Psyllid ID: psy1283

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120---
Protein Sequence
MAGTPQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMSKCYRSSNISGRPSLSGNLKARLVYQPCLTQPVELLSICAADHELQAIRKPLVSYQKLM
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccHHHHHHHHccccHHcccc
Secondary Structure Prediction (SSPRO)
ccccccccHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccEEEcccHHcccccccccccccccccccEEEEEEEEcccccccEEEHHHHHHHHHHHHHHcccHHHHHHc
Coil and Loop (DISEMBL)
MAGTPQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMSKcyrssnisgrpslsgnlkarlvyqpcltqpvELLSICAADHELQAIRKPLVSYQKLM
Flexible Loop (DISEMBL)
MAGTPQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKlfgigvgklskrKEWMSKCYrssnisgrpslSGNLKARLVYQPCLTQPVELLSICAADHELQAIRKPLVSYQKLM
Low Complexity Region (SEG)
MAGTPQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMSKCYRSSNISGRPSLSGNLKARLVYQPCLTQPVELLSICAADHELQAIRKPLVSYQKLM
Disordered region (IsUnstruct)
********TMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMSKCYRSSNI*****LSGNLKARLVYQPCLTQPVELLSICAADHELQAIRKPLV******
Disordered Region (DISOPRED)
***********LYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGV****************************************************************YQKLM
Disordered Region (DISEMBL)
********TMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMSKCYRSSNISGRPSLSGNLKARLVYQPCLTQPVELLSICAADHELQAIRKPLVSYQKLM
Disordered Region (DISPRO)
******SLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMSKCYRSSNISGRPSLSGNLKARLVYQPCLTQPVELLSICAADHELQAIRKPLVSYQKL*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAGTPQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMSKCYRSSNISGRPSLSGNLKARLVYQPCLTQPVELLSICAADHELQAIRKPLVSYQKLM
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	123	2.2.26 [Sep-21-2011]
P52654	366	Transcription initiation	yes	N/A	0.430	0.144	0.547	3e-10
Q8R4I4	468	TFIIA-alpha and beta-like	yes	N/A	0.357	0.094	0.545	9e-08
Q5RCU0	376	Transcription initiation	yes	N/A	0.398	0.130	0.56	9e-08
P52655	376	Transcription initiation	yes	N/A	0.398	0.130	0.56	1e-07
O08949	377	Transcription initiation	yes	N/A	0.398	0.129	0.56	1e-07
Q99PM3	378	Transcription initiation	no	N/A	0.398	0.129	0.56	1e-07
Q9UNN4	478	TFIIA-alpha and beta-like	no	N/A	0.325	0.083	0.55	6e-07
P32773	286	Transcription initiation	yes	N/A	0.552	0.237	0.364	1e-06
Q9USU9	369	Transcription initiation	yes	N/A	0.422	0.140	0.384	1e-05

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

 Score = 63.5 bits (153), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 29/53 (54%), Positives = 38/53 (71%)

Query: 6  QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLS 58
          Q+  +K+Y AVI DVI NV++AF +EGVDEQVLQE+K +W  KL      +LS
Sbjct: 5  QTSVLKVYHAVIEDVITNVRDAFLDEGVDEQVLQEMKQVWRNKLLASKAVELS 57

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

 Score = 55.5 bits (132), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 24/44 (54%), Positives = 34/44 (77%)

Query: 7  SLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLF 50
          +L  KLYQ+VI DVI  V++ F EEG++EQVL++LK +WE K+ 
Sbjct: 5  NLVPKLYQSVIEDVIEGVRDLFAEEGIEEQVLKDLKKLWETKVL 48

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

 Score = 55.5 bits (132), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 28/50 (56%), Positives = 39/50 (78%), Gaps = 1/50 (2%)

Query: 1  MAGTPQSLTM-KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          MA +  + T+ KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct: 1  MANSANTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 50

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 = 55.5 bits (132), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/50 (56%), Positives = 39/50 (78%), Gaps = 1/50 (2%)

Query: 1  MAGTPQSLTM-KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          MA +  + T+ KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct: 1  MANSANTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 50

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 = 55.5 bits (132), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/50 (56%), Positives = 39/50 (78%), Gaps = 1/50 (2%)

Query: 1  MAGTPQSLTM-KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          MA +  + T+ KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct: 1  MANSANTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 50

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 = 55.1 bits (131), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/50 (56%), Positives = 39/50 (78%), Gaps = 1/50 (2%)

Query: 1  MAGTPQSLTM-KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          MA +  + T+ KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct: 1  MANSANTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 50

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 = 52.8 bits (125), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/40 (55%), Positives = 31/40 (77%)

Query: 11 KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLF 50
          KLY++VI DVI  V+  F EEG++EQVL++LK +WE K+ 
Sbjct: 9  KLYRSVIEDVIEGVRNLFAEEGIEEQVLKDLKQLWETKVL 48

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

 Score = 51.6 bits (122), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 45/74 (60%), Gaps = 6/74 (8%)

Query: 11 KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMSKCYRS 70
          ++Y+ ++  V+N V+E F+  G+DEQ LQ+LK+IW+ KL    V   S    W ++ +  
Sbjct: 8  RVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTFS----WDNQ-FNE 62

Query: 71 SNISG-RPSLSGNL 83
           NI+G +  L+ NL
Sbjct: 63 GNINGVQNDLNFNL 76

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

 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 32/52 (61%)

Query: 6  QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKL 57
           S+  ++Y  VI DVI N +  F+E GVD+  L+EL+++W++KL    V   
Sbjct: 3  NSIVGEVYHHVILDVIANSRSDFEENGVDDATLRELQNLWQSKLVATDVATF 54

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)

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	123
195112756	381	GI22255 [Drosophila mojavensis] gi|19391	0.373	0.120	0.630	2e-09
242018053	359	transcription initiation factor IIA alph	0.357	0.122	0.636	4e-09
260830589	311	hypothetical protein BRAFLDRAFT_126818 [	0.382	0.151	0.659	5e-09
198414332	332	PREDICTED: similar to general transcript	0.398	0.147	0.627	6e-09
198414336	310	PREDICTED: similar to general transcript	0.398	0.158	0.627	7e-09
198414334	321	PREDICTED: similar to general transcript	0.398	0.152	0.627	7e-09
198414340	299	PREDICTED: similar to general transcript	0.398	0.163	0.627	8e-09
198414338	299	PREDICTED: similar to general transcript	0.398	0.163	0.627	8e-09
198414342	288	PREDICTED: similar to general transcript	0.398	0.170	0.627	8e-09
194745758	364	GF16279 [Drosophila ananassae] gi|190628	0.430	0.145	0.566	9e-09

>gi|195112756|ref|XP_002000938.1| GI22255 [Drosophila mojavensis] gi|193917532|gb|EDW16399.1| GI22255 [Drosophila mojavensis]

 Score = 66.2 bits (160), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 29/46 (63%), Positives = 36/46 (78%)

Query: 6  QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFG 51
          Q+  +K+Y AVI DVINNV++AF +EGVDEQVLQE+K IW  KL  
Sbjct: 5  QTSVLKVYHAVIEDVINNVRDAFLDEGVDEQVLQEMKQIWRNKLLA 50

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242018053|ref|XP_002429497.1| transcription initiation factor IIA alpha chain TFIIA p30, putative [Pediculus humanus corporis] gi|212514435|gb|EEB16759.1| transcription initiation factor IIA alpha chain TFIIA p30, putative [Pediculus humanus corporis]

 Score = 65.5 bits (158), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 28/44 (63%), Positives = 37/44 (84%)

Query: 6  QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          QS  ++LY +VI DV+ NV+E+F ++GVDEQVLQELK IWE+KL
Sbjct: 5  QSTVLQLYHSVIEDVVTNVRESFLDDGVDEQVLQELKQIWESKL 48

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|260830589|ref|XP_002610243.1| hypothetical protein BRAFLDRAFT_126818 [Branchiostoma floridae] gi|229295607|gb|EEN66253.1| hypothetical protein BRAFLDRAFT_126818 [Branchiostoma floridae]

 Score = 65.1 bits (157), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/47 (65%), Positives = 36/47 (76%)

Query: 4  TPQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLF 50
          T  S   KLY++VI DVINNV+EAF +E VDEQVLQELK +WE KL 
Sbjct: 2  TTSSAVSKLYRSVIDDVINNVREAFLDEQVDEQVLQELKQVWETKLL 48

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

Superkingdom: Eukaryota

>gi|198414332|ref|XP_002131438.1| PREDICTED: similar to general transcription factor IIA, 1 isoform 1 [Ciona intestinalis]

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 32/51 (62%), Positives = 37/51 (72%), Gaps = 2/51 (3%)

Query: 1  MAGTP--QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          MA  P  Q+   KLYQ VI DVINN++EAF ++GVDE VLQELK  WE KL
Sbjct: 1  MAKAPGGQNSVAKLYQTVIEDVINNIREAFLDDGVDEHVLQELKQTWEQKL 51

Source: Ciona intestinalis

Species: Ciona intestinalis

Genus: Ciona

Family: Cionidae

Order: Enterogona

Class: Ascidiacea

Phylum: Chordata

Superkingdom: Eukaryota

>gi|198414336|ref|XP_002131518.1| PREDICTED: similar to general transcription factor IIA, 1 isoform 6 [Ciona intestinalis]

 Score = 64.7 bits (156), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 32/51 (62%), Positives = 37/51 (72%), Gaps = 2/51 (3%)

Query: 1  MAGTP--QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          MA  P  Q+   KLYQ VI DVINN++EAF ++GVDE VLQELK  WE KL
Sbjct: 1  MAKAPGGQNSVAKLYQTVIEDVINNIREAFLDDGVDEHVLQELKQTWEQKL 51

Source: Ciona intestinalis

Species: Ciona intestinalis

Genus: Ciona

Family: Cionidae

Order: Enterogona

Class: Ascidiacea

Phylum: Chordata

Superkingdom: Eukaryota

>gi|198414334|ref|XP_002131466.1| PREDICTED: similar to general transcription factor IIA, 1 isoform 3 [Ciona intestinalis]

 Score = 64.7 bits (156), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 32/51 (62%), Positives = 37/51 (72%), Gaps = 2/51 (3%)

Query: 1  MAGTP--QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          MA  P  Q+   KLYQ VI DVINN++EAF ++GVDE VLQELK  WE KL
Sbjct: 1  MAKAPGGQNSVAKLYQTVIEDVINNIREAFLDDGVDEHVLQELKQTWEQKL 51

Source: Ciona intestinalis

Species: Ciona intestinalis

Genus: Ciona

Family: Cionidae

Order: Enterogona

Class: Ascidiacea

Phylum: Chordata

Superkingdom: Eukaryota

>gi|198414340|ref|XP_002131489.1| PREDICTED: similar to general transcription factor IIA, 1 isoform 5 [Ciona intestinalis]

 Score = 64.7 bits (156), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 32/51 (62%), Positives = 37/51 (72%), Gaps = 2/51 (3%)

Query: 1  MAGTP--QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          MA  P  Q+   KLYQ VI DVINN++EAF ++GVDE VLQELK  WE KL
Sbjct: 1  MAKAPGGQNSVAKLYQTVIEDVINNIREAFLDDGVDEHVLQELKQTWEQKL 51

Source: Ciona intestinalis

Species: Ciona intestinalis

Genus: Ciona

Family: Cionidae

Order: Enterogona

Class: Ascidiacea

Phylum: Chordata

Superkingdom: Eukaryota

>gi|198414338|ref|XP_002131456.1| PREDICTED: similar to general transcription factor IIA, 1 isoform 2 [Ciona intestinalis]

 Score = 64.7 bits (156), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 32/51 (62%), Positives = 37/51 (72%), Gaps = 2/51 (3%)

Query: 1  MAGTP--QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          MA  P  Q+   KLYQ VI DVINN++EAF ++GVDE VLQELK  WE KL
Sbjct: 1  MAKAPGGQNSVAKLYQTVIEDVINNIREAFLDDGVDEHVLQELKQTWEQKL 51

Source: Ciona intestinalis

Species: Ciona intestinalis

Genus: Ciona

Family: Cionidae

Order: Enterogona

Class: Ascidiacea

Phylum: Chordata

Superkingdom: Eukaryota

>gi|198414342|ref|XP_002131478.1| PREDICTED: similar to general transcription factor IIA, 1 isoform 4 [Ciona intestinalis]

 Score = 64.7 bits (156), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 32/51 (62%), Positives = 37/51 (72%), Gaps = 2/51 (3%)

Query: 1  MAGTP--QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          MA  P  Q+   KLYQ VI DVINN++EAF ++GVDE VLQELK  WE KL
Sbjct: 1  MAKAPGGQNSVAKLYQTVIEDVINNIREAFLDDGVDEHVLQELKQTWEQKL 51

Source: Ciona intestinalis

Species: Ciona intestinalis

Genus: Ciona

Family: Cionidae

Order: Enterogona

Class: Ascidiacea

Phylum: Chordata

Superkingdom: Eukaryota

>gi|194745758|ref|XP_001955354.1| GF16279 [Drosophila ananassae] gi|190628391|gb|EDV43915.1| GF16279 [Drosophila ananassae]

 Score = 64.3 bits (155), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 30/53 (56%), Positives = 38/53 (71%)

Query: 6  QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLS 58
          Q+  +K+Y AVI DVI NV++AF +EGVDEQVLQE+K IW  KL      +LS
Sbjct: 5  QTSVLKVYHAVIEDVITNVRDAFLDEGVDEQVLQEMKQIWRNKLLASKAVELS 57

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	123
FB|FBgn0011289	366	TfIIA-L "Transcription factor	0.430	0.144	0.547	9.7e-10
UNIPROTKB|F1NTD4	379	GTF2A1 "Uncharacterized protei	0.317	0.102	0.692	7.8e-09
UNIPROTKB|P52655	376	GTF2A1 "Transcription initiati	0.398	0.130	0.56	1.6e-08
RGD|69246	377	Gtf2a1 "general transcription	0.398	0.129	0.56	1.6e-08
MGI|MGI:1933277	378	Gtf2a1 "general transcription	0.398	0.129	0.56	1.7e-08
CGD|CAL0003530	275	orf19.2682 [Candida albicans (	0.439	0.196	0.5	2.2e-08
UNIPROTKB|F1MII0	378	GTF2A1 "Uncharacterized protei	0.365	0.119	0.577	3.5e-08
UNIPROTKB|J9NWE1	392	GTF2A1 "Uncharacterized protei	0.341	0.107	0.619	3.8e-08
UNIPROTKB|F1PJI5	376	GTF2A1 "Uncharacterized protei	0.317	0.103	0.641	4.5e-08
MGI|MGI:1919078	468	Gtf2a1l "general transcription	0.349	0.091	0.558	6.6e-08

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

 Score = 147 (56.8 bits), Expect = 9.7e-10, P = 9.7e-10
 Identities = 29/53 (54%), Positives = 38/53 (71%)

Query:     6 QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLS 58
             Q+  +K+Y AVI DVI NV++AF +EGVDEQVLQE+K +W  KL      +LS
Sbjct:     5 QTSVLKVYHAVIEDVITNVRDAFLDEGVDEQVLQEMKQVWRNKLLASKAVELS 57

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

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

 Score = 139 (54.0 bits), Expect = 7.8e-09, P = 7.8e-09
 Identities = 27/39 (69%), Positives = 33/39 (84%)

Query:    11 KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
             KLY++VI DVIN+V+E F +EGVDEQVL ELK +WE KL
Sbjct:    14 KLYRSVIEDVINDVREVFLDEGVDEQVLMELKTLWENKL 52

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 = 136 (52.9 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 28/50 (56%), Positives = 39/50 (78%)

Query:     1 MAGTPQSLTM-KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
             MA +  + T+ KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct:     1 MANSANTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 50

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

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

 Score = 136 (52.9 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 28/50 (56%), Positives = 39/50 (78%)

Query:     1 MAGTPQSLTM-KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
             MA +  + T+ KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct:     1 MANSANTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 50

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 = 136 (52.9 bits), Expect = 1.7e-08, P = 1.7e-08
 Identities = 28/50 (56%), Positives = 39/50 (78%)

Query:     1 MAGTPQSLTM-KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
             MA +  + T+ KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct:     1 MANSANTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 50

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

CGD|CAL0003530 orf19.2682 [Candida albicans (taxid:5476)]

 Score = 132 (51.5 bits), Expect = 2.2e-08, P = 2.2e-08
 Identities = 27/54 (50%), Positives = 36/54 (66%)

Query:     9 TMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKE 62
             T KLY++VI DVIN+ ++ F+  G+DE  LQEL+ IW  KL   GV K S  +E
Sbjct:     6 TSKLYESVIEDVINDSRQDFENNGIDESTLQELRRIWCEKLTQSGVAKFSWDEE 59

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

GO:0005829 "cytosol" evidence=IEA

GO:0051123 "RNA polymerase II transcriptional preinitiation complex assembly" evidence=IEA

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

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

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

 Score = 133 (51.9 bits), Expect = 3.5e-08, P = 3.5e-08
 Identities = 26/45 (57%), Positives = 34/45 (75%)

Query:     5 PQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
             P     KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct:     8 PTKKKPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 52

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 = 133 (51.9 bits), Expect = 3.8e-08, P = 3.8e-08
 Identities = 26/42 (61%), Positives = 34/42 (80%)

Query:     8 LTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
             L  KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct:    25 LKPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 66

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 = 132 (51.5 bits), Expect = 4.5e-08, P = 4.5e-08
 Identities = 25/39 (64%), Positives = 33/39 (84%)

Query:    11 KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
             KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct:    12 KLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 50

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

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

MGI|MGI:1919078 Gtf2a1l "general transcription factor IIA, 1-like" [Mus musculus (taxid:10090)]

 Score = 132 (51.5 bits), Expect = 6.6e-08, P = 6.6e-08
 Identities = 24/43 (55%), Positives = 34/43 (79%)

Query:     7 SLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
             +L  KLYQ+VI DVI  V++ F EEG++EQVL++LK +WE K+
Sbjct:     5 NLVPKLYQSVIEDVIEGVRDLFAEEGIEEQVLKDLKKLWETKV 47

GO:0003677 "DNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

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

GO:0005737 "cytoplasm" evidence=IDA

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

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

GO:0006367 "transcription initiation from RNA polymerase II promoter" 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)
P52654	TF2AA_DROME	No assigned EC number	0.5471	0.4308	0.1448	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	123
pfam03153	332	pfam03153, TFIIA, Transcription factor IIA, alpha/	1e-18
cd07976	102	cd07976, TFIIA_alpha_beta_like, Precursor of TFIIA	1e-18
COG5149	293	COG5149, TOA1, Transcription initiation factor IIA	7e-11

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

 Score = 79.0 bits (195), Expect = 1e-18
 Identities = 26/39 (66%), Positives = 35/39 (89%)

Query: 11 KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          K+Y++VI DVIN+V+E F++EGVDEQVLQ+LK +WE KL
Sbjct: 1  KVYESVIEDVINDVREDFEDEGVDEQVLQDLKKLWEKKL 39

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 = 74.1 bits (183), Expect = 1e-18
 Identities = 27/41 (65%), Positives = 34/41 (82%)

Query: 9  TMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
            K+Y++VI DVINNV+E F++EGVDE VLQELK +WE KL
Sbjct: 1  VSKVYESVIEDVINNVREDFEDEGVDESVLQELKQLWEEKL 41

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 = 57.4 bits (138), Expect = 7e-11
 Identities = 26/93 (27%), Positives = 43/93 (46%), Gaps = 6/93 (6%)

Query: 7  SLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMSK 66
          S+  ++Y  VI DVI N +  F+E GVD+  L+EL+++W++KL    V        W ++
Sbjct: 4  SIVGEVYHHVILDVIANSRSDFEENGVDDATLRELQNLWQSKLVATDVATFP----W-AQ 58

Query: 67 CYRSSNISG-RPSLSGNLKARLVYQPCLTQPVE 98
           +    + G R          +   P L Q   
Sbjct: 59 AFPIGQLFGLRTDSLDVTAPAVANSPILNQSAT 91

Length = 293

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	123
PF03153	375	TFIIA: Transcription factor IIA, alpha/beta subuni	99.87
KOG2652|consensus	348		99.84
COG5149	293	TOA1 Transcription initiation factor IIA, large ch	99.73

>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=99.87  E-value=2e-22  Score=164.98  Aligned_cols=53  Identities=58%  Similarity=0.865  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCCCchhhh
Q psy1283          11 KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEW   63 (123)
Q Consensus        11 ~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f~~~~~~   63 (123)
                      +||++||+|||++||+||+|+||||+||+|||++||+||+++||++|+|+...
T Consensus         1 kvY~~VI~dVI~~vr~dF~~~Gvde~vL~eLk~~We~KL~qs~v~~~~~d~~~   53 (375)
T PF03153_consen    1 KVYESVIDDVINNVREDFEEEGVDEQVLQELKQLWESKLSQSGVADFPWDPPP   53 (375)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHHHH-SS--TTGGGG
T ss_pred             CcHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcCCccCCCCccc
Confidence            69999999999999999999999999999999999999999999999999753

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=99.84  E-value=3.7e-21  Score=163.22  Aligned_cols=58  Identities=50%  Similarity=0.822  Sum_probs=56.7

Q ss_pred             CCcchHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCCCchhh
Q psy1283           5 PQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKE   62 (123)
Q Consensus         5 sN~~V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f~~~~~   62 (123)
                      |++.|++||++||+|||++||++|+++||||+||.|||++||+||.++|++.|+|+.+
T Consensus         3 ~~~~v~kvY~~VIeDVI~~vRe~F~~~GiDeqvL~eLk~lWe~Kl~qs~~~~~~~d~~   60 (348)
T KOG2652|consen    3 STNTVSKVYESVIEDVINNVREDFLENGIDEQVLSELKNLWETKLIQSGVATFPWDRE   60 (348)
T ss_pred             cccchHHHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHHHhhcccccCcccc
Confidence            5999999999999999999999999999999999999999999999999999999985

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

Probab=99.73  E-value=3e-18  Score=141.96  Aligned_cols=59  Identities=34%  Similarity=0.666  Sum_probs=57.6

Q ss_pred             CCcchHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCCCchhhh
Q psy1283           5 PQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEW   63 (123)
Q Consensus         5 sN~~V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f~~~~~~   63 (123)
                      ||+.|+.||+.||.|||+++|.||++.|||+++|+|||.+||+||.+++|+.|||++.|
T Consensus         2 sns~~~~vy~~vi~~vi~~~r~dfe~~gvdd~tlrelqnlwq~kl~~t~vatf~w~~~f   60 (293)
T COG5149           2 SNSIVGEVYHHVILDVIANSRSDFEENGVDDATLRELQNLWQSKLVATDVATFPWAQAF   60 (293)
T ss_pred             CcchhhHHHHHHHHHHHHHhhhHHHhcCccHHHHHHHHHHHHHhhhhheeeecchhhcC
Confidence            79999999999999999999999999999999999999999999999999999999965

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	123
1nvp_B	57	Human TfiiaTBPDNA COMPLEX Length = 57		2e-09
1rm1_C	286	Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex L		1e-07
1ytf_B	53	Yeast TfiiaTBPDNA COMPLEX Length = 53		1e-06

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 25/40 (62%), Positives = 33/40 (82%)
Query: 11 KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLF 50
          KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL 
Sbjct: 11 KLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLM 50

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

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 45/74 (60%), Gaps = 6/74 (8%)
Query: 11 KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMSKCYRS 70
          ++Y+ ++  V+N V+E F+  G+DEQ LQ+LK+IW+ KL    V   S    W ++ +  
Sbjct: 8  RVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTFS----WDNQ-FNE 62
Query: 71 SNISG-RPSLSGNL 83
           NI+G +  L+ NL
Sbjct: 63 GNINGVQNDLNFNL 76

>pdb|1YTF|B Chain B, Yeast TfiiaTBPDNA COMPLEX Length = 53

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 18/39 (46%), Positives = 30/39 (76%)
Query: 11 KLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          ++Y+ ++  V+N V+E F+  G+DEQ LQ+LK+IW+ KL
Sbjct: 7  RVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKL 45

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	123
1nvp_B	57	Transcription initiation factor IIA alpha chain; t	4e-18
1nh2_B	53	Transcription initiation factor IIA large chain; t	1e-17
1rm1_C	286	Transcription initiation factor IIA large chain; y	4e-17

>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 = 71.4 bits (175), Expect = 4e-18
 Identities = 25/49 (51%), Positives = 34/49 (69%)

Query: 6  QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGV 54
           +   KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL     
Sbjct: 6  TNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLMQSRA 54

>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 = 70.3 bits (172), Expect = 1e-17
 Identities = 19/49 (38%), Positives = 32/49 (65%)

Query: 6  QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGV 54
           +   ++Y+ ++  V+N V+E F+  G+DEQ LQ+LK+IW+ KL    V
Sbjct: 2  NAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKV 50

>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 = 73.8 bits (179), Expect = 4e-17
 Identities = 20/53 (37%), Positives = 33/53 (62%)

Query: 6  QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLS 58
           +   ++Y+ ++  V+N V+E F+  G+DEQ LQ+LK+IW+ KL    V   S
Sbjct: 3  NAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTFS 55

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	123
1nh2_B	53	Transcription initiation factor IIA large chain; t	99.92
1nvp_B	57	Transcription initiation factor IIA alpha chain; t	99.91
1rm1_C	286	Transcription initiation factor IIA large chain; y	99.81

>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=99.92  E-value=7.9e-26  Score=146.68  Aligned_cols=53  Identities=36%  Similarity=0.715  Sum_probs=45.7

Q ss_pred             CCcchHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCC
Q psy1283           5 PQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKL   57 (123)
Q Consensus         5 sN~~V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f   57 (123)
                      ||+.|+++|++||+|||+++|++|+++|+|++||+|||++||+||+++||++|
T Consensus         1 sn~~v~~vY~~VI~dVI~~vr~~F~~~Gvde~vL~eLk~~We~KL~~s~va~F   53 (53)
T 1nh2_B            1 SNAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTF   53 (53)
T ss_dssp             -CHHHHHHHHHHHHHHHHHTHHHHHHTTCCHHHHHHHHHHHHHHHHC------
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHcCCCCC
Confidence            69999999999999999999999999999999999999999999999999987

>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=99.91  E-value=2.3e-25  Score=146.41  Aligned_cols=56  Identities=45%  Similarity=0.677  Sum_probs=42.9

Q ss_pred             CCCCCCcchHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCC
Q psy1283           1 MAGTPQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKL   57 (123)
Q Consensus         1 ma~~sN~~V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f   57 (123)
                      |++ ||+.|++||++||+|||+++|+||+++|+|++||+|||++||+||+++||+++
T Consensus         2 ~~~-~~~~v~~vY~~VIedVI~~vr~~F~~~Gvde~vL~eLk~~We~KL~~s~a~~~   57 (57)
T 1nvp_B            2 NSA-NTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLMQSRAVDG   57 (57)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHC-------
T ss_pred             Ccc-ccchhHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCCC
Confidence            344 89999999999999999999999999999999999999999999999999863

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

Probab=99.81  E-value=1.7e-20  Score=154.85  Aligned_cols=58  Identities=34%  Similarity=0.658  Sum_probs=56.0

Q ss_pred             CCcchHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCCCchhh
Q psy1283           5 PQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKE   62 (123)
Q Consensus         5 sN~~V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f~~~~~   62 (123)
                      ||..|++||++||+|||++||++|+++|||++||+|||++||.||+++||++|+|++.
T Consensus         2 Sn~~vskvY~~VIedVI~~VR~dF~deGVDE~VL~ELk~~We~KL~qsgv~~f~~dp~   59 (286)
T 1rm1_C            2 SNAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTFSWDNQ   59 (286)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHTSSCCTTGGG
T ss_pred             CcchHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHhcCcccCCCCcC
Confidence            6899999999999999999999999999999999999999999999999999999863

---

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	123
d1nvpb_	43	a.32.1.1 (B:) Large chain TOA1, N-terminal domain	1e-18
d1nh2b_	46	a.32.1.1 (B:) Large chain TOA1, N-terminal domain	7e-18

>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 = 70.8 bits (174), Expect = 1e-18
 Identities = 25/41 (60%), Positives = 33/41 (80%)

Query: 9  TMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
            KLY++VI DVIN+V++ F ++GVDEQVL ELK +WE KL
Sbjct: 2  VPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKL 42

>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 = 69.0 bits (169), Expect = 7e-18
 Identities = 18/43 (41%), Positives = 31/43 (72%)

Query: 7  SLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKL 49
          +   ++Y+ ++  V+N V+E F+  G+DEQ LQ+LK+IW+ KL
Sbjct: 2  AEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKL 44

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	123
d1nh2b_	46	Large chain TOA1, N-terminal domain {Baker's yeast	99.88
d1nvpb_	43	Large chain TOA1, N-terminal domain {Human (Homo s	99.85

>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=99.88  E-value=2.6e-23  Score=130.99  Aligned_cols=46  Identities=39%  Similarity=0.801  Sum_probs=44.6

Q ss_pred             CcchHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHhh
Q psy1283           6 QSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFG   51 (123)
Q Consensus         6 N~~V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~q   51 (123)
                      |+.++++|++||+|||++||+||+++|||++||+|||++||+||+|
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=99.85  E-value=5.2e-22  Score=123.66  Aligned_cols=43  Identities=58%  Similarity=0.970  Sum_probs=41.5

Q ss_pred             chHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHh
Q psy1283           8 LTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLF   50 (123)
Q Consensus         8 ~V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~   50 (123)
                      +|++||++||+|||++||++|+++|+|++||+|||++||+||.
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            5899999999999999999999999999999999999999984