YRC Public Data Repository - Protein Structure Prediction

Protein:	YQGF_SALPB
Organism:	Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7
Length:	138 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 YQGF_SALPB.

Description	E-value	Query Range	Subject Range
gi\|882478 - gi\|882478\|gb\|AAA69116.1\| ORF_o180; was also ORF_o62p before splice gi\|882478\|gb\|AAA... - ORF_o180; was also ORF_o62p before splice	8.0E-51	[1..138]	[43..180]
gi\|187770925, gi... - gi\|187770925\|gb\|EDU34769.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. EC41... gi\|168766956, gi... - gi\|189363715\|gb\|EDU82134.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. EC44... gi\|189369432, gi... - gi\|189369432\|gb\|EDU87848.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. EC45... gi\|168753901, gi... - gi\|189358781\|gb\|EDU77200.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. EC44... gi\|195937087 - gi\|195937087\|ref\|ZP_03082469.1\| Holliday junction resolvase-like protein [Escherichia coli O157:H7 s... gi\|189379713, gi... - gi\|189379713\|gb\|EDU98129.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. EC50... gi\|168785807, gi... - gi\|189374231\|gb\|EDU92647.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. EC86... gi\|189000577, gi... - gi\|189000577\|gb\|EDU69563.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. EC40... gi\|168747559, gi... - gi\|188017800\|gb\|EDU55922.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. EC41... gi\|12517495, gi\|... - gi\|15803488\|ref\|NP_289521.1\| Holliday junction resolvase-like protein [Escherichia coli O157:H7 EDL9... gi\|254794901, gi... - gi\|254794901\|ref\|YP_003079738.1\| predicted Holliday junction resolvase [Escherichia coli O157:H7 str... gi\|25306230, gi\|... - pir\|\|D85952 hypothetical protein yqgF [imported] - Escherichia coli (strain O157:H7, substrain EDL9... YQGF_ECO57 - Putative pre-16S rRNA nuclease OS=Escherichia coli O157:H7 GN=yqgF PE=3 SV=1 YQGF_ECO5E - Putative pre-16S rRNA nuclease OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=yqgF PE=3 SV=1 gi\|208740470, gi... - gi\|208820347\|ref\|ZP_03260667.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. ... gi\|208733160, gi... - gi\|208811883\|ref\|ZP_03253212.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. ... gi\|208805896, gi... - gi\|208805896\|ref\|ZP_03248233.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. ... gi\|13363297, gi\|... - gi\|15833079\|ref\|NP_311852.1\| Holliday junction resolvase-like protein [Escherichia coli O157:H7 str.... gi\|217327641, gi... - gi\|217327641\|ref\|ZP_03443724.1\| putative Holliday junction resolvase [Escherichia coli O157:H7 str. ...	2.0E-49	[1..138]	[1..138]
YQGF_SHIFL - Putative pre-16S rRNA nuclease OS=Shigella flexneri GN=yqgF PE=3 SV=1 YQGF_ECOSM - Putative pre-16S rRNA nuclease OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=yqgF PE=3 SV=1 gi\|194431639, gi... - gi\|194431639\|ref\|ZP_03063930.1\| putative Holliday junction resolvase [Shigella dysenteriae 1012], gi... YQGF_ECO27 - Putative pre-16S rRNA nuclease OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=yqgF PE=3 SV=... YQGF_ESCF3 - Putative pre-16S rRNA nuclease OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-7... YQGF_ECO8A - Putative pre-16S rRNA nuclease OS=Escherichia coli O8 (strain IAI1) GN=yqgF PE=3 SV=1 YQGF_ECOLU - Putative pre-16S rRNA nuclease OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=yqgF PE=3 ... sp\|B7UHZ6\|RUVX_ECO27 - Putative Holliday junction resolvase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=yqgF PE... YQGF_SHISS - Putative pre-16S rRNA nuclease OS=Shigella sonnei (strain Ss046) GN=yqgF PE=3 SV=1 gi\|75258557, gi\|... - gi\|75258557\|ref\|ZP_00729979.1\| COG0816: Predicted endonuclease involved in recombination (possible H... gi\|75239481, gi\|... - gi\|75239481\|ref\|ZP_00723452.1\| COG0816: Predicted endonuclease involved in recombination (possible H... gi\|190902043, gi... - gi\|75228903\|ref\|ZP_00715500.1\| COG0816: Predicted endonuclease involved in recombination (possible H... gi\|254037998, gi... - gi\|254037998\|ref\|ZP_04872056.1\| Holliday junction resolvase [Escherichia sp. 1_1_43], gi\|226839622\|g... YQGF_SHIBS - Putative pre-16S rRNA nuclease OS=Shigella boydii serotype 4 (strain Sb227) GN=yqgF PE=3 SV=1 gi\|75212429, gi\|... - gi\|75212429\|ref\|ZP_00712453.1\| COG0816: Predicted endonuclease involved in recombination (possible H... YQGF_ECO24 - Putative pre-16S rRNA nuclease OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=yqgF PE=3 SV=... YQGF_SHIB3 - Putative pre-16S rRNA nuclease OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=yqgF P... gi\|194424377, gi... - gi\|83587653\|ref\|ZP_00926280.1\| COG0816: Predicted endonuclease involved in recombination (possible H... gi\|24114204, gi\|... - gi\|24114204\|ref\|NP_708714.1\| Holliday junction resolvase-like protein [Shigella flexneri 2a str. 301... gi\|30064265, gi\|... - gi\|30064265\|ref\|NP_838436.1\| Holliday junction resolvase-like protein [Shigella flexneri 2a str. 245... YQGF_SHIF8 - Putative pre-16S rRNA nuclease OS=Shigella flexneri serotype 5b (strain 8401) GN=yqgF PE=3 SV=1	3.0E-49	[1..138]	[1..138]
RUVX_ECOL6 - Putative Holliday junction resolvase OS=Escherichia coli O6 GN=yqgF PE=3 SV=1 YQGF_ECOUT - Putative pre-16S rRNA nuclease OS=Escherichia coli (strain UTI89 / UPEC) GN=yqgF PE=3 SV=1 YQGF_ECO55 - Putative pre-16S rRNA nuclease OS=Escherichia coli (strain 55989 / EAEC) GN=yqgF PE=3 SV=1 YQGF_ECOL6 - Putative pre-16S rRNA nuclease OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=yqg... YQGF_ECOL5 - Putative pre-16S rRNA nuclease OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=yqgF PE=3 SV=1 EG13290 - putative Holliday junction resolvase / Putative anti-termination factor for Rho-dependent terminator... gi\|85675759, gi\|... - gi\|89109726\|ref\|AP_003506.1\| predicted Holliday junction resolvase [Escherichia coli str. K-12 subst... gi\|188486984, gi... - gi\|75515271\|ref\|ZP_00737455.1\| COG0816: Predicted endonuclease involved in recombination (possible H... gi\|253772213, gi... - gi\|253772213\|ref\|YP_003035044.1\| Holliday junction resolvase YqgF [Escherichia coli BL21(DE3)], gi\|2... gi\|75241255, gi\|... - gi\|75241255\|ref\|ZP_00725117.1\| COG0816: Predicted endonuclease involved in recombination (possible H... YQGF_ECOBW - Putative pre-16S rRNA nuclease OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=yqgF PE=3 SV=1 YQGF_ECOHS - Putative pre-16S rRNA nuclease OS=Escherichia coli O9:H4 (strain HS) GN=yqgF PE=3 SV=1 YQGF_ECODH - Putative pre-16S rRNA nuclease OS=Escherichia coli (strain K12 / DH10B) GN=yqgF PE=3 SV=1 YQGF_ECO45 - Putative pre-16S rRNA nuclease OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=yqgF PE=3 SV=1 YQGF_ECO81 - Putative pre-16S rRNA nuclease OS=Escherichia coli O81 (strain ED1a) GN=yqgF PE=3 SV=1 YQGF_ECOLC - Putative pre-16S rRNA nuclease OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=yqgF PE... EG13290 - putative Holliday junction resolvase / Putative anti-termination factor for Rho-dependent terminator... RUVX_ECOLI - Putative Holliday junction resolvase (EC 3.1.-.-) - Escherichia coli YQGF_ECOK1 - Putative pre-16S rRNA nuclease OS=Escherichia coli O1:K1 / APEC GN=yqgF PE=3 SV=1 gi\|124526151, gi... - gi\|124526151\|ref\|ZP_01698156.1\| Holliday junction resolvase YqgF [Escherichia coli B], gi\|124502255\|...	3.0E-49	[1..138]	[1..138]
gi\|167552011, gi... - gi\|205323262\|gb\|EDZ11101.1\| putative Holliday junction resolvase [Salmonella enterica subsp. enteric... gi\|167990376, gi... - gi\|205331084\|gb\|EDZ17848.1\| putative Holliday junction resolvase [Salmonella enterica subsp. enteric... YQGF_SALNS - Putative pre-16S rRNA nuclease OS=Salmonella newport (strain SL254) GN=yqgF PE=3 SV=1 gi\|238909895 - gi\|238909895\|ref\|ZP_04653732.1\| Holliday junction resolvase-like protein [Salmonella enterica subsp.... RUVX_SALTY - Putative Holliday junction resolvase OS=Salmonella typhimurium GN=yqgF PE=3 SV=1 RUVX_SALTY - Putative Holliday junction resolvase OS=Salmonella typhimurium GN=yqgF PE=3 SV=1 lcl\|NC_016856.1_... - [gene=yqgF] [protein=Holliday junction resolvase-like protein] [protein_id=YP_005239243.1] [location... gi\|197243793, gi... - gi\|197265538\|ref\|ZP_03165612.1\| putative Holliday junction resolvase [Salmonella enterica subsp. ent... YQGF_SALTY - Putative pre-16S rRNA nuclease OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=yq... gi\|199606074, gi... - gi\|200388976\|ref\|ZP_03215588.1\| putative Holliday junction resolvase [Salmonella enterica subsp. ent... gi\|204928137, gi... - gi\|204928137\|ref\|ZP_03219337.1\| putative Holliday junction resolvase [Salmonella enterica subsp. ent...	6.0E-49	[1..138]	[1..138]
YQGF_ECOSE - Putative pre-16S rRNA nuclease OS=Escherichia coli (strain SE11) GN=yqgF PE=3 SV=1 YQGF_SHIDS - Putative pre-16S rRNA nuclease OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=yqgF PE=3 SV=1	7.0E-49	[1..138]	[1..138]
YQGF_ACTP2 - Putative pre-16S rRNA nuclease OS=Actinobacillus pleuropneumoniae serotype 5b (strain L20) GN=APL_02... YQGF_ACTPJ - Putative pre-16S rRNA nuclease OS=Actinobacillus pleuropneumoniae serotype 3 (strain JL03) GN=APJL_0... gi\|32034409 - gi\|32034409\|ref\|ZP_00134591.1\| COG0816: Predicted endonuclease involved in recombination (possible H...	1.0E-47	[1..137]	[1..137]
YQGF_HAEDU - Putative pre-16S rRNA nuclease OS=Haemophilus ducreyi (strain 35000HP / ATCC 700724) GN=HD_1795 PE=3... RUVX_HAEDU - Putative Holliday junction resolvase OS=Haemophilus ducreyi GN=HD_1795 PE=3 SV=1	2.0E-47	[1..137]	[1..137]
YQGF_ACTSZ - Putative pre-16S rRNA nuclease OS=Actinobacillus succinogenes (strain ATCC 55618 / 130Z) GN=Asuc_020...	6.0E-47	[1..137]	[1..137]
RUVX_ERWCT - Putative Holliday junction resolvase OS=Erwinia carotovora subsp. atroseptica GN=ECA3926 PE=3 SV=1 YQGF_PECAS - Putative pre-16S rRNA nuclease OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) GN=y...	2.0E-46	[2..138]	[3..139]

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Predicted Domain #1

Region A:
Residues: [1-138]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDTLLAFDF GTKSIGVAIG QRITGTARPL PAIKAQDGTP DWTLIERLLK EWQPDEIIVG  60
   61 LPLNMDGTEQ PLTARARKFA NRIHGRFGVT VTLHDERLST VEARSGLFER GGYRALNKGK 120
  121 VDSASAVIIL ESYFEQGY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	50.69897
Match:	1nmnA
Description:	Structure of yqgF from Escherichia coli, a hypothetical protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nuclease activity	1.80465910244067	bayes_pls_golite062009
catalytic activity	1.25233849524628	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.67622280196747	bayes_pls_golite062009
ribonuclease activity	0.567315548679559	bayes_pls_golite062009
exonuclease activity	0.550209133970558	bayes_pls_golite062009
hydrolase activity	0.482149639923564	bayes_pls_golite062009
endonuclease activity	0.164428265680495	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: