YRC Public Data Repository - Protein Structure Prediction

Protein:	GAL4
Organism:	Saccharomyces cerevisiae
Length:	881 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for GAL4.

Description	E-value	Query Range	Subject Range
GAL4 - DNA-binding transcription factor required for the activation of the GAL genes in response to galacto... GAL4_YEAST - Regulatory protein GAL4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=GAL4 PE=1 SV=2 gi\|148353841 - gi\|148353841\|emb\|CAN84669.1\| yeast transcription factor [Transposon mutagenesis vector pMiET] gi\|183013543 - gi\|183013543\|gb\|ACC38293.1\| Gal4 [Cloning vector pBGT1] gi\|4995952 - gi\|4995952\|dbj\|BAA78208.1\| Gal4 [Dual-tagging gene trap vector pGT1] gi\|51036214 - gi\|51036214\|dbj\|BAD35035.1\| Gal4 [P1-specific P-element Gal4 driver pP{5'P1-Gal4-3'P1}] gi\|4995952\|dbj\|B... - Gal4 [Drosophila melanogaster], Gal4 OS=Dual-tagging gene trap vector pGT1 GN=Gal4 PE=4 SV=1	0.0	[1..881]	[1..881]
gi\|85081614 - gi\|85081614\|ref\|XP_956755.1\| hypothetical protein NCU01478 [Neurospora crassa OR74A] gi\|28917831, gi\|... - gi\|32414875\|ref\|XP_327917.1\| hypothetical protein [Neurospora crassa], gi\|28917831\|gb\|EAA27519.1\| hy...	5.0E-86	[3..742]	[61..810]
THI1_SCHPO - Thiamine repressible genes regulatory protein thi1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 2... thi1 - transcription factor Thi1	3.0E-84	[4..752]	[32..731]
SPBC530.08 - transcription factor YN28_SCHPO - Uncharacterized transcriptional regulatory protein C530.08 OS=Schizosaccharomyces pombe (strain 972 ...	2.0E-83	[3..820]	[23..807]
gi\|1706176 - sp\|P52958\|CT1A_FUSSO CUTINASE TRANSCRIPTION FACTOR 1 ALPHA CTF1A_FUSSO - Cutinase transcription factor 1 alpha OS=Fusarium solani subsp. pisi GN=CTF1-ALPHA PE=2 SV=1	8.0E-83	[3..822]	[53..787]
gi\|6901427 - gi\|6901427\|emb\|CAB71797.1\| pathway-specific nitrogen regulator [Tolypocladium inflatum]	3.0E-80	[2..821]	[61..834]

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Predicted Domain #1

Region A:
Residues: [1-65]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKLLSSIEQA CDICRLKKLK CSKEKPKCAK CLKNNWECRY SPKTKRSPLT RAHLTEVESR  60
   61 LERLE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	335.31133
Match:	1d66A_
Description:	Gal4; CD2-Gal4
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	4.56444258780502	bayes_pls_golite062009
DNA binding	4.26146437716972	bayes_pls_golite062009
nucleic acid binding	4.17369933547911	bayes_pls_golite062009
transcription factor activity	3.049435548132	bayes_pls_golite062009
sequence-specific DNA binding	2.98081393153291	bayes_pls_golite062009
binding	2.91929847152301	bayes_pls_golite062009
transcription activator activity	2.24483536326713	bayes_pls_golite062009
RNA polymerase II transcription factor activity	2.03201524223606	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	1.86200506906385	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [66-125]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QLFLLIFPRE DLDMILKMDS LQDIKALLTG LFVQDNVNKD AVTDRLASVE TDMPLTLRQH  60
   61

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	18.958607
Match:	PF03902
Description:	Gal4-like dimerisation domain

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	4.34861813464065	bayes_pls_golite062009
DNA binding	4.03985756894684	bayes_pls_golite062009
nucleic acid binding	3.97978190843512	bayes_pls_golite062009
transcription factor activity	2.87348461329489	bayes_pls_golite062009
binding	2.82809978070212	bayes_pls_golite062009
sequence-specific DNA binding	2.77469997789536	bayes_pls_golite062009
transcription activator activity	2.1512787242583	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.80191339934741	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	1.50774349911815	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [126-491]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RISATSSSEE SSNKGQRQLT VSIDSAAHHD NSTIPLDFMP RDALHGFDWS EEDDMSDGLP  60
   61 FLKTDPNNNG FFGDGSLLCI LRSIGFKPEN YTNSNVNRLP TMITDRYTLA SRSTTSRLLQ 120
  121 SYLNNFHPYC PIVHSPTLMM LYNNQIEIAS KDQWQILFNC ILAIGAWCIE GESTDIDVFY 180
  181 YQNAKSHLTS KVFESGSIIL VTALHLLSRY TQWRQKTNTS YNFHSFSIRM AISLGLNRDL 240
  241 PSSFSDSSIL EQRRRIWWSV YSWEIQLSLL YGRSIQLSQN TISFPSSVDD VQRTTTGPTI 300
  301 YHGIIETARL LQVFTKIYEL DKTVTAEKSP ICAKKCLMIC NEIEEVSRQA PKFLQMDIST 360
  361 TALTNL

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #4

Region A:
Residues: [492-597]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LKEHPWLSFT RFELKWKQLS LIIYVLRDFF TNFTQKKSQL EQDQNDHQSY EVKRCSIMLS  60
   61 DAAQRTVMSV SSYMDNHNVT PYFAWNCSYY LFNAVLVPIK TLLSNS

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.749	0.004	galactose metabolic process	a.7.7	BAG domain
View	Download	0.704	0.004	galactose metabolic process	a.24.14	FAT domain of focal adhesion kinase
View	Download	0.641	0.004	galactose metabolic process	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain
View	Download	0.875	0.004	galactose metabolic process	f.18.1	F1F0 ATP synthase subunit A
View	Download	0.686	0.004	galactose metabolic process	a.78.1	Fatty acid responsive transcription factor FadR, C-terminal domain
View	Download	0.566	0.004	galactose metabolic process	d.87.2	CO dehydrogenase flavoprotein C-terminal domain-like
View	Download	0.542	0.004	galactose metabolic process	a.19.1	Fertilization protein
View	Download	0.530	0.004	galactose metabolic process	d.14.1	Ribosomal protein S5 domain 2-like
View	Download	0.475	0.004	galactose metabolic process	a.1.1	Globin-like
View	Download	0.474	0.004	galactose metabolic process	a.48.2	Transferrin receptor ectodomain, C-terminal domain
View	Download	0.441	0.004	galactose metabolic process	a.23.1	HSC20 (HSCB), C-terminal oligomerisation domain
View	Download	0.415	0.004	galactose metabolic process	f.13.1	Family A G protein-coupled receptor-like
View	Download	0.412	0.004	galactose metabolic process	a.26.1	4-helical cytokines
View	Download	0.398	0.004	galactose metabolic process	a.24.10	Histidine-containing phosphotransfer domain, HPT domain
View	Download	0.395	0.004	galactose metabolic process	a.46.1	Methionine synthase domain
View	Download	0.392	0.004	galactose metabolic process	a.24.3	Cytochromes
View	Download	0.387	0.004	galactose metabolic process	a.62.1	Hepatitis B viral capsid (hbcag)
View	Download	0.371	0.004	galactose metabolic process	f.21.2	Fumarate reductase respiratory complex transmembrane subunits
View	Download	0.367	0.004	galactose metabolic process	a.24.17	Group V grass pollen allergen
View	Download	0.355	0.004	galactose metabolic process	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.354	0.004	galactose metabolic process	a.7.2	Enzyme IIa from lactose specific PTS, IIa-lac
View	Download	0.353	0.004	galactose metabolic process	a.7.8	GAT domain
View	Download	0.349	0.004	galactose metabolic process	a.142.1	PTS-regulatory domain, PRD
View	Download	0.344	0.004	galactose metabolic process	a.24.13	Domain of the SRP/SRP receptor G-proteins
View	Download	0.333	0.004	galactose metabolic process	a.156.1	S13-like H2TH domain
View	Download	0.332	0.004	galactose metabolic process	d.67.3	Ribosome recycling factor, RRF
View	Download	0.325	0.004	galactose metabolic process	a.142.1	PTS-regulatory domain, PRD
View	Download	0.322	0.004	galactose metabolic process	a.24.7	FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP)
View	Download	0.322	0.004	galactose metabolic process	a.39.1	EF-hand
View	Download	0.318	0.004	galactose metabolic process	a.22.1	Histone-fold
View	Download	0.317	0.004	galactose metabolic process	d.6.1	Prion-like
View	Download	0.314	0.004	galactose metabolic process	a.4.1	Homeodomain-like
View	Download	0.308	0.004	galactose metabolic process	a.39.1	EF-hand
View	Download	0.295	0.004	galactose metabolic process	a.24.17	Group V grass pollen allergen
View	Download	0.294	0.004	galactose metabolic process	d.110.4	SNARE-like
View	Download	0.291	0.004	galactose metabolic process	f.35.1	Multidrug efflux transporter AcrB transmembrane domain
View	Download	0.287	0.004	galactose metabolic process	a.121.1	Tetracyclin repressor-like, C-terminal domain
View	Download	0.282	0.004	galactose metabolic process	a.7.6	Ribosomal protein S20
View	Download	0.277	0.004	galactose metabolic process	a.47.2	t-snare proteins
View	Download	0.274	0.004	galactose metabolic process	a.1.1	Globin-like
View	Download	0.263	0.004	galactose metabolic process	d.14.1	Ribosomal protein S5 domain 2-like
View	Download	0.259	0.004	galactose metabolic process	a.30.2	Homodimeric domain of signal transducing histidine kinase
View	Download	0.259	0.004	galactose metabolic process	d.15.6	Superantigen toxins, C-terminal domain
View	Download	0.259	0.004	galactose metabolic process	d.54.1	Enolase N-terminal domain-like
View	Download	0.241	0.004	galactose metabolic process	i.11.1	Computational models partly based on NMR data
View	Download	0.238	0.004	galactose metabolic process	a.158.1	F-box domain
View	Download	0.234	0.004	galactose metabolic process	c.55.3	Ribonuclease H-like
View	Download	0.232	0.004	galactose metabolic process	a.27.1	Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
View	Download	0.231	0.004	galactose metabolic process	a.13.1	alpha-2-Macroglobulin receptor associated protein (RAP) domain 1
View	Download	0.230	0.004	galactose metabolic process	a.26.1	4-helical cytokines
View	Download	0.228	0.004	galactose metabolic process	a.24.1	Apolipoprotein
View	Download	0.228	0.004	galactose metabolic process	a.39.1	EF-hand
View	Download	0.219	0.004	galactose metabolic process	a.24.16	Nucleotidyltransferase substrate binding subunit/domain
View	Download	0.218	0.004	galactose metabolic process	a.130.1	Chorismate mutase II
View	Download	0.216	0.004	galactose metabolic process	a.75.1	Ribosomal protein S7
View	Download	0.212	0.004	galactose metabolic process	a.1.1	Globin-like
View	Download	0.211	0.004	galactose metabolic process	a.126.1	Serum albumin-like
View	Download	0.211	0.004	galactose metabolic process	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.208	0.004	galactose metabolic process	a.24.9	alpha-catenin/vinculin
View	Download	0.207	0.004	galactose metabolic process	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain
View	Download	0.204	0.004	galactose metabolic process	f.36.1	Neurotransmitter-gated ion-channel pransmembrane pore
View	Download	0.201	0.004	galactose metabolic process	a.7.1	Spectrin repeat

Predicted Domain #5

Region A:
Residues: [598-881]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KSNAENNETA QLLQQINTVL MLLKKLATFK IQTCEKYIQV LEEVCAPFLL SQCAIPLPHI  60
   61 SYNNSNGSAI KNIVGSATIA QYPTLPEENV NNISVKYVSP GSVGPSPVPL KSGASFSDLV 120
  121 KLLSNRPPSR NSPVTIPRST PSHRSVTPFL GQQQQLQSLV PLTPSALFGG ANFNQSGNIA 180
  181 DSSLSFTFTN SSNGPNLITT QTNSQALSQP IASSNVHDNF MNNEITASKI DDGNNSKPLS 240
  241 PGWTDQTAYN AFGITTGMFN TTTMDDVYNY LFDDEDTPPN PKKE

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #6

Region A:
Residues: [655-778]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PHISYNNSNG SAIKNIVGSA TIAQYPTLPE ENVNNISVKY VSPGSVGPSP VPLKSGASFS  60
   61 DLVKLLSNRP PSRNSPVTIP RSTPSHRSVT PFLGQQQQLQ SLVPLTPSAL FGGANFNQSG 120
  121 NIAD

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #7

Region A:
Residues: [779-881]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSLSFTFTNS SNGPNLITTQ TNSQALSQPI ASSNVHDNFM NNEITASKID DGNNSKPLSP  60
   61 GWTDQTAYNA FGITTGMFNT TTMDDVYNYL FDDEDTPPNP KKE

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions:

Predicted functions: