YRC Public Data Repository - Protein Structure Prediction

Protein:	PXA2
Organism:	Saccharomyces cerevisiae
Length:	853 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 PXA2.

Description	E-value	Query Range	Subject Range
gi\|8926217 - gi\|8926217\|gb\|AAF81747.1\| his-tagged-multidrug resistance glycoprotein MDR1 [synthetic construct]	0.0	[3..752]	[586..1286]
gi\|6755048, gi\|3... - gi\|6755048\|ref\|NP_035206.1\| ATP-binding cassette, sub-family B (MDR/TAP), member 1A [Mus musculus], ...	0.0	[3..752]	[574..1274]
gi\|50978984, gi\|... - gi\|50978984\|ref\|NP_001003215.1\| ATP-binding cassette, subfamily B, member 1 [Canis lupus familiaris]...	0.0	[3..752]	[579..1279]
gi\|149029024, gi... - gi\|7739773\|gb\|AAF69007.1\|AF257746_1 multidrug resistance protein 1a [Rattus norvegicus], gi\|62646634...	0.0	[3..752]	[570..1270]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[3..752]	[402..1102]
gi\|57526446, gi\|... - gi\|57526446\|ref\|NP_001009790.1\| ATP-binding cassette, subfamily B, member 1 [Ovis aries], gi\|2149087...	0.0	[3..752]	[583..1283]
ABCB1 - ATP-binding cassette, sub-family B (MDR/TAP), member 1 gi\|117645528 - gi\|117645528\|emb\|CAL38230.1\| hypothetical protein [synthetic construct]	0.0	[3..752]	[578..1278]

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Predicted Domain #1

Region A:
Residues: [1-85]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MISTASAFYQ KHRVNLLRSS YIILLLATLY NSNSSSSNNK TDKKDSESTV LENKKIEEGK  60
   61 ETAVDREEDE SSKEELTIVS KHSTD

[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	SCOP Match	SCOP Description
View	Download	0.262	d.78.1	RPB5-like RNA polymerase subunit
View	Download	0.364	a.60.9	lambda integrase-like, N-terminal domain
View	Download	0.304	a.46.1	Methionine synthase domain
View	Download	0.407	d.225.1	Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains
View	Download	0.407	d.225.1	Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains
View	Download	0.364	a.60.9	lambda integrase-like, N-terminal domain
View	Download	0.304	a.46.1	Methionine synthase domain
View	Download	0.286	d.79.2	Tubulin/Dihydroxyacetone kinase C-terminal domain
View	Download	0.286	d.79.2	Tubulin/Dihydroxyacetone kinase C-terminal domain
View	Download	0.262	d.78.1	RPB5-like RNA polymerase subunit
View	Download	0.220	a.74.1	Cyclin-like

Predicted Domain #2

Region A:
Residues: [86-207]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SEDGAIIIDK ESKTNHKGGE RKGKVDFLFK LLLHDKKCLI LFITQAILLN IRTLLSLRVA  60
   61 TLDGQLVSTL VRAQYANFTK ILLGKWMILG IPASFINSLI SYTTKLCAVT INRKVSDFLL 120
  121 SK

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [226-445]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EIQDNLTKDI YTFSMNSSLL LNQLLKPMLD LILCSFKLLT SNTSVMGEGT LALGLIVYAS  60
   61 NSLLKLIQPN FTRLTMASAS LESWFRSLHS NLHSSNEEIA LLRGQKRELE NVDYSFYRLV 120
  121 LFLNREIKAR AIYDVATAFV IKYTWGAAGL VLCSIPIFFK NKPSEDTLQL KEPGNDMTAD 180
  181 FITNRRLLVT ASSSIGRFVE LKRNIQQLRG IRLRLNKFND

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	139.0
Match:	1jsqA_
Description:	MsbA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ATPase activity, coupled to transmembrane movement of substances	5.57844095962502	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	5.57813579764186	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	5.57813579764186	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	5.5689620139321	bayes_pls_golite062009
primary active transmembrane transporter activity	5.55992639965745	bayes_pls_golite062009
active transmembrane transporter activity	5.50005167063544	bayes_pls_golite062009
lipid transporter activity	5.43964691043504	bayes_pls_golite062009
ATPase activity, coupled	4.98276715440477	bayes_pls_golite062009
ATPase activity	4.69795387297193	bayes_pls_golite062009
nucleoside-triphosphatase activity	4.45923622153365	bayes_pls_golite062009
pyrophosphatase activity	4.39781350157199	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	4.38133275795019	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	4.38085303582726	bayes_pls_golite062009
transporter activity	3.71239480053329	bayes_pls_golite062009
hydrolase activity	3.14498892233323	bayes_pls_golite062009
transmembrane transporter activity	3.13960906549884	bayes_pls_golite062009
substrate-specific transporter activity	3.1318898376276	bayes_pls_golite062009
ATP binding	3.01346604299372	bayes_pls_golite062009
adenyl ribonucleotide binding	2.96271391116269	bayes_pls_golite062009
adenyl nucleotide binding	2.91131545957759	bayes_pls_golite062009
purine ribonucleotide binding	2.70262534541085	bayes_pls_golite062009
ribonucleotide binding	2.70178191749524	bayes_pls_golite062009
purine nucleotide binding	2.6583477492092	bayes_pls_golite062009
nucleotide binding	2.62374702628143	bayes_pls_golite062009
binding	1.69327117652379	bayes_pls_golite062009
peptide-transporting ATPase activity	1.37783759788533	bayes_pls_golite062009
peptide transporter activity	1.19353064661766	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	1.08692822631118	bayes_pls_golite062009
ion transmembrane transporter activity	0.977237423302079	bayes_pls_golite062009
motor activity	0.87979065815418	bayes_pls_golite062009
GTPase activity	0.83849854735032	bayes_pls_golite062009
cholesterol transporter activity	0.644421039250979	bayes_pls_golite062009
cation transmembrane transporter activity	0.557919489256916	bayes_pls_golite062009
sterol transporter activity	0.51525091036229	bayes_pls_golite062009
drug transmembrane transporter activity	0.38711726712063	bayes_pls_golite062009
protein binding	0.378225828131122	bayes_pls_golite062009
catalytic activity	0.368034275052766	bayes_pls_golite062009
fatty acid transporter activity	0.278494397068437	bayes_pls_golite062009
hydrogen ion transporting ATP synthase activity, rotational mechanism	0.213018989352421	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	0.123304946374679	bayes_pls_golite062009
microtubule motor activity	0.11674780318211	bayes_pls_golite062009
metal ion transmembrane transporter activity	0.0775601177068852	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [208-225]

      1          11         21         31         41         51         
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    1 YLSNHHTFYS VASAESVS

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [446-800]

      1          11         21         31         41         51         
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    1 LLDANKGDDE KEPRDERCIV EYDDSRIKFE NIPLITPANQ VLVPELSFDL KHGNHLLIIG  60
   61 PNGCGKSSLF RILGGLWPIR ATPNKNHQSK LIMPRRTVDR DCAIFYLPQR PYMGNRSTFR 120
  121 EQIIYPDSIE QFKERYHNDY DLGDADLIKI LQLLDLEDLV TENMSLLLAQ RTSKNDSQQL 180
  181 STEDNQSPCA IKVRDAFSIV RNWSEELTIG VQQRLAMARM YYHKPKFAVL DECTSAVAPE 240
  241 MEQRMYENAQ NFGISLISVC HRTSLWHFHN YLLKFDGKGG YQFGPFNPKE RLCNEEKLLE 300
  301 LNAILDQQVP LWERKLKDLT IAKESNIIRK SETNLNLFEK IEDPKTSKSN ALFNA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	139.0
Match:	1jsqA_
Description:	MsbA
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [801-853]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NKGQRITSPT GQETSKRLPL FSQPSSSASS NLLRNNKSLN KKVKTKKEEG KER

[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	SCOP Match	SCOP Description
View	Download	0.324	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.350	a.60.1	SAM/Pointed domain
View	Download	0.241	a.4.6	C-terminal effector domain of the bipartite response regulators
View	Download	0.247	a.46.2	Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
View	Download	0.275	a.64.2	Bacteriocin AS-48
View	Download	0.225	a.37.1	A DNA-binding domain in eukaryotic transcription factors

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: