YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|213163053
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. E00-7866
Length:	478 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|213163053.

Description	E-value	Query Range	Subject Range
NRFA_SALCH - Cytochrome c-552 OS=Salmonella choleraesuis (strain SC-B67) GN=nrfA PE=3 SV=1 NRFA_SALCH - Cytochrome c-552 OS=Salmonella choleraesuis GN=nrfA PE=3 SV=1 NRFA_SALCH - Cytochrome c-552 OS=Salmonella choleraesuis GN=nrfA PE=3 SV=1	0.0	[1..478]	[1..478]
NRFA_SALTY - Cytochrome c-552 OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=nrfA PE=3 SV=1 gi\|205323068, gi... - gi\|205323068\|gb\|EDZ10907.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Salmonel... gi\|167991480, gi... - gi\|205330102\|gb\|EDZ16866.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Salmonel... NRFA_SALTY - Cytochrome c-552 OS=Salmonella typhimurium GN=nrfA PE=3 SV=1 gi\|197243916, gi... - gi\|197265661\|ref\|ZP_03165735.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Salm... lcl\|NC_016856.1_... - [gene=nrfA] [protein=cytochrome c nitrite reductase] [protein_id=YP_005240578.1] [location=4529646..... NRFA_SALTY - Cytochrome c-552 OS=Salmonella typhimurium GN=nrfA PE=3 SV=1	0.0	[1..478]	[1..478]
NRFA_ECO45 - Cytochrome c-552 OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=nrfA PE=3 SV=1 NRFA_ECOL6 - Cytochrome c-552 OS=Escherichia coli O6 GN=nrfA PE=3 SV=1 gi\|190907786, gi... - gi\|191172021\|ref\|ZP_03033566.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Esch... NRFA_ECOK1 - Cytochrome c-552 OS=Escherichia coli O1:K1 / APEC GN=nrfA PE=3 SV=1 NRFA_ECO27 - Cytochrome c-552 OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=nrfA PE=3 SV=1 sp\|B7UPN8\|NRFA_ECO27 - Cytochrome c-552 OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=nrfA PE=3 SV=1 gi\|227836042, gi... - gi\|227886901\|ref\|ZP_04004706.1\| cytochrome c nitrite reductase [Escherichia coli 83972], gi\|22783604... NRFA_ECOL6 - Cytochrome c-552 OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=nrfA PE=3 SV=1 NRFA_ECOL5 - Cytochrome c-552 OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=nrfA PE=3 SV=1 NRFA_ECOUT - Cytochrome c-552 OS=Escherichia coli (strain UTI89 / UPEC) GN=nrfA PE=3 SV=1 gi\|226901562, gi... - gi\|237703650\|ref\|ZP_04534131.1\| nitrite reduction protein [Escherichia sp. 3_2_53FAA], gi\|226901562\|...	0.0	[1..478]	[1..478]
gi\|189379055, gi... - gi\|189379055\|gb\|EDU97471.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Escheric... NRFA_ECODH - Cytochrome c-552 OS=Escherichia coli (strain K12 / DH10B) GN=nrfA PE=3 SV=1 gi\|85676822, gi\|... - gi\|89110791\|ref\|AP_004571.1\| nitrite reductase, formate-dependent, cytochrome [Escherichia coli str.... NRFA_ECOSM - Cytochrome c-552 OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=nrfA PE=3 SV=1 NRFA_ECO57 - Cytochrome c-552 OS=Escherichia coli O157:H7 GN=nrfA PE=3 SV=1 NRFA_SHIB3 - Cytochrome c-552 OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=nrfA PE=3 SV=1 EG11781 - nitrite reductase, formate-dependent, cytochrome / Cytochrome c nitrite reductase, cytochrome c552, ... EG11781 - nitrite reductase, formate-dependent, cytochrome / Cytochrome c nitrite reductase, cytochrome c552, ... NRFA_ECO24 - Cytochrome c-552 OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=nrfA PE=3 SV=1 gi\|189368650, gi... - gi\|189368650\|gb\|EDU87066.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Escheric... gi\|15834306, gi\|... - gi\|15834306\|ref\|NP_313079.1\| cytochrome c552 [Escherichia coli O157:H7 str. Sakai], gi\|13364529\|dbj\|... NRFA_ECOLC - Cytochrome c-552 OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=nrfA PE=3 SV=1 gi\|168784691, gi... - gi\|189375151\|gb\|EDU93567.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Escheric... NRFA_SHISS - Cytochrome c-552 OS=Shigella sonnei (strain Ss046) GN=nrfA PE=3 SV=1 NRFA_SHIBS - Cytochrome c-552 OS=Shigella boydii serotype 4 (strain Sb227) GN=nrfA PE=3 SV=1 NRFA_ECOLI - Cytochrome c-552 precursor (EC 1.7.2.2) (Ammonia-forming cytochrome c nitrite reductase) (Cytochrome... gi\|217320397, gi... - gi\|217324176\|ref\|ZP_03440260.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Esch... NRFA_ECO8A - Cytochrome c-552 OS=Escherichia coli O8 (strain IAI1) GN=nrfA PE=3 SV=1 NRFA_ECO55 - Cytochrome c-552 OS=Escherichia coli (strain 55989 / EAEC) GN=nrfA PE=3 SV=1 NRFA_ECO7I - Cytochrome c-552 OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=nrfA PE=3 SV=1 gi\|188494242, gi... - gi\|188494242\|ref\|ZP_03001512.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Esch... gi\|194419430, gi... - gi\|194432227\|ref\|ZP_03064515.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Shig... gi\|194437241, gi... - gi\|194437241\|ref\|ZP_03069339.1\| formate-dependent cytochrome c nitrite reductase, c552 subunit [Esch... NRFA_ECOSE - Cytochrome c-552 OS=Escherichia coli (strain SE11) GN=nrfA PE=3 SV=1 gi\|124527709, gi... - gi\|124527709\|ref\|ZP_01699144.1\| Nitrite reductase (cytochrome; ammonia-forming) [Escherichia coli B]... NRFA_ECOBW - Cytochrome c-552 OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=nrfA PE=3 SV=1 gi\|226840181, gi... - gi\|254037075\|ref\|ZP_04871152.1\| formate-dependent cytochrome c nitrite reductase [Escherichia sp. 1_... gi\|254164005, gi... - gi\|254164005\|ref\|YP_003047113.1\| nitrite reductase, formate-dependent, cytochrome [Escherichia coli ... gi\|242379597, gi... - gi\|251787324\|ref\|YP_003001628.1\| hypothetical protein B21_03902 [Escherichia coli BL21], gi\|24237959... gi\|254290755, gi... - gi\|254290755\|ref\|YP_003056503.1\| nitrite reductase, formate-dependent, cytochrome [Escherichia coli ...	0.0	[1..478]	[1..478]
gi\|12519027, gi\|... - gi\|15804662\|ref\|NP_290703.1\| cytochrome c nitrite reductase [Escherichia coli O157:H7 EDL933], gi\|12... gi\|25285302 - gi\|25285302\|pir\|\|H86100 hypothetical protein nrfA [imported] - Escherichia coli (strain O157:H7, su...	0.0	[1..478]	[1..478]
NRFA_SALPK - Cytochrome c-552 OS=Salmonella paratyphi A (strain AKU_12601) GN=nrfA PE=3 SV=1 NRFA_SALPA - Cytochrome c-552 OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=nrfA PE=3 SV=1 NRFA_SALPA - Cytochrome c-552 OS=Salmonella paratyphi A GN=nrfA PE=3 SV=1	0.0	[1..478]	[1..478]
NRFA_SHIFL - Cytochrome c-552 OS=Shigella flexneri GN=nrfA PE=3 SV=4 gi\|56384068, gi\|... - gi\|56480517\|ref\|NP_709846.2\| cytochrome c nitrite reductase [Shigella flexneri 2a str. 301], gi\|5638... gi\|30042918, gi\|... - gi\|30064659\|ref\|NP_838830.1\| cytochrome c nitrite reductase [Shigella flexneri 2a str. 2457T], gi\|30...	0.0	[1..478]	[1..478]
gi\|24054639, gi\|... - ref\|NP_709846.1\| periplasmic cytochrome c(552) [Shigella flexneri 2a str. 301], gb\|AAN45553.1\| peri... gi\|110807911, gi... - gi\|110807911\|ref\|YP_691431.1\| cytochrome c nitrite reductase [Shigella flexneri 5 str. 8401], gi\|110...	0.0	[1..478]	[12..489]
gi\|170785019, gi... - gi\|20149904\|pdb\|1GU6\|G Chain G, Structure Of The Periplasmic Cytochrome C Nitrite Reductase From Esc...	0.0	[27..478]	[1..452]
gi\|75228024 - gi\|75228024\|ref\|ZP_00714710.1\| COG3303: Formate-dependent nitrite reductase, periplasmic cytochrome ...	0.0	[39..478]	[2..441]

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Predicted Domain #1

Region A:
Residues: [1-478]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MARKTLRARR FFSLIFPFFF ITSVYAEQTP VSAKTVTVEA KNETFAPQHP DQYQSWKATS  60
   61 EQSAREDALA EDPRLVILWA GYPFSRDYNK PRGHAYAVTD VRETLRTGAP KTAEDGPLPM 120
  121 ACWSCKSPDV ARLIQQEGED GYFHGKWARG GPEIVNDLGC ADCHNTASDD FAQGKPAITL 180
  181 SRPYAERAME AIGKPFDKAG RFDQQSMVCG QCHVEYYFDG KNKAVKFPWD EGMKVENMEQ 240
  241 YYDAIAFSDW TNSLSKTPML KAQHPEYETW SAGIHGKNNV TCIDCHMPKV QNAEGKLYTD 300
  301 HKIGNPFDNF AQTCANCHTQ DKASLQKVVA ERKQAIHDLK IKVEDQLVHA HFEAKAAWDA 360
  361 GATDAEMKPI LNDIRHAQWR WDLAIASHGI HMHAPEEGLR MLGSAMDKAA DARTKLARLL 420
  421 ATKGITHEIP LPDISTKEKA QKAIGLNMQQ INAEKQDFLK TVVPQWEDQA RKNGLLSQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1gu6A
Description:	Cytochrome c nitrite reductase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
electron carrier activity	2.67157092140688	bayes_pls_golite062009
oxidoreductase activity	0.758762317797987	bayes_pls_golite062009
oxidoreductase activity, acting on other nitrogenous compounds as donors	0.363919630958623	bayes_pls_golite062009
catalytic activity	0.202301774983557	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: