YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|108807126, gi...
Organism:	Yersinia pestis Antiqua
Length:	324 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 gi|108807126, gi....

Description	E-value	Query Range	Subject Range
gi\|153950698, gi... - gi\|77628834\|ref\|ZP_00791420.1\| COG3444: Phosphotransferase system, mannose/fructose/N-acetylgalactos...	0.0	[1..324]	[1..324]
gi\|5669855 - gi\|5669855\|gb\|AAD46485.1\|AF130465_1 mannose-specific phosphotransferase system component IIAB [Strep... gi\|228476592, gi... - gi\|228476592\|ref\|ZP_04061274.1\| mannose-specific phosphotransferase system component iiab [Streptoco...	0.0	[1..323]	[1..328]
gi\|90961631, gi\|... - gi\|90961631\|ref\|YP_535547.1\| PTS system, mannose-specific IIAB component [Lactobacillus salivarius U...	0.0	[2..323]	[1..323]
gi\|116100527, gi... - gi\|116627250\|ref\|YP_819869.1\| mannose PTS system component IIAB [Streptococcus thermophilus LMD-9], ...	3.0E-99	[1..323]	[1..328]
gi\|30027111 - gi\|30027111\|gb\|AAP05993.1\| IIABman [Streptococcus thermophilus]	4.0E-99	[1..323]	[1..328]
gi\|55736411, gi\|... - gi\|55820426\|ref\|YP_138868.1\| mannose PTS system component IIAB [Streptococcus thermophilus LMG 18311... gi\|55736411 - gb\|AAV60053.1\| mannose PTS system component IIAB [Streptococcus thermophilus LMG 18311]	6.0E-99	[1..323]	[1..328]
gi\|55738295, gi\|... - gi\|55822310\|ref\|YP_140751.1\| mannose PTS system component IIAB [Streptococcus thermophilus CNRZ1066]... gi\|55738295 - gb\|AAV61936.1\| mannose PTS system component IIAB [Streptococcus thermophilus CNRZ1066]	2.0E-98	[1..323]	[1..328]
gi\|77972312, gi\|... - gi\|77972312\|ref\|ZP_00827882.1\| COG3444: Phosphotransferase system, mannose/fructose/N-acetylgalactos...	4.0E-98	[1..324]	[1..324]
gi\|118586375, gi... - gi\|118586375\|ref\|ZP_01543825.1\| mannose-specific PTS system, component IIAB [Oenococcus oeni ATCC BA... gi\|116490542, gi... - gi\|48866277\|ref\|ZP_00320133.1\| COG3444: Phosphotransferase system, mannose/fructose/N-acetylgalactos...	1.0E-97	[2..324]	[1..324]
gi\|76563468, gi\|... - gi\|76788411\|ref\|YP_329082.1\| PTS system mannose/fructose/sorbose family IIA subunit [Streptococcus a... gi\|23094774, gi\|... - gi\|25010422\|ref\|NP_734817.1\| hypothetical protein gbs0348 [Streptococcus agalactiae NEM316], gi\|2309... gi\|22536544, gi\|... - gi\|22536544\|ref\|NP_687395.1\| PTS system, mannose-specific IIAB components [Streptococcus agalactiae ...	1.0E-97	[1..323]	[1..334]

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Predicted Domain #1

Region A:
Residues: [1-147]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSIAIIIGTH GAAAEQLLKT AEMILGEQSN VAYIDFVPGE NAETLIEKYN DRLTGLDTSK  60
   61 GVLFLVDTWG GSPFNAASRI AIDKENYEVV TGVNIPMLAE TFMARDDEPS FAELVAVAVE 120
  121 TGREGVKALK APDVKSDKPE TQPAAPV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	37.0
Match:	1vrcA
Description:	Complex of enzyme IIAmannose and the histidine-containing phosphocarrier protein HPr from escherichia coli nmr, restrained regularized mean structure
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
carbohydrate transmembrane transporter activity	1.41958257592479	bayes_pls_golite062009
binding	1.3313872030407	bayes_pls_golite062009
protein binding	0.504276536503861	bayes_pls_golite062009
transporter activity	0.433212475678148	bayes_pls_golite062009
transmembrane transporter activity	0.21078048070603	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [148-324]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PTAKAPAVAL GPNDHMKIGL ARIDDRLIHG QVATRWTKET NVNRIIVVSD EVAADKMRKT  60
   61 LLTQVAPPGV TAHVVDVEKA IRVYNNPKYA NDRVMLLFTN PTDVVRLVEG GVDIKSVNIG 120
  121 GMAFRQGKTQ VNNAVSIDEK DIEAFNKLNA RGIELEVRKV SSDSRLKMMD LISKLNK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	52.69897
Match:	1nrzA
Description:	Sorbose permease subunit IIb , EIIb-sor
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
carbohydrate transmembrane transporter activity	3.89825676747483	bayes_pls_golite062009
transporter activity	2.00960396164678	bayes_pls_golite062009
transmembrane transporter activity	1.86135605657276	bayes_pls_golite062009
substrate-specific transporter activity	1.70618312780208	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	1.5973591090727	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	1.15285098263315	bayes_pls_golite062009
active transmembrane transporter activity	0.669347420921443	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.643818947881128	bayes_pls_golite062009

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: