Citrus Sinensis ID: 015442

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Local Sequence Feature Prediction

Residue Number Marker
--------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------
Protein Sequence
MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVIIDRTSAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTPLPGSTPLPGTADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNPRPPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEcEEcccccEEEEEccEEEEEccEEEEEEcccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccccccccccccccccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccHcccccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEEEEEccEEEEEEEEEEEEEccEEEEEEEEEEEEEc
Coil and Loop (DISEMBL)
matsatgmVYIRVIEDVISKVRDefvnngpgesvLNELQGIWEMKMIQAGViidrtsapkqpapggpitpvhdlnvpyegteeyetptaeilfpptplqtpiqtplpgstplpgstplpgstplpgtadnstyniptgssdyptpasdsggnteaksgngrpssymppppspwmnprpplsvdvnvayvegrdeadrgtshqpltqdfftmsagkrkredfpaqyhnggynipqqdgagdAMSEIFELEvsefpgrqdsvtTANREIFANLASssvkipqldgpipdpyddvlstpniynyqgvvnedynivntpapndiqastpavvtqndaaeddddeplnendddelddvdqgeelnTQHLVLAQFDKVTRTKSRWKCALKDGimhinnkdilfnkatgefdf
Flexible Loop (DISEMBL)
matsatgmvyIRVIEDVISKVRDefvnngpgesVLNELQGIWEMKMIQAGVIIDRTSAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTPLPGSTPLPGTADNSTYNIPTGSSDYPTPASDSGgnteaksgngrpSSYMPPPPSPWMNPRPPLSVDVNVAYVEGRDeadrgtshqpltqdffTMSAGKRKREDFPAQYHNGGYNIPQQDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDaaeddddeplneNDDDELDDVDQGEELNTQHLvlaqfdkvtrtkSRWKCAlkdgimhinnkdilfnkatgefdf
Low Complexity Region (SEG)
MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVIIDRTSAPKQPAPGGPITPVHDLNVpyegteeyetptaeilfpptplqtpiqtplpgstplpgstplpgstplpgtADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRpssymppppspwmnprpplsVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQndaaeddddeplnendddelddvdqgeelNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF
Disordered region (IsUnstruct)
******GMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVIID*******************************************************************************************************************************************************************************************************************EIFANLA***VKIPQLDGPIPDPYDDVLSTPNIYNYQGVVNEDYNIVNT**********************************************TQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNK*******
Disordered Region (DISOPRED)
******G*VYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKM************************************************************************************************************************************************************************************************************************************************************************************************************************LNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF
Disordered Region (DISEMBL)
MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVIIDRTSAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTPLPGSTPLPGTADNSTYNIPTGSSDY**************************PPSPWMNPRPPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF
Disordered Region (DISPRO)
**TSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVIIDRTS******PGGPITPVHDL******TEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTPLPGSTP***TADNSTYN**T*SSDYPT********************************************************************************************************************************************************************************************************************EELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVIIDRTSAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTPLPGSTPLPGTADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNPRPPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	406	2.2.26 [Sep-21-2011]
Q9USU9	369	Transcription initiation	yes	no	0.869	0.956	0.270	8e-17
P52655	376	Transcription initiation	no	no	0.174	0.188	0.426	1e-10
Q5RCU0	376	Transcription initiation	yes	no	0.174	0.188	0.426	1e-10
O08949	377	Transcription initiation	yes	no	0.165	0.177	0.420	2e-10
Q99PM3	378	Transcription initiation	no	no	0.177	0.190	0.421	2e-10
Q54G80	310	Transcription initiation	yes	no	0.105	0.138	0.604	6e-10
P52654	366	Transcription initiation	no	no	0.157	0.174	0.409	1e-09
P32773	286	Transcription initiation	yes	no	0.157	0.223	0.477	4e-09
Q8R4I4	468	TFIIA-alpha and beta-like	no	no	0.165	0.143	0.376	3e-08
Q9UNN4	478	TFIIA-alpha and beta-like	no	no	0.165	0.140	0.362	6e-07

>sp|Q9USU9|TOA1_SCHPO Transcription initiation factor IIA large subunit OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=toa1 PE=1 SV=1

 Score = 88.6 bits (218), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 114/421 (27%), Positives = 169/421 (40%), Gaps = 68/421 (16%)

Query: 1   MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVIIDRTSAPK 60
           M+ S  G VY  VI DVI+  R +F  NG  ++ L ELQ +W+ K+    V  D  + P 
Sbjct: 1   MSNSIVGEVYHHVILDVIANSRSDFEENGVDDATLRELQNLWQSKL----VATDVATFPW 56

Query: 61  QPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTP---IQTPLPGSTPLPGSTP 117
             AP G                    P  ++  P + L+T    +  P   ++P+     
Sbjct: 57  AQAPVGTF------------------PIGQLFDPVSGLRTDSLDVTAPAVANSPI----- 93

Query: 118 LPGSTPLPGTADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNPR 177
           L     +       T+    G+S+Y +P + S    ++ +     SS +P   S   N  
Sbjct: 94  LNNIAAIRAVQQMDTFAQQHGNSNYYSPPTPSL--PQSATNISFDSSAIPNVQSNPNNTA 151

Query: 178 PPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTM---SAGKRKREDFPAQYHNGGYNIPQ 234
           P  S   N   +     AD      P+  D  T    S G+    D  +    GG  +P 
Sbjct: 152 PFPSYSSNSLQLPTNQTADS-----PIINDHSTANVTSTGQEHAPDSSSTNSFGGLLLPN 206

Query: 235 QDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLS 294
           Q+      SE+ E E S       + T AN         S   +PQ DG I D  DD  S
Sbjct: 207 QNSP--KKSELGETESS-------NTTPAN---------SRNDVPQTDGAIHD-LDDAGS 247

Query: 295 TPNIYNYQGVVNE--DYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDEPLNENDDDELDD 352
             N  + +  + +  D  I      N I      +    D  +   D P +E  + +LDD
Sbjct: 248 PSNFESNRFAIAQKADAEIYEVLKKNRILQIDGTIEDNEDEKKPPVDTPSDEAINSDLDD 307

Query: 353 VDQGEELNT-------QHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFD 405
            D  E   T       Q +VL  +DKV   K++WKC  +DG++ +N KD LF KA GEF+
Sbjct: 308 PDSDEAPETEEGSDIGQAIVLCLYDKVNHHKNKWKCVFRDGVVGVNGKDYLFFKANGEFE 367

Query: 406 F 406
           +
Sbjct: 368 W 368

TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation. TFIIA in a complex with tbp mediates transcriptional activity.
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P52655|TF2AA_HUMAN Transcription initiation factor IIA subunit 1 OS=Homo sapiens GN=GTF2A1 PE=1 SV=1

 Score = 67.8 bits (164), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/75 (42%), Positives = 54/75 (72%), Gaps = 4/75 (5%)

Query: 334 AEDD--DDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHIN 391
           AED   ++EPLN  DD  + D +  E  +T+++V+ Q+DK+ R+K++WK  LKDGIM++N
Sbjct: 304 AEDGQVEEEPLNSEDD--VSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLN 361

Query: 392 NKDILFNKATGEFDF 406
            +D +F+KA G+ ++
Sbjct: 362 GRDYIFSKAIGDAEW 376

TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation. TFIIA in a complex with TBP mediates transcriptional activity.

Homo sapiens (taxid: 9606)

>sp|Q5RCU0|TF2AA_PONAB Transcription initiation factor IIA subunit 1 OS=Pongo abelii GN=GTF2A1 PE=2 SV=1

 Score = 67.8 bits (164), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/75 (42%), Positives = 54/75 (72%), Gaps = 4/75 (5%)

Query: 334 AEDD--DDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHIN 391
           AED   ++EPLN  DD  + D +  E  +T+++V+ Q+DK+ R+K++WK  LKDGIM++N
Sbjct: 304 AEDGQVEEEPLNSEDD--VSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLN 361

Query: 392 NKDILFNKATGEFDF 406
            +D +F+KA G+ ++
Sbjct: 362 GRDYIFSKAIGDAEW 376

TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation. TFIIA in a complex with TBP mediates transcriptional activity.

Pongo abelii (taxid: 9601)

>sp|O08949|TF2AA_RAT Transcription initiation factor IIA subunit 1 OS=Rattus norvegicus GN=Gtf2a1 PE=2 SV=1

 Score = 67.4 bits (163), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 51/69 (73%), Gaps = 2/69 (2%)

Query: 338 DDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILF 397
           ++EPLN  DD  + D +  E  +T+++V+ Q+DK+ R+K++WK  LKDGIM++N +D +F
Sbjct: 311 EEEPLNSEDD--VSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIF 368

Query: 398 NKATGEFDF 406
           +KA G+ ++
Sbjct: 369 SKAIGDAEW 377

TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation. TFIIA in a complex with TBP mediates transcriptional activity.

Rattus norvegicus (taxid: 10116)

>sp|Q99PM3|TF2AA_MOUSE Transcription initiation factor IIA subunit 1 OS=Mus musculus GN=Gtf2a1 PE=2 SV=2

 Score = 67.0 bits (162), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/76 (42%), Positives = 54/76 (71%), Gaps = 4/76 (5%)

Query: 333 AAEDD--DDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHI 390
            AED   ++EPLN  DD  + D +  E  +T+++V+ Q+DK+ R+K++WK  LKDGIM++
Sbjct: 305 GAEDGQVEEEPLNSEDD--VSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNL 362

Query: 391 NNKDILFNKATGEFDF 406
           N +D +F+KA G+ ++
Sbjct: 363 NGRDYIFSKAIGDAEW 378

TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation. TFIIA in a complex with TBP mediates transcriptional activity.

Mus musculus (taxid: 10090)

>sp|Q54G80|TF2AA_DICDI Transcription initiation factor IIA subunit 1 OS=Dictyostelium discoideum GN=gtf2a1 PE=3 SV=1

 Score = 65.9 bits (159), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 26/43 (60%), Positives = 33/43 (76%)

Query: 362 QHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEF 404
           +H VL Q++KV+R K++ KC  KDGIMH+N KD LFNKA GE 
Sbjct: 265 EHFVLCQYEKVSRIKNKRKCNFKDGIMHLNGKDTLFNKANGEM 307

TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation. TFIIA in a complex with tbp mediates transcriptional activity.

Dictyostelium discoideum (taxid: 44689)

>sp|P52654|TF2AA_DROME Transcription initiation factor IIA subunit 1 OS=Drosophila melanogaster GN=TfIIA-L PE=1 SV=2

 Score = 64.3 bits (155), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 46/66 (69%), Gaps = 2/66 (3%)

Query: 341 PLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKA 400
           PLN  DD  + D D  E  +T ++++ Q+DK+TR++++WK  LKDGIM++  KD +F K+
Sbjct: 303 PLNSEDD--VTDEDSAEMFDTDNVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQKS 360

Query: 401 TGEFDF 406
            G+ ++
Sbjct: 361 NGDAEW 366

TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation. TFIIA in a complex with TBP mediates transcriptional activity.

Drosophila melanogaster (taxid: 7227)

>sp|P32773|TOA1_YEAST Transcription initiation factor IIA large subunit OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TOA1 PE=1 SV=1

 Score = 62.8 bits (151), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 32/67 (47%), Positives = 47/67 (70%), Gaps = 3/67 (4%)

Query: 341 PLNENDDDELDDVDQGEELN-TQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNK 399
            L+++DDD L  + +GEE    ++L+L  +DKVTRTK+RWKC+LKDG++ IN  D  F K
Sbjct: 221 ELDDSDDDYL--ISEGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQK 278

Query: 400 ATGEFDF 406
           A  E ++
Sbjct: 279 AQVEAEW 285

TFIIA is a component of the transcription machinery of RNA polymerase II and implicated in the regulation of basal transcription. Interacts with TBP (the TATA-binding protein).

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q8R4I4|TF2AY_MOUSE TFIIA-alpha and beta-like factor OS=Mus musculus GN=Gtf2a1l PE=2 SV=2

 Score = 59.7 bits (143), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 26/69 (37%), Positives = 47/69 (68%), Gaps = 2/69 (2%)

Query: 338 DDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILF 397
           +++PLN  DD  + + D  +  +T+++++ Q+DK+ R+K+RWK  LKDG+M    +D +F
Sbjct: 402 EEDPLNSGDD--VSEQDVPDLFDTENVIVCQYDKIHRSKNRWKFYLKDGVMCFGGRDYVF 459

Query: 398 NKATGEFDF 406
            KA GE ++
Sbjct: 460 AKAIGEAEW 468

May function as a testis specific transcription factor. Binds DNA in conjunction with GTF2A2 and TBP (the TATA-binding protein) and together with GTF2A2, allows mRNA transcription.

Mus musculus (taxid: 10090)

>sp|Q9UNN4|TF2AY_HUMAN TFIIA-alpha and beta-like factor OS=Homo sapiens GN=GTF2A1L PE=2 SV=2

 Score = 55.8 bits (133), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 45/69 (65%), Gaps = 2/69 (2%)

Query: 338 DDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILF 397
           +++PLN  DD    DV   +  +T ++++ Q+DK+ R+K++WK  LKDG+M    +D +F
Sbjct: 412 EEDPLNSGDDVSEQDVP--DLFDTDNVIVCQYDKIHRSKNKWKFYLKDGVMCFGGRDYVF 469

Query: 398 NKATGEFDF 406
            KA G+ ++
Sbjct: 470 AKAIGDAEW 478

May function as a testis specific transcription factor. Binds DNA in conjunction with GTF2A2 and TBP (the TATA-binding protein) and together with GTF2A2, allows mRNA transcription.

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	406
225434853	393	PREDICTED: uncharacterized protein LOC10	0.938	0.969	0.723	1e-150
224054626	409	predicted protein [Populus trichocarpa]	0.958	0.951	0.697	1e-144
255558990	383	protein with unknown function [Ricinus c	0.901	0.955	0.698	1e-142
449450764	402	PREDICTED: transcription initiation fact	0.938	0.947	0.648	1e-136
356550303	391	PREDICTED: transcription initiation fact	0.931	0.966	0.658	1e-135
356557404	390	PREDICTED: transcription initiation fact	0.935	0.974	0.653	1e-134
224104389	401	predicted protein [Populus trichocarpa]	0.948	0.960	0.670	1e-133
356550305	384	PREDICTED: transcription initiation fact	0.923	0.976	0.650	1e-133
356538972	392	PREDICTED: uncharacterized protein LOC10	0.931	0.964	0.661	1e-130
356542286	382	PREDICTED: transcription initiation fact	0.916	0.973	0.651	1e-126

>gi|225434853|ref|XP_002282322.1| PREDICTED: uncharacterized protein LOC100241598 [Vitis vinifera] gi|297746029|emb|CBI16085.3| unnamed protein product [Vitis vinifera]

 Score =  536 bits (1382), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 299/413 (72%), Positives = 325/413 (78%), Gaps = 32/413 (7%)

Query: 3   TSATGMVYIRVIEDVISKVRDEFVNNG-PGESVLNELQGIWEMKMIQAGVI---IDRTSA 58
           +S T  VY+ VIEDVI+KVRDEFVNNG PGESVL+ELQGIWEMKM+QAGV+   I+R++A
Sbjct: 4   SSMTSTVYVSVIEDVINKVRDEFVNNGGPGESVLSELQGIWEMKMVQAGVVTGPIERSTA 63

Query: 59  PKQPAPG-GPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTP 117
           PKQ +    P  PVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPG         
Sbjct: 64  PKQTSGAPAPTPPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPG--------- 114

Query: 118 LPGSTPLPGTADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNPR 177
                      DNS YNIPTG ++YP  A D GG T+ KSG        P   SPWM  R
Sbjct: 115 ---------MGDNSMYNIPTGPTEYPA-AQDGGGATDMKSGRPPSYMPPP---SPWMQQR 161

Query: 178 PPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQDG 237
           PPLSVDVNVAYVEGRDE DRG S QPLTQDFF MS+GKRKREDFP+QYH  GY IPQQDG
Sbjct: 162 PPLSVDVNVAYVEGRDEGDRGNSQQPLTQDFFMMSSGKRKREDFPSQYHTSGY-IPQQDG 220

Query: 238 AGDAMSEIFELEVSEFPGR---QDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLS 294
           AGD   E+FE+EVS+        D +T ANREIF  +A S V+IPQLDGPIPDPY+DVLS
Sbjct: 221 AGDPAPEVFEVEVSQGSNSIKGHDILTKANREIFPQVAGSYVRIPQLDGPIPDPYEDVLS 280

Query: 295 TPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDE-PLNENDDDELDDV 353
           TPNIYNYQGVVNEDYNIVNTPAPNDIQA TPAV  QND  +DDDDE PLNENDDD+LDDV
Sbjct: 281 TPNIYNYQGVVNEDYNIVNTPAPNDIQAGTPAVGIQNDVGDDDDDEPPLNENDDDDLDDV 340

Query: 354 DQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           +QGEELNTQHLVLAQFDKVTRTKS+WKC LKDGIMHINNKDILFNKA GEFDF
Sbjct: 341 EQGEELNTQHLVLAQFDKVTRTKSKWKCTLKDGIMHINNKDILFNKANGEFDF 393

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224054626|ref|XP_002298340.1| predicted protein [Populus trichocarpa] gi|222845598|gb|EEE83145.1| predicted protein [Populus trichocarpa]

 Score =  519 bits (1336), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 297/426 (69%), Positives = 341/426 (80%), Gaps = 37/426 (8%)

Query: 1   MATSATGMVYIRVIEDVISKVRDEFVNNG-PGESVLNELQGIWEMKMIQAGVI---IDRT 56
           MA+SAT  VY  VIEDVI KVRDEF+NNG PGE+VL+ELQG+WE K++QAGV+   I R+
Sbjct: 1   MASSATSTVYTEVIEDVIDKVRDEFINNGGPGETVLSELQGLWEKKLMQAGVLSGPIVRS 60

Query: 57  SAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGS--TPLPG 114
           SA KQ  PGG +TPVHDLNVPYEGTEEYETPTAEILFPPTPL    QTPLPG+  TPLPG
Sbjct: 61  SANKQLVPGG-LTPVHDLNVPYEGTEEYETPTAEILFPPTPLPGSAQTPLPGNVQTPLPG 119

Query: 115 STPLPGSTPLPGTADNST-YNIPTGSS-DYPTPASDSGGNTEAKSGNGRPSSYMPPPPSP 172
           + P    TPLPG+ DNS+ YNI TGSS DYPTP SD+GG+T+ K+G  RPS +M  P SP
Sbjct: 120 NVP----TPLPGSVDNSSMYNISTGSSSDYPTPVSDAGGSTDVKAG--RPSHFMQSP-SP 172

Query: 173 WMNPRPPLSVDVN----------VAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFP 222
            M+ RPPL V+V           VAYVEGRDE DRG SHQ LTQDFF MS+GKRKR DF 
Sbjct: 173 LMHQRPPLDVNVGKVLTNKCCAFVAYVEGRDEVDRGGSHQTLTQDFF-MSSGKRKRGDFA 231

Query: 223 AQYHNGGYNIPQQDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLD 282
            +Y+NGG+ IPQQDGA D+ SE+ ++E        D++TT NREI A ++ S VKIPQ+D
Sbjct: 232 PKYNNGGF-IPQQDGAVDSASEVSQVEC-------DTITTKNREILARVSRSYVKIPQVD 283

Query: 283 GPIPDPYDDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDEPL 342
           GPIPDPYDD+LSTPNIYNYQGV NEDYNI NTPAPND+QASTPAVV+QND  +DDDDEPL
Sbjct: 284 GPIPDPYDDMLSTPNIYNYQGVANEDYNIANTPAPNDLQASTPAVVSQNDDVDDDDDEPL 343

Query: 343 NENDDDELDD--VDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKA 400
           NE+DDD+ D   VDQGEELNTQHL+LAQFDKVTRTKSRWKC LKDG+MHINN+DILFNKA
Sbjct: 344 NEDDDDDEDLDGVDQGEELNTQHLILAQFDKVTRTKSRWKCTLKDGVMHINNRDILFNKA 403

Query: 401 TGEFDF 406
           TGEF+F
Sbjct: 404 TGEFEF 409

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255558990|ref|XP_002520518.1| protein with unknown function [Ricinus communis] gi|223540360|gb|EEF41931.1| protein with unknown function [Ricinus communis]

 Score =  510 bits (1314), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 283/405 (69%), Positives = 328/405 (80%), Gaps = 39/405 (9%)

Query: 9   VYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI---IDRTSAPKQPAPG 65
           VYI VIEDV++KVRDEF+NNGPGE+VLNELQ IWE+KM+QAGVI   I+R+S  K   PG
Sbjct: 11  VYIHVIEDVVNKVRDEFINNGPGETVLNELQAIWELKMMQAGVICGPIERSSGAKT-VPG 69

Query: 66  GPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTPLPGSTPLP 125
           G ITPVHDLNVPYEGTEEYETPTAEILFPPTPL              PG+      TPLP
Sbjct: 70  GVITPVHDLNVPYEGTEEYETPTAEILFPPTPL--------------PGT----AQTPLP 111

Query: 126 GTADNST-YNIPTG-SSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNPRPPLSVD 183
           G+ DNS+ YNIPTG +S+YPTP SDSGG+TEAK+G  RPS YM PP SPW+N RPPL  D
Sbjct: 112 GSVDNSSMYNIPTGPTSEYPTPVSDSGGSTEAKAG--RPSPYMQPP-SPWINQRPPL--D 166

Query: 184 VNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQDGAGDAMS 243
           VN+AYVEGR+EADRGTS+QPLTQDFFT ++GKRKREDF AQY+NGG+ IPQQDGAGD   
Sbjct: 167 VNIAYVEGREEADRGTSNQPLTQDFFTGASGKRKREDFAAQYNNGGF-IPQQDGAGDTPF 225

Query: 244 EIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTPNIYNYQG 303
           E+ ++E       +D+V +A+ EI +++    +KIPQLDGPIPDPYDDVLSTPNIYNYQG
Sbjct: 226 EVLQVE-------RDTVISADIEILSSVTRRGLKIPQLDGPIPDPYDDVLSTPNIYNYQG 278

Query: 304 VVNEDYNIVNTPAPNDIQASTPAVVTQN--DAAEDDDDEPLNENDDDELDDVDQGEELNT 361
           V NEDYNI NTPAPND+QASTPA++ QN     +DD+    +++DDD+LDDVDQGE++NT
Sbjct: 279 VANEDYNIANTPAPNDLQASTPAIIPQNDVVDDDDDEPLNEDDDDDDDLDDVDQGEDMNT 338

Query: 362 QHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           QHLVLAQFDKVTRTKSRWKC LKDGIMHINNKDILFNKATGEFDF
Sbjct: 339 QHLVLAQFDKVTRTKSRWKCTLKDGIMHINNKDILFNKATGEFDF 383

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450764|ref|XP_004143132.1| PREDICTED: transcription initiation factor IIA large subunit-like [Cucumis sativus] gi|449496658|ref|XP_004160191.1| PREDICTED: transcription initiation factor IIA large subunit-like [Cucumis sativus]

 Score =  490 bits (1262), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 277/427 (64%), Positives = 323/427 (75%), Gaps = 46/427 (10%)

Query: 1   MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI---IDRTS 57
           MATS T  +YI VIEDVI+K+RDEFV+NGPGE VL ELQG+WE KM+QAG +   I+R S
Sbjct: 1   MATS-TSSIYINVIEDVINKLRDEFVDNGPGEDVLKELQGMWEAKMMQAGAVTGPIER-S 58

Query: 58  APKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTP 117
           AP +P PGGPITPVHDLNVPYEGTEEYETPTA++LFPPTPLQTPIQTPLPG         
Sbjct: 59  APSKPTPGGPITPVHDLNVPYEGTEEYETPTADLLFPPTPLQTPIQTPLPG--------- 109

Query: 118 LPGSTPLPGTADNSTYNIPTGSSDYPTPASDSG---------GNTEAKSGNGRPSSYMPP 168
                    TADN+ YN+PTG SD+    +D+          GN   +  +GRP+ YM P
Sbjct: 110 ---------TADNAMYNVPTGPSDHSASGTDASPAATTPGGSGNNNVEVRSGRPTPYMQP 160

Query: 169 PPSPWMNPRPPLSVDVNVAYVEGRDEA-DRGTS--HQPLTQDFFTMSAGKRKREDFPAQY 225
           P   WM  R P  VDVN+AYVEGR+EA DRG +  H  LTQDFF M++GKRKR+DF +QY
Sbjct: 161 PS--WMGQRTP--VDVNIAYVEGREEAADRGAAGAHPSLTQDFFMMNSGKRKRDDFASQY 216

Query: 226 HNGGYNIPQQDGAGDAMSEIFELEVS---EFPGRQDSVTTANREIFANLASSSVKIPQLD 282
              G+ IPQQDGAGDA + +FE+E+S      GR  ++T+A     +++  S +KIPQLD
Sbjct: 217 QANGF-IPQQDGAGDAANSVFEIEISGCNSSDGRPGAITSAKSATSSHIERSLLKIPQLD 275

Query: 283 GPIPDPYDDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDD-EP 341
           GP+PDPYDDVLSTPNIYNYQGV NEDYNI NTPAPND  A TPAVVTQ+D  E+++D EP
Sbjct: 276 GPMPDPYDDVLSTPNIYNYQGVFNEDYNIANTPAPNDPPAGTPAVVTQDDVNEEEEDSEP 335

Query: 342 -LNE-NDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNK 399
            LNE +DDD+LDDVDQGEEL+TQHLVLAQFDKVTRTKSRWKC LKDGIMHINNKDILFNK
Sbjct: 336 SLNEDDDDDDLDDVDQGEELSTQHLVLAQFDKVTRTKSRWKCTLKDGIMHINNKDILFNK 395

Query: 400 ATGEFDF 406
           ATGEFDF
Sbjct: 396 ATGEFDF 402

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550303|ref|XP_003543527.1| PREDICTED: transcription initiation factor IIA large subunit-like isoform 1 [Glycine max]

 Score =  486 bits (1252), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 276/419 (65%), Positives = 315/419 (75%), Gaps = 41/419 (9%)

Query: 1   MATSATGMVYIRVIEDVISKVRDEFVNNG-PGESVLNELQGIWEMKMIQAGVI---IDRT 56
           MA S T  VYI VIEDV+ KVRDEFVNNG PGE VL ELQ +WE KM+QAG +   I+R+
Sbjct: 1   MAASTTSQVYIDVIEDVMVKVRDEFVNNGGPGEEVLKELQAMWESKMMQAGAVLGPIERS 60

Query: 57  SAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGST 116
           +A K P PGGPITPVHDLNVPYEGT+EYETPTA++LFPPTPLQTPIQTPLPG        
Sbjct: 61  TAAK-PTPGGPITPVHDLNVPYEGTDEYETPTADMLFPPTPLQTPIQTPLPG-------- 111

Query: 117 PLPGSTPLPGTADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNP 176
                     T DNSTYNIPTG SDYP+  +D+GGN + K    RP+ YM  P SPWMN 
Sbjct: 112 ----------TGDNSTYNIPTGPSDYPSSGNDTGGNADGKGA--RPAPYMQSP-SPWMNQ 158

Query: 177 RPPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQD 236
           RPPL  DVNVAYVEGRDEADRGTS+QP TQDFFTM +GKRKR D  +QY+ GGY IPQQD
Sbjct: 159 RPPL--DVNVAYVEGRDEADRGTSNQPPTQDFFTMPSGKRKRNDLTSQYNAGGY-IPQQD 215

Query: 237 GAGDAMSEIFELEVSEFPGRQDSV----TTANREIFANLASSSVKIPQLDGPIPDPYDDV 292
           GAGDA    FE+EVS   GR  S+    T +  ++ A+L  S+ +IPQLDGPIP   DDV
Sbjct: 216 GAGDATHGDFEIEVS---GRGISINSHHTISKGKMSADLERSTSRIPQLDGPIPYDDDDV 272

Query: 293 LSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDD-----DEPLNENDD 347
           LSTPNIYNY  V +EDYNI NTPAP ++ ASTPA++ QN+   D D     + PLNE DD
Sbjct: 273 LSTPNIYNYGEVFSEDYNISNTPAPPEVPASTPALLVQNEVGNDFDDDDDDEPPLNEEDD 332

Query: 348 DELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           D+LDD++QGE+ NT HLVLAQFDKVTRTKSRWKC LKDGIMHINNKDILFNKATGEF+F
Sbjct: 333 DDLDDMEQGEDQNTHHLVLAQFDKVTRTKSRWKCTLKDGIMHINNKDILFNKATGEFEF 391

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356557404|ref|XP_003547006.1| PREDICTED: transcription initiation factor IIA large subunit-like [Glycine max]

 Score =  483 bits (1244), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 272/416 (65%), Positives = 315/416 (75%), Gaps = 36/416 (8%)

Query: 1   MATSATGMVYIRVIEDVISKVRDEFVNNG-PGESVLNELQGIWEMKMIQAGVI---IDRT 56
           MA S T  VYI VIEDV+ KVRDEFVNNG PGE VL ELQ +WE KM+QAG +   I+R+
Sbjct: 1   MAASTTSQVYIDVIEDVMVKVRDEFVNNGGPGEEVLKELQAMWESKMMQAGAVLGPIERS 60

Query: 57  SAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGST 116
           SA K   PGGPITPVHDLNVPYEGTEEYETPTA++LFPPTPLQTPIQTPLPG        
Sbjct: 61  SAAKA-TPGGPITPVHDLNVPYEGTEEYETPTADMLFPPTPLQTPIQTPLPG-------- 111

Query: 117 PLPGSTPLPGTADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNP 176
                     T DNSTYNIPTG++DYP+  +D+GGN + K    RP+ YM P  SPWMN 
Sbjct: 112 ----------TGDNSTYNIPTGANDYPSSGNDTGGNADGKGA--RPAPYMQPS-SPWMNQ 158

Query: 177 RPPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQD 236
           RPPL  DVNVAYVEGRDEAD+GTS+QPLTQDFFT ++GKRKR D  +QY+ GGY IPQQD
Sbjct: 159 RPPL--DVNVAYVEGRDEADKGTSNQPLTQDFFTRTSGKRKRNDLTSQYNVGGY-IPQQD 215

Query: 237 GAGDAMSEIFELEVSEFPGRQDSVTTANRE-IFANLASSSVKIPQLDGPIPDPYDDVLST 295
           GAGDA   +FE+EVS      +S  T ++E + A+L  S+ +IPQLDGPIP   DDVLST
Sbjct: 216 GAGDAAHGVFEIEVSGGGISINSHHTISKEKMSADLERSTSRIPQLDGPIPYD-DDVLST 274

Query: 296 PNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDD-----DEPLNENDDDEL 350
           PNIYNY  V +EDYNI NTPAP ++ ASTPA++ QN+   D D     + PLNE DDD+L
Sbjct: 275 PNIYNYGEVFSEDYNISNTPAPPEVPASTPALLAQNEVGNDFDDDDDDEPPLNEEDDDDL 334

Query: 351 DDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           DD++QG++ NT HLVLAQFDKV RTKSRWKC LKDGIMHINNKDILFNKATGEF+F
Sbjct: 335 DDMEQGDDQNTHHLVLAQFDKVARTKSRWKCTLKDGIMHINNKDILFNKATGEFEF 390

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104389|ref|XP_002313420.1| predicted protein [Populus trichocarpa] gi|222849828|gb|EEE87375.1| predicted protein [Populus trichocarpa]

 Score =  481 bits (1237), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 283/422 (67%), Positives = 323/422 (76%), Gaps = 37/422 (8%)

Query: 1   MATS-ATGMVYIRVIEDVISKVRDEFVNNG-PGESVLNELQGIWEMKMIQAGVI---IDR 55
           MA+S AT  VYI VIEDVI+KVRDEF+NNG PGE+VL ELQG+WE KM+QAG I   IDR
Sbjct: 1   MASSDATSPVYINVIEDVINKVRDEFINNGGPGETVLYELQGLWETKMMQAGAICGTIDR 60

Query: 56  TSAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTP--LQTPIQTPLPGSTPLP 113
           +SA K P PGGPITPVHDLNVPYEGTEEYETPTAEILFPP         QTPLPG+    
Sbjct: 61  SSANKLPVPGGPITPVHDLNVPYEGTEEYETPTAEILFPPCANTFTWNAQTPLPGN---- 116

Query: 114 GSTPLPGSTPLPGTADNST-YNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSP 172
                   TPLPG+ DNS+ YNIPTGSSDYPTP SD+GG+T+ K+G  RPS +M    S 
Sbjct: 117 ------AQTPLPGSVDNSSMYNIPTGSSDYPTPVSDAGGSTDGKAG--RPSPFMV---ST 165

Query: 173 WMNPRPPL----SVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNG 228
            +  +P L         VAYVEGRDE DRGTSHQ LTQDFF M +GKRKREDF  +Y+NG
Sbjct: 166 DLIFQPSLVLTNKCCAFVAYVEGRDEVDRGTSHQALTQDFF-MPSGKRKREDFAPKYNNG 224

Query: 229 GYNIPQQDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDP 288
           G+ IPQQDGAGD+ SE+ ++E++         TT N+EI A ++ S +KIPQ+DGPIPDP
Sbjct: 225 GF-IPQQDGAGDSASEVSQVELN----VNSYFTTKNKEILARVSRSYLKIPQVDGPIPDP 279

Query: 289 YDDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQ---NDAAEDDDDEPLNEN 345
           YDDVLSTPNIYNYQGV NEDYNI NTPAPND  ASTPAVV+Q    D  +DD+    +++
Sbjct: 280 YDDVLSTPNIYNYQGVANEDYNIANTPAPNDPLASTPAVVSQNDVADDDDDDEPLNEDDD 339

Query: 346 DDDELDDVDQGEELNT-QHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEF 404
           DD++LDDVDQGEELNT QHLVLAQFDKVTRTKSRWKC LKDGIMHINNKDILFNKATGEF
Sbjct: 340 DDEDLDDVDQGEELNTPQHLVLAQFDKVTRTKSRWKCILKDGIMHINNKDILFNKATGEF 399

Query: 405 DF 406
           DF
Sbjct: 400 DF 401

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550305|ref|XP_003543528.1| PREDICTED: transcription initiation factor IIA large subunit-like isoform 2 [Glycine max]

 Score =  479 bits (1234), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 270/415 (65%), Positives = 309/415 (74%), Gaps = 40/415 (9%)

Query: 1   MATSATGMVYIRVIEDVISKVRDEFVNNG-PGESVLNELQGIWEMKMIQAGVI---IDRT 56
           MA S T  VYI VIEDV+ KVRDEFVNNG PGE VL ELQ +WE KM+QAG +   I+R+
Sbjct: 1   MAASTTSQVYIDVIEDVMVKVRDEFVNNGGPGEEVLKELQAMWESKMMQAGAVLGPIERS 60

Query: 57  SAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGST 116
           +A K P PGGPITPVHDLNVPYEGT+EYETPTA++LFPPTPLQTPIQTPLPG        
Sbjct: 61  TAAK-PTPGGPITPVHDLNVPYEGTDEYETPTADMLFPPTPLQTPIQTPLPG-------- 111

Query: 117 PLPGSTPLPGTADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNP 176
                     T DNSTYNIPTG SDYP+  +D+GGN + K    RP+ YM  P SPWMN 
Sbjct: 112 ----------TGDNSTYNIPTGPSDYPSSGNDTGGNADGKGA--RPAPYMQSP-SPWMNQ 158

Query: 177 RPPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQD 236
           RPPL  DVNVAYVEGRDEADRGTS+QP TQDFFTM +GKRKR D  +QY+ GGY IPQQD
Sbjct: 159 RPPL--DVNVAYVEGRDEADRGTSNQPPTQDFFTMPSGKRKRNDLTSQYNAGGY-IPQQD 215

Query: 237 GAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTP 296
           GAGDA    FE+E  +          +  ++ A+L  S+ +IPQLDGPIP   DDVLSTP
Sbjct: 216 GAGDATHGDFEIEFLKI------AYISKGKMSADLERSTSRIPQLDGPIPYDDDDVLSTP 269

Query: 297 NIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDD-----DEPLNENDDDELD 351
           NIYNY  V +EDYNI NTPAP ++ ASTPA++ QN+   D D     + PLNE DDD+LD
Sbjct: 270 NIYNYGEVFSEDYNISNTPAPPEVPASTPALLVQNEVGNDFDDDDDDEPPLNEEDDDDLD 329

Query: 352 DVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           D++QGE+ NT HLVLAQFDKVTRTKSRWKC LKDGIMHINNKDILFNKATGEF+F
Sbjct: 330 DMEQGEDQNTHHLVLAQFDKVTRTKSRWKCTLKDGIMHINNKDILFNKATGEFEF 384

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356538972|ref|XP_003537974.1| PREDICTED: uncharacterized protein LOC100800601 [Glycine max]

 Score =  470 bits (1209), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 278/420 (66%), Positives = 318/420 (75%), Gaps = 42/420 (10%)

Query: 1   MATSATGMVYIRVIEDVISKVRDEFVNNG-PGESVLNELQGIWEMKMIQAGVI---IDRT 56
           MA S T  VYI+VI+DV++KVRDEFVNNG PG+ VL ELQ IWE KM+QAG I   I+R+
Sbjct: 1   MAASTTSQVYIQVIDDVMNKVRDEFVNNGGPGDEVLKELQSIWESKMMQAGAIVGPIERS 60

Query: 57  SAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGST 116
            APK P PGGPITPVHDLN+PYEGTEEYETPTAE+LFPPTPLQTP+QTPLPG        
Sbjct: 61  GAPK-PTPGGPITPVHDLNMPYEGTEEYETPTAEMLFPPTPLQTPLQTPLPG-------- 111

Query: 117 PLPGSTPLPGTADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNP 176
                     T DNS YNIPTG SDYP+  ++ G N E K G  RP  YM PPPSPW N 
Sbjct: 112 ----------TVDNSMYNIPTGPSDYPSAGNEPGANNEIKGG--RPGPYMQPPPSPWTNQ 159

Query: 177 ------RPPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGY 230
                 R PL  DVNVAYVEGRDEA+RG S+QPLTQDFF MS+GKRKR++  +QY+ GGY
Sbjct: 160 NQNQNQRAPL--DVNVAYVEGRDEAERGASNQPLTQDFF-MSSGKRKRDEIASQYNAGGY 216

Query: 231 NIPQQDGAGDAMSEIFELEVSEFPGRQDS-VTTANREIFANLASSSVKIPQLDGPIPDPY 289
            IPQQDGAGDA S+I E+EV       D+  +T+  ++ A     + +IPQLDGPIP  Y
Sbjct: 217 -IPQQDGAGDAASQILEIEVYGGGMSIDAGHSTSKGKMPAQSDRPASQIPQLDGPIP--Y 273

Query: 290 DD-VLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDE--PLNEND 346
           DD VLSTPNIYNY GV NEDYNI NTPAP+++ ASTPA + QN+  E+DDD+  PLNEND
Sbjct: 274 DDDVLSTPNIYNY-GVFNEDYNIANTPAPSEVPASTPAPIAQNEVDEEDDDDEPPLNEND 332

Query: 347 DDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           DD+LDD+DQGE+ NT HLVLAQFDKVTRTKSRWKC LKDGIMHINNKDILFNKATGEFDF
Sbjct: 333 DDDLDDLDQGEDQNTHHLVLAQFDKVTRTKSRWKCTLKDGIMHINNKDILFNKATGEFDF 392

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356542286|ref|XP_003539600.1| PREDICTED: transcription initiation factor IIA large subunit-like isoform 1 [Glycine max]

 Score =  458 bits (1179), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 271/416 (65%), Positives = 311/416 (74%), Gaps = 44/416 (10%)

Query: 1   MATSATGMVYIRVIEDVISKVRDEFVNNG-PGESVLNELQGIWEMKMIQAGVI---IDRT 56
           MA S+T  VYI+VI+DV+ KVRDEFVNNG PG+ VL ELQ IWE KM+QAG I   I+R+
Sbjct: 1   MAASSTSQVYIQVIDDVMIKVRDEFVNNGGPGDEVLKELQSIWESKMLQAGAIVGPIERS 60

Query: 57  SAPKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGST 116
            APK P PGGPITPVHDLN+PYEGTEEYETPTAE+LFPPTPLQTP+QTPLPG        
Sbjct: 61  GAPK-PTPGGPITPVHDLNMPYEGTEEYETPTAEMLFPPTPLQTPLQTPLPG-------- 111

Query: 117 PLPGSTPLPGTADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPP--SPWM 174
                     T DNS YNIPTG SDYP+  ++ G N E K G  RP  YM PPP  S   
Sbjct: 112 ----------TVDNSMYNIPTGPSDYPSAGNEPGENNEIKGG--RPGPYMQPPPWTSQNQ 159

Query: 175 NPRPPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQ 234
           N R PL  DVNVAYVEGRD A+RG S+QPLTQDFF MS+GKRKR++  +QY+ GGY IPQ
Sbjct: 160 NQRAPL--DVNVAYVEGRDAAERGASNQPLTQDFF-MSSGKRKRDEIASQYNAGGY-IPQ 215

Query: 235 QDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDD-VL 293
           QDGAGDA S+IFE+EV  F       +T+N ++ A+    + +IPQ DGPIP  YDD V+
Sbjct: 216 QDGAGDADSQIFEIEVWHF------FSTSNGKMPAHSDRPASQIPQFDGPIP--YDDDVV 267

Query: 294 STPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDE--PLNENDDDELD 351
           STPN+YNY GV NEDYNI NTPA +D+ ASTPA V QN+  E+DDD+  PLNENDDD+  
Sbjct: 268 STPNMYNY-GVFNEDYNIANTPASSDVPASTPAPVAQNEVDEEDDDDDEPLNENDDDDDL 326

Query: 352 DVD-QGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           D   QGE+ NT HLVLAQFDKVTRTKSRWKC LKDGIMHINNKDILFNKATGEF+F
Sbjct: 327 DDLDQGEDQNTHHLVLAQFDKVTRTKSRWKCTLKDGIMHINNKDILFNKATGEFEF 382

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	406
TAIR|locus:2024977	375	AT1G07480 "AT1G07480" [Arabido	0.647	0.701	0.532	2.4e-91
TAIR|locus:2025027	375	AT1G07470 "AT1G07470" [Arabido	0.645	0.698	0.530	6.2e-91
TAIR|locus:2168464	186	AT5G59230 [Arabidopsis thalian	0.115	0.252	0.553	1.9e-27
UNIPROTKB|G4MXK1	407	MGG_01235 "Uncharacterized pro	0.110	0.110	0.488	1.8e-16
POMBASE|SPBC28F2.09	369	toa1 "transcription factor TFI	0.110	0.121	0.488	4.1e-15
RGD|69246	377	Gtf2a1 "general transcription	0.115	0.124	0.446	2.2e-14
MGI|MGI:1933277	378	Gtf2a1 "general transcription	0.115	0.124	0.446	2.2e-14
ZFIN|ZDB-GENE-030131-2694	369	gtf2a1 "general transcription	0.115	0.127	0.446	3.1e-14
UNIPROTKB|P52655	376	GTF2A1 "Transcription initiati	0.115	0.125	0.446	6.8e-14
UNIPROTKB|F1PJI5	376	GTF2A1 "Uncharacterized protei	0.115	0.125	0.446	8.7e-14

TAIR|locus:2024977 AT1G07480 "AT1G07480" [Arabidopsis thaliana (taxid:3702)]

 Score = 678 (243.7 bits), Expect = 2.4e-91, Sum P(2) = 2.4e-91
 Identities = 149/280 (53%), Positives = 179/280 (63%)

Query:   128 ADNST-YNIPTGSSDYPTPASDSGGNTEAKSGNGRXXXXXXXXXXXXXXXXXXXXVDVNV 186
             ADNS+ YNIPTGSSDYPTP +++G N + K+                        +DVNV
Sbjct:   112 ADNSSMYNIPTGSSDYPTPGTENGVNIDVKA--------RPSPYMPPPSPWTNPRLDVNV 163

Query:   187 AYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQDGAGDAMSEIF 246
             AYV+GRDE +RG S+Q  TQD F  S+GKRKR+D    Y NGG +IPQQDGAGDA+ E  
Sbjct:   164 AYVDGRDEPERGNSNQQFTQDLFVPSSGKRKRDDSSGHYQNGG-SIPQQDGAGDAIPEA- 221

Query:   247 ELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTPNIYNYQGVVN 306
               E   F  R  S+   +R++  +  SSS KIPQ+DGP+PDPYD++LSTPNIY+YQG  +
Sbjct:   222 NFECDAF--RITSI--GDRKVPRDFFSSSSKIPQVDGPMPDPYDEMLSTPNIYSYQGP-S 276

Query:   307 EDYNIVNTPAPNDIQASTPAVVTQXXXXXXXXXXXXXXXXXXXXXXXXXXXXXNTQHLVL 366
             E++N   TPAPN+IQ STP  V Q                             NTQHLVL
Sbjct:   277 EEFNEARTPAPNEIQTSTPVAV-QNDIIEDDEELLNEDDDDDELDDLESGEDMNTQHLVL 335

Query:   367 AQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
             AQFDKVTRTKSRWKC+LKDGIMHIN+KDILFNKA GEFDF
Sbjct:   336 AQFDKVTRTKSRWKCSLKDGIMHINDKDILFNKAAGEFDF 375

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005672 "transcription factor TFIIA complex" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=ISS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

TAIR|locus:2025027 AT1G07470 "AT1G07470" [Arabidopsis thaliana (taxid:3702)]

 Score = 674 (242.3 bits), Expect = 6.2e-91, Sum P(2) = 6.2e-91
 Identities = 149/281 (53%), Positives = 176/281 (62%)

Query:   128 ADNST-YNIPTGSSDYPTPASDSGGNTEAKSGNGRXXXXXXXXXXXXXXXXXXXXVDVNV 186
             ADNS+ YNIPTGSSDYPTP +++G N + K+                        +DVNV
Sbjct:   112 ADNSSMYNIPTGSSDYPTPGTENGVNIDVKA--------RPSPYMPPPSPWTNPRLDVNV 163

Query:   187 AYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGGYNIPQQDGAGDAMSEI- 245
             AYV+GRDE +RG S+Q  TQD F  S+GKRKR+D  A Y NGG +IPQQDGA DA+ E  
Sbjct:   164 AYVDGRDEPERGNSNQQFTQDLFVPSSGKRKRDDSSAHYQNGG-SIPQQDGASDAIPEAN 222

Query:   246 FELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTPNIYNYQGVV 305
             FE                +R+I  +L  SS KIPQ+DGP+PDPYD++LSTPNIY+YQG  
Sbjct:   223 FECAALRI------TYVGDRKIPRDLIGSSSKIPQVDGPMPDPYDEMLSTPNIYSYQGP- 275

Query:   306 NEDYNIVNTPAPNDIQASTPAVVTQXXXXXXXXXXXXXXXXXXXXXXXXXXXXXNTQHLV 365
             NE++N   TPAPN+IQ STP  V                               NTQHLV
Sbjct:   276 NEEFNEARTPAPNEIQTSTPVAVPNDIIEDDEELLNEDDDDDELDDLESGEDM-NTQHLV 334

Query:   366 LAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
             LAQFDKVTRTKSRWKC+LKDGIMHIN+KDILFNKATGEFDF
Sbjct:   335 LAQFDKVTRTKSRWKCSLKDGIMHINDKDILFNKATGEFDF 375

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005672 "transcription factor TFIIA complex" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=ISS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

TAIR|locus:2168464 AT5G59230 [Arabidopsis thaliana (taxid:3702)]

 Score = 160 (61.4 bits), Expect = 1.9e-27, Sum P(3) = 1.9e-27
 Identities = 26/47 (55%), Positives = 38/47 (80%)

Query:   360 NTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
             N QHLV+ QFDKV R+K++W+C    G+M IN K++LF++ATG+F+F
Sbjct:   140 NIQHLVMCQFDKVKRSKNKWECKFNAGVMQINGKNVLFSQATGDFNF 186

GO:0005634 "nucleus" evidence=ISM

GO:0005672 "transcription factor TFIIA complex" evidence=IEA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

UNIPROTKB|G4MXK1 MGG_01235 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 138 (53.6 bits), Expect = 1.8e-16, Sum P(3) = 1.8e-16
 Identities = 22/45 (48%), Positives = 35/45 (77%)

Query:   362 QHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
             Q  +L  +DKV R K++WKC LKDG++ +N K+ +F+KATGE+++
Sbjct:   363 QQQMLCLYDKVQRVKNKWKCTLKDGVLCVNGKEYVFHKATGEYEW 407

GO:0043581 "mycelium development" evidence=IEP

POMBASE|SPBC28F2.09 toa1 "transcription factor TFIIA complex large subunit Toa1 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 131 (51.2 bits), Expect = 4.1e-15, Sum P(3) = 4.1e-15
 Identities = 22/45 (48%), Positives = 32/45 (71%)

Query:   362 QHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
             Q +VL  +DKV   K++WKC  +DG++ +N KD LF KA GEF++
Sbjct:   324 QAIVLCLYDKVNHHKNKWKCVFRDGVVGVNGKDYLFFKANGEFEW 368

GO:0000991 "core RNA polymerase II binding transcription factor activity" evidence=ISO

GO:0005634 "nucleus" evidence=IDA

GO:0005672 "transcription factor TFIIA complex" evidence=ISO

GO:0005829 "cytosol" evidence=IDA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=ISO

RGD|69246 Gtf2a1 "general transcription factor IIA, 1" [Rattus norvegicus (taxid:10116)]

 Score = 133 (51.9 bits), Expect = 2.2e-14, Sum P(3) = 2.2e-14
 Identities = 21/47 (44%), Positives = 39/47 (82%)

Query:   360 NTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
             +T+++V+ Q+DK+ R+K++WK  LKDGIM++N +D +F+KA G+ ++
Sbjct:   331 DTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 377

GO:0001103 "RNA polymerase II repressing transcription factor binding" evidence=ISO

GO:0003677 "DNA binding" evidence=ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005672 "transcription factor TFIIA complex" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISO

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0008134 "transcription factor binding" evidence=ISO

GO:0017025 "TBP-class protein binding" evidence=ISO

GO:0046982 "protein heterodimerization activity" evidence=ISO

MGI|MGI:1933277 Gtf2a1 "general transcription factor II A, 1" [Mus musculus (taxid:10090)]

 Score = 133 (51.9 bits), Expect = 2.2e-14, Sum P(3) = 2.2e-14
 Identities = 21/47 (44%), Positives = 39/47 (82%)

Query:   360 NTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
             +T+++V+ Q+DK+ R+K++WK  LKDGIM++N +D +F+KA G+ ++
Sbjct:   332 DTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 378

GO:0001103 "RNA polymerase II repressing transcription factor binding" evidence=IPI

GO:0003677 "DNA binding" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005672 "transcription factor TFIIA complex" evidence=ISO;IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISO

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0008134 "transcription factor binding" evidence=ISO

GO:0017025 "TBP-class protein binding" evidence=ISO

GO:0046982 "protein heterodimerization activity" evidence=ISO

ZFIN|ZDB-GENE-030131-2694 gtf2a1 "general transcription factor IIA, 1" [Danio rerio (taxid:7955)]

 Score = 133 (51.9 bits), Expect = 3.1e-14, Sum P(3) = 3.1e-14
 Identities = 21/47 (44%), Positives = 39/47 (82%)

Query:   360 NTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
             +T+++V+ Q+DK+ R+K++WK  LKDGIM++N +D +F+KA G+ ++
Sbjct:   323 DTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDFVFSKAIGDAEW 369

GO:0005672 "transcription factor TFIIA complex" evidence=IEA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

UNIPROTKB|P52655 GTF2A1 "Transcription initiation factor IIA subunit 1" [Homo sapiens (taxid:9606)]

 Score = 133 (51.9 bits), Expect = 6.8e-14, Sum P(3) = 6.8e-14
 Identities = 21/47 (44%), Positives = 39/47 (82%)

Query:   360 NTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
             +T+++V+ Q+DK+ R+K++WK  LKDGIM++N +D +F+KA G+ ++
Sbjct:   330 DTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 376

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0003713 "transcription coactivator activity" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IDA;TAS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=TAS

GO:0006368 "transcription elongation from RNA polymerase II promoter" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0003677 "DNA binding" evidence=IDA

GO:0005672 "transcription factor TFIIA complex" evidence=IDA

GO:0017025 "TBP-class protein binding" evidence=IPI

GO:0008134 "transcription factor binding" evidence=IPI

GO:0046982 "protein heterodimerization activity" evidence=IPI

UNIPROTKB|F1PJI5 GTF2A1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 133 (51.9 bits), Expect = 8.7e-14, Sum P(3) = 8.7e-14
 Identities = 21/47 (44%), Positives = 39/47 (82%)

Query:   360 NTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
             +T+++V+ Q+DK+ R+K++WK  LKDGIM++N +D +F+KA G+ ++
Sbjct:   330 DTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 376

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0005672 "transcription factor TFIIA complex" evidence=IEA

---

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: estExt_Genewise1_v1.C_LG_I1143 hypothetical protein (409 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	406
pfam03153	332	pfam03153, TFIIA, Transcription factor IIA, alpha/	2e-54
cd07976	102	cd07976, TFIIA_alpha_beta_like, Precursor of TFIIA	4e-27
cd07976	102	cd07976, TFIIA_alpha_beta_like, Precursor of TFIIA	3e-15
COG5149	293	COG5149, TOA1, Transcription initiation factor IIA	3e-12
COG5149	293	COG5149, TOA1, Transcription initiation factor IIA	2e-05

>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit

 Score =  183 bits (465), Expect = 2e-54
 Identities = 108/420 (25%), Positives = 154/420 (36%), Gaps = 111/420 (26%)

Query: 9   VYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVIIDRTSAPKQPAPGGPI 68
           VY  VIEDVI+ VR++F + G  E VL +L+ +WE K+ Q+GV                 
Sbjct: 2   VYESVIEDVINDVREDFEDEGVDEQVLQDLKKLWEKKLSQSGV----------------- 44

Query: 69  TPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTPLPGSTPLPGTA 128
                                   FP  P             PLP   P      LP   
Sbjct: 45  --AE--------------------FPWDPSPQAPPPVAQLPQPLPQPPPTQALQALPAG- 81

Query: 129 DNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNPRPPLSVDVNVAY 188
           D   +N PTGS     PA      T A        +     P      + P+ V  N A 
Sbjct: 82  DQQQHNTPTGSPAANPPA------TFALPAGPAGPTIQ-TEPGQLYPVQVPVMVTQNPAN 134

Query: 189 VEGRDEADRGTSHQPLTQDFFTMSAGKR--------KREDFPAQY-HNGGYNIPQQDGAG 239
               D+  +  + Q L Q +   ++G+         K ++   Q   NG     Q DGAG
Sbjct: 135 S-PLDQPAQQRALQQLQQRYGAPASGQLPSQQQSAQKNDESQLQQQPNGETPPQQTDGAG 193

Query: 240 DAMSE----------IFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPY 289
           D  SE            E  +    G          +     A SS +         D  
Sbjct: 194 DDESEALVRLREADGTLEQRIKGAEGGGAMK---VLKQPKKQAKSSKRRTIAQIDGIDSD 250

Query: 290 DDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDEPLNENDDDE 349
           D+                                       + + +DDD++ +  + DD 
Sbjct: 251 DE--------------------------------------GDGSDDDDDEDAIESDLDDS 272

Query: 350 LDDV--DQGEEL-NTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
            DDV  + GE+L +T +++L Q+DKV R+K++WKC LKDGIM IN KD +F KATGE ++
Sbjct: 273 DDDVSDEDGEDLFDTDNVMLCQYDKVQRSKNKWKCTLKDGIMTINGKDYVFQKATGEAEW 332

Transcription initiation factor IIA (TFIIA) is a heterotrimer, the three subunits being known as alpha, beta, and gamma, in order of molecular weight. The N and C-terminal domains of the gamma subunit are represented in pfam02268 and pfam02751, respectively. This family represents the precursor that yields both the alpha and beta subunits. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II. Together with TFIID, TFIIA binds to the promoter region; this is the first step in the formation of a pre-initiation complex (PIC). Binding of the rest of the transcription machinery follows this step. After initiation, the PIC does not completely dissociate from the promoter. Some components, including TFIIA, remain attached and re-initiate a subsequent round of transcription. Length = 332

>gnl|CDD|199899 cd07976, TFIIA_alpha_beta_like, Precursor of TFIIA alpha and beta subunits and similar proteins

 Score =  103 bits (259), Expect = 4e-27
 Identities = 29/46 (63%), Positives = 39/46 (84%)

Query: 361 TQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           T+++VL Q+DKVTR K++WKC LKDGIM +N KD +F KATGEF++
Sbjct: 57  TENIVLCQYDKVTRVKNKWKCTLKDGIMTLNGKDYVFQKATGEFEW 102

Transcription factor II A (TFIIA) is one of the general transcription factors for RNA polymerase II. TFIIA increases the affinity of TATA-binding protein (TBP) for DNA in order to assemble the initiation complex. TFIIA also functions as an activator during development and differentiation, and is involved in transcription from TATA-less promoters. TFIIA is composed of more than one subunit in various organisms. Mammalian TFIIA large subunits (TFIIA alpha and beta) and the smaller subunit (TFIIA gamma) form a heterotrimer. TFIIA alpha and beta are encoded by a single gene (TFIIA_alpha_beta), its protein product is post-translationally processed and cleaved. TOA1 and TOA2 are the two subunits of Yeast TFIIA which correspond to Mammalian TFIIA_alpha_beta and TFIIA gamma, respectively. TOA1 and TOA2 form a heterodimeric protein complex. TFIIA_alpha_beta alone is sufficient for transcription in early embryogenesis, but the cleaved forms, TFIIA alpha and TFIIA beta, represent the vast majority of TFIIA in most differentiated cells. The exact functional differences between cleaved and uncleaved forms are not yet clear. This model also contains paralogs of the canonical TFIIA_alpha_beta, such as the human ALF, which may be involved in gametogenesis and early embryogenesis (and is also subject to proteolytic cleavage). Length = 102

>gnl|CDD|199899 cd07976, TFIIA_alpha_beta_like, Precursor of TFIIA alpha and beta subunits and similar proteins

 Score = 70.6 bits (174), Expect = 3e-15
 Identities = 23/44 (52%), Positives = 31/44 (70%)

Query: 9  VYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI 52
          VY  VIEDVI+ VR++F + G  ESVL EL+ +WE K+ Q+G  
Sbjct: 4  VYESVIEDVINNVREDFEDEGVDESVLQELKQLWEEKLSQSGAA 47

Transcription factor II A (TFIIA) is one of the general transcription factors for RNA polymerase II. TFIIA increases the affinity of TATA-binding protein (TBP) for DNA in order to assemble the initiation complex. TFIIA also functions as an activator during development and differentiation, and is involved in transcription from TATA-less promoters. TFIIA is composed of more than one subunit in various organisms. Mammalian TFIIA large subunits (TFIIA alpha and beta) and the smaller subunit (TFIIA gamma) form a heterotrimer. TFIIA alpha and beta are encoded by a single gene (TFIIA_alpha_beta), its protein product is post-translationally processed and cleaved. TOA1 and TOA2 are the two subunits of Yeast TFIIA which correspond to Mammalian TFIIA_alpha_beta and TFIIA gamma, respectively. TOA1 and TOA2 form a heterodimeric protein complex. TFIIA_alpha_beta alone is sufficient for transcription in early embryogenesis, but the cleaved forms, TFIIA alpha and TFIIA beta, represent the vast majority of TFIIA in most differentiated cells. The exact functional differences between cleaved and uncleaved forms are not yet clear. This model also contains paralogs of the canonical TFIIA_alpha_beta, such as the human ALF, which may be involved in gametogenesis and early embryogenesis (and is also subject to proteolytic cleavage). Length = 102

>gnl|CDD|227478 COG5149, TOA1, Transcription initiation factor IIA, large chain [Transcription]

 Score = 66.2 bits (161), Expect = 3e-12
 Identities = 29/82 (35%), Positives = 45/82 (54%), Gaps = 4/82 (4%)

Query: 325 PAVVTQNDAAEDDDDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALK 384
               T  D     D   L+++D D  D   +G + +  + +L  +DKV  +K +WKC  K
Sbjct: 215 GKPTTAKDEGMFSD---LDDSDVDSGDSEIEGTKGS-TNCMLCLYDKVNMSKGKWKCTFK 270

Query: 385 DGIMHINNKDILFNKATGEFDF 406
           DG++ INN D +FNKA GE ++
Sbjct: 271 DGVVSINNIDYVFNKAQGELEW 292

Length = 293

>gnl|CDD|227478 COG5149, TOA1, Transcription initiation factor IIA, large chain [Transcription]

 Score = 45.4 bits (107), Expect = 2e-05
 Identities = 21/51 (41%), Positives = 30/51 (58%)

Query: 1  MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGV 51
          M+ S  G VY  VI DVI+  R +F  NG  ++ L ELQ +W+ K++   V
Sbjct: 1  MSNSIVGEVYHHVILDVIANSRSDFEENGVDDATLRELQNLWQSKLVATDV 51

Length = 293

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	406
KOG2652	348	consensus RNA polymerase II transcription initiati	100.0
PF03153	375	TFIIA: Transcription factor IIA, alpha/beta subuni	100.0
COG5149	293	TOA1 Transcription initiation factor IIA, large ch	100.0
KOG1924	1102	consensus RhoA GTPase effector DIA/Diaphanous [Sig	93.32
KOG1924	1102	consensus RhoA GTPase effector DIA/Diaphanous [Sig	83.07
KOG2652	348	consensus RNA polymerase II transcription initiati	81.55

>KOG2652 consensus RNA polymerase II transcription initiation factor TFIIA, large chain [Transcription]

Probab=100.00  E-value=9.7e-70  Score=531.45  Aligned_cols=333  Identities=35%  Similarity=0.559  Sum_probs=264.6

Q ss_pred             CCCcchhhhhHHHHHHHHHHhHHHhhhCCCChhHHHHHHHHHHHHHHHhccc-ccCCCCCCC-CCCCCCCCCcccCCCCC
Q 015442            1 MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI-IDRTSAPKQ-PAPGGPITPVHDLNVPY   78 (406)
Q Consensus         1 MsNs~V~~VY~sVIeDVIn~vReDFed~GVDEsVLqELK~lWq~KLsqsgva-~~~~~a~~~-~~p~g~~~pvhdlnvpy   78 (406)
                      |+++.|++||++||+|||+.||++|+++||||+||+|||++||.||+|+||+ ++|.....+ |.++.   +.|  ++||
T Consensus         2 ~~~~~v~kvY~~VIeDVI~~vRe~F~~~GiDeqvL~eLk~lWe~Kl~qs~~~~~~~d~~s~~~p~~~~---q~~--~~~~   76 (348)
T KOG2652|consen    2 ASTNTVSKVYESVIEDVINNVREDFLENGIDEQVLSELKNLWETKLIQSGVATFPWDRESNQRPPPGV---QLH--HVPL   76 (348)
T ss_pred             CcccchHHHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHHHhhcccccCcccccccCCCCcc---ccc--Cccc
Confidence            6788999999999999999999999999999999999999999999999999 666544444 23333   444  8999


Q ss_pred             CC-CCCCcCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCccCCCCCCCCCC--CCCCCCCCCc
Q 015442           79 EG-TEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTPLPGSTPLPG-TADNSTYNIPTGSSDYPT--PASDSGGNTE  154 (406)
Q Consensus        79 e~-teey~tptAeilfPpTpl~t~~~tplP~~~~~~~~~~~p~~~~~~g-~~~~~~y~~ptg~~~~p~--~~~~~g~~~~  154 (406)
                      ++ |++|+||+   +||.++.+++..+++|                  | .++.+||||+.+.+.+++  |......|. 
T Consensus        77 ~~~~~~~~~Pa---~~~~~~q~~~~~~~l~------------------~~~~~~s~~~i~~~~t~~~~~~P~~q~~~N~-  134 (348)
T KOG2652|consen   77 QSATANLATPA---VFPGAPQQTPAGVPLP------------------GLSGHLSKANIPLPSTATNGQHPSQQVNVNS-  134 (348)
T ss_pred             ccccccccCCc---cccccccccCcCccCc------------------cccccccccCccccccccCCcCccccccccc-
Confidence            88 79998888   8999999998888887                  7 678999999999999975  444444444 


Q ss_pred             cccCCCCCCCCCCCCCCCCCCCCCCCcccccchhcccc-----cccccCCCCCCcchhhhccccccccCcCCCCCCCCCC
Q 015442          155 AKSGNGRPSSYMPPPPSPWMNPRPPLSVDVNVAYVEGR-----DEADRGTSHQPLTQDFFTMSAGKRKREDFPAQYHNGG  229 (406)
Q Consensus       155 ~K~~~g~p~p~m~~~psp~~~q~~~l~vdvnvay~~~r-----~~~~~~~s~~~ltqd~~~~~sGkrkr~~~~~~~~~gg  229 (406)
                           -++.|+|+| .|.|++.|.-      +.|+-+|     .+..+++.+++.||+.|.-|+|  |+++.-.+|.+++
T Consensus       135 -----~q~~p~~~p-~s~~~~~q~s------~~~v~~~~~ip~~~p~~~~~~~~~tqq~~~~~~g--~~pq~~~~~~~~~  200 (348)
T KOG2652|consen  135 -----TQPVPALSP-WSLQLNTQKS------QQTVLQQSAIPPSGPVDGNHNQPVTQQILVPPGG--KSPQSSFHYINLN  200 (348)
T ss_pred             -----cCCCcCcCc-cccccccccc------cccccccccccccCcccccccCccccccccCCCC--CCcccccceeccC
Confidence                 266688988 9999986665      4489999     8899999999999998866766  8888888888887


Q ss_pred             CCCcCCCCCCCccchhhhhhhcCCCCcccchhhhhhhhhhhhhcccccccccCCCCCCCCCCcCCCCCccccCccccccc
Q 015442          230 YNIPQQDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTPNIYNYQGVVNEDY  309 (406)
Q Consensus       230 y~~~QqDGa~D~~~e~~~~ev~~~~~~~~~~~~~~r~~~~~~~~~~~~ipQlDG~~~~P~dd~~s~~n~~~~~g~~~Edy  309 (406)
                        |+|.+|+++.+.+...       ..++.+....|.....+..+..+|.|++|.+..     ....+|+-+.+  .||=
T Consensus       201 --~~q~~~s~nd~~~~~~-------~~~a~~~~~~~~~~~~~~s~~~~i~qv~~~~~~-----~~Q~Dg~~~~~--eE~e  264 (348)
T KOG2652|consen  201 --IPQVDGSENDVEQIDG-------TDLAIHILKDRMVPRDSVSEKDKIAQVDLSLRK-----ILQVDGTGDTS--EEDE  264 (348)
T ss_pred             --Cccccccccccccccc-------ccccccccccccccccccchhhhhhhhcccccc-----eeecccccccc--cccc
Confidence              8999999988877655       124566667776666666777788888887764     55677777775  4433


Q ss_pred             cccCCCCCCCCCCCCCcccccCCCCCCCCCCCCCCCCCC--CCcccccCCCC-CCCCeEEEEeeeeeecCCceeEEeece
Q 015442          310 NIVNTPAPNDIQASTPAVVTQNDAAEDDDDEPLNENDDD--ELDDVDQGEEL-NTQHLVLAQFDKVTRTKSRWKCALKDG  386 (406)
Q Consensus       310 n~~~~pap~~~~~~tp~~~~q~d~~~~~eEdpLNsdDDd--d~~D~d~~ed~-~t~NvvlCqydKV~R~KnKWKc~LKdG  386 (406)
                      |+-.+               .+ ...+++|+.+|+||||  ++++++.++|. +|+||||||||||+|+||||||+||||
T Consensus       265 ~Eee~---------------~~-~~~~~dee~~n~Dd~D~~EeeplnsedDvsdt~nvVvCqyDKV~RsKnKWKc~LKDG  328 (348)
T KOG2652|consen  265 NEEED---------------DD-PDPDEDEELGNSDDDDGVEEEPLNSEDDVSDTQNVVVCQYDKVNRSKNKWKCYLKDG  328 (348)
T ss_pred             ccccc---------------cC-cccchhhhcccccccCccccccccCcccccccceeEEEeeeeeccccceeeEEeecc
Confidence            33000               11 1133566677777655  56666666666 489999999999999999999999999


Q ss_pred             eeEeCCeeeeeecccccccC
Q 015442          387 IMHINNKDILFNKATGEFDF  406 (406)
Q Consensus       387 Im~ingkDyvF~Ka~GEfE~  406 (406)
                      |||||||||||+||+|||||
T Consensus       329 IM~ingkDY~F~KA~GeaEW  348 (348)
T KOG2652|consen  329 VMHINGKDYVFQKAQGEAEW  348 (348)
T ss_pred             eEEeCCceeEeeecccccCC
Confidence            99999999999999999999

>PF03153 TFIIA: Transcription factor IIA, alpha/beta subunit; InterPro: IPR004855 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site

Probab=100.00  E-value=2.5e-65  Score=496.29  Aligned_cols=324  Identities=31%  Similarity=0.489  Sum_probs=92.3

Q ss_pred             hhhHHHHHHHHHHhHHHhhhCCCChhHHHHHHHHHHHHHHHhccc-ccCCCCCCCCCCCCCCCCcccCCCCCCCCCCCcC
Q 015442            8 MVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI-IDRTSAPKQPAPGGPITPVHDLNVPYEGTEEYET   86 (406)
Q Consensus         8 ~VY~sVIeDVIn~vReDFed~GVDEsVLqELK~lWq~KLsqsgva-~~~~~a~~~~~p~g~~~pvhdlnvpye~teey~t   86 (406)
                      |||++||+|||++||+||+++||||+||+|||++||+||+++||+ ++|++.+.++.+     +.+ ++.+         
T Consensus         1 kvY~~VI~dVI~~vr~dF~~~Gvde~vL~eLk~~We~KL~qs~v~~~~~d~~~~~~~~-----~~~-~p~~---------   65 (375)
T PF03153_consen    1 KVYESVIDDVINNVREDFEEEGVDEQVLQELKQLWESKLSQSGVADFPWDPPPAPPPP-----PPQ-QPQP---------   65 (375)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHHHH-SS--TTGGGG---------------------------
T ss_pred             CcHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcCCccCCCCcccCCCcc-----ccc-CCCC---------
Confidence            799999999999999999999999999999999999999999999 999877654221     111 1211         


Q ss_pred             CcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCC-CCCCCCCCCccccCCCCCCCC
Q 015442           87 PTAEILFPPTPLQTPIQTPLPGSTPLPGSTPLPGSTPLPGTADNSTYNIPTGSSDYPT-PASDSGGNTEAKSGNGRPSSY  165 (406)
Q Consensus        87 ptAeilfPpTpl~t~~~tplP~~~~~~~~~~~p~~~~~~g~~~~~~y~~ptg~~~~p~-~~~~~g~~~~~K~~~g~p~p~  165 (406)
                         .+.||+++.+++ +.+++.++                 ....+|+++++.+.+.. +.......   +.  +++.+.
T Consensus        66 ---~~~~~~~~~~~~-~~~~~~~~-----------------~~~~~~~~~~~~~~~~~~~~~~~~~~---~~--~~~~~i  119 (375)
T PF03153_consen   66 ---PQSTPPSPSQQP-QAPQAIPQ-----------------GQSQQQNQPSSMSNSNPPATFSTPPG---QV--PAPPTI  119 (375)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ---cccCCCCCCCCc-ccccccCC-----------------CCccccccccccCcCCCcccccCCCc---cc--CCCCCc
Confidence               155666666555 44443222                 22223334433332211 11100000   11  233344


Q ss_pred             CCCCCCCCCCCCCCCcccccchhcccccccccCCCCCCcchhhhcccccccc-----------CcCCCCCCCCCC-CCCc
Q 015442          166 MPPPPSPWMNPRPPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRK-----------REDFPAQYHNGG-YNIP  233 (406)
Q Consensus       166 m~~~psp~~~q~~~l~vdvnvay~~~r~~~~~~~s~~~ltqd~~~~~sGkrk-----------r~~~~~~~~~gg-y~~~  233 (406)
                      |++ |..|+..+.+..+..+..+..++-..++..+.++|.+.|+.+.+.+++           +.....++..|. ++++
T Consensus       120 q~~-pG~~~~~~~P~~~~~~~~~~~~~~~~aqq~~~qq~~q~~g~~aa~q~~~~~qq~q~~~~~~~~~~~~~~~~~~~~~  198 (375)
T PF03153_consen  120 QQP-PGQQYQVQVPSMNNQPPGNQQIAQQPAQQRAAQQLQQPYGQPAAQQISQQQQQQQPQQQQQQQQQQQQPGQQVQQQ  198 (375)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cCC-CccccCcccCCccCCcccccccccccccccccccccccccccccccCCccccccccccccccccccccCCCccCCC
Confidence            444 566666666666667777778888888888999999999988888887           344445555554 4679


Q ss_pred             CCCCCCCccchhhhhhhcCCCCcccchhhhhh---hhhhhhhccc----------------------------------c
Q 015442          234 QQDGAGDAMSEIFELEVSEFPGRQDSVTTANR---EIFANLASSS----------------------------------V  276 (406)
Q Consensus       234 QqDGa~D~~~e~~~~ev~~~~~~~~~~~~~~r---~~~~~~~~~~----------------------------------~  276 (406)
                      |+||++|.......          ++++++..   .-.++++++.                                  .
T Consensus       199 Qtdga~d~~~~~~~----------~~~~~~~~~~~~~~d~~L~~~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  268 (375)
T PF03153_consen  199 QTDGAGDSESNSQP----------RRLEAAVPLQRNEIDQVLRSQIENRAMQLEGGGLMSPLSQASKASKQNKSSNSESS  268 (375)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccCCCCcccchhc----------cccccccccccccccccccccccccccccchhhccchhhccccccccccccccccc
Confidence            99999998622111          11111111   0001111111                                  2


Q ss_pred             cccccCCCCCCCCCCcCCCCCccccCccccccccccCCCCCCCCCCCCCcccccCCCCCCCCCCCCCCCCCCCCcccccC
Q 015442          277 KIPQLDGPIPDPYDDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDEPLNENDDDELDDVDQG  356 (406)
Q Consensus       277 ~ipQlDG~~~~P~dd~~s~~n~~~~~g~~~Edyn~~~~pap~~~~~~tp~~~~q~d~~~~~eEdpLNsdDDdd~~D~d~~  356 (406)
                      +|+|+||+..+..+|...      +.....||+....               ...+..+..+||+|||+||  ++|+|.+
T Consensus       269 ~~~Q~DG~~d~~~~e~~~------~~~~~d~d~~~~~---------------~~~~~~~~~~~~~~~~~dd--~~~~~~~  325 (375)
T PF03153_consen  269 RIPQLDGAGDDSDDEEDD------DDDDDDEDDEDKD---------------KDEDDEDAINSDLDDSDDD--VSDEDDE  325 (375)
T ss_dssp             --------------------------------------------------------------------------B-----
T ss_pred             ccccccCCCCCccccccc------ccccccccccccc---------------ccccccccccCCcCCcccc--ccccccc
Confidence            577777766554333221      2223344440000               0000111233444444433  2234445


Q ss_pred             CCCCCCCeEEEEeeeeeecCCceeEEeeceeeEeCCeeeeeecccccccC
Q 015442          357 EELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF  406 (406)
Q Consensus       357 ed~~t~NvvlCqydKV~R~KnKWKc~LKdGIm~ingkDyvF~Ka~GEfE~  406 (406)
                      ++++++|||||+||||+|+||||||+|||||||||||||||+||+|||||
T Consensus       326 ~~~~~~~~~~c~~~kv~r~k~~wk~~lk~g~~~~~~~d~~f~~~~ge~~w  375 (375)
T PF03153_consen  326 DDFDTDNVVLCQYDKVTRVKNKWKCTLKDGIMHINGKDYVFQKATGEFEW  375 (375)
T ss_dssp             --STTS-EEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEEEE-
T ss_pred             cccCcCCEEEEEeeccccccceeEEEeeeeEEEECCeEEEEeeeeeeecC
Confidence            57799999999999999999999999999999999999999999999999

After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the precursor that yields both the alpha and beta subunits of TFIIA. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II []. ; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_B 1YTF_B 1RM1_C 1NH2_B.

>COG5149 TOA1 Transcription initiation factor IIA, large chain [Transcription]

Probab=100.00  E-value=4.9e-40  Score=311.75  Aligned_cols=58  Identities=38%  Similarity=0.644  Sum_probs=57.0

Q ss_pred             CCCcchhhhhHHHHHHHHHHhHHHhhhCCCChhHHHHHHHHHHHHHHHhccc-ccCCCC
Q 015442            1 MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI-IDRTSA   58 (406)
Q Consensus         1 MsNs~V~~VY~sVIeDVIn~vReDFed~GVDEsVLqELK~lWq~KLsqsgva-~~~~~a   58 (406)
                      |||+.|+.||++||.+||+.||+|||++|||+++|+|||.+||+||.++.|+ |+|+.+
T Consensus         1 msns~~~~vy~~vi~~vi~~~r~dfe~~gvdd~tlrelqnlwq~kl~~t~vatf~w~~~   59 (293)
T COG5149           1 MSNSIVGEVYHHVILDVIANSRSDFEENGVDDATLRELQNLWQSKLVATDVATFPWAQA   59 (293)
T ss_pred             CCcchhhHHHHHHHHHHHHHhhhHHHhcCccHHHHHHHHHHHHHhhhhheeeecchhhc
Confidence            9999999999999999999999999999999999999999999999999999 999876

>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]

Probab=93.32  E-value=1.3  Score=50.22  Aligned_cols=14  Identities=36%  Similarity=0.686  Sum_probs=7.8

Q ss_pred             hhhHHHHHHHHHHh
Q 015442            8 MVYIRVIEDVISKV   21 (406)
Q Consensus         8 ~VY~sVIeDVIn~v   21 (406)
                      .-|-.+||+.|+.+
T Consensus       422 pqYykLIEecISqI  435 (1102)
T KOG1924|consen  422 PQYYKLIEECISQI  435 (1102)
T ss_pred             HHHHHHHHHHHHHH
Confidence            34555666666554

>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]

Probab=83.07  E-value=5.9  Score=45.25  Aligned_cols=7  Identities=14%  Similarity=0.676  Sum_probs=2.7

Q ss_pred             HHHHHHH
Q 015442           13 VIEDVIS   19 (406)
Q Consensus        13 VIeDVIn   19 (406)
                      +|+..|+
T Consensus       459 liD~~vd  465 (1102)
T KOG1924|consen  459 LIDKMVD  465 (1102)
T ss_pred             HHHHHHH
Confidence            3444433

>KOG2652 consensus RNA polymerase II transcription initiation factor TFIIA, large chain [Transcription]

Probab=81.55  E-value=2  Score=44.36  Aligned_cols=90  Identities=24%  Similarity=0.289  Sum_probs=45.3

Q ss_pred             CcCCCCCCCccchhhhhhhcCCCCcccchhhhhhhhhhhhhcccccccccCCCCCCCCCCcCCCCCccccCccccccccc
Q 015442          232 IPQQDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDGPIPDPYDDVLSTPNIYNYQGVVNEDYNI  311 (406)
Q Consensus       232 ~~QqDGa~D~~~e~~~~ev~~~~~~~~~~~~~~r~~~~~~~~~~~~ipQlDG~~~~P~dd~~s~~n~~~~~g~~~Edyn~  311 (406)
                      ++|.+|+.=++...+..-+.      +.+. +.+..-.++..+..+|.|+||.+..= +|.   .|-       .|+++.
T Consensus       211 ~~~~~~~~~a~~~~~~~~~~------~~~~-s~~~~i~qv~~~~~~~~Q~Dg~~~~~-eE~---e~E-------ee~~~~  272 (348)
T KOG2652|consen  211 VEQIDGTDLAIHILKDRMVP------RDSV-SEKDKIAQVDLSLRKILQVDGTGDTS-EED---ENE-------EEDDDP  272 (348)
T ss_pred             cccccccccccccccccccc------cccc-chhhhhhhhcccccceeecccccccc-ccc---ccc-------ccccCc
Confidence            67778744444444432222      2222 22322345555666799999966542 332   121       344554


Q ss_pred             cCCCCCCCCCCCCCcccccCCCCCCCCCCCCCCCCCC
Q 015442          312 VNTPAPNDIQASTPAVVTQNDAAEDDDDEPLNENDDD  348 (406)
Q Consensus       312 ~~~pap~~~~~~tp~~~~q~d~~~~~eEdpLNsdDDd  348 (406)
                      -.+..-         .....|.+|.+|||+|||+||.
T Consensus       273 ~~~~de---------e~~n~Dd~D~~EeeplnsedDv  300 (348)
T KOG2652|consen  273 DPDEDE---------ELGNSDDDDGVEEEPLNSEDDV  300 (348)
T ss_pred             ccchhh---------hcccccccCccccccccCcccc
Confidence            444431         1112233333599999999963

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	406
1rm1_C	286	Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex L		3e-09
1ytf_C	79	Yeast TfiiaTBPDNA COMPLEX Length = 79		1e-07
1nvp_C	76	Human TfiiaTBPDNA COMPLEX Length = 76		2e-07
1nvp_B	57	Human TfiiaTBPDNA COMPLEX Length = 57		2e-05

>pdb|1RM1|C Chain C, Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex Length = 286

Iteration: 1
 Score = 59.7 bits (143), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 24/45 (53%), Positives = 34/45 (75%)
Query: 362 QHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           ++L+L  +DKVTRTK+RWKC+LKDG++ IN  D  F KA  E ++
Sbjct: 241 ENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW 285

>pdb|1YTF|C Chain C, Yeast TfiiaTBPDNA COMPLEX Length = 79

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/45 (53%), Positives = 34/45 (75%)
Query: 362 QHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           ++L+L  +DKVTRTK+RWKC+LKDG++ IN  D  F KA  E ++
Sbjct: 34  ENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW 78

>pdb|1NVP|C Chain C, Human TfiiaTBPDNA COMPLEX Length = 76

Iteration: 1
 Score = 53.1 bits (126), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/47 (44%), Positives = 39/47 (82%)
Query: 360 NTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           +T+++V+ Q+DK+ R+K++WK  LKDGIM++N +D +F+KA G+ ++
Sbjct: 30  DTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 76

>pdb|1NVP|B Chain B, Human TfiiaTBPDNA COMPLEX Length = 57

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 32/44 (72%)
Query: 9  VYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI 52
          +Y  VIEDVI+ VRD F+++G  E VL EL+ +WE K++Q+  +
Sbjct: 12 LYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLMQSRAV 55

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	406
1nh2_C	79	Transcription initiation factor IIA large chain; t	3e-26
1nvp_C	76	Transcription initiation factor IIA beta chain; tr	8e-25
1rm1_C	286	Transcription initiation factor IIA large chain; y	3e-18
1rm1_C	286	Transcription initiation factor IIA large chain; y	2e-14
1nvp_B	57	Transcription initiation factor IIA alpha chain; t	2e-17
1nh2_B	53	Transcription initiation factor IIA large chain; t	2e-16

>1nh2_C Transcription initiation factor IIA large chain; transcription/DNA; HET: 5IU; 1.90A {Saccharomyces cerevisiae} SCOP: b.56.1.1 PDB: 1ytf_C* Length = 79

 Score =  100 bits (249), Expect = 3e-26
 Identities = 31/75 (41%), Positives = 47/75 (62%), Gaps = 1/75 (1%)

Query: 332 DAAEDDDDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHIN 391
               D+    L+++DDD L   +  E+   ++L+L  +DKVTRTK+RWKC+LKDG++ IN
Sbjct: 5   LLDTDEVGSELDDSDDDYLIS-EGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTIN 63

Query: 392 NKDILFNKATGEFDF 406
             D  F KA  E ++
Sbjct: 64  RNDYTFQKAQVEAEW 78

>1nvp_C Transcription initiation factor IIA beta chain; transcription regulation, DNA, complex, transcription/DNA complex; 2.10A {Homo sapiens} SCOP: b.56.1.1 Length = 76

 Score = 95.8 bits (238), Expect = 8e-25
 Identities = 28/72 (38%), Positives = 50/72 (69%), Gaps = 2/72 (2%)

Query: 335 EDDDDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKD 394
              ++EPLN  DD   ++    E  +T+++V+ Q+DK+ R+K++WK  LKDGIM++N +D
Sbjct: 7   GQVEEEPLNSEDDVSDEEGQ--ELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRD 64

Query: 395 ILFNKATGEFDF 406
            +F+KA G+ ++
Sbjct: 65  YIFSKAIGDAEW 76

>1rm1_C Transcription initiation factor IIA large chain; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} Length = 286

 Score = 83.4 bits (204), Expect = 3e-18
 Identities = 42/243 (17%), Positives = 79/243 (32%), Gaps = 9/243 (3%)

Query: 164 SYMPPPPSPWMNPRPPLSVDVNVAYVEGRDEADRGTSHQPLTQDFFTMSAGKRKREDFPA 223
           +               +  D+N         +      +  T +   +        + P 
Sbjct: 52  TTFSWDNQFNEGNINGVQNDLNFNLATPGVNSSEFNIKEENTGNEGLILPNINSNNNIP- 110

Query: 224 QYHNGGYNIPQQDGAGDAMSEIFELEVSEFPGRQDSVTTANREIFANLASSSVKIPQLDG 283
             H+G  NI          S       +      D  +    E+   +  +         
Sbjct: 111 --HSGETNINTNTVEATNNSGATLNTNTSGNTNADVTSQPKIEVKPEIELTINNANITTV 168

Query: 284 PIPDPYDDVLSTPNIYNYQGVVNEDYNIVNTPAPNDIQASTPAVVTQNDAAEDDDDEPLN 343
              D   +               ++   +        +    A++  ++   + DD    
Sbjct: 169 ENIDDESEKKDDEEKEEDVEKTRKEKEQIEQVKLQAKKEKRSALLDTDEVGSELDD---- 224

Query: 344 ENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGE 403
              DD+    +  E+   ++L+L  +DKVTRTK+RWKC+LKDG++ IN  D  F KA  E
Sbjct: 225 --SDDDYLISEGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVE 282

Query: 404 FDF 406
            ++
Sbjct: 283 AEW 285

>1rm1_C Transcription initiation factor IIA large chain; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} Length = 286

 Score = 72.6 bits (176), Expect = 2e-14
 Identities = 26/209 (12%), Positives = 60/209 (28%), Gaps = 2/209 (0%)

Query: 1   MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI--IDRTSA 58
           M+ +    VY  ++E V+++VR++F N G  E  L +L+ IW+ K+ +  V         
Sbjct: 1   MSNAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTFSWDNQF 60

Query: 59  PKQPAPGGPITPVHDLNVPYEGTEEYETPTAEILFPPTPLQTPIQTPLPGSTPLPGSTPL 118
            +    G       +L  P   + E+             L           +        
Sbjct: 61  NEGNINGVQNDLNFNLATPGVNSSEFNIKEENTGNEGLILPNINSNNNIPHSGETNINTN 120

Query: 119 PGSTPLPGTADNSTYNIPTGSSDYPTPASDSGGNTEAKSGNGRPSSYMPPPPSPWMNPRP 178
                    A  +T      ++D  +            + N    + +            
Sbjct: 121 TVEATNNSGATLNTNTSGNTNADVTSQPKIEVKPEIELTINNANITTVENIDDESEKKDD 180

Query: 179 PLSVDVNVAYVEGRDEADRGTSHQPLTQD 207
               +      + +++ ++        + 
Sbjct: 181 EEKEEDVEKTRKEKEQIEQVKLQAKKEKR 209

>1nvp_B Transcription initiation factor IIA alpha chain; transcription regulation, DNA, complex, transcription/DNA complex; 2.10A {Homo sapiens} SCOP: a.32.1.1 Length = 57

 Score = 74.5 bits (183), Expect = 2e-17
 Identities = 22/52 (42%), Positives = 34/52 (65%)

Query: 1  MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI 52
            T+    +Y  VIEDVI+ VRD F+++G  E VL EL+ +WE K++Q+  +
Sbjct: 4  ANTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLMQSRAV 55

>1nh2_B Transcription initiation factor IIA large chain; transcription/DNA; HET: 5IU; 1.90A {Saccharomyces cerevisiae} SCOP: a.32.1.1 PDB: 1ytf_B* Length = 53

 Score = 71.8 bits (176), Expect = 2e-16
 Identities = 16/49 (32%), Positives = 29/49 (59%)

Query: 4  SATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI 52
          +    VY  ++E V+++VR++F N G  E  L +L+ IW+ K+ +  V 
Sbjct: 3  AEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVT 51

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	406
1rm1_C	286	Transcription initiation factor IIA large chain; y	100.0
1nvp_C	76	Transcription initiation factor IIA beta chain; tr	100.0
1nh2_C	79	Transcription initiation factor IIA large chain; t	99.98
1nh2_B	53	Transcription initiation factor IIA large chain; t	99.81
1nvp_B	57	Transcription initiation factor IIA alpha chain; t	99.8

>1rm1_C Transcription initiation factor IIA large chain; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae}

Probab=100.00  E-value=3.9e-50  Score=384.69  Aligned_cols=61  Identities=28%  Similarity=0.557  Sum_probs=57.1

Q ss_pred             CCCcchhhhhHHHHHHHHHHhHHHhhhCCCChhHHHHHHHHHHHHHHHhccc-ccCCCCCCC
Q 015442            1 MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI-IDRTSAPKQ   61 (406)
Q Consensus         1 MsNs~V~~VY~sVIeDVIn~vReDFed~GVDEsVLqELK~lWq~KLsqsgva-~~~~~a~~~   61 (406)
                      |||..|++||++||++||++||++|+++||||+||+|||++|++||+++||+ ++|++++..
T Consensus         1 MSn~~vskvY~~VIedVI~~VR~dF~deGVDE~VL~ELk~~We~KL~qsgv~~f~~dp~~~~   62 (286)
T 1rm1_C            1 MSNAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTFSWDNQFNE   62 (286)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHTSSCCTTGGGGC-
T ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHhcCcccCCCCcCccc
Confidence            9999999999999999999999999999999999999999999999999999 999876654

>1nvp_C Transcription initiation factor IIA beta chain; transcription regulation, DNA, complex, transcription/DNA complex; 2.10A {Homo sapiens} SCOP: b.56.1.1

Probab=100.00  E-value=3.1e-35  Score=236.36  Aligned_cols=70  Identities=40%  Similarity=0.773  Sum_probs=46.7

Q ss_pred             CCCCCCCCCCCCCCCCcccccCCCCCCCCeEEEEeeeeeecCCceeEEeeceeeEeCCeeeeeecccccccC
Q 015442          335 EDDDDEPLNENDDDELDDVDQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF  406 (406)
Q Consensus       335 ~~~eEdpLNsdDDdd~~D~d~~ed~~t~NvvlCqydKV~R~KnKWKc~LKdGIm~ingkDyvF~Ka~GEfE~  406 (406)
                      ++++||+|||+||++++++  ++++++.||||||||||+|+||||||+|||||||||||||||+||+|||||
T Consensus         7 ~~~~ed~lnsd~Dd~dd~~--~~~~~~~n~vlC~ydKV~R~KnkWKc~LKdGim~ingkdy~F~ka~GE~eW   76 (76)
T 1nvp_C            7 GQVEEEPLNSEDDVSDEEG--QELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW   76 (76)
T ss_dssp             -------------------------CCCCEEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEEEEC
T ss_pred             ccccccccCCcCCCccccc--ccccCCCcEEEEEEEEEeccCceEEEEEeccEEEECCEEEEEeccceeecC
Confidence            4578999999997665544  456789999999999999999999999999999999999999999999999

>1nh2_C Transcription initiation factor IIA large chain; transcription/DNA; HET: 5IU; 1.90A {Saccharomyces cerevisiae} SCOP: b.56.1.1 PDB: 1ytf_C*

Probab=99.98  E-value=1.8e-33  Score=227.56  Aligned_cols=71  Identities=42%  Similarity=0.670  Sum_probs=45.7

Q ss_pred             CCCCCCCCCCCCCCCccc---ccCCCCCCCCeEEEEeeeeeecCCceeEEeeceeeEeCCeeeeeecccccccC
Q 015442          336 DDDDEPLNENDDDELDDV---DQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF  406 (406)
Q Consensus       336 ~~eEdpLNsdDDdd~~D~---d~~ed~~t~NvvlCqydKV~R~KnKWKc~LKdGIm~ingkDyvF~Ka~GEfE~  406 (406)
                      +.+||++|||+|++++|.   +++++..+.|+||||||||+|+||||||+|||||||||||||||+||+|||||
T Consensus         5 ~~d~d~insdlDd~dd~~~~~~~~~d~~~~n~vlC~ydKV~R~KnKWKc~LKdGi~~ingkDy~F~ka~GE~eW   78 (79)
T 1nh2_C            5 LLDTDEVGSELDDSDDDYLISEGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW   78 (79)
T ss_dssp             ----------------CCBC---------CCEEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEEEEC
T ss_pred             ccccccccCccCCccccccccccccccccCcEEEEEEEEEeeecceEEEEEeeeEEEECCEEEEEecccEEEEE
Confidence            357889999976555543   33345689999999999999999999999999999999999999999999999

>1nh2_B Transcription initiation factor IIA large chain; transcription/DNA; HET: 5IU; 1.90A {Saccharomyces cerevisiae} SCOP: a.32.1.1 PDB: 1ytf_B*

Probab=99.81  E-value=1e-20  Score=142.95  Aligned_cols=51  Identities=31%  Similarity=0.642  Sum_probs=45.6

Q ss_pred             CCcchhhhhHHHHHHHHHHhHHHhhhCCCChhHHHHHHHHHHHHHHHhccc
Q 015442            2 ATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI   52 (406)
Q Consensus         2 sNs~V~~VY~sVIeDVIn~vReDFed~GVDEsVLqELK~lWq~KLsqsgva   52 (406)
                      ||..|++||++||+|||++||++|+++|||++||+|||++||+||+++||+
T Consensus         1 sn~~v~~vY~~VI~dVI~~vr~~F~~~Gvde~vL~eLk~~We~KL~~s~va   51 (53)
T 1nh2_B            1 SNAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVT   51 (53)
T ss_dssp             -CHHHHHHHHHHHHHHHHHTHHHHHHTTCCHHHHHHHHHHHHHHHHC----
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHcCCC
Confidence            788999999999999999999999999999999999999999999999998

>1nvp_B Transcription initiation factor IIA alpha chain; transcription regulation, DNA, complex, transcription/DNA complex; 2.10A {Homo sapiens} SCOP: a.32.1.1

Probab=99.80  E-value=2.8e-20  Score=142.39  Aligned_cols=51  Identities=43%  Similarity=0.721  Sum_probs=42.8

Q ss_pred             CCcchhhhhHHHHHHHHHHhHHHhhhCCCChhHHHHHHHHHHHHHHHhccc
Q 015442            2 ATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI   52 (406)
Q Consensus         2 sNs~V~~VY~sVIeDVIn~vReDFed~GVDEsVLqELK~lWq~KLsqsgva   52 (406)
                      ||+.|++||++||+|||++||++|+++|||++||+|||++||+||+++||+
T Consensus         5 ~~~~v~~vY~~VIedVI~~vr~~F~~~Gvde~vL~eLk~~We~KL~~s~a~   55 (57)
T 1nvp_B            5 NTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLMQSRAV   55 (57)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHC-----
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCC
Confidence            578899999999999999999999999999999999999999999999987

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	406
d1nvpc_	47	b.56.1.1 (C:) Large chain TOA1, C-terminal domain	5e-27
d1nh2c_	59	b.56.1.1 (C:) Large chain TOA1, C-terminal domain	2e-26
d1nh2b_	46	a.32.1.1 (B:) Large chain TOA1, N-terminal domain	3e-17
d1nvpb_	43	a.32.1.1 (B:) Large chain TOA1, N-terminal domain	2e-15

>d1nvpc_ b.56.1.1 (C:) Large chain TOA1, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 47

class: All beta proteins
fold: Transcription factor IIA (TFIIA), beta-barrel domain
superfamily: Transcription factor IIA (TFIIA), beta-barrel domain
family: Transcription factor IIA (TFIIA), beta-barrel domain
domain: Large chain TOA1, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 99.7 bits (249), Expect = 5e-27
 Identities = 21/47 (44%), Positives = 39/47 (82%)

Query: 360 NTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           +T+++V+ Q+DK+ R+K++WK  LKDGIM++N +D +F+KA G+ ++
Sbjct: 1   DTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 47

>d1nh2c_ b.56.1.1 (C:) Large chain TOA1, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 59

class: All beta proteins
fold: Transcription factor IIA (TFIIA), beta-barrel domain
superfamily: Transcription factor IIA (TFIIA), beta-barrel domain
family: Transcription factor IIA (TFIIA), beta-barrel domain
domain: Large chain TOA1, C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 98.7 bits (246), Expect = 2e-26
 Identities = 25/53 (47%), Positives = 37/53 (69%)

Query: 354 DQGEELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF 406
           +  E+   ++L+L  +DKVTRTK+RWKC+LKDG++ IN  D  F KA  E ++
Sbjct: 6   EGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW 58

>d1nh2b_ a.32.1.1 (B:) Large chain TOA1, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 46

class: All alpha proteins
fold: Transcription factor IIA (TFIIA), alpha-helical domain
superfamily: Transcription factor IIA (TFIIA), alpha-helical domain
family: Transcription factor IIA (TFIIA), alpha-helical domain
domain: Large chain TOA1, N-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 72.8 bits (179), Expect = 3e-17
 Identities = 15/45 (33%), Positives = 28/45 (62%)

Query: 4  SATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQ 48
          +    VY  ++E V+++VR++F N G  E  L +L+ IW+ K+ +
Sbjct: 2  AEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTE 46

>d1nvpb_ a.32.1.1 (B:) Large chain TOA1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 43

class: All alpha proteins
fold: Transcription factor IIA (TFIIA), alpha-helical domain
superfamily: Transcription factor IIA (TFIIA), alpha-helical domain
family: Transcription factor IIA (TFIIA), alpha-helical domain
domain: Large chain TOA1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.8 bits (166), Expect = 2e-15
 Identities = 20/42 (47%), Positives = 29/42 (69%)

Query: 6  TGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMI 47
             +Y  VIEDVI+ VRD F+++G  E VL EL+ +WE K++
Sbjct: 2  VPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLM 43

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	406
d1nvpc_	47	Large chain TOA1, C-terminal domain {Human (Homo s	99.96
d1nh2c_	59	Large chain TOA1, C-terminal domain {Baker's yeast	99.96
d1nh2b_	46	Large chain TOA1, N-terminal domain {Baker's yeast	99.78
d1nvpb_	43	Large chain TOA1, N-terminal domain {Human (Homo s	99.74

>d1nvpc_ b.56.1.1 (C:) Large chain TOA1, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Transcription factor IIA (TFIIA), beta-barrel domain
superfamily: Transcription factor IIA (TFIIA), beta-barrel domain
family: Transcription factor IIA (TFIIA), beta-barrel domain
domain: Large chain TOA1, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.5e-30  Score=190.92  Aligned_cols=47  Identities=45%  Similarity=0.943  Sum_probs=46.2

Q ss_pred             CCCCeEEEEeeeeeecCCceeEEeeceeeEeCCeeeeeecccccccC
Q 015442          360 NTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF  406 (406)
Q Consensus       360 ~t~NvvlCqydKV~R~KnKWKc~LKdGIm~ingkDyvF~Ka~GEfE~  406 (406)
                      +|+|+||||||||+|+||||||+||||||+||||||||+||+|||||
T Consensus         1 ~t~n~vlc~ydKV~R~KnKWKc~lKdGim~ingkdyvF~ka~gE~eW   47 (47)
T d1nvpc_           1 DTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW   47 (47)
T ss_dssp             CCCCEEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEEEEC
T ss_pred             CcceEEEEEEEEEEeecceEEEEEEeeEEEECCcEEEEEeeeeeecC
Confidence            58999999999999999999999999999999999999999999999

>d1nh2c_ b.56.1.1 (C:) Large chain TOA1, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All beta proteins
fold: Transcription factor IIA (TFIIA), beta-barrel domain
superfamily: Transcription factor IIA (TFIIA), beta-barrel domain
family: Transcription factor IIA (TFIIA), beta-barrel domain
domain: Large chain TOA1, C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.96  E-value=2e-30  Score=197.90  Aligned_cols=50  Identities=50%  Similarity=0.864  Sum_probs=44.8

Q ss_pred             CCCCCCCeEEEEeeeeeecCCceeEEeeceeeEeCCeeeeeecccccccC
Q 015442          357 EELNTQHLVLAQFDKVTRTKSRWKCALKDGIMHINNKDILFNKATGEFDF  406 (406)
Q Consensus       357 ed~~t~NvvlCqydKV~R~KnKWKc~LKdGIm~ingkDyvF~Ka~GEfE~  406 (406)
                      |+..++|+||||||||+|+||||||+||||||+||||||||+||+|||||
T Consensus         9 ed~~~~n~vlc~yDKV~R~KnKWK~~LKdGim~ingkdy~F~ka~GE~eW   58 (59)
T d1nh2c_           9 EDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW   58 (59)
T ss_dssp             -----CCEEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEEEEC
T ss_pred             cCCCCCcEEEEEEEEEeeccceEEEEEeeeEEEECCeEEEEeeceEEEEe
Confidence            45578999999999999999999999999999999999999999999999

>d1nh2b_ a.32.1.1 (B:) Large chain TOA1, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Transcription factor IIA (TFIIA), alpha-helical domain
superfamily: Transcription factor IIA (TFIIA), alpha-helical domain
family: Transcription factor IIA (TFIIA), alpha-helical domain
domain: Large chain TOA1, N-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=3.6e-20  Score=135.10  Aligned_cols=46  Identities=33%  Similarity=0.687  Sum_probs=44.7

Q ss_pred             CcchhhhhHHHHHHHHHHhHHHhhhCCCChhHHHHHHHHHHHHHHH
Q 015442            3 TSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQ   48 (406)
Q Consensus         3 Ns~V~~VY~sVIeDVIn~vReDFed~GVDEsVLqELK~lWq~KLsq   48 (406)
                      |+.|++||++||+|||++||++|+++||||+||+|||++||+||+|
T Consensus         1 n~~v~~vY~~VI~dVI~~vR~dF~~~Gvde~vL~eLk~~We~Kl~Q   46 (46)
T d1nh2b_           1 NAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTE   46 (46)
T ss_dssp             CHHHHHHHHHHHHHHHHHTHHHHHHTTCCHHHHHHHHHHHHHHHHC
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhcC
Confidence            6789999999999999999999999999999999999999999986

>d1nvpb_ a.32.1.1 (B:) Large chain TOA1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Transcription factor IIA (TFIIA), alpha-helical domain
superfamily: Transcription factor IIA (TFIIA), alpha-helical domain
family: Transcription factor IIA (TFIIA), alpha-helical domain
domain: Large chain TOA1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=4.9e-19  Score=127.51  Aligned_cols=43  Identities=47%  Similarity=0.784  Sum_probs=41.6

Q ss_pred             chhhhhHHHHHHHHHHhHHHhhhCCCChhHHHHHHHHHHHHHH
Q 015442            5 ATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMI   47 (406)
Q Consensus         5 ~V~~VY~sVIeDVIn~vReDFed~GVDEsVLqELK~lWq~KLs   47 (406)
                      +|++||++||+|||++||++|+++||||+||+|||++||+||+
T Consensus         1 tV~kvY~~VIedVI~~vR~~F~~~GvDe~vL~eLk~~We~KL~   43 (43)
T d1nvpb_           1 TVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLM   43 (43)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcC
Confidence            4899999999999999999999999999999999999999995