YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|199602660, gi...
Organism:	Salmonella enterica subsp. enterica serovar Virchow str. SL491
Length:	155 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|199602660, gi....

Description	E-value	Query Range	Subject Range
gi\|53732589 - gi\|53732589\|ref\|ZP_00154764.2\| COG1576: Uncharacterized conserved protein [Haemophilus influenzae R2... gi\|46133667 - gi\|46133667\|ref\|ZP_00157540.2\| COG1576: Uncharacterized conserved protein [Haemophilus influenzae R2... RLMH_HAEIN - Ribosomal RNA large subunit methyltransferase H OS=Haemophilus influenzae (strain ATCC 51907 / DSM 1... gi\|145641826, gi... - gi\|145641826\|ref\|ZP_01797401.1\| hypothetical protein CGSHiR3021_01112 [Haemophilus influenzae R3021]... RLMH_HAEIG - Ribosomal RNA large subunit methyltransferase H OS=Haemophilus influenzae (strain PittGG) GN=rlmH PE... gi\|145641826 - gi\|145641826\|ref\|ZP_01797401.1\| hypothetical protein CGSHiR3021_01112 [Haemophilus influenzae R3021] gi\|145639678, gi... - gi\|145639678\|ref\|ZP_01795281.1\| hypothetical protein CGSHiII_09181 [Haemophilus influenzae PittII], ... gi\|145629110, gi... - gi\|145629110\|ref\|ZP_01784909.1\| hypothetical protein CGSHi22121_09920 [Haemophilus influenzae 22.1-2... Y033_HAEIN, RLMH... - UPF0247 protein HI0033 OS=Haemophilus influenzae GN=HI0033 PE=3 SV=1, Ribosomal RNA large subunit me... gi\|229845379, gi... - gi\|229845379\|ref\|ZP_04465510.1\| hypothetical protein CGSHi6P18H1_00487 [Haemophilus influenzae 6P18H...	2.0E-63	[1..155]	[1..155]
gi\|144985973, gi... - gi\|145633410\|ref\|ZP_01789140.1\| hypothetical protein CGSHi3655_04240 [Haemophilus influenzae 3655], ... RLMH_HAEI8 - Ribosomal RNA large subunit methyltransferase H OS=Haemophilus influenzae (strain 86-028NP) GN=rlmH ...	4.0E-63	[1..155]	[1..155]
RLMH_MANSM - Ribosomal RNA large subunit methyltransferase H OS=Mannheimia succiniciproducens (strain MBEL55E) GN...	3.0E-62	[1..155]	[1..155]
RLMH_ACTP2 - Ribosomal RNA large subunit methyltransferase H OS=Actinobacillus pleuropneumoniae serotype 5b (stra... RLMH_ACTP7 - Ribosomal RNA large subunit methyltransferase H OS=Actinobacillus pleuropneumoniae serotype 7 (strai... gi\|53729247 - gi\|53729247\|ref\|ZP_00133777.2\| COG1576: Uncharacterized conserved protein [Actinobacillus pleuropneu...	3.0E-62	[1..155]	[1..155]
RLMH_SHISS - Ribosomal RNA large subunit methyltransferase H OS=Shigella sonnei (strain Ss046) GN=rlmH PE=3 SV=1 RLMH_SHIDS - Ribosomal RNA large subunit methyltransferase H OS=Shigella dysenteriae serotype 1 (strain Sd197) GN... gi\|191173991, gi... - gi\|75237604\|ref\|ZP_00721635.1\| COG1576: Uncharacterized conserved protein [Escherichia coli F11], gi... gi\|75511281, gi\|... - gi\|75511281\|ref\|ZP_00733975.1\| COG1576: Uncharacterized conserved protein [Escherichia coli 53638], ... YBEA_ECOL6, RLMH... - UPF0247 protein ybeA OS=Escherichia coli O6 GN=ybeA PE=3 SV=1, Ribosomal RNA large subunit methyltra... RLMH_SHIBS - Ribosomal RNA large subunit methyltransferase H OS=Shigella boydii serotype 4 (strain Sb227) GN=rlmH... RLMH_ECO24 - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O139:H28 (strain E24377A / ETEC)... RLMH_ECOHS - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O9:H4 (strain HS) GN=rlmH PE=3 S... RLMH_SHIB3 - Ribosomal RNA large subunit methyltransferase H OS=Shigella boydii serotype 18 (strain CDC 3083-94 /... RLMH_ECOL5 - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) G... RLMH_SHIF8 - Ribosomal RNA large subunit methyltransferase H OS=Shigella flexneri serotype 5b (strain 8401) GN=rl... gi\|4062254, gi\|8... - gi\|89107505\|ref\|AP_001285.1\| hypothetical protein [Escherichia coli str. K-12 substr. W3110], gi\|406... RLMH_ECOUT - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli (strain UTI89 / UPEC) GN=rlmH PE... gi\|13360132, gi\|... - gi\|15829928\|ref\|NP_308701.1\| rRNA large subunit methyltransferase [Escherichia coli O157:H7 str. Sak... RLMH_ECO7I - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=... RLMH_ECOLU - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExP... RLMH_ECOLC - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / C... gi\|254591202, gi... - gi\|254791802\|ref\|YP_003076639.1\| hypothetical protein ECSP_0689 [Escherichia coli O157:H7 str. TW143... gi\|253972619, gi... - gi\|254160718\|ref\|YP_003043826.1\| hypothetical protein ECB_00605 [Escherichia coli B str. REL606], gi... gi\|253976813, gi... - gi\|254287506\|ref\|YP_003053254.1\| hypothetical protein ECD_00605 [Escherichia coli BL21(DE3)], gi\|253... gi\|251784138, gi... - gi\|251784138\|ref\|YP_002998442.1\| hypothetical protein B21_00594 [Escherichia coli BL21], gi\|24237641... RLMH_ECOBW - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli (strain K12 / MC4100 / BW2952) G... gi\|226898600, gi... - gi\|237707390\|ref\|ZP_04537871.1\| ybeA [Escherichia sp. 3_2_53FAA], gi\|226898600\|gb\|EEH84859.1\| ybeA [... gi\|227838470, gi... - gi\|227884384\|ref\|ZP_04002189.1\| SPOUT methyltransferase superfamily protein [Escherichia coli 83972]... EG11254 - 23S rRNA m(3)Psi1915 pseudouridine methyltransferase, SAM-dependent / 23S rRNA m(3)Psi1915 pseudouri... gi\|24050890, gi\|... - gi\|24112064\|ref\|NP_706574.1\| SPOUT methyltransferase superfamily protein [Shigella flexneri 2a str. ... sp\|B7UKS6\|RLMH_ECO27 - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC)... RLMH_SHIFL - Ribosomal RNA large subunit methyltransferase H OS=Shigella flexneri GN=rlmH PE=3 SV=1 RLMH_ECO57 - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O157:H7 GN=rlmH PE=3 SV=1 RLMH_ECOL6 - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 7009... gi\|15800350, gi\|... - gi\|15800350\|ref\|NP_286362.1\| SPOUT methyltransferase superfamily protein [Escherichia coli O157:H7 E... EG11254 - 23S rRNA m(3)Psi1915 pseudouridine methyltransferase, SAM-dependent / 23S rRNA m(3)Psi1915 pseudouri... gi\|168758280, gi... - gi\|189354856\|gb\|EDU73275.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4401], g... gi\|189002790, gi... - gi\|189002790\|gb\|EDU71776.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4076], g... gi\|189373741, gi... - gi\|189373741\|gb\|EDU92157.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC869], gi... RLMH_ECO5E - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) G... RLMH_ECOSE - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli (strain SE11) GN=rlmH PE=3 SV=1 RLMH_ECO27 - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC)... gi\|217322501, gi... - gi\|217326280\|ref\|ZP_03442364.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. TW1458... RLMH_ECO8A - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O8 (strain IAI1) GN=rlmH PE=3 SV... RLMH_ECO45 - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=r... RLMH_ECO81 - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O81 (strain ED1a) GN=rlmH PE=3 S... RLMH_ECO55 - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli (strain 55989 / EAEC) GN=rlmH PE... gi\|189375577, gi... - gi\|189375577\|gb\|EDU93993.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC508], gi... RLMH_ECODH - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli (strain K12 / DH10B) GN=rlmH1 PE... RLMH_ECOSM - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=rlmH... gi\|170767799, gi... - gi\|170767799\|ref\|ZP_02902252.1\| conserved hypothetical protein [Escherichia albertii TW07627], gi\|17... gi\|195939375 - gi\|195939375\|ref\|ZP_03084757.1\| SPOUT methyltransferase superfamily protein [Escherichia coli O157:H... gi\|208807744, gi... - gi\|208807744\|ref\|ZP_03250081.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4206... YBEA_ECOLI - UPF0247 protein ybeA - Escherichia coli gi\|208815870, gi... - gi\|208815870\|ref\|ZP_03257049.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4045... gi\|208823049, gi... - gi\|208823049\|ref\|ZP_03263367.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4042... RLMH_ECOK1 - Ribosomal RNA large subunit methyltransferase H OS=Escherichia coli O1:K1 / APEC GN=rlmH PE=3 SV=1	6.0E-62	[1..155]	[1..155]
gi\|30040420, gi\|... - gi\|30062175\|ref\|NP_836346.1\| SPOUT methyltransferase superfamily protein [Shigella flexneri 2a str. ...	6.0E-62	[1..155]	[1..155]
gi\|192930926, gi... - gi\|75258628\|ref\|ZP_00730035.1\| COG1576: Uncharacterized conserved protein [Escherichia coli E22], gi... gi\|75236617, gi\|... - gi\|75236617\|ref\|ZP_00720705.1\| COG1576: Uncharacterized conserved protein [Escherichia coli E110019]... gi\|75226740, gi\|... - gi\|75226740\|ref\|ZP_00713693.1\| COG1576: Uncharacterized conserved protein [Escherichia coli B7A], gi... gi\|194411269, gi... - gi\|75207925\|ref\|ZP_00708371.1\| COG1576: Uncharacterized conserved protein [Escherichia coli B171], g...	8.0E-62	[1..155]	[1..155]
RLMH_ACTSZ - Ribosomal RNA large subunit methyltransferase H OS=Actinobacillus succinogenes (strain ATCC 55618 / ...	1.0E-61	[1..155]	[1..155]
RLMH_SHELP - Ribosomal RNA large subunit methyltransferase H OS=Shewanella loihica (strain ATCC BAA-1088 / PV-4) ...	4.0E-61	[1..155]	[1..156]
RLMH_SALCH - Ribosomal RNA large subunit methyltransferase H OS=Salmonella choleraesuis GN=rlmH PE=3 SV=1 RLMH_SALCH - Ribosomal RNA large subunit methyltransferase H OS=Salmonella choleraesuis (strain SC-B67) GN=rlmH P... YBEA_SALCH - UPF0247 protein ybeA OS=Salmonella choleraesuis GN=ybeA PE=3 SV=1	8.0E-61	[1..155]	[1..155]

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Predicted Domain #1

Region A:
Residues: [1-155]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKLQLVAVGT KMPDWVQTGF TEYLRRFPKD MPFELIEIPA GKRGKNADIK RILDKEGEQM  60
   61 LAAAGKNRIV TLDIPGKPWD TPQLANELER WKQDGRDVSL LIGGPEGLSP ACKAAAEQSW 120
  121 SLSALTLPHP LVRVLVAESL YRAWSITTNH PYHRE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	63.30103
Match:	1ns5A
Description:	Hypothetical protein YbeA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
RNA methyltransferase activity	4.23455016472464	bayes_pls_golite062009
methyltransferase activity	3.59960278169345	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	3.51722801996622	bayes_pls_golite062009
rRNA methyltransferase activity	3.14976989427746	bayes_pls_golite062009
tRNA methyltransferase activity	2.33123191403389	bayes_pls_golite062009
S-adenosylmethionine-dependent methyltransferase activity	2.23755555119187	bayes_pls_golite062009
tRNA (guanine) methyltransferase activity	2.14623472760939	bayes_pls_golite062009
transferase activity	1.63934797352054	bayes_pls_golite062009
catalytic activity	0.797300463760338	bayes_pls_golite062009
rRNA (guanine) methyltransferase activity	0.319046095835882	bayes_pls_golite062009
binding	0.178115162253014	bayes_pls_golite062009
N-methyltransferase activity	0.118357993944566	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: