Psyllid ID: psy11263

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80
Protein Sequence
MALIPTLAQVVCGIEDEPLNSSDDVSEEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccEEEEEEEEEEccccEEEEEEccEEEEEccEEEEEEEcEEEEcc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHccccccccccccccccccccccccccEEEEEEEEEEEEccEEEEEEEEEEEEEccEEEEEEEEEEEEEc
Coil and Loop (DISEMBL)
maliptlaqvvcgiedeplnssddvseedpalfdtdnivvcqydkitrsrNKWKFYLKDGIMNLNGKDFVFLKANGDADW
Flexible Loop (DISEMBL)
MALIPTLAQVVCGIEDEPLNSSDDVSEedpalfdtdnivvcqydkitrsrnKWKFYLKDGimnlngkdFVFLKANGDADW
Low Complexity Region (SEG)
MALIPTLAQVVCGIEDEPLNSSDDVSEEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW
Disordered region (IsUnstruct)
****PTLAQVVCGI****************ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKA******
Disordered Region (DISOPRED)
*******************************LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW
Disordered Region (DISEMBL)
MALIPTLAQVVCGIEDEPL*********DPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW
Disordered Region (DISPRO)
*****************************PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MALIPTLAQVVCGIEDEPLNSSDDVSEEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	80	2.2.26 [Sep-21-2011]
P52654	366	Transcription initiation	no	N/A	0.787	0.172	0.781	2e-26
Q5RCU0	376	Transcription initiation	yes	N/A	0.837	0.178	0.735	1e-24
P52655	376	Transcription initiation	no	N/A	0.837	0.178	0.735	1e-24
O08949	377	Transcription initiation	yes	N/A	0.837	0.177	0.735	1e-24
Q99PM3	378	Transcription initiation	no	N/A	0.837	0.177	0.735	2e-24
Q9UNN4	478	TFIIA-alpha and beta-like	no	N/A	0.837	0.140	0.705	2e-24
Q8R4I4	468	TFIIA-alpha and beta-like	no	N/A	0.825	0.141	0.671	8e-23
Q9USU9	369	Transcription initiation	yes	N/A	0.537	0.116	0.511	2e-09
Q54G80	310	Transcription initiation	yes	N/A	0.562	0.145	0.555	1e-08
P32773	286	Transcription initiation	yes	N/A	0.562	0.157	0.444	1e-07

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

 Score =  117 bits (293), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 50/64 (78%), Positives = 59/64 (92%), Gaps = 1/64 (1%)

Query: 18  PLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANG 76
           PLNS DDV++ED A +FDTDN++VCQYDKITRSRNKWKFYLKDGIMN+ GKD+VF K+NG
Sbjct: 303 PLNSEDDVTDEDSAEMFDTDNVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQKSNG 362

Query: 77  DADW 80
           DA+W
Sbjct: 363 DAEW 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|Q5RCU0|TF2AA_PONAB Transcription initiation factor IIA subunit 1 OS=Pongo abelii GN=GTF2A1 PE=2 SV=1

 Score =  111 bits (278), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 50/68 (73%), Positives = 60/68 (88%), Gaps = 1/68 (1%)

Query: 14  IEDEPLNSSDDVS-EEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
           +E+EPLNS DDVS EE   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct: 309 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 368

Query: 73  KANGDADW 80
           KA GDA+W
Sbjct: 369 KAIGDAEW 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|P52655|TF2AA_HUMAN Transcription initiation factor IIA subunit 1 OS=Homo sapiens GN=GTF2A1 PE=1 SV=1

 Score =  111 bits (277), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 50/68 (73%), Positives = 60/68 (88%), Gaps = 1/68 (1%)

Query: 14  IEDEPLNSSDDVS-EEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
           +E+EPLNS DDVS EE   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct: 309 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 368

Query: 73  KANGDADW 80
           KA GDA+W
Sbjct: 369 KAIGDAEW 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|O08949|TF2AA_RAT Transcription initiation factor IIA subunit 1 OS=Rattus norvegicus GN=Gtf2a1 PE=2 SV=1

 Score =  111 bits (277), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 50/68 (73%), Positives = 60/68 (88%), Gaps = 1/68 (1%)

Query: 14  IEDEPLNSSDDVS-EEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
           +E+EPLNS DDVS EE   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct: 310 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 369

Query: 73  KANGDADW 80
           KA GDA+W
Sbjct: 370 KAIGDAEW 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 =  110 bits (276), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 50/68 (73%), Positives = 60/68 (88%), Gaps = 1/68 (1%)

Query: 14  IEDEPLNSSDDVS-EEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
           +E+EPLNS DDVS EE   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct: 311 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 370

Query: 73  KANGDADW 80
           KA GDA+W
Sbjct: 371 KAIGDAEW 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|Q9UNN4|TF2AY_HUMAN TFIIA-alpha and beta-like factor OS=Homo sapiens GN=GTF2A1L PE=2 SV=2

 Score =  110 bits (275), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 48/68 (70%), Positives = 59/68 (86%), Gaps = 1/68 (1%)

Query: 14  IEDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
           +E++PLNS DDVSE+D P LFDTDN++VCQYDKI RS+NKWKFYLKDG+M   G+D+VF 
Sbjct: 411 VEEDPLNSGDDVSEQDVPDLFDTDNVIVCQYDKIHRSKNKWKFYLKDGVMCFGGRDYVFA 470

Query: 73  KANGDADW 80
           KA GDA+W
Sbjct: 471 KAIGDAEW 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)

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

 Score =  105 bits (262), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 45/67 (67%), Positives = 58/67 (86%), Gaps = 1/67 (1%)

Query: 15  EDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLK 73
           E++PLNS DDVSE+D P LFDT+N++VCQYDKI RS+N+WKFYLKDG+M   G+D+VF K
Sbjct: 402 EEDPLNSGDDVSEQDVPDLFDTENVIVCQYDKIHRSKNRWKFYLKDGVMCFGGRDYVFAK 461

Query: 74  ANGDADW 80
           A G+A+W
Sbjct: 462 AIGEAEW 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|Q9USU9|TOA1_SCHPO Transcription initiation factor IIA large subunit OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=toa1 PE=1 SV=1

 Score = 61.2 bits (147), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 22/43 (51%), Positives = 33/43 (76%)

Query: 38  IVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW 80
           IV+C YDK+   +NKWK   +DG++ +NGKD++F KANG+ +W
Sbjct: 326 IVLCLYDKVNHHKNKWKCVFRDGVVGVNGKDYLFFKANGEFEW 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|Q54G80|TF2AA_DICDI Transcription initiation factor IIA subunit 1 OS=Dictyostelium discoideum GN=gtf2a1 PE=3 SV=1

 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 25/45 (55%), Positives = 35/45 (77%)

Query: 36  DNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW 80
           ++ V+CQY+K++R +NK K   KDGIM+LNGKD +F KANG+  W
Sbjct: 265 EHFVLCQYEKVSRIKNKRKCNFKDGIMHLNGKDTLFNKANGEMIW 309

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

 Score = 55.1 bits (131), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 20/45 (44%), Positives = 34/45 (75%)

Query: 36  DNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW 80
           +N+++C YDK+TR++ +WK  LKDG++ +N  D+ F KA  +A+W
Sbjct: 241 ENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW 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)

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	80
357613600	274	tfiia large subunit [Danaus plexippus]	0.825	0.240	0.805	5e-26
194907494	366	GG11539 [Drosophila erecta] gi|190656202	0.825	0.180	0.776	6e-26
195503814	366	GE23726 [Drosophila yakuba] gi|194184912	0.825	0.180	0.776	7e-26
405970121	251	Transcription initiation factor IIA subu	0.987	0.314	0.737	1e-25
321468455	335	hypothetical protein DAPPUDRAFT_304824 [	0.825	0.197	0.746	4e-25
24650582	324	transcription factor IIA L, isoform C [D	0.787	0.194	0.781	5e-25
390177656	317	GA19238, isoform C [Drosophila pseudoobs	0.825	0.208	0.761	5e-25
313661529	376	AT09437p [Drosophila melanogaster]	0.787	0.167	0.781	7e-25
198451436	356	GA19238, isoform A [Drosophila pseudoobs	0.825	0.185	0.761	7e-25
195449174	379	GK22574 [Drosophila willistoni] gi|19416	0.825	0.174	0.746	7e-25

>gi|357613600|gb|EHJ68608.1| tfiia large subunit [Danaus plexippus]

 Score =  121 bits (303), Expect = 5e-26,   Method: Composition-based stats.
 Identities = 54/67 (80%), Positives = 63/67 (94%), Gaps = 1/67 (1%)

Query: 15  EDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLK 73
           E+EPLNS DDVS+E+P  +FDTDN+VVCQYDKITRSRNKWKF+LKDGIMNL+GKD+VF K
Sbjct: 208 EEEPLNSGDDVSDEEPGDMFDTDNVVVCQYDKITRSRNKWKFHLKDGIMNLSGKDYVFQK 267

Query: 74  ANGDADW 80
           ANGDA+W
Sbjct: 268 ANGDAEW 274

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194907494|ref|XP_001981564.1| GG11539 [Drosophila erecta] gi|190656202|gb|EDV53434.1| GG11539 [Drosophila erecta]

 Score =  121 bits (303), Expect = 6e-26,   Method: Composition-based stats.
 Identities = 52/67 (77%), Positives = 62/67 (92%), Gaps = 1/67 (1%)

Query: 15  EDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLK 73
           E+EPLNS DDV++ED A +FDTDN++VCQYDKITRSRNKWKFYLKDGIMN+ GKD+VF K
Sbjct: 300 EEEPLNSEDDVTDEDSAEMFDTDNVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQK 359

Query: 74  ANGDADW 80
           +NGDA+W
Sbjct: 360 SNGDAEW 366

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195503814|ref|XP_002098811.1| GE23726 [Drosophila yakuba] gi|194184912|gb|EDW98523.1| GE23726 [Drosophila yakuba]

 Score =  120 bits (302), Expect = 7e-26,   Method: Composition-based stats.
 Identities = 52/67 (77%), Positives = 62/67 (92%), Gaps = 1/67 (1%)

Query: 15  EDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLK 73
           E+EPLNS DDV++ED A +FDTDN++VCQYDKITRSRNKWKFYLKDGIMN+ GKD+VF K
Sbjct: 300 EEEPLNSEDDVTDEDSAEMFDTDNVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQK 359

Query: 74  ANGDADW 80
           +NGDA+W
Sbjct: 360 SNGDAEW 366

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|405970121|gb|EKC35053.1| Transcription initiation factor IIA subunit 1 [Crassostrea gigas]

 Score =  120 bits (300), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 59/80 (73%), Positives = 68/80 (85%), Gaps = 1/80 (1%)

Query: 2   ALIPTLAQVVCGIEDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDG 60
           A IPT+ Q   G + EPLNS DDVS+EDP+ LFDTDN+VVCQYDKI R++NKWKF+LKDG
Sbjct: 172 ASIPTMIQQPQGQQQEPLNSDDDVSDEDPSDLFDTDNVVVCQYDKINRNKNKWKFHLKDG 231

Query: 61  IMNLNGKDFVFLKANGDADW 80
           IMNLNGKDFVF KA GDA+W
Sbjct: 232 IMNLNGKDFVFQKATGDAEW 251

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|321468455|gb|EFX79440.1| hypothetical protein DAPPUDRAFT_304824 [Daphnia pulex]

 Score =  118 bits (296), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 50/67 (74%), Positives = 64/67 (95%), Gaps = 1/67 (1%)

Query: 15  EDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLK 73
           ++EPLNS DDV+++DP+ LF+TDN+VVCQYDKITRSRN+WKF+LKDGIMN+NG+D+VF K
Sbjct: 269 DEEPLNSEDDVTDDDPSVLFETDNVVVCQYDKITRSRNRWKFHLKDGIMNINGRDYVFQK 328

Query: 74  ANGDADW 80
           ANGDA+W
Sbjct: 329 ANGDAEW 335

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|24650582|ref|NP_733208.1| transcription factor IIA L, isoform C [Drosophila melanogaster] gi|23172422|gb|AAN14106.1| transcription factor IIA L, isoform C [Drosophila melanogaster]

 Score =  118 bits (295), Expect = 5e-25,   Method: Composition-based stats.
 Identities = 50/64 (78%), Positives = 59/64 (92%), Gaps = 1/64 (1%)

Query: 18  PLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANG 76
           PLNS DDV++ED A +FDTDN++VCQYDKITRSRNKWKFYLKDGIMN+ GKD+VF K+NG
Sbjct: 261 PLNSEDDVTDEDSAEMFDTDNVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQKSNG 320

Query: 77  DADW 80
           DA+W
Sbjct: 321 DAEW 324

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|390177656|ref|XP_003736447.1| GA19238, isoform C [Drosophila pseudoobscura pseudoobscura] gi|388859137|gb|EIM52520.1| GA19238, isoform C [Drosophila pseudoobscura pseudoobscura]

 Score =  118 bits (295), Expect = 5e-25,   Method: Composition-based stats.
 Identities = 51/67 (76%), Positives = 60/67 (89%), Gaps = 1/67 (1%)

Query: 15  EDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLK 73
           E+EPLNS DDV++ED    FDTDN++VCQYDKITRSRNKWKFYLKDGIMN+ GKD+VF K
Sbjct: 251 EEEPLNSEDDVTDEDSTETFDTDNVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQK 310

Query: 74  ANGDADW 80
           +NGDA+W
Sbjct: 311 SNGDAEW 317

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|313661529|gb|ADR71719.1| AT09437p [Drosophila melanogaster]

 Score =  117 bits (294), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 50/64 (78%), Positives = 59/64 (92%), Gaps = 1/64 (1%)

Query: 18  PLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANG 76
           PLNS DDV++ED A +FDTDN++VCQYDKITRSRNKWKFYLKDGIMN+ GKD+VF K+NG
Sbjct: 313 PLNSEDDVTDEDSAEMFDTDNVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQKSNG 372

Query: 77  DADW 80
           DA+W
Sbjct: 373 DAEW 376

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|198451436|ref|XP_001358368.2| GA19238, isoform A [Drosophila pseudoobscura pseudoobscura] gi|198131489|gb|EAL27507.2| GA19238, isoform A [Drosophila pseudoobscura pseudoobscura]

 Score =  117 bits (294), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 51/67 (76%), Positives = 60/67 (89%), Gaps = 1/67 (1%)

Query: 15  EDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLK 73
           E+EPLNS DDV++ED    FDTDN++VCQYDKITRSRNKWKFYLKDGIMN+ GKD+VF K
Sbjct: 290 EEEPLNSEDDVTDEDSTETFDTDNVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQK 349

Query: 74  ANGDADW 80
           +NGDA+W
Sbjct: 350 SNGDAEW 356

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195449174|ref|XP_002071958.1| GK22574 [Drosophila willistoni] gi|194168043|gb|EDW82944.1| GK22574 [Drosophila willistoni]

 Score =  117 bits (294), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 50/67 (74%), Positives = 62/67 (92%), Gaps = 1/67 (1%)

Query: 15  EDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLK 73
           E+EPLNS DDV++ED A +F+T+N++VCQYDKITRSRNKWKFYLKDGIMN+ GKD+VF K
Sbjct: 313 EEEPLNSEDDVTDEDSAEMFETENVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQK 372

Query: 74  ANGDADW 80
           +NGDA+W
Sbjct: 373 SNGDAEW 379

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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	80
FB|FBgn0011289	366	TfIIA-L "Transcription factor	0.825	0.180	0.776	1.2e-26
ZFIN|ZDB-GENE-030131-2694	369	gtf2a1 "general transcription	0.837	0.181	0.779	1.4e-25
UNIPROTKB|F1NKT1	333	GTF2A1 "Uncharacterized protei	0.837	0.201	0.735	1.6e-24
UNIPROTKB|F1NTD4	379	GTF2A1 "Uncharacterized protei	0.837	0.176	0.735	1.6e-24
UNIPROTKB|F1MII0	378	GTF2A1 "Uncharacterized protei	0.837	0.177	0.720	2e-24
UNIPROTKB|F1PJI5	376	GTF2A1 "Uncharacterized protei	0.837	0.178	0.720	2e-24
UNIPROTKB|J9NWE1	392	GTF2A1 "Uncharacterized protei	0.837	0.170	0.720	2e-24
UNIPROTKB|P52655	376	GTF2A1 "Transcription initiati	0.837	0.178	0.720	2e-24
UNIPROTKB|F1SE01	332	GTF2A1 "Uncharacterized protei	0.837	0.201	0.720	2e-24
UNIPROTKB|I3LE29	317	GTF2A1 "Uncharacterized protei	0.837	0.211	0.720	2e-24

FB|FBgn0011289 TfIIA-L "Transcription factor IIA L" [Drosophila melanogaster (taxid:7227)]

 Score = 300 (110.7 bits), Expect = 1.2e-26, P = 1.2e-26
 Identities = 52/67 (77%), Positives = 62/67 (92%)

Query:    15 EDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLK 73
             E+EPLNS DDV++ED A +FDTDN++VCQYDKITRSRNKWKFYLKDGIMN+ GKD+VF K
Sbjct:   300 EEEPLNSEDDVTDEDSAEMFDTDNVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQK 359

Query:    74 ANGDADW 80
             +NGDA+W
Sbjct:   360 SNGDAEW 366

GO:0001094 "TFIID-class transcription factor binding" evidence=IPI

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

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

GO:0005634 "nucleus" evidence=NAS;IDA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0001128 "RNA polymerase II transcription coactivator activity involved in preinitiation complex assembly" evidence=IPI

GO:0001129 "TBP-class protein binding RNA polymerase II transcription factor activity involved in preinitiation complex assembly" evidence=IPI

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

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=NAS

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

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 53/68 (77%), Positives = 61/68 (89%)

Query:    14 IEDEPLNSSDDVS-EEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
             +E+EPLNS DDVS EED  LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+DFVF 
Sbjct:   302 VEEEPLNSGDDVSDEEDQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDFVFS 361

Query:    73 KANGDADW 80
             KA GDA+W
Sbjct:   362 KAIGDAEW 369

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

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

UNIPROTKB|F1NKT1 GTF2A1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 280 (103.6 bits), Expect = 1.6e-24, P = 1.6e-24
 Identities = 50/68 (73%), Positives = 61/68 (89%)

Query:    14 IEDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
             +E+EPLNS DDVS+E+   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D+VF 
Sbjct:   266 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYVFS 325

Query:    73 KANGDADW 80
             KA GDA+W
Sbjct:   326 KAIGDAEW 333

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

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

UNIPROTKB|F1NTD4 GTF2A1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 280 (103.6 bits), Expect = 1.6e-24, P = 1.6e-24
 Identities = 50/68 (73%), Positives = 61/68 (89%)

Query:    14 IEDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
             +E+EPLNS DDVS+E+   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D+VF 
Sbjct:   312 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYVFS 371

Query:    73 KANGDADW 80
             KA GDA+W
Sbjct:   372 KAIGDAEW 379

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

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

UNIPROTKB|F1MII0 GTF2A1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 49/68 (72%), Positives = 61/68 (89%)

Query:    14 IEDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
             +E+EPLNS DDVS+E+   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct:   311 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 370

Query:    73 KANGDADW 80
             KA GDA+W
Sbjct:   371 KAIGDAEW 378

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

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

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

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 49/68 (72%), Positives = 61/68 (89%)

Query:    14 IEDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
             +E+EPLNS DDVS+E+   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct:   309 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 368

Query:    73 KANGDADW 80
             KA GDA+W
Sbjct:   369 KAIGDAEW 376

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

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

UNIPROTKB|J9NWE1 GTF2A1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 49/68 (72%), Positives = 61/68 (89%)

Query:    14 IEDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
             +E+EPLNS DDVS+E+   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct:   325 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 384

Query:    73 KANGDADW 80
             KA GDA+W
Sbjct:   385 KAIGDAEW 392

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

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

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

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 49/68 (72%), Positives = 61/68 (89%)

Query:    14 IEDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
             +E+EPLNS DDVS+E+   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct:   309 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 368

Query:    73 KANGDADW 80
             KA GDA+W
Sbjct:   369 KAIGDAEW 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|F1SE01 GTF2A1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 49/68 (72%), Positives = 61/68 (89%)

Query:    14 IEDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
             +E+EPLNS DDVS+E+   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct:   265 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 324

Query:    73 KANGDADW 80
             KA GDA+W
Sbjct:   325 KAIGDAEW 332

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

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

UNIPROTKB|I3LE29 GTF2A1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 49/68 (72%), Positives = 61/68 (89%)

Query:    14 IEDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
             +E+EPLNS DDVS+E+   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct:   250 VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 309

Query:    73 KANGDADW 80
             KA GDA+W
Sbjct:   310 KAIGDAEW 317

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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q5RCU0	TF2AA_PONAB	No assigned EC number	0.7352	0.8375	0.1781	yes	N/A
Q54G80	TF2AA_DICDI	No assigned EC number	0.5555	0.5625	0.1451	yes	N/A
O08949	TF2AA_RAT	No assigned EC number	0.7352	0.8375	0.1777	yes	N/A
Q9USU9	TOA1_SCHPO	No assigned EC number	0.5116	0.5375	0.1165	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	80
pfam03153	332	pfam03153, TFIIA, Transcription factor IIA, alpha/	1e-39
cd07976	102	cd07976, TFIIA_alpha_beta_like, Precursor of TFIIA	4e-30
COG5149	293	COG5149, TOA1, Transcription initiation factor IIA	3e-14

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

 Score =  132 bits (334), Expect = 1e-39
 Identities = 43/68 (63%), Positives = 55/68 (80%), Gaps = 1/68 (1%)

Query: 14  IEDEPLNSSDDVSEED-PALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
           IE +  +S DDVS+ED   LFDTDN+++CQYDK+ RS+NKWK  LKDGIM +NGKD+VF 
Sbjct: 265 IESDLDDSDDDVSDEDGEDLFDTDNVMLCQYDKVQRSKNKWKCTLKDGIMTINGKDYVFQ 324

Query: 73  KANGDADW 80
           KA G+A+W
Sbjct: 325 KATGEAEW 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 =  101 bits (255), Expect = 4e-30
 Identities = 35/62 (56%), Positives = 44/62 (70%)

Query: 19  LNSSDDVSEEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDA 78
           L+ S   S       +T+NIV+CQYDK+TR +NKWK  LKDGIM LNGKD+VF KA G+ 
Sbjct: 41  LSQSGAASFPWDPKPETENIVLCQYDKVTRVKNKWKCTLKDGIMTLNGKDYVFQKATGEF 100

Query: 79  DW 80
           +W
Sbjct: 101 EW 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|227478 COG5149, TOA1, Transcription initiation factor IIA, large chain [Transcription]

 Score = 64.7 bits (157), Expect = 3e-14
 Identities = 27/71 (38%), Positives = 40/71 (56%), Gaps = 6/71 (8%)

Query: 16  DEPLNS---SDDVSEEDPALFDTD---NIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDF 69
           DE + S     DV   D  +  T    N ++C YDK+  S+ KWK   KDG++++N  D+
Sbjct: 222 DEGMFSDLDDSDVDSGDSEIEGTKGSTNCMLCLYDKVNMSKGKWKCTFKDGVVSINNIDY 281

Query: 70  VFLKANGDADW 80
           VF KA G+ +W
Sbjct: 282 VFNKAQGELEW 292

Length = 293

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	80
PF03153	375	TFIIA: Transcription factor IIA, alpha/beta subuni	100.0
KOG2652|consensus	348		100.0
COG5149	293	TOA1 Transcription initiation factor IIA, large ch	99.95
PF09211	65	DUF1958: Domain of unknown function (DUF1958); Int	85.99
COG5013	1227	NarG Nitrate reductase alpha subunit [Energy produ	85.85

>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=8.7e-39  Score=242.92  Aligned_cols=62  Identities=61%  Similarity=1.085  Sum_probs=45.7

Q ss_pred             CCCCCCCCCCC-----c-CCCCCCCEEEEEEeeeeecCCeeEEEecceeEEECCeeeEeeeceeeeeC
Q psy11263         19 LNSSDDVSEED-----P-ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW   80 (80)
Q Consensus        19 lnSddD~sd~d-----~-e~~~~~nvilC~ydKV~R~KnKWKc~LKdGim~ingkDyvF~ka~GE~eW   80 (80)
                      +|||+|+|++|     . ++++++|+||||||||+|+||||||+|||||||||||||||+||+|||||
T Consensus       308 ~~~~~~~~~dd~~~~~~~~~~~~~~~~~c~~~kv~r~k~~wk~~lk~g~~~~~~~d~~f~~~~ge~~w  375 (375)
T PF03153_consen  308 INSDLDDSDDDVSDEDDEDDFDTDNVVLCQYDKVTRVKNKWKCTLKDGIMHINGKDYVFQKATGEFEW  375 (375)
T ss_dssp             ------------B-------STTS-EEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEEEE-
T ss_pred             ccCCcCCccccccccccccccCcCCEEEEEeeccccccceeEEEeeeeEEEECCeEEEEeeeeeeecC
Confidence            78877776543     2 66899999999999999999999999999999999999999999999999

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.

>KOG2652|consensus

Probab=100.00  E-value=3.4e-35  Score=230.69  Aligned_cols=67  Identities=61%  Similarity=1.106  Sum_probs=56.3

Q ss_pred             CCCCCCCCCCCCC-CCCc-----CCCCCCCEEEEEEeeeeecCCeeEEEecceeEEECCeeeEeeeceeeeeC
Q psy11263         14 IEDEPLNSSDDVS-EEDP-----ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW   80 (80)
Q Consensus        14 ~~ed~lnSddD~s-d~d~-----e~~~~~nvilC~ydKV~R~KnKWKc~LKdGim~ingkDyvF~ka~GE~eW   80 (80)
                      ++++.+|||++|. ++++     +..+|+|+||||||||+|+||||||+|||||||||||||||+||+|||||
T Consensus       276 ~dee~~n~Dd~D~~EeeplnsedDvsdt~nvVvCqyDKV~RsKnKWKc~LKDGIM~ingkDY~F~KA~GeaEW  348 (348)
T KOG2652|consen  276 EDEELGNSDDDDGVEEEPLNSEDDVSDTQNVVVCQYDKVNRSKNKWKCYLKDGVMHINGKDYVFQKAQGEAEW  348 (348)
T ss_pred             hhhhcccccccCccccccccCcccccccceeEEEeeeeeccccceeeEEeecceEEeCCceeEeeecccccCC
Confidence            3566677777664 3332     12347899999999999999999999999999999999999999999999

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

Probab=99.95  E-value=3.3e-28  Score=186.80  Aligned_cols=67  Identities=39%  Similarity=0.740  Sum_probs=59.7

Q ss_pred             CCCCCCCCCCCCCCCCc---CC---CCCCCEEEEEEeeeeecCCeeEEEecceeEEECCeeeEeeeceeeeeC
Q psy11263         14 IEDEPLNSSDDVSEEDP---AL---FDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW   80 (80)
Q Consensus        14 ~~ed~lnSddD~sd~d~---e~---~~~~nvilC~ydKV~R~KnKWKc~LKdGim~ingkDyvF~ka~GE~eW   80 (80)
                      .-++.++||+|+||+|.   +.   ....|+|||+||||+|+|+||||+|||||+.|||+||+|+||+|||||
T Consensus       220 ~~De~~~sdlddsD~d~~~se~egt~~~~n~mlCLYdKVn~~K~kWKCtfkdGvV~In~~Dy~F~kAqgE~EW  292 (293)
T COG5149         220 AKDEGMFSDLDDSDVDSGDSEIEGTKGSTNCMLCLYDKVNMSKGKWKCTFKDGVVSINNIDYVFNKAQGELEW  292 (293)
T ss_pred             ccCcccccccCCccccccccccccCCCCceEEEEEeeecccccceeeEEeecceEEecCceeEEeeccceEee
Confidence            35678899999998866   22   234599999999999999999999999999999999999999999999

>PF09211 DUF1958: Domain of unknown function (DUF1958); InterPro: IPR015294 Penicillin-binding proteins are beta-lactam antibiotic-sensitive bacterial enzymes required for the growth and maintenance of the peptidoglycan layer of the bacterial cell wall that protects the cell from osmotic stress

Probab=85.99  E-value=0.82  Score=29.05  Aligned_cols=29  Identities=28%  Similarity=0.713  Sum_probs=20.6

Q ss_pred             EEeeeeecCCeeEEEecceeEEE-CCeeeE
Q psy11263         42 QYDKITRSRNKWKFYLKDGIMNL-NGKDFV   70 (80)
Q Consensus        42 ~ydKV~R~KnKWKc~LKdGim~i-ngkDyv   70 (80)
                      +|+=|-+-+++|++.++||.+++ +++.|+
T Consensus        23 lYd~VpK~~~~~~~~v~dg~v~vd~~r~fl   52 (65)
T PF09211_consen   23 LYDVVPKGKKPYKLKVKDGKVHVDYGRQFL   52 (65)
T ss_dssp             EEEEEETT--GSEEEEETTEEEEE-S--BS
T ss_pred             hhhhccCCCccceEEEeCCEEEEeCCcccC
Confidence            57778888888999999999999 666654

Penicillin-binding protein 4 (PBP4) functions as a transpeptidase, and belongs to MEROPS peptidase family S11 (clan SE). PBP4 acts co-operatively with PBP2 in staphylococcal cell wall biosynthesis and susceptibility to antimicrobial agents []. This entry represents the C-terminal domain PBP4.; PDB: 1TVF_A 3HUN_A 3HUM_B.

>COG5013 NarG Nitrate reductase alpha subunit [Energy production and conversion]

Probab=85.85  E-value=0.52  Score=43.02  Aligned_cols=27  Identities=37%  Similarity=0.764  Sum_probs=23.1

Q ss_pred             EEEeeeeec--------CCeeEEEecceeEEECCe
Q psy11263         41 CQYDKITRS--------RNKWKFYLKDGIMNLNGK   67 (80)
Q Consensus        41 C~ydKV~R~--------KnKWKc~LKdGim~ingk   67 (80)
                      =|||||-||        ...||+..||||++-..+
T Consensus        41 WqhDKvVRSTHGVNCTGSCSWkIYVKdGiITWEtQ   75 (1227)
T COG5013          41 WQHDKVVRSTHGVNCTGSCSWKIYVKNGLITWETQ   75 (1227)
T ss_pred             hcccceeeccCCccccceeeEEEEEeCCEEEEeec
Confidence            379999998        458999999999997665

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	80
1nvp_C	76	Human TfiiaTBPDNA COMPLEX Length = 76		7e-25
1rm1_C	286	Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex L		1e-08
1ytf_C	79	Yeast TfiiaTBPDNA COMPLEX Length = 79		2e-08

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

Iteration: 1
 Score =  108 bits (270), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 50/68 (73%), Positives = 60/68 (88%), Gaps = 1/68 (1%)
Query: 14 IEDEPLNSSDDVS-EEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
          +E+EPLNS DDVS EE   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F 
Sbjct: 9  VEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFS 68
Query: 73 KANGDADW 80
          KA GDA+W
Sbjct: 69 KAIGDAEW 76

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 20/45 (44%), Positives = 34/45 (75%)
Query: 36  DNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW 80
           +N+++C YDK+TR++ +WK  LKDG++ +N  D+ F KA  +A+W
Sbjct: 241 ENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW 285

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 20/45 (44%), Positives = 34/45 (75%)
Query: 36 DNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW 80
          +N+++C YDK+TR++ +WK  LKDG++ +N  D+ F KA  +A+W
Sbjct: 34 ENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW 78

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	80
1nvp_C	76	Transcription initiation factor IIA beta chain; tr	8e-25
1nh2_C	79	Transcription initiation factor IIA large chain; t	7e-24
1rm1_C	286	Transcription initiation factor IIA large chain; y	5e-23

>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 = 86.9 bits (215), Expect = 8e-25
 Identities = 49/69 (71%), Positives = 61/69 (88%), Gaps = 1/69 (1%)

Query: 13 GIEDEPLNSSDDVSEEDPA-LFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVF 71
           +E+EPLNS DDVS+E+   LFDT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F
Sbjct: 8  QVEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIF 67

Query: 72 LKANGDADW 80
           KA GDA+W
Sbjct: 68 SKAIGDAEW 76

>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 = 84.7 bits (209), Expect = 7e-24
 Identities = 24/68 (35%), Positives = 41/68 (60%), Gaps = 1/68 (1%)

Query: 14 IEDEPLNSSDDVSEEDP-ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
          +  E  +S DD    +       +N+++C YDK+TR++ +WK  LKDG++ +N  D+ F 
Sbjct: 11 VGSELDDSDDDYLISEGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQ 70

Query: 73 KANGDADW 80
          KA  +A+W
Sbjct: 71 KAQVEAEW 78

>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 = 87.7 bits (215), Expect = 5e-23
 Identities = 24/68 (35%), Positives = 41/68 (60%), Gaps = 1/68 (1%)

Query: 14  IEDEPLNSSDDVSEEDP-ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFL 72
           +  E  +S DD    +       +N+++C YDK+TR++ +WK  LKDG++ +N  D+ F 
Sbjct: 218 VGSELDDSDDDYLISEGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQ 277

Query: 73  KANGDADW 80
           KA  +A+W
Sbjct: 278 KAQVEAEW 285

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	80
1nvp_C	76	Transcription initiation factor IIA beta chain; tr	100.0
1nh2_C	79	Transcription initiation factor IIA large chain; t	100.0
1rm1_C	286	Transcription initiation factor IIA large chain; y	100.0

>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=6.3e-44  Score=230.63  Aligned_cols=70  Identities=70%  Similarity=1.204  Sum_probs=46.8

Q ss_pred             ccCCCCCCCCCCCCCCCCCc-CCCCCCCEEEEEEeeeeecCCeeEEEecceeEEECCeeeEeeeceeeeeC
Q psy11263         11 VCGIEDEPLNSSDDVSEEDP-ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW   80 (80)
Q Consensus        11 ~~~~~ed~lnSddD~sd~d~-e~~~~~nvilC~ydKV~R~KnKWKc~LKdGim~ingkDyvF~ka~GE~eW   80 (80)
                      ..+++++||||+||+|++++ +.++++|+|||||+||+|+||||||+||+||||||||||||+||+|||||
T Consensus         6 ~~~~~ed~lnsd~Dd~dd~~~~~~~~~n~vlC~ydKV~R~KnkWKc~LKdGim~ingkdy~F~ka~GE~eW   76 (76)
T 1nvp_C            6 DGQVEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW   76 (76)
T ss_dssp             ------------------------CCCCEEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEEEEC
T ss_pred             cccccccccCCcCCCcccccccccCCCcEEEEEEEEEeccCceEEEEEeccEEEECCEEEEEeccceeecC
Confidence            45678999999999998877 67899999999999999999999999999999999999999999999999

>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=100.00  E-value=1.6e-41  Score=220.80  Aligned_cols=69  Identities=35%  Similarity=0.704  Sum_probs=45.9

Q ss_pred             cCCCCCCCCCCCCCCCCCc------CCCCCCCEEEEEEeeeeecCCeeEEEecceeEEECCeeeEeeeceeeeeC
Q psy11263         12 CGIEDEPLNSSDDVSEEDP------ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW   80 (80)
Q Consensus        12 ~~~~ed~lnSddD~sd~d~------e~~~~~nvilC~ydKV~R~KnKWKc~LKdGim~ingkDyvF~ka~GE~eW   80 (80)
                      ...++++||||+|+||++.      ++.+++|+|||||+||+|+||||||+||+||||||||||||+||+|||+|
T Consensus         4 ~~~d~d~insdlDd~dd~~~~~~~~~d~~~~n~vlC~ydKV~R~KnKWKc~LKdGi~~ingkDy~F~ka~GE~eW   78 (79)
T 1nh2_C            4 ALLDTDEVGSELDDSDDDYLISEGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW   78 (79)
T ss_dssp             -----------------CCBC---------CCEEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEEEEC
T ss_pred             cccccccccCccCCccccccccccccccccCcEEEEEEEEEeeecceEEEEEeeeEEEECCEEEEEecccEEEEE
Confidence            3568999999999987754      34678999999999999999999999999999999999999999999999

>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=6.9e-36  Score=228.94  Aligned_cols=68  Identities=35%  Similarity=0.712  Sum_probs=48.5

Q ss_pred             CCCCCCCCCCCCCCCCCc------CCCCCCCEEEEEEeeeeecCCeeEEEecceeEEECCeeeEeeeceeeeeC
Q psy11263         13 GIEDEPLNSSDDVSEEDP------ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW   80 (80)
Q Consensus        13 ~~~ed~lnSddD~sd~d~------e~~~~~nvilC~ydKV~R~KnKWKc~LKdGim~ingkDyvF~ka~GE~eW   80 (80)
                      ..++|+||||+|+||++.      +...+.|+||||||||+|+||||||+||||||+||||||||+||+|||+|
T Consensus       212 ~~d~d~insdlDd~dd~~~~~~~~~~~~~~n~vlc~ydKV~R~knkWKc~lKdGi~~ingkdy~F~ka~GE~ew  285 (286)
T 1rm1_C          212 LLDTDEVGSELDDSDDDYLISEGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW  285 (286)
T ss_dssp             ----------------CCBCCC---CSTTSCEEEEEEEEEEEETTEEEEEEEEEEEECSSCEEEEEEEEEEEEC
T ss_pred             ccccccccCccCCcccccccccccccccccceEEEEEeeeeecccceeEEeeeeeEEECCceeeeeeccEEEee
Confidence            458899999999988754      44678999999999999999999999999999999999999999999999

---

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	80
d1nvpc_	47	b.56.1.1 (C:) Large chain TOA1, C-terminal domain	3e-26
d1nh2c_	59	b.56.1.1 (C:) Large chain TOA1, C-terminal domain	3e-25

>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 = 88.6 bits (220), Expect = 3e-26
 Identities = 36/47 (76%), Positives = 44/47 (93%)

Query: 34 DTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW 80
          DT+N+VVCQYDKI RS+NKWKF+LKDGIMNLNG+D++F KA GDA+W
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 = 86.7 bits (215), Expect = 3e-25
 Identities = 22/58 (37%), Positives = 37/58 (63%)

Query: 23 DDVSEEDPALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW 80
          D +  E       +N+++C YDK+TR++ +WK  LKDG++ +N  D+ F KA  +A+W
Sbjct: 1  DYLISEGEEDGPDENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEW 58

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	80
d1nvpc_	47	Large chain TOA1, C-terminal domain {Human (Homo s	100.0
d1nh2c_	59	Large chain TOA1, C-terminal domain {Baker's yeast	100.0

>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=100.00  E-value=4.4e-37  Score=182.51  Aligned_cols=47  Identities=77%  Similarity=1.380  Sum_probs=46.1

Q ss_pred             CCCCEEEEEEeeeeecCCeeEEEecceeEEECCeeeEeeeceeeeeC
Q psy11263         34 DTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW   80 (80)
Q Consensus        34 ~~~nvilC~ydKV~R~KnKWKc~LKdGim~ingkDyvF~ka~GE~eW   80 (80)
                      +++|+||||||||+|+||||||+||||||+||||||||+||+|||||
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=100.00  E-value=1.9e-36  Score=186.68  Aligned_cols=50  Identities=40%  Similarity=0.868  Sum_probs=44.8

Q ss_pred             CCCCCCCEEEEEEeeeeecCCeeEEEecceeEEECCeeeEeeeceeeeeC
Q psy11263         31 ALFDTDNIVVCQYDKITRSRNKWKFYLKDGIMNLNGKDFVFLKANGDADW   80 (80)
Q Consensus        31 e~~~~~nvilC~ydKV~R~KnKWKc~LKdGim~ingkDyvF~ka~GE~eW   80 (80)
                      +++.++|+||||||||+|+||||||+||||||+||||||+|+||+|||||
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            44668999999999999999999999999999999999999999999999