YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|29142029, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. Ty2
Length:	353 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|29142029, gi|....

Description	E-value	Query Range	Subject Range
YCJF_SHISS - UPF0283 membrane protein YcjF OS=Shigella sonnei (strain Ss046) GN=ycjF PE=3 SV=1	0.0	[1..353]	[1..353]
YCJF_ECO24 - UPF0283 membrane protein YcjF OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=ycjF PE=3 SV=1 YCJF_ECOLU - UPF0283 membrane protein YcjF OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=ycjF PE=3 S... YCJF_SHIB3 - UPF0283 membrane protein YcjF OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=ycjF PE... gi\|194433828, gi... - gi\|83569454\|ref\|ZP_00920907.1\| COG3768: Predicted membrane protein [Shigella dysenteriae 1012], gi\|1... YCJF_ECO8A - UPF0283 membrane protein YcjF OS=Escherichia coli O8 (strain IAI1) GN=ycjF PE=3 SV=1 YCJF_ECO55 - UPF0283 membrane protein YcjF OS=Escherichia coli (strain 55989 / EAEC) GN=ycjF PE=3 SV=1 gi\|193062752, gi... - gi\|75259434\|ref\|ZP_00730753.1\| COG3768: Predicted membrane protein [Escherichia coli E22], gi\|193062... gi\|75240032, gi\|... - gi\|75240032\|ref\|ZP_00723993.1\| COG3768: Predicted membrane protein [Escherichia coli E110019], gi\|19... YCJF_ECOSE - UPF0283 membrane protein YcjF OS=Escherichia coli (strain SE11) GN=ycjF PE=3 SV=1 gi\|190904792, gi... - gi\|75231880\|ref\|ZP_00718221.1\| COG3768: Predicted membrane protein [Escherichia coli B7A], gi\|191165... gi\|75212762, gi\|... - gi\|75212762\|ref\|ZP_00712760.1\| COG3768: Predicted membrane protein [Escherichia coli B171], gi\|19442...	0.0	[1..353]	[1..353]
YCJF_SHIBS - UPF0283 membrane protein YcjF OS=Shigella boydii serotype 4 (strain Sb227) GN=ycjF PE=3 SV=1	0.0	[1..353]	[1..353]
YCJF_ECO57 - UPF0283 membrane protein YcjF OS=Escherichia coli O157:H7 GN=ycjF PE=3 SV=1 gi\|217317825, gi... - gi\|217329386\|ref\|ZP_03445466.1\| conserved hypothetical protein TIGR01620 [Escherichia coli O157:H7 s... gi\|209771526, gi... - pir\|\|E90866 hypothetical protein ECs1901 [imported] - Escherichia coli (strain O157:H7, substrain R... gi\|195937988 - gi\|195937988\|ref\|ZP_03083370.1\| hypothetical protein EscherichcoliO157_16392 [Escherichia coli O157:... gi\|168799632, gi... - gi\|189377914\|gb\|EDU96330.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC508], gi... gi\|189371862, gi... - gi\|189371862\|gb\|EDU90278.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC869], gi... gi\|188999731, gi... - gi\|188999731\|gb\|EDU68717.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4076], g... YCJF_ECO5E - UPF0283 membrane protein YcjF OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=ycjF PE=3 SV=1 gi\|13361366, gi\|... - gi\|15831155\|ref\|NP_309928.1\| hypothetical protein ECs1901 [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|208741795, gi... - gi\|208821672\|ref\|ZP_03261992.1\| conserved hypothetical protein TIGR01620 [Escherichia coli O157:H7 s... gi\|208816034, gi... - gi\|208816034\|ref\|ZP_03257213.1\| conserved hypothetical protein TIGR01620 [Escherichia coli O157:H7 s... gi\|208810852, gi... - gi\|208810852\|ref\|ZP_03252685.1\| conserved hypothetical protein TIGR01620 [Escherichia coli O157:H7 s... gi\|168749038, gi... - gi\|188016625\|gb\|EDU54747.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4113], g... gi\|168775147, gi... - gi\|187769298\|gb\|EDU33142.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4196], g... gi\|189361509, gi... - gi\|189361509\|gb\|EDU79928.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4486], g... gi\|168762664, gi... - gi\|189367086\|gb\|EDU85502.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4501], g... gi\|189356780, gi... - gi\|189356780\|gb\|EDU75199.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4401], g... gi\|254592315, gi... - gi\|254792915\|ref\|YP_003077752.1\| conserved inner membrane protein [Escherichia coli O157:H7 str. TW1...	0.0	[1..353]	[1..353]
YCJF_ECO45 - UPF0283 membrane protein YcjF OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=ycjF PE=3 SV=1 YCJF_ECODH - UPF0283 membrane protein YcjF OS=Escherichia coli (strain K12 / DH10B) GN=ycjF PE=3 SV=1 YCJF_ECO81 - UPF0283 membrane protein YcjF OS=Escherichia coli O81 (strain ED1a) GN=ycjF PE=3 SV=1 gi\|75242122, gi\|... - gi\|75242122\|ref\|ZP_00725916.1\| COG3768: Predicted membrane protein [Escherichia coli F11], gi\|191170... gi\|188490208, gi... - gi\|75515058\|ref\|ZP_00737262.1\| COG3768: Predicted membrane protein [Escherichia coli 53638], gi\|1884... gi\|89108169, gi\|... - gi\|89108169\|ref\|AP_001949.1\| conserved inner membrane protein [Escherichia coli str. K-12 substr. W3... EG12870 - UPF0283 family inner membrane protein / UPF0283 family inner membrane heat shock protein; function u... gi\|227886242, gi... - gi\|227886242\|ref\|ZP_04004047.1\| conserved inner membrane protein [Escherichia coli 83972], gi\|227836... YCJF_ECOLC - UPF0283 membrane protein YcjF OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=ycjF PE=... gi\|237705352, gi... - gi\|237705352\|ref\|ZP_04535833.1\| membrane protein ycjF [Escherichia sp. 3_2_53FAA], gi\|226900109\|gb\|E... YCJF_ECOBW - UPF0283 membrane protein YcjF OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=ycjF PE=3 SV=1 EG12870 - UPF0283 family inner membrane protein / UPF0283 family inner membrane heat shock protein; function u... gi\|251784827, gi... - gi\|251784827\|ref\|YP_002999131.1\| hypothetical protein B21_01310 [Escherichia coli BL21], gi\|24237710... gi\|253977517, gi... - gi\|254288210\|ref\|YP_003053958.1\| hypothetical protein ECD_01299 [Escherichia coli BL21(DE3)], gi\|253... YCJF_ECOL6 - UPF0283 membrane protein ycjF OS=Escherichia coli O6 GN=ycjF PE=3 SV=1 gi\|253973303, gi... - gi\|254161402\|ref\|YP_003044510.1\| hypothetical protein ECB_01299 [Escherichia coli B str. REL606], gi... YCJF_ECOL6 - UPF0283 membrane protein YcjF OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=ycjF... YCJF_ECOUT - UPF0283 membrane protein YcjF OS=Escherichia coli (strain UTI89 / UPEC) GN=ycjF PE=3 SV=1 YCJF_ECOL5 - UPF0283 membrane protein YcjF OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=ycjF PE=3 SV=1 gi\|194424003, gi... - gi\|83587463\|ref\|ZP_00926091.1\| COG3768: Predicted membrane protein [Escherichia coli 101-1], gi\|1944... YCJF_ECOHS - UPF0283 membrane protein YcjF OS=Escherichia coli O9:H4 (strain HS) GN=ycjF PE=3 SV=1 YCJF_ECOLI - UPF0283 membrane protein ycjF - Escherichia coli YCJF_ECOK1 - UPF0283 membrane protein YcjF OS=Escherichia coli O1:K1 / APEC GN=ycjF PE=3 SV=1 gi\|124527923, gi... - gi\|124527923\|ref\|ZP_01699312.1\| conserved hypothetical protein 1620 [Escherichia coli B], gi\|1245010...	0.0	[1..353]	[1..353]
gi\|24112717, gi\|... - gi\|24112717\|ref\|NP_707227.1\| hypothetical protein SF1328 [Shigella flexneri 2a str. 301], gi\|2405163... YCJF_SHIF8 - UPF0283 membrane protein YcjF OS=Shigella flexneri serotype 5b (strain 8401) GN=ycjF PE=3 SV=1 YCJF_SHIFL - UPF0283 membrane protein YcjF OS=Shigella flexneri GN=ycjF PE=3 SV=1 gi\|30062840, gi\|... - gi\|30062840\|ref\|NP_837011.1\| hypothetical protein S1411 [Shigella flexneri 2a str. 2457T], gi\|300410...	0.0	[1..353]	[1..353]
Y2581_PHOLL - UPF0283 membrane protein plu2581 OS=Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CI... Y2581_PHOLL, YP8... - (Q7N3Y1) Hypothetical UPF0283 protein plu2581, UPF0283 membrane protein plu2581 OS=Photorhabdus lumi...	0.0	[1..350]	[1..351]
gi\|77979528 - gi\|77979528\|ref\|ZP_00834946.1\| COG3768: Predicted membrane protein [Yersinia intermedia ATCC 29909]	0.0	[1..349]	[1..350]
YCJF_SHIDS - UPF0283 membrane protein YcjF OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=ycjF PE=3 SV=1 YCJF_SHIDY - UPF0283 membrane protein YcjF OS=Shigella dysenteriae GN=ycjF PE=3 SV=1	0.0	[1..344]	[1..344]
YCJF_SALPA - UPF0283 membrane protein ycjF OS=Salmonella paratyphi A GN=ycjF PE=3 SV=1 YCJF_SALPA - UPF0283 membrane protein YcjF OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=ycjF PE=3 SV=... YCJF_SALPK - UPF0283 membrane protein YcjF OS=Salmonella paratyphi A (strain AKU_12601) GN=ycjF PE=3 SV=1	0.0	[1..353]	[1..353]

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Predicted Domain #1

Region A:
Residues: [1-162]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSEPLKPRID FAEPLKEEPT SAFKAQQTFS EAESHTFAPA AIDERPEDEG VAEAAVDAAL  60
   61 RPKRSLWRKM VMGGLALFGA SVVGQGVQWT MNAWQTQDWV ALGGCAAGAL IVGAGVGSVV 120
  121 TEWWRLWRLR QRAHERDEAR ELLHSHSVVK GRAFCEKLAQ QA

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [163-317]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GIDQSHPALQ RWYAAIHETQ NDREIVGLYA HLVQPVLDAQ ARREISRFAA ESTLMIAVSP  60
   61 LALVDMAFIA WRNLRLINRI ATLYGIELGY YSRLRLFRLV LLNIAFAGAS ELVREVGMDW 120
  121 MSQDLAARLS TRAAQGIGAG LLTARLGIKA MELCR

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.880	a.4.12	TrpR-like

Predicted Domain #3

Region A:
Residues: [318-353]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PLPWADNDKP RLGDFRRQLI GQLKETLQKS KSSPEK

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident 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