YRC Public Data Repository - Protein Structure Prediction

Protein:	NARH_ECOLI
Organism:	Escherichia coli
Length:	512 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 NARH_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|75179176, gi\|... - gi\|75179176\|ref\|ZP_00699194.1\| COG1140: Nitrate reductase beta subunit [Shigella boydii BS512], gi\|1...	569.0	[0..1]	[512..1]
gi\|82776570, gi\|... - gi\|82776570\|ref\|YP_402919.1\| nitrate reductase 1, beta subunit [Shigella dysenteriae Sd197], gi\|8124...	569.0	[0..1]	[512..1]
gi\|124500621, gi... - gi\|124528389\|ref\|ZP_01699699.1\| nitrate reductase, beta subunit [Escherichia coli B], gi\|124500621\|g... gi\|170020405, gi... - gi\|170020405\|ref\|YP_001725359.1\| nitrate reductase, beta subunit [Escherichia coli ATCC 8739], gi\|16... gi\|168801541, gi... - gi\|189376319\|gb\|EDU94735.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC508],... gi\|195939115 - gi\|195939115\|ref\|ZP_03084497.1\| nitrate reductase, beta subunit [Escherichia coli O157:H7 str. EC402... gi\|170123006, gi... - gi\|170768240\|ref\|ZP_02902693.1\| nitrate reductase, beta subunit [Escherichia albertii TW07627], gi\|1... gi\|208815799, gi... - gi\|208815799\|ref\|ZP_03256978.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC4... gi\|208728413, gi... - gi\|208808612\|ref\|ZP_03250949.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC4... gi\|209160025, gi... - gi\|209398625\|ref\|YP_002270160.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC... gi\|208737603, gi... - gi\|208822118\|ref\|ZP_03262437.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC4... gi\|188015086, gi... - gi\|188015086\|gb\|EDU53208.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC4113]... gi\|189365609, gi... - gi\|189365609\|gb\|EDU84025.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC4501]... gi\|168758153, gi... - gi\|189354960\|gb\|EDU73379.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC4401]... gi\|209772394, gi... - pir\|\|A85703 nitrate reductase 1, beta subunit [imported] - Escherichia coli (strain O157:H7, substra... gi\|187767793, gi... - gi\|187767793\|gb\|EDU31637.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC4196]... gi\|189360097, gi... - gi\|189360097\|gb\|EDU78516.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC4486]... gi\|12514946, gi\|... - gi\|15801456\|ref\|NP_287473.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 EDL933], gi... gi\|189372553, gi... - gi\|189372553\|gb\|EDU90969.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC869],... gi\|13361195, gi\|... - gi\|15830984\|ref\|NP_309757.1\| nitrate reductase 1 beta subunit [Escherichia coli O157:H7], gi\|1336119... gi\|188999962, gi... - gi\|188999962\|gb\|EDU68948.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. EC4076]... gi\|13361195, gi\|... - gi\|15830984\|ref\|NP_309757.1\| nitrate reductase 1 beta subunit [Escherichia coli O157:H7 str. Sakai],... gi\|251784733, gi... - gi\|251784733\|ref\|YP_002999037.1\| hypothetical protein B21_01213 [Escherichia coli BL21], gi\|24237700... gi\|254288118, gi... - gi\|254288118\|ref\|YP_003053866.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli BL21(DE3... gi\|253973211, gi... - gi\|254161310\|ref\|YP_003044418.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli B str. R... gi\|254792698, gi... - gi\|254792698\|ref\|YP_003077535.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli O157:H7 ... gi\|218360549, gi... - gi\|218553781\|ref\|YP_002386694.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli IAI1], g... gi\|217328234, gi... - gi\|217328234\|ref\|ZP_03444316.1\| nitrate reductase 1, beta subunit [Escherichia coli O157:H7 str. TW1... gi\|218704749, gi... - gi\|218704749\|ref\|YP_002412268.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli UMN026],... gi\|218351473, gi... - gi\|218694741\|ref\|YP_002402408.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli 55989], ... gi\|190903299, gi... - gi\|75230213\|ref\|ZP_00716714.1\| COG1140: Nitrate reductase beta subunit [Escherichia coli B7A], gi\|19... gi\|74312434, gi\|... - gi\|74312434\|ref\|YP_310853.1\| nitrate reductase 1, beta subunit [Shigella sonnei Ss046], gi\|73855911\|... gi\|81245731, gi\|... - gi\|82544320\|ref\|YP_408267.1\| nitrate reductase 1 beta subunit [Shigella boydii Sb227], gi\|81245731\|g... gi\|192956711, gi... - gi\|75235263\|ref\|ZP_00719500.1\| COG1140: Nitrate reductase beta subunit [Escherichia coli E110019], g... gi\|188487345, gi... - gi\|75511741\|ref\|ZP_00734370.1\| COG1140: Nitrate reductase beta subunit [Escherichia coli 53638], gi\|...	568.0	[0..1]	[512..1]
gi\|26247551, gi\|... - gi\|26247551\|ref\|NP_753591.1\| respiratory nitrate reductase 1 beta chain [Escherichia coli CFT073], g... gi\|91210449, gi\|... - gi\|91210449\|ref\|YP_540435.1\| respiratory nitrate reductase 1 beta chain [Escherichia coli UTI89], gi... gi\|117623443, gi... - gi\|117623443\|ref\|YP_852356.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli APEC O1], g... gi\|237705191, gi... - gi\|237705191\|ref\|ZP_04535672.1\| respiratory nitrate reductase subunit 1 beta [Escherichia sp. 3_2_53... gi\|227886350, gi... - gi\|227886350\|ref\|ZP_04004155.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli 83972], g... gi\|215264530, gi... - gi\|215486458\|ref\|YP_002328889.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli O127:H6 ... gi\|218558156, gi... - gi\|218558156\|ref\|YP_002391069.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli S88], gi... gi\|218426738, gi... - gi\|218689174\|ref\|YP_002397386.1\| nitrate reductase 1, beta (Fe-S) subunit [Escherichia coli ED1a], g... gi\|110641457, gi... - gi\|110641457\|ref\|YP_669187.1\| respiratory nitrate reductase 1 beta chain [Escherichia coli 536], gi\|... gi\|191170891, gi... - gi\|75242030\|ref\|ZP_00725824.1\| COG1140: Nitrate reductase beta subunit [Escherichia coli F11], gi\|19...	568.0	[0..1]	[512..1]
gi\|194424123, gi... - gi\|83587369\|ref\|ZP_00925997.1\| COG1140: Nitrate reductase beta subunit [Escherichia coli 101-1], gi\|...	568.0	[0..1]	[512..1]
NARH_SHIFL - Respiratory nitrate reductase 1 beta chain OS=Shigella flexneri GN=narH PE=3 SV=1 gi\|24051531, gi\|... - gi\|24112624\|ref\|NP_707134.1\| nitrate reductase 1, beta subunit [Shigella flexneri 2a str. 301], gi\|2...	567.0	[0..1]	[512..1]
gi\|192927507, gi... - gi\|75257134\|ref\|ZP_00728670.1\| COG1140: Nitrate reductase beta subunit [Escherichia coli E22], gi\|19... gi\|194416007, gi... - gi\|75212662\|ref\|ZP_00712660.1\| COG1140: Nitrate reductase beta subunit [Escherichia coli B171], gi\|1...	567.0	[0..1]	[512..1]
gi\|75195378, gi\|... - gi\|75195378\|ref\|ZP_00705448.1\| COG1140: Nitrate reductase beta subunit [Escherichia coli HS], gi\|157...	566.0	[0..1]	[512..1]
gi\|83569299, gi\|... - gi\|83569299\|ref\|ZP_00920755.1\| COG1140: Nitrate reductase beta subunit [Shigella dysenteriae 1012], ...	565.0	[0..1]	[512..1]
gi\|157159405, gi... - gi\|75190279\|ref\|ZP_00703546.1\| COG1140: Nitrate reductase beta subunit [Escherichia coli E24377A], g...	565.0	[0..1]	[512..1]

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Predicted Domain #1

Region A:
Residues: [1-512]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKIRSQVGMV LNLDKCIGCH TCSVTCKNVW TSREGVEYAW FNNVETKPGQ GFPTDWENQE  60
   61 KYKGGWIRKI NGKLQPRMGN RAMLLGKIFA NPHLPGIDDY YEPFDFDYQN LHTAPEGSKS 120
  121 QPIARPRSLI TGERMAKIEK GPNWEDDLGG EFDKLAKDKN FDNIQKAMYS QFENTFMMYL 180
  181 PRLCEHCLNP ACVATCPSGA IYKREEDGIV LIDQDKCRGW RMCITGCPYK KIYFNWKSGK 240
  241 SEKCIFCYPR IEAGQPTVCS ETCVGRIRYL GVLLYDADAI ERAASTENEK DLYQRQLDVF 300
  301 LDPNDPKVIE QAIKDGIPLS VIEAAQQSPV YKMAMEWKLA LPLHPEYRTL PMVWYVPPLS 360
  361 PIQSAADAGE LGSNGILPDV ESLRIPVQYL ANLLTAGDTK PVLRALKRML AMRHYKRAET 420
  421 VDGKVDTRAL EEVGLTEAQA QEMYRYLAIA NYEDRFVVPS SHRELAREAF PEKNGCGFTF 480
  481 GDGCHGSDTK FNLFNSRRID AIDVTSKTEP HP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	162.0
Match:	1q16B
Description:	Crystal structure of Nitrate Reductase A, NarGHI, from Escherichia coli
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nitrate reductase activity	5.37863699545988	bayes_pls_golite062009
oxidoreductase activity, acting on other nitrogenous compounds as donors	4.93893088248019	bayes_pls_golite062009
NADH dehydrogenase activity	4.88743394067551	bayes_pls_golite062009
formate dehydrogenase activity	4.7946737640663	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	4.55719216073898	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	4.48458992978765	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	3.86485405159262	bayes_pls_golite062009
electron carrier activity	3.21957528314564	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	2.62563452171293	bayes_pls_golite062009
4 iron, 4 sulfur cluster binding	1.955968643763	bayes_pls_golite062009
oxidoreductase activity	1.70629793236166	bayes_pls_golite062009
iron-sulfur cluster binding	1.30496569995148	bayes_pls_golite062009
metal cluster binding	1.30496569995148	bayes_pls_golite062009
binding	0.690970987880597	bayes_pls_golite062009
catalytic activity	0.488483980994331	bayes_pls_golite062009
protein binding	0.429260499627782	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	0.0827182678048914	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: