Psyllid ID: psy17242

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--
MSPSTPGPPMTPVDMGGSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLTVK
ccccccccccccccccccccEEEEEEEEEEEcccccHHHHHHHcccEEEEEccccEEEEEEccccEEEEEEcccEEEEEccccHHHHHHHHHHHHHHHHHccccccccccEEEEEEEEEEccccccHHHHHHHHccccccccccccEEEEEEccccEEEEEEcccEEEEEEc
ccccccccccccccHHccccEEEEEEEEEEccccccHHHHHHHcccEEEccccccEEEEEEEccEEEEEEEcccEEEEEccccHHHHHHHHHHHHHHHHHHccccccEEEEEEEEEEEEEccccEcHHHHHHHccccEEccccccccEEEEEccccEEEEEccccEEEEEEc
mspstpgppmtpvdmggsvpqlqnIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIReprttalifssgkmvctgakseEDSRLAARKYARIIQKLgfpakfldFKIQNmvgscdvkfpirleglvlthgqfssyepelfpgliyrmvkPRIVLLIFVSgkvvltvk
mspstpgppmtpvDMGGSVPQLQNIVSTVNLGCKLDLKKIALharnaeynpkrFAAVIMRIREPRTtalifssgkmvctgaksEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIfvsgkvvltvk
mspstpgppmtpVDMGGSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLTVK
*********************LQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGA******RLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT**
*******************PQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLTVK
**********TPVDMGGSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKM************LAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLTVK
***************GGSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLTVK
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MSPSTPGPPMTPVDMGGSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLTVK
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 ?
Query172 2.2.26 [Sep-21-2011]
P53361307 TATA-box-binding protein N/A N/A 0.988 0.553 0.913 2e-85
O45211307 TATA-box-binding protein N/A N/A 0.988 0.553 0.901 9e-85
A6H907376 TATA box-binding protein- yes N/A 0.965 0.441 0.910 1e-84
Q92146302 TATA-box-binding protein N/A N/A 0.988 0.562 0.894 2e-84
Q92117300 TATA-box-binding protein N/A N/A 0.988 0.566 0.894 2e-84
P53360318 TATA-box-binding protein N/A N/A 0.988 0.534 0.894 3e-84
P29037316 TATA-box-binding protein yes N/A 0.988 0.537 0.894 3e-84
P20227353 TATA-box-binding protein yes N/A 0.988 0.481 0.912 3e-84
Q6SJ96375 TATA box-binding protein- yes N/A 0.965 0.442 0.904 4e-84
O13270302 TATA-box-binding protein yes N/A 0.988 0.562 0.894 5e-84
>sp|P53361|TBP_SPOFR TATA-box-binding protein OS=Spodoptera frugiperda GN=Tbp PE=2 SV=1 Back     alignment and function desciption
 Score =  314 bits (804), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 158/173 (91%), Positives = 161/173 (93%), Gaps = 3/173 (1%)

Query: 1   MSPSTPGP--PMTPVDMG-GSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAV 57
           +S ++P P  PMTP     G VPQLQNIVSTVNL CKLDLKKIALHARNAEYNPKRFAAV
Sbjct: 110 LSQASPAPMTPMTPHSADPGIVPQLQNIVSTVNLNCKLDLKKIALHARNAEYNPKRFAAV 169

Query: 58  IMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVG 117
           IMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGF AKFLDFKIQNMVG
Sbjct: 170 IMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGFTAKFLDFKIQNMVG 229

Query: 118 SCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
           SCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT
Sbjct: 230 SCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 282
General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II.
Spodoptera frugiperda (taxid: 7108)
>sp|O45211|TBP_BOMMO TATA-box-binding protein OS=Bombyx mori GN=Tbp PE=2 SV=1 Back     alignment and function description
>sp|A6H907|TBPL2_PANTR TATA box-binding protein-like protein 2 OS=Pan troglodytes GN=TBPL2 PE=2 SV=1 Back     alignment and function description
>sp|Q92146|TBP_TRIGA TATA-box-binding protein OS=Trimeresurus gramineus GN=TBP PE=3 SV=1 Back     alignment and function description
>sp|Q92117|TBP_PROFL TATA-box-binding protein OS=Protobothrops flavoviridis GN=TBP PE=3 SV=1 Back     alignment and function description
>sp|P53360|TBP_MESAU TATA-box-binding protein OS=Mesocricetus auratus GN=TBP PE=2 SV=1 Back     alignment and function description
>sp|P29037|TBP_MOUSE TATA-box-binding protein OS=Mus musculus GN=Tbp PE=1 SV=1 Back     alignment and function description
>sp|P20227|TBP_DROME TATA-box-binding protein OS=Drosophila melanogaster GN=Tbp PE=1 SV=1 Back     alignment and function description
>sp|Q6SJ96|TBPL2_HUMAN TATA box-binding protein-like protein 2 OS=Homo sapiens GN=TBPL2 PE=2 SV=1 Back     alignment and function description
>sp|O13270|TBP_CHICK TATA-box-binding protein OS=Gallus gallus GN=TBP PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query172
340727525 314 PREDICTED: TATA-box-binding protein-like 0.988 0.541 0.924 2e-86
383858146 318 PREDICTED: TATA-box-binding protein-like 0.988 0.534 0.930 2e-86
346470907 309 hypothetical protein [Amblyomma maculatu 0.976 0.543 0.924 2e-86
380027888 319 PREDICTED: TATA-box-binding protein-like 0.988 0.532 0.930 3e-86
66536790 319 PREDICTED: TATA-box-binding protein-like 0.988 0.532 0.930 3e-86
427788157 308 Putative tata-box-binding protein [Rhipi 0.976 0.545 0.924 3e-86
241566250 286 TATA-box binding protein (TBP), componen 0.976 0.587 0.924 7e-86
291241110 293 PREDICTED: TATA box binding protein-like 0.988 0.580 0.898 1e-85
307204782 304 TATA-box-binding protein [Harpegnathos s 0.988 0.559 0.919 2e-85
242022166 298 trf2 protein, putative [Pediculus humanu 0.988 0.570 0.913 1e-84
>gi|340727525|ref|XP_003402092.1| PREDICTED: TATA-box-binding protein-like [Bombus terrestris] gi|350422935|ref|XP_003493334.1| PREDICTED: TATA-box-binding protein-like [Bombus impatiens] Back     alignment and taxonomy information
 Score =  323 bits (827), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 160/173 (92%), Positives = 164/173 (94%), Gaps = 3/173 (1%)

Query: 1   MSPSTPGP--PMTPVDMGGSV-PQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAV 57
           ++PSTPGP  PMTP     ++ PQLQNIVSTVNL CKLDLKKIALHARNAEYNPKRFAAV
Sbjct: 117 IAPSTPGPMTPMTPASADPAILPQLQNIVSTVNLNCKLDLKKIALHARNAEYNPKRFAAV 176

Query: 58  IMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVG 117
           IMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVG
Sbjct: 177 IMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVG 236

Query: 118 SCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
           SCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT
Sbjct: 237 SCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 289

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|383858146|ref|XP_003704563.1| PREDICTED: TATA-box-binding protein-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|346470907|gb|AEO35298.1| hypothetical protein [Amblyomma maculatum] Back     alignment and taxonomy information
>gi|380027888|ref|XP_003697647.1| PREDICTED: TATA-box-binding protein-like [Apis florea] Back     alignment and taxonomy information
>gi|66536790|ref|XP_623088.1| PREDICTED: TATA-box-binding protein-like isoform 1 [Apis mellifera] Back     alignment and taxonomy information
>gi|427788157|gb|JAA59530.1| Putative tata-box-binding protein [Rhipicephalus pulchellus] Back     alignment and taxonomy information
>gi|241566250|ref|XP_002402125.1| TATA-box binding protein (TBP), component of TFII-D and TFIIIB, putative [Ixodes scapularis] gi|215499985|gb|EEC09479.1| TATA-box binding protein (TBP), component of TFII-D and TFIIIB, putative [Ixodes scapularis] Back     alignment and taxonomy information
>gi|291241110|ref|XP_002740460.1| PREDICTED: TATA box binding protein-like [Saccoglossus kowalevskii] Back     alignment and taxonomy information
>gi|307204782|gb|EFN83340.1| TATA-box-binding protein [Harpegnathos saltator] Back     alignment and taxonomy information
>gi|242022166|ref|XP_002431512.1| trf2 protein, putative [Pediculus humanus corporis] gi|212516806|gb|EEB18774.1| trf2 protein, putative [Pediculus humanus corporis] 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 ?
Query172
UNIPROTKB|Q28DH2322 tbpl2 "TATA box-binding protei 0.912 0.487 0.936 5.1e-74
UNIPROTKB|Q5UE94320 tbpl2 "TATA box-binding protei 0.912 0.490 0.936 5.1e-74
FB|FBgn0003687353 Tbp "TATA binding protein" [Dr 0.895 0.436 0.961 1.7e-73
UNIPROTKB|F1NEQ8321 TBPL2 "Uncharacterized protein 0.912 0.489 0.929 1.7e-73
UNIPROTKB|O13270302 TBP "TATA-box-binding protein" 0.912 0.519 0.929 2.2e-73
UNIPROTKB|Q6JLB1302 TBP "TATA-binding protein" [Ga 0.912 0.519 0.929 2.2e-73
UNIPROTKB|Q2HJ52319 TBP "TATA-box-binding protein" 0.912 0.492 0.929 2.2e-73
UNIPROTKB|F1PQA5324 TBP "Uncharacterized protein" 0.912 0.484 0.929 2.2e-73
UNIPROTKB|P20226339 TBP "TATA-box-binding protein" 0.912 0.463 0.929 2.2e-73
UNIPROTKB|P27633297 tbp "TATA-box-binding protein" 0.912 0.528 0.929 2.2e-73
UNIPROTKB|Q28DH2 tbpl2 "TATA box-binding protein-like protein 2" [Xenopus (Silurana) tropicalis (taxid:8364)] Back     alignment and assigned GO terms
 Score = 747 (268.0 bits), Expect = 5.1e-74, P = 5.1e-74
 Identities = 147/157 (93%), Positives = 151/157 (96%)

Query:    14 DMGGSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSS 73
             +  G VPQLQNIVSTVNL CKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSS
Sbjct:   140 ESSGIVPQLQNIVSTVNLACKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSS 199

Query:    74 GKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLT 133
             GKMVCTGAKSEE SRLAARKYAR++QKLGFPAKFLDFKIQNMVGSCDV+FPIRLEGLVLT
Sbjct:   200 GKMVCTGAKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVRFPIRLEGLVLT 259

Query:   134 HGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
             H QFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT
Sbjct:   260 HQQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 296
GO:0003677 "DNA binding" evidence=IDA
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISS
GO:0006351 "transcription, DNA-dependent" evidence=ISS
GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISS
GO:0007369 "gastrulation" evidence=ISS
GO:0009790 "embryo development" evidence=ISS
UNIPROTKB|Q5UE94 tbpl2 "TATA box-binding protein-like protein 2" [Xenopus laevis (taxid:8355)] Back     alignment and assigned GO terms
FB|FBgn0003687 Tbp "TATA binding protein" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
UNIPROTKB|F1NEQ8 TBPL2 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|O13270 TBP "TATA-box-binding protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q6JLB1 TBP "TATA-binding protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q2HJ52 TBP "TATA-box-binding protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1PQA5 TBP "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|P20226 TBP "TATA-box-binding protein" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|P27633 tbp "TATA-box-binding protein" [Xenopus laevis (taxid:8355)] 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) ?
P13393TBP_YEASTNo assigned EC number0.84510.89530.6416yesN/A
P28148TBP2_ARATHNo assigned EC number0.82200.92440.795noN/A
O45211TBP_BOMMONo assigned EC number0.90170.98830.5537N/AN/A
P50158TBP1_MAIZENo assigned EC number0.84040.92440.795N/AN/A
Q28GG8TBP_XENTRNo assigned EC number0.89470.98830.5723yesN/A
P91809TBP_STRPUNo assigned EC number0.88230.98250.6377yesN/A
O43133TBP_CANALNo assigned EC number0.84860.87790.6344N/AN/A
P26356TBP1_WHEATNo assigned EC number0.80980.92440.6824N/AN/A
P26357TBP_SOLTUNo assigned EC number0.83430.92440.795N/AN/A
P26355TBP_DICDINo assigned EC number0.77410.88370.7414yesN/A
Q5UE94TBPL2_XENLANo assigned EC number0.93030.91270.4906N/AN/A
P46272TBP_ACECLNo assigned EC number0.79010.91860.8272N/AN/A
O17488TBP_ARTSFNo assigned EC number0.88950.97670.6109N/AN/A
Q42808TBP_SOYBNNo assigned EC number0.83430.92440.795yesN/A
Q1JPY4TBPL2_DANRENo assigned EC number0.90500.91270.5032noN/A
P93348TBP_TOBACNo assigned EC number0.83430.92440.795N/AN/A
P32085TBP_CAEELNo assigned EC number0.82420.94760.4794yesN/A
Q12731TBP_EMENINo assigned EC number0.79280.97670.6268yesN/A
P50159TBP2_MAIZENo assigned EC number0.84040.92440.795N/AN/A
P29037TBP_MOUSENo assigned EC number0.89470.98830.5379yesN/A
P28147TBP1_ARATHNo assigned EC number0.81090.93020.8noN/A
O13270TBP_CHICKNo assigned EC number0.89470.98830.5629yesN/A
Q8W0W4TBP2_ORYSJNo assigned EC number0.83430.92440.7832yesN/A
A1RSQ1TBP_PYRILNo assigned EC number0.47790.91270.7889yesN/A
Q6SJ96TBPL2_HUMANNo assigned EC number0.90410.96510.4426yesN/A
Q27850TBP_TETTHNo assigned EC number0.75490.87200.6097N/AN/A
P53361TBP_SPOFRNo assigned EC number0.91320.98830.5537N/AN/A
Q02879TBP2_WHEATNo assigned EC number0.82820.92440.7910N/AN/A
P17871TBP_SCHPONo assigned EC number0.82690.90110.6709yesN/A
Q2HJ52TBP_BOVINNo assigned EC number0.89470.98830.5329yesN/A
P48511TBP_MESCRNo assigned EC number0.83430.94180.81N/AN/A
A6H907TBPL2_PANTRNo assigned EC number0.91010.96510.4414yesN/A
Q28DH2TBPL2_XENTRNo assigned EC number0.93030.91270.4875noN/A
P20227TBP_DROMENo assigned EC number0.91220.98830.4815yesN/A
Q7SXL3TBP_DANRENo assigned EC number0.88880.98830.5629yesN/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 ?
Query172
cd04516174 cd04516, TBP_eukaryotes, eukaryotic TATA box bindi 1e-118
PLN00062179 PLN00062, PLN00062, TATA-box-binding protein; Prov 1e-115
cd00652174 cd00652, TBP_TLF, TATA box binding protein (TBP): 1e-102
COG2101185 COG2101, SPT15, TATA-box binding protein (TBP), co 2e-77
cd04517174 cd04517, TLF, TBP-like factors (TLF; also called T 3e-55
PRK00394179 PRK00394, PRK00394, transcription factor; Reviewed 1e-52
cd04518174 cd04518, TBP_archaea, archaeal TATA box binding pr 2e-50
pfam0035286 pfam00352, TBP, Transcription factor TFIID (or TAT 2e-44
pfam0035286 pfam00352, TBP, Transcription factor TFIID (or TAT 2e-30
PRK00394179 PRK00394, PRK00394, transcription factor; Reviewed 5e-26
cd04518174 cd04518, TBP_archaea, archaeal TATA box binding pr 5e-26
COG2101185 COG2101, SPT15, TATA-box binding protein (TBP), co 1e-22
cd00652174 cd00652, TBP_TLF, TATA box binding protein (TBP): 2e-21
cd04516174 cd04516, TBP_eukaryotes, eukaryotic TATA box bindi 5e-13
PLN00062179 PLN00062, PLN00062, TATA-box-binding protein; Prov 5e-11
cd04517174 cd04517, TLF, TBP-like factors (TLF; also called T 7e-09
>gnl|CDD|239952 cd04516, TBP_eukaryotes, eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription Back     alignment and domain information 
 Score =  331 bits (851), Expect = e-118
 Identities = 137/152 (90%), Positives = 146/152 (96%)

Query: 19  VPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVC 78
           VP++QNIV+TVNLGCKLDLKKIAL ARNAEYNPKRFAAVIMRIREP+TTALIFSSGKMVC
Sbjct: 1   VPKIQNIVATVNLGCKLDLKKIALRARNAEYNPKRFAAVIMRIREPKTTALIFSSGKMVC 60

Query: 79  TGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFS 138
           TGAKSE+DS+LAARKYARIIQKLGFPAKF DFKIQN+VGSCDVKFPIRLEGL   H QFS
Sbjct: 61  TGAKSEDDSKLAARKYARIIQKLGFPAKFTDFKIQNIVGSCDVKFPIRLEGLAHAHKQFS 120

Query: 139 SYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
           SYEPELFPGLIYRMVKP+IVLLIFVSGK+VLT
Sbjct: 121 SYEPELFPGLIYRMVKPKIVLLIFVSGKIVLT 152

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. Length = 174
>gnl|CDD|177693 PLN00062, PLN00062, TATA-box-binding protein; Provisional Back     alignment and domain information
>gnl|CDD|238352 cd00652, TBP_TLF, TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription Back     alignment and domain information
>gnl|CDD|225012 COG2101, SPT15, TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription] Back     alignment and domain information
>gnl|CDD|239953 cd04517, TLF, TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans Back     alignment and domain information
>gnl|CDD|234746 PRK00394, PRK00394, transcription factor; Reviewed Back     alignment and domain information
>gnl|CDD|239954 cd04518, TBP_archaea, archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription Back     alignment and domain information
>gnl|CDD|201174 pfam00352, TBP, Transcription factor TFIID (or TATA-binding protein, TBP) Back     alignment and domain information
>gnl|CDD|201174 pfam00352, TBP, Transcription factor TFIID (or TATA-binding protein, TBP) Back     alignment and domain information
>gnl|CDD|234746 PRK00394, PRK00394, transcription factor; Reviewed Back     alignment and domain information
>gnl|CDD|239954 cd04518, TBP_archaea, archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription Back     alignment and domain information
>gnl|CDD|225012 COG2101, SPT15, TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription] Back     alignment and domain information
>gnl|CDD|238352 cd00652, TBP_TLF, TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription Back     alignment and domain information
>gnl|CDD|239952 cd04516, TBP_eukaryotes, eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription Back     alignment and domain information
>gnl|CDD|177693 PLN00062, PLN00062, TATA-box-binding protein; Provisional Back     alignment and domain information
>gnl|CDD|239953 cd04517, TLF, TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 172
cd04516174 TBP_eukaryotes eukaryotic TATA box binding protein 100.0
COG2101185 SPT15 TATA-box binding protein (TBP), component of 100.0
PLN00062179 TATA-box-binding protein; Provisional 100.0
KOG3302|consensus200 100.0
cd04518174 TBP_archaea archaeal TATA box binding protein (TBP 100.0
cd00652174 TBP_TLF TATA box binding protein (TBP): Present in 100.0
PRK00394179 transcription factor; Reviewed 100.0
cd04517174 TLF TBP-like factors (TLF; also called TLP, TRF, T 100.0
PF0035286 TBP: Transcription factor TFIID (or TATA-binding p 99.98
COG2101185 SPT15 TATA-box binding protein (TBP), component of 99.96
PRK00394179 transcription factor; Reviewed 99.96
cd04518174 TBP_archaea archaeal TATA box binding protein (TBP 99.96
cd00652174 TBP_TLF TATA box binding protein (TBP): Present in 99.95
PLN00062179 TATA-box-binding protein; Provisional 99.94
cd04516174 TBP_eukaryotes eukaryotic TATA box binding protein 99.93
cd04517174 TLF TBP-like factors (TLF; also called TLP, TRF, T 99.93
PF0035286 TBP: Transcription factor TFIID (or TATA-binding p 99.93
KOG3302|consensus200 99.85
PF1185881 DUF3378: Domain of unknown function (DUF3378); Int 97.17
COG4871193 Uncharacterized protein conserved in archaea [Func 96.88
PF1185881 DUF3378: Domain of unknown function (DUF3378); Int 95.75
TIGR00716 284 rnhC ribonuclease HIII. Two types of ribonuclease 95.26
PRK00996 304 ribonuclease HIII; Provisional 94.66
COG1039 297 RnhC Ribonuclease HIII [DNA replication, recombina 94.52
PRK12475338 thiamine/molybdopterin biosynthesis MoeB-like prot 89.77
PRK07688339 thiamine/molybdopterin biosynthesis ThiF/MoeB-like 86.34
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription Back     alignment and domain information 
Probab=100.00  E-value=6.1e-65  Score=407.53  Aligned_cols=153  Identities=90%  Similarity=1.357  Sum_probs=150.5

Q ss_pred             CcEEEEEEEEEEcCCccChHHHHhhCCCcEEcCcccceEEEEEcCCcEEEEEecCCeEEEEeeCCHHHHHHHHHHHHHHH
Q psy17242         19 VPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYARII   98 (172)
Q Consensus        19 ~~~I~NvVas~~l~~~ldL~~la~~~~n~~YePe~fpgli~R~~~Pk~t~lIf~SGKivitGakS~e~a~~a~~k~~~~L   98 (172)
                      +++|+|||||++++|+|||++||..++|++||||+|||++||+++|+++++||+||||+||||+|+|+++.|+++++++|
T Consensus         1 ~~~I~NvVas~~l~~~idL~~la~~~~n~eYePe~fpgli~Rl~~Pk~t~lIF~SGKiviTGaks~e~a~~a~~~i~~~L   80 (174)
T cd04516           1 VPKIQNIVATVNLGCKLDLKKIALRARNAEYNPKRFAAVIMRIREPKTTALIFSSGKMVCTGAKSEDDSKLAARKYARII   80 (174)
T ss_pred             CCEEEEEEEEEEcCCeecHHHHHhhCCCCEECCccCcEEEEEeCCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCCccccceEEEEEEEeecCccccHHHHHHHcCCCcccccCCCceeEEEEcCCcEEEEEecCcEEEEEe
Q psy17242         99 QKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLTV  171 (172)
Q Consensus        99 ~~~g~~v~~~~f~v~NIvat~~~~f~I~Le~la~~~~~~~~YEPE~fPGliyR~~~~k~~~lIF~SGkvviTg  171 (172)
                      +++|+++++.+|+|||||||+||+|+||||+||..|.++++||||+||||+||+.+||+++|||+||||||||
T Consensus        81 ~~~g~~~~~~~~~v~Nivat~~l~~~i~L~~la~~~~~~~~YePE~fPgliyr~~~pk~~~liF~sGkvvitG  153 (174)
T cd04516          81 QKLGFPAKFTDFKIQNIVGSCDVKFPIRLEGLAHAHKQFSSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTG  153 (174)
T ss_pred             HHcCCCCCCCceEEEEEEEEEECCCcccHHHHHHhChhccEeCCccCceEEEEecCCcEEEEEeCCCEEEEEe
Confidence            9999999999999999999999999999999999888889999999999999999999999999999999998

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
>COG2101 SPT15 TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription] Back     alignment and domain information
>PLN00062 TATA-box-binding protein; Provisional Back     alignment and domain information
>KOG3302|consensus Back     alignment and domain information
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription Back     alignment and domain information
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription Back     alignment and domain information
>PRK00394 transcription factor; Reviewed Back     alignment and domain information
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans Back     alignment and domain information
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ] Back     alignment and domain information
>COG2101 SPT15 TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription] Back     alignment and domain information
>PRK00394 transcription factor; Reviewed Back     alignment and domain information
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription Back     alignment and domain information
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription Back     alignment and domain information
>PLN00062 TATA-box-binding protein; Provisional Back     alignment and domain information
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription Back     alignment and domain information
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans Back     alignment and domain information
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ] Back     alignment and domain information
>KOG3302|consensus Back     alignment and domain information
>PF11858 DUF3378: Domain of unknown function (DUF3378); InterPro: IPR024568 Ribonuclease HIII 3 Back     alignment and domain information
>COG4871 Uncharacterized protein conserved in archaea [Function unknown] Back     alignment and domain information
>PF11858 DUF3378: Domain of unknown function (DUF3378); InterPro: IPR024568 Ribonuclease HIII 3 Back     alignment and domain information
>TIGR00716 rnhC ribonuclease HIII Back     alignment and domain information
>PRK00996 ribonuclease HIII; Provisional Back     alignment and domain information
>COG1039 RnhC Ribonuclease HIII [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK12475 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional Back     alignment and domain information
>PRK07688 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated 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 ?
Query172
1jfi_C185 Crystal Structure Of The Nc2-Tbp-Dna Ternary Comple 4e-83
1cdw_A179 Human Tbp Core Domain Complexed With Dna Length = 1 1e-82
1nvp_A181 Human TfiiaTBPDNA COMPLEX Length = 181 1e-82
1tgh_A185 Tata Binding Protein (Tbp)DNA COMPLEX Length = 185 2e-82
1c9b_B180 Crystal Structure Of A Human Tbp Core Domain-Human 2e-82
1rm1_A240 Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex L 3e-76
1tbp_A180 Crystal Structure Of Yeast Tata-Binding Protein And 8e-76
1ytb_A180 Crystal Structure Of A Yeast TbpTATA-Box Complex Le 8e-76
1vtl_E186 Co-Crystal Structure Of Tbp Recognizing The Minor G 1e-73
1vto_A190 1.9 A Resolution Refined Structure Of Tbp Recognizi 1e-73
1vok_A200 Arabidopsis Thaliana Tbp (Dimer) Length = 200 1e-73
3oc3_C218 Crystal Structure Of The Mot1 N-Terminal Domain In 3e-68
3eik_A218 Double Stranded Dna Binding Protein Length = 218 3e-68
2z8u_A188 Methanococcus Jannaschii Tbp Length = 188 9e-29
1mp9_A198 Tbp From A Mesothermophilic Archaeon, Sulfolobus Ac 2e-27
1ais_A182 Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA- 1e-26
1d3u_A181 Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+T 1e-26
1pcz_A191 Structure Of Tata-Binding Protein Length = 191 1e-26
>pdb|1JFI|C Chain C, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex Length = 185 Back     alignment and structure 
Iteration: 1

 Score =  303 bits (775), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 147/157 (93%), Positives = 150/157 (95%)
Query: 14  DMGGSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSS 73
            M G VPQLQNIVSTVNLGCKLDLK IAL ARNAEYNPKRFAAVIMRIREPRTTALIFSS
Sbjct: 3   HMSGIVPQLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSS 62
Query: 74  GKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLT 133
           GKMVCTGAKSEE SRLAARKYAR++QKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLT
Sbjct: 63  GKMVCTGAKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLT 122
Query: 134 HGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
           H QFSSYEPELFPGLIYRM+KPRIVLLIFVSGKVVLT
Sbjct: 123 HQQFSSYEPELFPGLIYRMIKPRIVLLIFVSGKVVLT 159
>pdb|1CDW|A Chain A, Human Tbp Core Domain Complexed With Dna Length = 179 Back     alignment and structure
>pdb|1NVP|A Chain A, Human TfiiaTBPDNA COMPLEX Length = 181 Back     alignment and structure
>pdb|1TGH|A Chain A, Tata Binding Protein (Tbp)DNA COMPLEX Length = 185 Back     alignment and structure
>pdb|1C9B|B Chain B, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib Core Domain Complex Bound To An Extended, Modified Adenoviral Major Late Promoter (Admlp) Length = 180 Back     alignment and structure
>pdb|1RM1|A Chain A, Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex Length = 240 Back     alignment and structure
>pdb|1TBP|A Chain A, Crystal Structure Of Yeast Tata-Binding Protein And Model For Interaction With Dna Length = 180 Back     alignment and structure
>pdb|1YTB|A Chain A, Crystal Structure Of A Yeast TbpTATA-Box Complex Length = 180 Back     alignment and structure
>pdb|1VTL|E Chain E, Co-Crystal Structure Of Tbp Recognizing The Minor Groove Of A Tata Element Length = 186 Back     alignment and structure
>pdb|1VTO|A Chain A, 1.9 A Resolution Refined Structure Of Tbp Recognizing The Minor Groove Of Tataaaag Length = 190 Back     alignment and structure
>pdb|1VOK|A Chain A, Arabidopsis Thaliana Tbp (Dimer) Length = 200 Back     alignment and structure
>pdb|3OC3|C Chain C, Crystal Structure Of The Mot1 N-Terminal Domain In Complex With Tbp Length = 218 Back     alignment and structure
>pdb|3EIK|A Chain A, Double Stranded Dna Binding Protein Length = 218 Back     alignment and structure
>pdb|2Z8U|A Chain A, Methanococcus Jannaschii Tbp Length = 188 Back     alignment and structure
>pdb|1MP9|A Chain A, Tbp From A Mesothermophilic Archaeon, Sulfolobus Acidocaldarius Length = 198 Back     alignment and structure
>pdb|1AIS|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-Box Complex From Pyrococcus Woesei Length = 182 Back     alignment and structure
>pdb|1D3U|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+TATA- Box Complex From Pyrococcus Woesei Length = 181 Back     alignment and structure
>pdb|1PCZ|A Chain A, Structure Of Tata-Binding Protein Length = 191 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 ?
Query172
3eik_A218 Tata-box-binding protein; DNA-binding, initiation 4e-74
3eik_A218 Tata-box-binding protein; DNA-binding, initiation 7e-21
1rm1_A240 Tata-box binding protein; yeast TFIIA, TBP protein 7e-71
1rm1_A 240 Tata-box binding protein; yeast TFIIA, TBP protein 2e-24
1rm1_A240 Tata-box binding protein; yeast TFIIA, TBP protein 4e-20
1ais_A182 TBP, protein (tata-binding protein); hyperthermoph 9e-71
1ais_A182 TBP, protein (tata-binding protein); hyperthermoph 3e-24
1ytb_A180 Protein (tata binding protein (TBP)); protein-DNA 7e-69
1ytb_A180 Protein (tata binding protein (TBP)); protein-DNA 2e-20
1ytb_A 180 Protein (tata binding protein (TBP)); protein-DNA 2e-13
1mp9_A198 Tata-binding protein; transcription regulation, DN 2e-68
1mp9_A198 Tata-binding protein; transcription regulation, DN 2e-24
1mp9_A 198 Tata-binding protein; transcription regulation, DN 2e-14
2z8u_A188 Tata-box-binding protein; transcription, DNA-bindi 1e-67
2z8u_A188 Tata-box-binding protein; transcription, DNA-bindi 2e-24
2z8u_A 188 Tata-box-binding protein; transcription, DNA-bindi 1e-14
>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C Length = 218 Back     alignment and structure
 Score =  220 bits (562), Expect = 4e-74
 Identities = 120/157 (76%), Positives = 136/157 (86%)

Query: 14  DMGGSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSS 73
           +  G +P LQN+V+TVNL CKLDLK IAL ARNAEYNPKRFAAVIMRIREP+TTALIF+S
Sbjct: 37  NRSGIIPTLQNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFAS 96

Query: 74  GKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLT 133
           GKMV TGAKSE+ SR+AA++YA+II KLGF A F DFKIQN+V SCD+KF IRLEGL   
Sbjct: 97  GKMVITGAKSEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYA 156

Query: 134 HGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
           H  + SYEPELFPGLIYRMVKP+IVLLIFVSGK+VLT
Sbjct: 157 HSNYCSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLT 193
>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C Length = 218 Back     alignment and structure
>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 Length = 240 Back     alignment and structure
>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 Length = 240 Back     alignment and structure
>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 Length = 240 Back     alignment and structure
>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A Length = 182 Back     alignment and structure
>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A Length = 182 Back     alignment and structure
>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ... Length = 180 Back     alignment and structure
>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ... Length = 180 Back     alignment and structure
>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ... Length = 180 Back     alignment and structure
>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1 Length = 198 Back     alignment and structure
>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1 Length = 198 Back     alignment and structure
>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1 Length = 198 Back     alignment and structure
>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii} Length = 188 Back     alignment and structure
>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii} Length = 188 Back     alignment and structure
>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii} Length = 188 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query172
1ytb_A180 Protein (tata binding protein (TBP)); protein-DNA 100.0
3eik_A218 Tata-box-binding protein; DNA-binding, initiation 100.0
1rm1_A240 Tata-box binding protein; yeast TFIIA, TBP protein 100.0
1ais_A182 TBP, protein (tata-binding protein); hyperthermoph 100.0
2z8u_A188 Tata-box-binding protein; transcription, DNA-bindi 100.0
1mp9_A198 Tata-binding protein; transcription regulation, DN 100.0
2z8u_A188 Tata-box-binding protein; transcription, DNA-bindi 99.96
1rm1_A 240 Tata-box binding protein; yeast TFIIA, TBP protein 99.96
1mp9_A198 Tata-binding protein; transcription regulation, DN 99.96
1ais_A182 TBP, protein (tata-binding protein); hyperthermoph 99.96
1ytb_A180 Protein (tata binding protein (TBP)); protein-DNA 99.94
3eik_A218 Tata-box-binding protein; DNA-binding, initiation 99.93
2d0b_A 310 RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hyd 94.46
3vn5_A 257 RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {A 94.38
>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ... Back     alignment and structure
Probab=100.00  E-value=2e-66  Score=416.94  Aligned_cols=155  Identities=85%  Similarity=1.317  Sum_probs=152.6

Q ss_pred             CCCcEEEEEEEEEEcCCccChHHHHhhCCCcEEcCcccceEEEEEcCCcEEEEEecCCeEEEEeeCCHHHHHHHHHHHHH
Q psy17242         17 GSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKYAR   96 (172)
Q Consensus        17 ~~~~~I~NvVas~~l~~~ldL~~la~~~~n~~YePe~fpgli~R~~~Pk~t~lIf~SGKivitGakS~e~a~~a~~k~~~   96 (172)
                      ++.++|+|||||++++|+|||++||..++|++||||+|||++||+++|+++++||+||||+||||||+|+++.|++++++
T Consensus         2 ~~~~~I~NiVas~~l~~~ldL~~ia~~~~n~eYePe~fpgli~R~~~Pk~~~lIF~SGKiv~TGaks~e~~~~a~~~i~~   81 (180)
T 1ytb_A            2 GIVPTLQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKSEDDSKLASRKYAR   81 (180)
T ss_dssp             CCCCEEEEEEEEEECCSCCCHHHHHHHSSSEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHH
T ss_pred             CCceEEEEEEEEEEcCCccCHHHHHhhCCCCEECccccCCEEEEeCCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCCccccceEEEEEEEeecCccccHHHHHHHcCCCcccccCCCceeEEEEcCCcEEEEEecCcEEEEEe
Q psy17242         97 IIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLTV  171 (172)
Q Consensus        97 ~L~~~g~~v~~~~f~v~NIvat~~~~f~I~Le~la~~~~~~~~YEPE~fPGliyR~~~~k~~~lIF~SGkvviTg  171 (172)
                      +|+++|+++++.+|+|||||||||++|+||||+||..|+++++|||||||||+|||.+||+++|||+||||||||
T Consensus        82 ~L~~lg~~~~~~~~~i~NIvas~dl~~~I~Le~la~~~~~~~~YEPE~fPGliyR~~~pkv~~lIF~SGkivitG  156 (180)
T 1ytb_A           82 IIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTG  156 (180)
T ss_dssp             HHHHHTCCCCCEEEEEEEEEEEEECSSCBCHHHHHHHTTTTEECCTTTCSSEEEECSSSCCEEEECTTSEEEEEE
T ss_pred             HHHHcCCCcccccceEEEEEEEEECCCccCHHHHHHhcccceEECCccCCcEEEEeCCCcEEEEEecCCeEEEEe
Confidence            999999999999999999999999999999999999998899999999999999999999999999999999999
>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C Back     alignment and structure
>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 Back     alignment and structure
>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A Back     alignment and structure
>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii} Back     alignment and structure
>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1 Back     alignment and structure
>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii} Back     alignment and structure
>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 Back     alignment and structure
>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1 Back     alignment and structure
>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A Back     alignment and structure
>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ... Back     alignment and structure
>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C Back     alignment and structure
>2d0b_A RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hydrolase; 2.10A {Geobacillus stearothermophilus} PDB: 2d0a_A 2d0c_A 3asm_A Back     alignment and structure
>3vn5_A RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {Aquifex aeolicus} 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 172
d1qnaa199 d.129.1.1 (A:17-115) TATA-box binding protein (TBP 5e-48
d1qnaa199 d.129.1.1 (A:17-115) TATA-box binding protein (TBP 1e-22
d1aisa192 d.129.1.1 (A:1-92) TATA-box binding protein (TBP), 6e-41
d1aisa192 d.129.1.1 (A:1-92) TATA-box binding protein (TBP), 5e-26
d1mp9a192 d.129.1.1 (A:5-96) TATA-box binding protein (TBP), 7e-40
d1mp9a192 d.129.1.1 (A:5-96) TATA-box binding protein (TBP), 3e-23
d1mp9a2101 d.129.1.1 (A:97-197) TATA-box binding protein (TBP 3e-38
d1mp9a2101 d.129.1.1 (A:97-197) TATA-box binding protein (TBP 2e-25
d1aisa289 d.129.1.1 (A:93-181) TATA-box binding protein (TBP 2e-37
d1aisa289 d.129.1.1 (A:93-181) TATA-box binding protein (TBP 5e-25
d1qnaa283 d.129.1.1 (A:116-198) TATA-box binding protein (TB 8e-31
d1qnaa283 d.129.1.1 (A:116-198) TATA-box binding protein (TB 5e-25
>d1qnaa1 d.129.1.1 (A:17-115) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 99 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  149 bits (377), Expect = 5e-48
 Identities = 83/96 (86%), Positives = 89/96 (92%)

Query: 17  GSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKM 76
           G VP LQNIVSTVNL CKLDLK IAL ARNAEYNPKRFAAVIMRIREP+TTALIF+SGKM
Sbjct: 4   GIVPTLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKM 63

Query: 77  VCTGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKI 112
           VCTGAKSE+ S++AARKYARI+QKLGFPAKF DFKI
Sbjct: 64  VCTGAKSEDFSKMAARKYARIVQKLGFPAKFKDFKI 99
>d1qnaa1 d.129.1.1 (A:17-115) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 99 Back     information, alignment and structure
>d1aisa1 d.129.1.1 (A:1-92) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 92 Back     information, alignment and structure
>d1aisa1 d.129.1.1 (A:1-92) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 92 Back     information, alignment and structure
>d1mp9a1 d.129.1.1 (A:5-96) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 92 Back     information, alignment and structure
>d1mp9a1 d.129.1.1 (A:5-96) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 92 Back     information, alignment and structure
>d1mp9a2 d.129.1.1 (A:97-197) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 101 Back     information, alignment and structure
>d1mp9a2 d.129.1.1 (A:97-197) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 101 Back     information, alignment and structure
>d1aisa2 d.129.1.1 (A:93-181) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 89 Back     information, alignment and structure
>d1aisa2 d.129.1.1 (A:93-181) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 89 Back     information, alignment and structure
>d1qnaa2 d.129.1.1 (A:116-198) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 83 Back     information, alignment and structure
>d1qnaa2 d.129.1.1 (A:116-198) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 83 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 ?
Query172
d1qnaa199 TATA-box binding protein (TBP), C-terminal domain 100.0
d1aisa192 TATA-box binding protein (TBP), C-terminal domain 100.0
d1mp9a192 TATA-box binding protein (TBP), C-terminal domain 100.0
d1aisa289 TATA-box binding protein (TBP), C-terminal domain 100.0
d1mp9a2101 TATA-box binding protein (TBP), C-terminal domain 99.97
d1qnaa283 TATA-box binding protein (TBP), C-terminal domain 99.97
d1qnaa283 TATA-box binding protein (TBP), C-terminal domain 99.95
d1aisa289 TATA-box binding protein (TBP), C-terminal domain 99.94
d1aisa192 TATA-box binding protein (TBP), C-terminal domain 99.94
d1mp9a192 TATA-box binding protein (TBP), C-terminal domain 99.93
d1mp9a2101 TATA-box binding protein (TBP), C-terminal domain 99.93
d1qnaa199 TATA-box binding protein (TBP), C-terminal domain 99.93
>d1qnaa1 d.129.1.1 (A:17-115) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=100.00  E-value=5.4e-38  Score=228.32  Aligned_cols=98  Identities=85%  Similarity=1.225  Sum_probs=95.4

Q ss_pred             CCCCCcEEEEEEEEEEcCCccChHHHHhhCCCcEEcCcccceEEEEEcCCcEEEEEecCCeEEEEeeCCHHHHHHHHHHH
Q psy17242         15 MGGSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEDSRLAARKY   94 (172)
Q Consensus        15 ~~~~~~~I~NvVas~~l~~~ldL~~la~~~~n~~YePe~fpgli~R~~~Pk~t~lIf~SGKivitGakS~e~a~~a~~k~   94 (172)
                      +++++++|+||||+++++++|||++||..++|++||||+|||+++|+++|+++++||+||||+||||||+|+++.|++++
T Consensus         2 p~~~~p~i~NiVas~~l~~~idL~~la~~~~n~eYePe~fpgli~R~~~P~~t~lIF~SGKivitGaks~~~~~~a~~~i   81 (99)
T d1qnaa1           2 PSGIVPTLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKSEDFSKMAARKY   81 (99)
T ss_dssp             TTSCCCEEEEEEEEEECCSCCCHHHHHHHCSSEEECTTTCSEEEEEETTTTEEEEEETTSEEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCCcEEEEEEEEEEcCCcccHHHHHhhCCCCEECcccCCEEEEEeCCCcEEEEEEcCCEEEEeccCCHHHHHHHHHHH
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCCccccceE
Q psy17242         95 ARIIQKLGFPAKFLDFKI  112 (172)
Q Consensus        95 ~~~L~~~g~~v~~~~f~v  112 (172)
                      +++|+++|+++++.+|+|
T Consensus        82 ~~~l~k~g~~v~~~~f~i   99 (99)
T d1qnaa1          82 ARIVQKLGFPAKFKDFKI   99 (99)
T ss_dssp             HHHHHHTTCCCCCEEEEE
T ss_pred             HHHHHHcCCCCcccccCC
Confidence            999999999999999986
>d1aisa1 d.129.1.1 (A:1-92) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1mp9a1 d.129.1.1 (A:5-96) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Back     information, alignment and structure
>d1aisa2 d.129.1.1 (A:93-181) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1mp9a2 d.129.1.1 (A:97-197) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Back     information, alignment and structure
>d1qnaa2 d.129.1.1 (A:116-198) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d1qnaa2 d.129.1.1 (A:116-198) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d1aisa2 d.129.1.1 (A:93-181) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1aisa1 d.129.1.1 (A:1-92) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1mp9a1 d.129.1.1 (A:5-96) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Back     information, alignment and structure
>d1mp9a2 d.129.1.1 (A:97-197) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Back     information, alignment and structure
>d1qnaa1 d.129.1.1 (A:17-115) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure