YRC Public Data Repository - Protein Structure Prediction

Protein:	NRFA_ECOLI
Organism:	Escherichia coli
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 NRFA_ECOLI.

Description	E-value	Query Range	Subject Range
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\|...	555.0	[0..1]	[478..1]
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...	553.0	[0..1]	[478..1]
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...	550.0	[0..1]	[478..12]
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...	549.0	[0..1]	[478..1]
NRFA_ERWCT - Cytochrome c-552 OS=Erwinia carotovora subsp. atroseptica GN=nrfA PE=3 SV=1 NRFA_PECAS - Cytochrome c-552 OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) GN=nrfA PE=3 SV=1	546.0	[0..1]	[477..1]
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	533.0	[0..21]	[478..21]
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	532.0	[0..21]	[478..21]
gi\|214002544 - gi\|214002544\|ref\|ZP_03413279.1\| cytochrome c nitrite reductase [Salmonella enterica subsp. enterica ... gi\|213978301 - gi\|213978301\|ref\|ZP_03405560.1\| cytochrome c nitrite reductase [Salmonella enterica subsp. enterica ... gi\|29140083, gi\|... - gi\|29144445\|ref\|NP_807787.1\| cytochrome c nitrite reductase [Salmonella enterica subsp. enterica ser... gi\|213647384 - gi\|213647384\|ref\|ZP_03377437.1\| cytochrome c nitrite reductase [Salmonella enterica subsp. enterica ... gi\|16762958 - gi\|16762958\|ref\|NP_458575.1\| cytochrome c nitrite reductase [Salmonella enterica subsp. enterica ser... gi\|213427240 - gi\|213427240\|ref\|ZP_03359990.1\| cytochrome c nitrite reductase [Salmonella enterica subsp. enterica ... NRFA_SALTI - Cytochrome c-552 OS=Salmonella typhi GN=nrfA PE=3 SV=1 gi\|213163053 - gi\|213163053\|ref\|ZP_03348763.1\| cytochrome c nitrite reductase [Salmonella enterica subsp. enterica ... NRFA_SALTI - Cytochrome c-552 OS=Salmonella typhi GN=nrfA PE=3 SV=1	531.0	[0..21]	[478..21]
gi\|170785019, gi... - gi\|20149904\|pdb\|1GU6\|G Chain G, Structure Of The Periplasmic Cytochrome C Nitrite Reductase From Esc...	529.0	[0..27]	[478..1]
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	528.0	[0..21]	[478..21]

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Predicted Domain #1

Region A:
Residues: [1-478]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTRIKINARR IFSLLIPFFF FTSVHAEQTA APAKPVTVEA KNETFAPQHP DQYLSWKATS  60
   61 EQSERVDALA EDPRLVILWA GYPFSRDYNK PRGHAFAVTD VRETLRTGAP KNAEDGPLPM 120
  121 ACWSCKSPDV ARLIQKDGED GYFHGKWARG GPEIVNNLGC ADCHNTASPE FAKGKPELTL 180
  181 SRPYAARAME AIGKPFEKAG RFDQQSMVCG QCHVEYYFDG KNKAVKFPWD DGMKVENMEQ 240
  241 YYDKIAFSDW TNSLSKTPML KAQHPEYETW TAGIHGKNNV TCIDCHMPKV QNAEGKLYTD 300
  301 HKIGNPFDNF AQTCANCHTQ DKAALQKVVA ERKQSINDLK IKVEDQLVHA HFEAKAALDA 360
  361 GATEAEMKPI QDDIRHAQWR WDLAIASHGI HMHAPEEGLR MLGTAMDKAA DARTKLARLL 420
  421 ATKGITHEIQ IPDISTKEKA QQAIGLNMEQ IKAEKQDFIK TVIPQWEEQA RKNGLLSQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	151.0
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: