFGEGILSFIPAPEMSLFL
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MRHSRRTTLTTDDVDEALKLRNVEPVYGFASGGPLRFRRAIGYRDLFYLDDKDVEFKDVIEAPLPRAPLDTSIVCHWLAIEGVQPVIPENAPVQAIAAPSNGTNNEQKDGLPVEIKLPVKHILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLNNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVRLLLLPNLGPYLSLLEPEMLLEKQKNEVKRHEAWRVYGALLQAAGQCIYDRLKIFPPLSSLPARSVWKTNGIVATLSNKRKTSMDLEEQPPLKKIATDGPVDAVSTSSMPTPMEEDATAATPLDNSDADHPSPSSVQIPPDSGSESRSKRDKGDSQAQKLSAILPQVWKDDLNSGKLLVSLFELFGEGILSFIPAPEMSLFL
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 ?
Query495 2.2.26 [Sep-21-2011]
O74462452 Transcription initiation yes no 0.652 0.714 0.438 8e-76
Q91857618 Transcription initiation N/A no 0.606 0.485 0.414 2e-65
Q62311678 Transcription initiation yes no 0.606 0.442 0.405 5e-65
Q63801678 Transcription initiation no no 0.606 0.442 0.405 6e-65
P49848677 Transcription initiation yes no 0.606 0.443 0.402 1e-64
P49847606 Transcription initiation yes no 0.630 0.514 0.379 8e-61
P53040516 Transcription initiation yes no 0.597 0.573 0.356 3e-56
Q8R2K4616 TAF6-like RNA polymerase no no 0.622 0.5 0.303 5e-30
Q9Y6J9622 TAF6-like RNA polymerase no no 0.622 0.495 0.300 9e-29
>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 desciption
 Score =  285 bits (728), Expect = 8e-76,   Method: Compositional matrix adjust.
 Identities = 152/347 (43%), Positives = 218/347 (62%), Gaps = 24/347 (6%)

Query: 1   MRHSRRTTLTTDDVDEALKLRNVEPVYGFASGGPLRFRRAI---GYRDLFYLDDKDVEFK 57
           M HS+RT LT+ D+  AL+  NVEP+YGF +  PL F  A    G   L+YLDD++V+F+
Sbjct: 50  MVHSKRTVLTSADISSALRTLNVEPLYGFNNSRPLEFHEAAVGAGQNSLYYLDDEEVDFE 109

Query: 58  DVIEAPLPRAPLDTSIVCHWLAIEGVQPVIPEN-APVQAIAA--PSNGTNN--------- 105
            +I APLP+ P + S   HWLAIEGVQP IP+N  P         S GT+          
Sbjct: 110 KIINAPLPKVPRNISYSAHWLAIEGVQPAIPQNPTPSDHTVGEWASKGTSGVMPGASTAA 169

Query: 106 -EQKDGLP----VEIKLPVKHILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGL 160
            E ++G+     VEIK  V+H+LS+ELQLYF++IT   +  ++  L   AL SL  D GL
Sbjct: 170 KEARNGVTSMDNVEIKPLVRHVLSKELQLYFERITSALLDETNVELRDAALSSLRDDPGL 229

Query: 161 HPLVPYFTYFVADEVSRGLNNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVA 220
           H L+PYF  F++D V+R L N  +L  LM + W LL NP++ +EPY+ QLMPS++TCLVA
Sbjct: 230 HQLLPYFIMFLSDSVTRNLGNLVVLTTLMHMAWALLDNPNLFVEPYVQQLMPSILTCLVA 289

Query: 221 KRLGNRLADN-HWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHY 279
           KRLG+   ++ H+ LRD  A L+  +C R+G+VY TL+ R+T+T L A LD  +  + HY
Sbjct: 290 KRLGSDPNNHEHYALRDLAAFLLGIVCDRFGNVYYTLKPRVTRTALKAFLDNTKPYSTHY 349

Query: 280 GAVQGLAALGPNVVRLLLLPNLGPYLSLLEPEMLLEKQKNEVKRHEA 326
           GA++GL  +G   +R+L++PN+  Y  L+   +   ++ NE + +EA
Sbjct: 350 GAIKGLKTMGKEAIRVLVVPNIKVYEVLVRKTL---EKGNEEEIYEA 393
TAFs are components of the transcription factor IID (TFIID) complex that are essential for mediating regulation of RNA polymerase transcription.
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)
>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|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|P49848|TAF6_HUMAN Transcription initiation factor TFIID subunit 6 OS=Homo sapiens GN=TAF6 PE=1 SV=1 Back     alignment and function description
>sp|P49847|TAF6_DROME Transcription initiation factor TFIID subunit 6 OS=Drosophila melanogaster GN=Taf6 PE=1 SV=2 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 ?
Query495
224129098532 predicted protein [Populus trichocarpa] 0.977 0.909 0.758 0.0
225446952543 PREDICTED: transcription initiation fact 0.993 0.906 0.745 0.0
255576099542 transcription initiation factor tfiid, p 0.997 0.911 0.743 0.0
449444699543 PREDICTED: transcription initiation fact 0.993 0.906 0.713 0.0
449453563544 PREDICTED: transcription initiation fact 0.997 0.908 0.710 0.0
356499648544 PREDICTED: transcription initiation fact 0.995 0.906 0.737 0.0
357503231562 Transcription initiation factor TFIID su 1.0 0.880 0.667 0.0
225460839543 PREDICTED: transcription initiation fact 0.989 0.902 0.648 0.0
297737507547 unnamed protein product [Vitis vinifera] 0.989 0.895 0.639 0.0
326488229547 predicted protein [Hordeum vulgare subsp 0.987 0.893 0.622 0.0
>gi|224129098|ref|XP_002320500.1| predicted protein [Populus trichocarpa] gi|222861273|gb|EEE98815.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  768 bits (1983), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 376/496 (75%), Positives = 421/496 (84%), Gaps = 12/496 (2%)

Query: 1   MRHSRRTTLTTDDVDEALKLRNVEPVYGFASGGPLRFRRAIGYRDLFYLDDKDVEFKDVI 60
           MRHS+RT LTTDDVD AL L NVEP+YGFASGG L+F+RAIG+RDLFY+DDKD++FKDVI
Sbjct: 48  MRHSKRTRLTTDDVDGALNLTNVEPIYGFASGGALQFKRAIGHRDLFYVDDKDIDFKDVI 107

Query: 61  EAPLPRAPLDTSIVCHWLAIEGVQPVIPENAPVQAIAAPSNGTNNEQKDGLPVEIKLPVK 120
           EAPLP+APLDT++VCHWLAIEGVQP IPENAP++ IA PS+G  +EQ D  PV+IKLPVK
Sbjct: 108 EAPLPKAPLDTAVVCHWLAIEGVQPAIPENAPLEVIAPPSDGKISEQNDEFPVDIKLPVK 167

Query: 121 HILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLN 180
           H+LSRELQLYFDKIT+L V RSDSVLFK+ALVSLATDSGLHPL+PYFTYF+ADEV+RGLN
Sbjct: 168 HVLSRELQLYFDKITDLTVRRSDSVLFKEALVSLATDSGLHPLIPYFTYFIADEVARGLN 227

Query: 181 NYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAK 240
           +YSLLFALMRVVW+LLQNPHI IEPYLHQLMPSVVTCLVA++LGNR ADNHWELRDFTA 
Sbjct: 228 DYSLLFALMRVVWSLLQNPHIHIEPYLHQLMPSVVTCLVARKLGNRFADNHWELRDFTAN 287

Query: 241 LVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVRLLLLPN 300
           LVA+ICKR+GHVYN+LQTRLTKTLLNALLDPKR+LTQHYGA+QGLAALGPNVVRLLLLPN
Sbjct: 288 LVASICKRFGHVYNSLQTRLTKTLLNALLDPKRSLTQHYGAIQGLAALGPNVVRLLLLPN 347

Query: 301 LGPYLSLLEPEMLLEKQKNEVKRHEAWRVYGALLQAAGQCIYDRLKIFPPLSSLPARSVW 360
           L PYL LLEPEMLLEKQKNE+KRHEAW VYGALL AAGQ IYDRLK+FP L S PA +V 
Sbjct: 348 LKPYLQLLEPEMLLEKQKNEMKRHEAWHVYGALLCAAGQSIYDRLKMFPALMSHPACAVL 407

Query: 361 KTN-GIVATLSNKRKTSMDLEEQPPLKKIATDGPVDAVSTSSMPTPMEEDATAATPLDNS 419
           +TN  +V    +KRK SM+  EQPP KKIATDGPVD       P P+ +  T        
Sbjct: 408 RTNEKVVTKRPDKRKASMEHMEQPPPKKIATDGPVDMQVEPIAPVPLGDSKTGL------ 461

Query: 420 DADHPSPSSVQIPPDSGSESRSKRDKGDSQAQKLSAILPQVWKDDLNSGKLLVSLFELFG 479
                S SS   P  S + SR+++DKGDSQA K SAIL QVWKDDLNSG LLVSLFELFG
Sbjct: 462 -----STSSEHTPNYSEAGSRNQKDKGDSQAIKTSAILSQVWKDDLNSGHLLVSLFELFG 516

Query: 480 EGILSFIPAPEMSLFL 495
           E ILSFIP+PEMSLFL
Sbjct: 517 ESILSFIPSPEMSLFL 532

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225446952|ref|XP_002264290.1| PREDICTED: transcription initiation factor TFIID subunit 6 [Vitis vinifera] gi|297739126|emb|CBI28777.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255576099|ref|XP_002528944.1| transcription initiation factor tfiid, putative [Ricinus communis] gi|223531590|gb|EEF33418.1| transcription initiation factor tfiid, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449444699|ref|XP_004140111.1| PREDICTED: transcription initiation factor TFIID subunit 6-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449453563|ref|XP_004144526.1| PREDICTED: transcription initiation factor TFIID subunit 6-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356499648|ref|XP_003518649.1| PREDICTED: transcription initiation factor TFIID subunit 6-like [Glycine max] Back     alignment and taxonomy information
>gi|357503231|ref|XP_003621904.1| Transcription initiation factor TFIID subunit [Medicago truncatula] gi|355496919|gb|AES78122.1| Transcription initiation factor TFIID subunit [Medicago truncatula] Back     alignment and taxonomy information
>gi|225460839|ref|XP_002276969.1| PREDICTED: transcription initiation factor TFIID subunit 6-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|297737507|emb|CBI26708.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|326488229|dbj|BAJ93783.1| predicted protein [Hordeum vulgare subsp. vulgare] 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 ?
Query495
TAIR|locus:2010667549 TAFII59 "TATA BOX ASSOCIATED F 0.993 0.896 0.623 8.6e-159
DICTYBASE|DDB_G0288471542 taf6 "TATA-binding protein-ass 0.450 0.411 0.426 2.9e-71
ZFIN|ZDB-GENE-040912-23636 taf6 "TAF6 RNA polymerase II, 0.412 0.320 0.404 1.1e-59
UNIPROTKB|Q91857618 taf6 "Transcription initiation 0.371 0.297 0.411 1.4e-57
CGD|CAL0005584519 TAF60 [Candida albicans (taxid 0.375 0.358 0.393 8.8e-57
UNIPROTKB|Q5A2V7519 TAF6 "Putative uncharacterized 0.375 0.358 0.393 8.8e-57
ASPGD|ASPL0000017134445 AN8232 [Emericella nidulans (t 0.577 0.642 0.414 2.5e-56
FB|FBgn0010417606 Taf6 "TBP-associated factor 6" 0.416 0.339 0.415 2.5e-54
SGD|S000003080516 TAF6 "Subunit (60 kDa) of TFII 0.361 0.346 0.405 3.7e-54
POMBASE|SPCC16C4.18c452 taf6 "histone H4-like TAF Taf6 0.442 0.484 0.434 1.2e-42
TAIR|locus:2010667 TAFII59 "TATA BOX ASSOCIATED FACTOR II 59" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1547 (549.6 bits), Expect = 8.6e-159, P = 8.6e-159
 Identities = 315/505 (62%), Positives = 381/505 (75%)

Query:     1 MRHSRRTTLTTDDVDEALKLRNVEPVYGFASGGPLRFRRAIGYRDLFYLDDKDVEFKDVI 60
             MRHS+RTTLT  DVD AL LRNVEP+YGFASGGP RFR+AIG+RDLFY DD++V+FKDVI
Sbjct:    48 MRHSKRTTLTASDVDGALNLRNVEPIYGFASGGPFRFRKAIGHRDLFYTDDREVDFKDVI 107

Query:    61 EAPLPRAPLDTSIVCHWLAIEGVQPVIPENAPVQAIAAPSNGTNNEQKDGLPVEIKLPVK 120
             EAPLP+APLDT IVCHWLAIEGVQP IPENAP++ I AP+    +EQKDG  ++++LPVK
Sbjct:   108 EAPLPKAPLDTEIVCHWLAIEGVQPAIPENAPLEVIRAPAETKIHEQKDGPLIDVRLPVK 167

Query:   121 HILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLN 180
             H+LSRELQLYF KI ELA+S+S+  L+K+ALVSLA+DSGLHPLVPYFT F+ADEVS GLN
Sbjct:   168 HVLSRELQLYFQKIAELAMSKSNPPLYKEALVSLASDSGLHPLVPYFTNFIADEVSNGLN 227

Query:   181 NYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAK 240
             ++ LLF LM +V +LLQNPHI IEPYLHQLMPSVVTCLV+++LGNR ADNHWELRDF A 
Sbjct:   228 DFRLLFNLMHIVRSLLQNPHIHIEPYLHQLMPSVVTCLVSRKLGNRFADNHWELRDFAAN 287

Query:   241 LVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAAXXXXXXXXXXXXX 300
             LV+ ICKRYG VY TLQ+RLT+TL+NALLDPK+ALTQHYGA+QGLAA             
Sbjct:   288 LVSLICKRYGTVYITLQSRLTRTLVNALLDPKKALTQHYGAIQGLAALGHTVVRLLILSN 347

Query:   301 XXXXXXXXEPEMLLEKQKNEVKRHEAWRVYGALLQAAGQCIYDRLKIFPPLSSLPARSVW 360
                     EPE+  EKQKN++K +EAWRVYGALL+AAG CI+ RLKIFPPL S     + 
Sbjct:   348 LEPYLSLLEPELNAEKQKNQMKIYEAWRVYGALLRAAGLCIHGRLKIFPPLPSPSPSFLH 407

Query:   361 KTNG---IVATLSNKRKTSMDLEE-QPPLKKIAT-DGPVDAVSTS--SMPTPMEEDATAA 413
             K  G   I++T  +KRK S+D  E Q P K++ T DGP D V +   S   PM+ D    
Sbjct:   408 KGKGKGKIISTDPHKRKLSVDSSENQSPQKRLITMDGP-DGVHSQDQSGSAPMQVDNPVE 466

Query:   414 TPLDNSDADHPSPSSVQIPPDSG-SESRSKRDK--GDSQAQKLSAILPQVWKDDLNSGKL 470
                DN   +   PSS +   D+  SESR+ + K  G S+A  + AIL Q+WKDDL+SG+L
Sbjct:   467 N--DNPPQNSVQPSSSEQASDANESESRNGKVKESGRSRAITMKAILDQIWKDDLDSGRL 524

Query:   471 LVSLFELFGEGILSFIPAPEMSLFL 495
             LV L EL+G+ IL FIP+ EMS+FL
Sbjct:   525 LVKLHELYGDRILPFIPSTEMSVFL 549
GO:0003677 "DNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IEA;ISS
GO:0006352 "DNA-dependent transcription, initiation" evidence=IEA;ISS
GO:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA
GO:0009860 "pollen tube growth" evidence=IMP
GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA
GO:0006366 "transcription from RNA polymerase II promoter" evidence=RCA
GO:0010048 "vernalization response" evidence=RCA
GO:0048573 "photoperiodism, flowering" evidence=RCA
DICTYBASE|DDB_G0288471 taf6 "TATA-binding protein-associated-factor" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
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
CGD|CAL0005584 TAF60 [Candida albicans (taxid:5476)] Back     alignment and assigned GO terms
UNIPROTKB|Q5A2V7 TAF6 "Putative uncharacterized protein TAF6" [Candida albicans SC5314 (taxid:237561)] Back     alignment and assigned GO terms
ASPGD|ASPL0000017134 AN8232 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
FB|FBgn0010417 Taf6 "TBP-associated factor 6" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
SGD|S000003080 TAF6 "Subunit (60 kDa) of TFIID and SAGA complexes" [Saccharomyces cerevisiae (taxid:4932)] Back     alignment and assigned GO terms
POMBASE|SPCC16C4.18c taf6 "histone H4-like TAF Taf6, SAGA complex subunit" [Schizosaccharomyces pombe (taxid:4896)] 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

Your Input:
gw1.XIV.3608.1
hypothetical protein (532 aa)
(Populus trichocarpa)
Predicted Functional Partners:
estExt_Genewise1_v1.C_LG_I9297
SubName- Full=Putative uncharacterized protein; (175 aa)
    ••• 0.702
gw1.XVIII.2077.1
hypothetical protein (132 aa)
    ••• 0.574
eugene3.00140678
hypothetical protein (129 aa)
    ••• 0.549
eugene3.00061942
hypothetical protein (675 aa)
    ••• 0.480
estExt_fgenesh4_pm.C_LG_XVIII0164
hypothetical protein (676 aa)
    ••• 0.475

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 ?
Query495
cd08050343 cd08050, TAF6, TATA Binding Protein (TBP) Associat 1e-136
COG5095450 COG5095, TAF6, Transcription initiation factor TFI 1e-95
pfam0757192 pfam07571, DUF1546, Protein of unknown function (D 3e-39
smart0080365 smart00803, TAF, TATA box binding protein associat 1e-04
pfam0296966 pfam02969, TAF, TATA box binding protein associate 0.004
>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 =  395 bits (1018), Expect = e-136
 Identities = 162/301 (53%), Positives = 215/301 (71%), Gaps = 9/301 (2%)

Query: 1   MRHSRRTTLTTDDVDEALKLRNVEPVYGFASGGPLRFRRAI-GYRDLFYLDDKDVEFKDV 59
           MRHS+R  LTT DV+ AL+LRNVEP+YGF+S  PL FR +  G ++L+Y++DK+++ KD+
Sbjct: 44  MRHSKRRKLTTSDVNHALRLRNVEPLYGFSSSEPLPFRVSTGGGQELYYVEDKEIDLKDL 103

Query: 60  IEAPLPRAPLDTSIVCHWLAIEGVQPVIPENAPVQAIAA-----PSNGTNNEQKDGLPVE 114
           I  PLP+ PLD S+  HWLAIEGVQP+IPEN P  AI        +N      K    V 
Sbjct: 104 INTPLPKVPLDVSVKAHWLAIEGVQPLIPENPPPSAIEVQKKESLANAAVKRLKKDEQVL 163

Query: 115 IKLPVKHILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADE 174
           +K  V+H+LS+ELQLYF++ITE  V  ++    ++AL SL TD GL  L+PYF  F+A+ 
Sbjct: 164 LKPLVRHVLSKELQLYFEEITEALVGSNEE-KRREALQSLRTDPGLQQLLPYFVRFIAEG 222

Query: 175 VSRGL-NNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRL-ADNHW 232
           V+  L  N +LL  LMR+V  LL NP++ +EPYLHQL+PSV+TCLVAK+L +R   DNHW
Sbjct: 223 VTVNLDQNLALLIYLMRMVRALLDNPNLHLEPYLHQLIPSVLTCLVAKQLCSRPPDDNHW 282

Query: 233 ELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNV 292
            LRD+ A+L+A IC+++   YNTLQ R+T+TLL ALLDPK+ LT HYGA+ GL+ALGP  
Sbjct: 283 ALRDYAARLLAQICRKFSTSYNTLQPRITRTLLKALLDPKKPLTTHYGAIVGLSALGPEA 342

Query: 293 V 293
           V
Sbjct: 343 V 343

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|203686 pfam07571, DUF1546, Protein of unknown function (DUF1546) Back     alignment and domain information
>gnl|CDD|129039 smart00803, TAF, TATA box binding protein associated factor Back     alignment and domain information
>gnl|CDD|145884 pfam02969, TAF, TATA box binding protein associated factor (TAF) Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 495
KOG2549576 consensus Transcription initiation factor TFIID, s 100.0
COG5095450 TAF6 Transcription initiation factor TFIID, subuni 100.0
cd08050343 TAF6 TATA Binding Protein (TBP) Associated Factor 100.0
PF0757192 DUF1546: Protein of unknown function (DUF1546); In 99.96
PF1275597 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region 97.04
PF12348228 CLASP_N: CLASP N terminal; InterPro: IPR024395 Thi 96.09
PF0298531 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT re 93.05
KOG2023 885 consensus Nuclear transport receptor Karyopherin-b 92.72
PF12460415 MMS19_C: RNAPII transcription regulator C-terminal 90.65
PF1351355 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O 90.3
KOG1242569 consensus Protein containing adaptin N-terminal re 89.53
KOG2171 1075 consensus Karyopherin (importin) beta 3 [Nuclear s 89.36
KOG0212 675 consensus Uncharacterized conserved protein [Funct 87.91
KOG1824 1233 consensus TATA-binding protein-interacting protein 87.6
cd00020120 ARM Armadillo/beta-catenin-like repeats. An approx 83.44
PF14911373 MMS22L_C: S-phase genomic integrity recombination 83.12
KOG1242569 consensus Protein containing adaptin N-terminal re 82.9
cd00020120 ARM Armadillo/beta-catenin-like repeats. An approx 81.85
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription] Back     alignment and domain information 
Probab=100.00  E-value=2.8e-106  Score=849.24  Aligned_cols=485  Identities=42%  Similarity=0.628  Sum_probs=414.7

Q ss_pred             CCCCCCCCCChhHHHHHHHhcCCCCCCCCCCCCCCceeEcCC-CCceeeecCccccHHHHhhccCCCCCCCCceEEEEEE
Q 011039            1 MRHSRRTTLTTDDVDEALKLRNVEPVYGFASGGPLRFRRAIG-YRDLFYLDDKDVEFKDVIEAPLPRAPLDTSIVCHWLA   79 (495)
Q Consensus         1 MrHsKR~kLTt~DIn~ALr~~nvEPLyGy~s~~pl~F~~a~g-~~~ly~~eDkEVDL~~ii~a~LPkvP~e~s~~aHWLA   79 (495)
                      |+||||++||++|||+||+++|+||+|||.++++++|+++.| ++++||.+|+||||++++++||||+|+++++++|||+
T Consensus        56 m~hskR~kLtv~DV~~ALr~~nVep~yg~~s~~~i~fr~a~~~~r~ly~~~d~EVD~d~~i~~plpkvP~d~~i~sHWL~  135 (576)
T KOG2549|consen   56 MVHSKRTKLTVDDVDYALRSLNVEPLYGFGAQEIIPFRKASGGGRELYYPEDEEVDLDEIINAPLPKVPLDVSIKSHWLA  135 (576)
T ss_pred             hhcCCCCcCcHHHHHHHHhhcccccccCcccCceeeccccCCCCceeecCchhhcchhhhhcCCCCCCCccceeeeeeee
Confidence            899999999999999999999999999999999999999954 4899999999999999999999999999999999999


Q ss_pred             ecCccCCCCCCCccccc--------c-----C----CCC-----CCCCCCCCCCceeecCCccccCCHHHHHHHHHHHHH
Q 011039           80 IEGVQPVIPENAPVQAI--------A-----A----PSN-----GTNNEQKDGLPVEIKLPVKHILSRELQLYFDKITEL  137 (495)
Q Consensus        80 IeGVQP~IPeNp~~e~~--------~-----~----p~~-----~k~~~~~~~~~v~vKp~vkh~LSkElQlYf~kIt~a  137 (495)
                      ||||||+|||||++...        .     +    |..     .+.+..+.+.++++||+++|+||+|||+||++||++
T Consensus       136 iEGVQP~iPeNp~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~e~~~~Kp~~~h~LS~ElQlYy~~It~a  215 (576)
T KOG2549|consen  136 IEGVQPAIPENPPPLEKNVQKKEVIEPAIKAPEGNNPGASTKSSDAVKTLKIGEPVELKPSSKHVLSVELQLYYKEITEA  215 (576)
T ss_pred             eccccccCCCCCCccccchhhhcccchhhhccCCCCCCccccccccccccccCCcccccccchhhccHHHHHHHHHHHHH
Confidence            99999999999975321        1     0    000     011112456789999999999999999999999999


Q ss_pred             HccCCchHHHHHHHHhhhcCCCccccchhHHHHHHHhhhcC--CCCHHHHHHHHHHHHHHhcCCCcccchhhhhhHHHHH
Q 011039          138 AVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRG--LNNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVV  215 (495)
Q Consensus       138 ll~~~d~~~r~~AL~sL~tDpGL~qLLPYfv~FI~e~V~~n--l~nl~~L~~llrmv~ALl~N~~L~IepYLHqLlPsvL  215 (495)
                      |++ ++++.|++||++|+||+|||||||||++||+|+|+.|  ++|+..|+++|+|++||++||+||+|||||+||||||
T Consensus       216 ~~g-~~~~~r~eAL~sL~TDsGL~~LlPyFv~fIae~vs~ni~~~nL~lL~~lm~m~rSLl~Np~i~lepYlh~L~PSvl  294 (576)
T KOG2549|consen  216 CTG-SDEPLRQEALQSLETDSGLQQLLPYFVTFIAEGVSVNIVQNNLELLIYLMRMVRSLLDNPNIFLEPYLHQLVPSVL  294 (576)
T ss_pred             Hhc-CCHHHHHHHHHhhccCccHHHHHHHHHHHHhhheeeccccccHHHHHHHHHHHHHHhcCCccchhhHHHHHhhHHH
Confidence            998 5677899999999999999999999999999999999  8999999999999999999999999999999999999


Q ss_pred             HHHhccccCCCC-CCcchHHHHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHhcCCCCCchhhhHHHHHHHhhCHHHHH
Q 011039          216 TCLVAKRLGNRL-ADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVR  294 (495)
Q Consensus       216 TCll~k~l~~~~-~~~hw~LRd~AA~lL~~I~~kf~~sy~~L~~RI~~tL~k~llDp~k~l~t~YGAI~GL~aLG~~aVr  294 (495)
                      ||+|+|++|.++ .||||+||||||++|+.||++|++.|.+|++||++||.|+|+|+++++++|||||+||++||.++||
T Consensus       295 TCvVsk~l~~~p~~dnhwaLRDfAA~ll~~i~k~f~~~y~~L~~Rit~tl~k~l~D~~~~~st~YGai~gL~~lg~~~I~  374 (576)
T KOG2549|consen  295 TCVVSKNLCLRPELDNHWALRDFAARLLAQICKNFSTLYNNLQPRITRTLSKALLDNKKPLSTHYGAIAGLSELGHEVIR  374 (576)
T ss_pred             HhhhhhhccCCccccchHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhcCCCCCchhhhhHHHHHHHhhhhhhh
Confidence            999999999986 7999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhccChHHHHHhhhHhHhhhhhhhhhhhhHHHHHHHHHHHHHHHhHhhhhccCCCCCCCCccchhcccC-cccc-cCcc
Q 011039          295 LLLLPNLGPYLSLLEPEMLLEKQKNEVKRHEAWRVYGALLQAAGQCIYDRLKIFPPLSSLPARSVWKTNG-IVAT-LSNK  372 (495)
Q Consensus       295 ~lllP~L~~y~~~Le~~l~~~~~~~~~~r~ea~~v~~aLl~A~g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~-~~~~  372 (495)
                      .+|+|+|..|+.+|++++..+..+|.+++.||++|+++|++++..|+++++...+.++.|-.+...++-| +++. ...|
T Consensus       375 ~~ilp~L~~~~~~l~~~l~~~~~~n~~~i~ea~~v~~~llk~~~~ii~~~l~~~~~~~~~~~r~~~~~~g~~l~~e~~~~  454 (576)
T KOG2549|consen  375 TVILPNLKEYNERLQSVLDVESLSNQLDIYEANKVYGALLKAENPIIRDKLNSAPDNPVPALRRLRGSLGESLLSEVVKK  454 (576)
T ss_pred             heeccchHHHHHHhhhhcccchhhhhhhhhhhhhHHHHHHHHhhHHHHhhhccccCCCCCcchhhcccccHHHHHHHHhh
Confidence            9999999999999999999998899999999999999999999999999999999999888999999888 6666 8899


Q ss_pred             ccCCccccCC-CccccccccCCCccccCCCCCCCCCCCCCcCccCCCCCCCCCCCCCccC-------CCCCCCccccccC
Q 011039          373 RKTSMDLEEQ-PPLKKIATDGPVDAVSTSSMPTPMEEDATAATPLDNSDADHPSPSSVQI-------PPDSGSESRSKRD  444 (495)
Q Consensus       373 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~  444 (495)
                      |+++-++..- -|.+.++ ++++       ++...+..++..+.+..+.-|.|++++.-.       ..+++++. .+..
T Consensus       455 r~~~l~~~~~~~~~~~l~-~~p~-------~~~~~~~~~~~~v~~~~~~~g~p~~~t~p~~~~~~~~~~~~~~~~-~~~~  525 (576)
T KOG2549|consen  455 RQAPLDSSSVTLPVQQLV-APPV-------MSSAQSLTSTQQVSSPTEAPGSPSTSTGPVTSEVPSVVTESTSGP-KVVG  525 (576)
T ss_pred             ccCccccccccccccccc-CCcc-------ccccccccccceecCCCCCCCCCccCCCCcccCCCCcccccccCC-cccc
Confidence            9877333333 4555555 4441       111111111111111111112222221111       13344444 4455


Q ss_pred             CCCchhhhHhhhhhhhhcccCCcCcchHhHHHHhhccccccCCCcccccCC
Q 011039          445 KGDSQAQKLSAILPQVWKDDLNSGKLLVSLFELFGEGILSFIPAPEMSLFL  495 (495)
Q Consensus       445 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  495 (495)
                      .|-.++..+-+..++.|+++..++..+...-+..+.+..+|.++.+++.|.
T Consensus       526 ~~~~~vv~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~q~~~~~  576 (576)
T KOG2549|consen  526 PGKSRVVSLPSTGDGKGGATSHSRGVLPPASSPAPLSGSPACGSKQESVDS  576 (576)
T ss_pred             CCCceeeecccccccccCCCCCCCCccccccCCCCCCccccccccccccCC
Confidence            557778888889999999999999999999999999999999999998763

>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
>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
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region 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
>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
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 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
>KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG0212 consensus Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only] Back     alignment and domain information
>cd00020 ARM Armadillo/beta-catenin-like repeats Back     alignment and domain information
>PF14911 MMS22L_C: S-phase genomic integrity recombination mediator, C-terminal Back     alignment and domain information
>KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd00020 ARM Armadillo/beta-catenin-like repeats 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 ?
Query495
4atg_A196 Taf6 C-Terminal Domain From Antonospora Locustae Le 7e-23
>pdb|4ATG|A Chain A, Taf6 C-Terminal Domain From Antonospora Locustae Length = 196 Back     alignment and structure 
Iteration: 1

 Score =  105 bits (261), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 59/166 (35%), Positives = 98/166 (59%), Gaps = 10/166 (6%)
Query: 121 HILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLN 180
           H+L +ELQLYFDKI  L++ +SD  +   A+  L  +SGL  LVPYF   +++ + +   
Sbjct: 3   HMLPKELQLYFDKI--LSMIKSD--MKDIAIECLEKESGLQQLVPYFIQHISELILKSFK 58
Query: 181 NYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAK 240
              +L   + + ++L++N H+ I+PYLHQ++PS++TC++    G  + D+  ++R  +A 
Sbjct: 59  EAEVLKTCIALYFSLIKNKHVFIDPYLHQILPSLLTCVI----GKSIVDD--DVRKMSAD 112
Query: 241 LVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLA 286
           +V  I   Y   Y TL  R+ KTL    +DP R+    YGA+  L+
Sbjct: 113 IVKYIYDTYSRSYKTLAPRVLKTLKGVWMDPNRSEDSQYGALYCLS 158

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query495
4atg_A196 TAF6; transcription, TFIID; HET: NHE; 1.89A {Anton 2e-79
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-13
1taf_B70 TFIID TBP associated factor 62; transcription init 2e-05
2yfw_B103 Histone H4, H4; cell cycle, kinetochore, centromer 7e-05
2hue_C84 Histone H4; mini beta sheet, elongated beta sandwh 4e-04
1id3_B102 Histone H4; nucleosome core particle, chromatin, p 4e-04
1tzy_D103 Histone H4-VI; histone-fold, tetramer-dimer-dimer, 6e-04
>4atg_A TAF6; transcription, TFIID; HET: NHE; 1.89A {Antonospora locustae} Length = 196 Back     alignment and structure
 Score =  245 bits (626), Expect = 2e-79
 Identities = 63/205 (30%), Positives = 107/205 (52%), Gaps = 10/205 (4%)

Query: 120 KHILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGL 179
            H+L +ELQLYFDKI  +  S     +   A+  L  +SGL  LVPYF   +++ + +  
Sbjct: 2   SHMLPKELQLYFDKILSMIKSD----MKDIAIECLEKESGLQQLVPYFIQHISELILKSF 57

Query: 180 NNYSLLFALMRVVWNLLQNPHIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTA 239
               +L   + + ++L++N H+ I+PYLHQ++PS++TC++ K + +       ++R  +A
Sbjct: 58  KEAEVLKTCIALYFSLIKNKHVFIDPYLHQILPSLLTCVIGKSIVDD------DVRKMSA 111

Query: 240 KLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHYGAVQGLAALGPNVVRLLLLP 299
            +V  I   Y   Y TL  R+ KTL    +DP R+    YGA+  L+ L  NVV  ++  
Sbjct: 112 DIVKYIYDTYSRSYKTLAPRVLKTLKGVWMDPNRSEDSQYGALYCLSILSKNVVNTVIRE 171

Query: 300 NLGPYLSLLEPEMLLEKQKNEVKRH 324
           +   Y   +  + +     N +  H
Sbjct: 172 HAEEYKRTIGKKKVTNLLDNVLNVH 196
>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
>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
>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140} Length = 103 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 Length = 84 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 Length = 102 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 ... Length = 103 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query495
4atg_A196 TAF6; transcription, TFIID; HET: NHE; 1.89A {Anton 100.0
2hue_C84 Histone H4; mini beta sheet, elongated beta sandwh 97.87
1ibr_B462 P95, importin beta-1 subunit, nuclear factor; smal 97.65
4fdd_A 852 Transportin-1; heat repeats, karyopherin, nuclear 97.46
2bpt_A 861 Importin beta-1 subunit; nuclear transport, nucleo 97.16
1qgr_A 876 Protein (importin beta subunit); transport recepto 97.14
2bpt_A 861 Importin beta-1 subunit; nuclear transport, nucleo 97.05
2qk2_A242 LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2 97.04
2qk1_A249 Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h 96.92
4fdd_A 852 Transportin-1; heat repeats, karyopherin, nuclear 96.84
1qgr_A876 Protein (importin beta subunit); transport recepto 96.7
2qk2_A242 LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2 96.41
1u6g_C 1230 TIP120 protein, CAND1; cullin repeat, heat repeat, 95.66
1ibr_B462 P95, importin beta-1 subunit, nuclear factor; smal 95.3
1b3u_A588 Protein (protein phosphatase PP2A); scaffold prote 95.21
1b3u_A 588 Protein (protein phosphatase PP2A); scaffold prote 95.2
1u6g_C 1230 TIP120 protein, CAND1; cullin repeat, heat repeat, 94.84
2qk1_A249 Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h 92.51
2x1g_F 971 Cadmus; transport protein, developmental protein, 91.34
4db8_A252 Armadillo-repeat protein; solenoid repeat, de novo 90.85
4ffb_C278 Protein STU2; tubulin fold, heat repeats, cytoskel 90.38
2x19_B 963 Importin-13; nuclear transport, protein transport; 89.59
2of3_A266 ZYG-9; multifunctional macromolecule, kinetochore, 89.44
4db6_A210 Armadillo repeat protein; solenoid repeat, armadil 89.18
2vgl_B591 AP-2 complex subunit beta-1; cytoplasmic vesicle, 88.88
4hxt_A252 De novo protein OR329; structural genomics, PSI-bi 88.84
3ltj_A201 Alpharep-4; protein engineering, heat-like repeat, 88.17
4ffb_C278 Protein STU2; tubulin fold, heat repeats, cytoskel 87.97
1oyz_A280 Hypothetical protein YIBA; structural genomics, PS 87.25
1wa5_C 960 Importin alpha RE-exporter; nuclear transport/comp 87.12
3ltm_A211 Alpha-REP4; protein engineering, heat-like repeat, 86.86
1wa5_B530 Importin alpha subunit; nuclear transport/complex, 86.4
1oyz_A280 Hypothetical protein YIBA; structural genomics, PS 86.3
1wa5_B530 Importin alpha subunit; nuclear transport/complex, 86.28
2x19_B 963 Importin-13; nuclear transport, protein transport; 86.06
2jdq_A450 Importin alpha-1 subunit; transport, PB2 subunit, 85.86
4hat_C 1023 Exportin-1; heat repeat, nuclear export, RAN-ranbp 85.73
1w63_A618 Adapter-related protein complex 1 gamma 1 subunit; 85.27
3ltj_A201 Alpharep-4; protein engineering, heat-like repeat, 85.11
2jdq_A450 Importin alpha-1 subunit; transport, PB2 subunit, 85.03
4hxt_A252 De novo protein OR329; structural genomics, PSI-bi 83.74
4db8_A252 Armadillo-repeat protein; solenoid repeat, de novo 83.61
1wa5_C 960 Importin alpha RE-exporter; nuclear transport/comp 83.25
3ltm_A211 Alpha-REP4; protein engineering, heat-like repeat, 82.67
3m1i_C 1049 Exportin-1; heat repeat, GTP-binding, nucleotide-b 80.81
1xqr_A296 HSPBP1 protein; armadillo repeat, superhelical twi 80.37
>4atg_A TAF6; transcription, TFIID; HET: NHE; 1.89A {Antonospora locustae} Back     alignment and structure
Probab=100.00  E-value=6.9e-60  Score=450.40  Aligned_cols=182  Identities=34%  Similarity=0.619  Sum_probs=177.2

Q ss_pred             cccCCHHHHHHHHHHHHHHccCCchHHHHHHHHhhhcCCCccccchhHHHHHHHhhhcCCCCHHHHHHHHHHHHHHhcCC
Q 011039          120 KHILSRELQLYFDKITELAVSRSDSVLFKQALVSLATDSGLHPLVPYFTYFVADEVSRGLNNYSLLFALMRVVWNLLQNP  199 (495)
Q Consensus       120 kh~LSkElQlYf~kIt~all~~~d~~~r~~AL~sL~tDpGL~qLLPYfv~FI~e~V~~nl~nl~~L~~llrmv~ALl~N~  199 (495)
                      ||+||+|+|+||++||++|++    ..|++||++|++|||||||+|||++||+++|++|++|+..|.++|+|++||++||
T Consensus         2 kh~LS~Elq~yf~~It~a~~~----~~r~~aL~sL~~D~gL~~LlPyf~~fI~~~v~~nl~~l~~L~~lm~~~~ALl~N~   77 (196)
T 4atg_A            2 SHMLPKELQLYFDKILSMIKS----DMKDIAIECLEKESGLQQLVPYFIQHISELILKSFKEAEVLKTCIALYFSLIKNK   77 (196)
T ss_dssp             GGGSCHHHHHHHHHHHHHHTS----TTHHHHHHHHHHCSSCTTTHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHCT
T ss_pred             CcccCHHHHHHHHHHHHHHHh----HHHHHHHHHHhcCCChhhhHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHcCC
Confidence            799999999999999999997    3689999999999999999999999999999999999999999999999999999


Q ss_pred             CcccchhhhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHhcCCCCCchhhh
Q 011039          200 HIQIEPYLHQLMPSVVTCLVAKRLGNRLADNHWELRDFTAKLVAAICKRYGHVYNTLQTRLTKTLLNALLDPKRALTQHY  279 (495)
Q Consensus       200 ~L~IepYLHqLlPsvLTCll~k~l~~~~~~~hw~LRd~AA~lL~~I~~kf~~sy~~L~~RI~~tL~k~llDp~k~l~t~Y  279 (495)
                      +|+||||+|||||++|||+|++++|++      +|||+||++|+.||++|+++|++|++||+++|.|+|+||++|+++||
T Consensus        78 ~l~lepYlH~LipsvLtCll~k~l~~~------~LRd~AA~lL~~I~~~~~~~y~~L~~RI~~tl~k~l~dp~~~l~t~Y  151 (196)
T 4atg_A           78 HVFIDPYLHQILPSLLTCVIGKSIVDD------DVRKMSADIVKYIYDTYSRSYKTLAPRVLKTLKGVWMDPNRSEDSQY  151 (196)
T ss_dssp             TCCCGGGHHHHHHHHHHHHHCTTCCCH------HHHHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHTCTTSCHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHhcccCHH------HHHHHHHHHHHHHHHHhCccCchHHHHHHHHHHHHHcCCCCChHHHH
Confidence            999999999999999999999999885      99999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhCHHHHHHhhccChHHHHHhhhHh
Q 011039          280 GAVQGLAALGPNVVRLLLLPNLGPYLSLLEPE  311 (495)
Q Consensus       280 GAI~GL~aLG~~aVr~lllP~L~~y~~~Le~~  311 (495)
                      |||+||++||++|||.+|+|+++.|++.++..
T Consensus       152 GAi~GL~~lG~~~vr~~llP~l~~~~~~~~~~  183 (196)
T 4atg_A          152 GALYCLSILSKNVVNTVIREHAEEYKRTIGKK  183 (196)
T ss_dssp             HHHHHHHHHCHHHHHTHHHHHHHHHHHHTCCH
T ss_pred             HHHHHHHHhHHHHHHHhhhcCHHHHHHHHHHH
Confidence            99999999999999999999999999888744
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>2x1g_F Cadmus; transport protein, developmental protein, mRNA processing, nuclear transport, mRNA splicing, mRNA transport; 3.35A {Drosophila melanogaster} Back     alignment and structure
>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct} 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
>2x19_B Importin-13; nuclear transport, protein transport; HET: GTP; 2.80A {Homo sapiens} PDB: 2xwu_B Back     alignment and structure
>2of3_A ZYG-9; multifunctional macromolecule, kinetochore, microtubule, XMAP215, STU2, DIS1, microtubule associated protein, structural protein; 1.90A {Caenorhabditis elegans} 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
>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
>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic} 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
>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
>1wa5_C Importin alpha RE-exporter; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1z3h_A 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
>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A 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
>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A Back     alignment and structure
>2x19_B Importin-13; nuclear transport, protein transport; HET: GTP; 2.80A {Homo sapiens} PDB: 2xwu_B 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
>4hat_C Exportin-1; heat repeat, nuclear export, RAN-ranbp1, LMB, leptomycin B, protein transport-antibiotic complex; HET: GNP LMB; 1.78A {Saccharomyces cerevisiae} PDB: 4hau_C* 4hav_C* 4hb2_C* 4hax_C* 4haw_C* 4hay_C* 4hb3_C* 4haz_C* 4hb4_C* 3m1i_C* 4hb0_C* 4gmx_C* 4gpt_C* 3vyc_A 2l1l_B Back     alignment and structure
>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1 Back     alignment and structure
>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic} 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
>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
>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct} Back     alignment and structure
>1wa5_C Importin alpha RE-exporter; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1z3h_A 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
>3m1i_C Exportin-1; heat repeat, GTP-binding, nucleotide-binding, NUCL protein transport, transport, cytoplasm, GTPase activation; HET: GTP; 2.00A {Saccharomyces cerevisiae} PDB: 2l1l_B Back     alignment and structure
>1xqr_A HSPBP1 protein; armadillo repeat, superhelical twist, chaperone; 2.10A {Homo sapiens} SCOP: a.118.1.21 PDB: 1xqs_A* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 495
d2huec182 a.22.1.1 (C:20-101) Histone H4 {African clawed fro 3e-09
d1tafb_70 a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila mel 3e-06
>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Length = 82 Back     information, alignment and structure

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H4
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

 Score = 51.3 bits (123), Expect = 3e-09
 Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 1/29 (3%)

Query: 1  MRHSRRTTLTTDDVDEALKLRNVEPVYGF 29
            H++R T+T  DV  ALK R    +YGF
Sbjct: 54 TEHAKRKTVTAMDVVYALK-RQGRTLYGF 81
>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 70 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 ?
Query495
d2huec182 Histone H4 {African clawed frog (Xenopus laevis) [ 98.19
d1ibrb_458 Importin beta {Human (Homo sapiens) [TaxId: 9606]} 96.61
d1qbkb_ 888 Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96 96.36
d2bpta1861 Importin beta {Baker's yeast (Saccharomyces cerevi 96.04
d1b3ua_588 Constant regulatory domain of protein phosphatase 95.77
d2bpta1861 Importin beta {Baker's yeast (Saccharomyces cerevi 95.34
d1qgra_876 Importin beta {Human (Homo sapiens) [TaxId: 9606]} 94.91
d1b3ua_588 Constant regulatory domain of protein phosphatase 94.62
d1u6gc_1207 Cullin-associated NEDD8-dissociated protein 1 (Tip 94.26
d1qgra_876 Importin beta {Human (Homo sapiens) [TaxId: 9606]} 93.49
d1ibrb_458 Importin beta {Human (Homo sapiens) [TaxId: 9606]} 93.18
d1qbkb_888 Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96 92.88
d1u6gc_ 1207 Cullin-associated NEDD8-dissociated protein 1 (Tip 91.99
d2vglb_579 Adaptin beta subunit N-terminal fragment {Human (H 89.93
d2vglb_ 579 Adaptin beta subunit N-terminal fragment {Human (H 81.83
d1oyza_276 Hypothetical protein YibA {Escherichia coli [TaxId 80.52
>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Back     information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H4
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=98.19  E-value=6.5e-08  Score=78.34  Aligned_cols=29  Identities=45%  Similarity=0.658  Sum_probs=27.4

Q ss_pred             CCCCCCCCCChhHHHHHHHhcCCCCCCCCC
Q 011039            1 MRHSRRTTLTTDDVDEALKLRNVEPVYGFA   30 (495)
Q Consensus         1 MrHsKR~kLTt~DIn~ALr~~nvEPLyGy~   30 (495)
                      |+|+||+++|++||+.||+ ++.||+|||+
T Consensus        54 ~~hakRKTvt~~DV~~Alk-r~g~plyGfg   82 (82)
T d2huec1          54 TEHAKRKTVTAMDVVYALK-RQGRTLYGFG   82 (82)
T ss_dssp             HHHTTCSEECHHHHHHHTT-TTCEEEESCC
T ss_pred             HHHhCCCcCCHHHHHHHHH-hcCCCCCCCC
Confidence            6899999999999999999 7889999995
>d1ibrb_ a.118.1.1 (B:) Importin beta {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
>d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} 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
>d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1qgra_ a.118.1.1 (A:) Importin beta {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
>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
>d1ibrb_ a.118.1.1 (B:) Importin beta {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
>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {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