YRC Public Data Repository - Protein Structure Prediction

Protein:	RSMB_ECOLI
Organism:	Escherichia coli
Length:	429 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 RSMB_ECOLI.

Description	E-value	Query Range	Subject Range
RSMB_ECOL5 - Ribosomal RNA small subunit methyltransferase B OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) G...	375.0	[0..1]	[429..1]
RSMB_SHIDS - Ribosomal RNA small subunit methyltransferase B OS=Shigella dysenteriae serotype 1 (strain Sd197) GN...	375.0	[0..1]	[429..1]
RSMB_SHISS - Ribosomal RNA small subunit methyltransferase B OS=Shigella sonnei (strain Ss046) GN=rsmB PE=3 SV=1	375.0	[0..1]	[429..1]
RSMB_PHOLL - Ribosomal RNA small subunit methyltransferase B OS=Photorhabdus luminescens subsp. laumondii GN=rsmB... RSMB_PHOLL - Ribosomal RNA small subunit methyltransferase B OS=Photorhabdus luminescens subsp. laumondii (strain...	375.0	[0..1]	[429..1]
gi\|12517918, gi\|... - gi\|15803816\|ref\|NP_289850.1\| 16S rRNA methyltransferase B [Escherichia coli O157:H7 EDL933], gi\|1251... gi\|208812777, gi... - gi\|208812777\|ref\|ZP_03254106.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O1... gi\|209757340, gi... - pir\|\|F85993 hypothetical protein sun [imported] - Escherichia coli (strain O157:H7, substrain EDL93... gi\|208808123, gi... - gi\|208808123\|ref\|ZP_03250460.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O1... gi\|195939836 - gi\|195939836\|ref\|ZP_03085218.1\| 16S rRNA methyltransferase B [Escherichia coli O157:H7 str. EC4024] gi\|189375353, gi... - gi\|189375353\|gb\|EDU93769.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O157:H... gi\|217326360, gi... - gi\|217326360\|ref\|ZP_03442444.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O1... RSMB_ECO5E - Ribosomal RNA small subunit methyltransferase B OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) G... gi\|208820338, gi... - gi\|208820338\|ref\|ZP_03260658.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O1... RSMB_ECO57 - Ribosomal RNA small subunit methyltransferase B OS=Escherichia coli O157:H7 GN=rsmB PE=3 SV=1 gi\|189365121, gi... - gi\|189365121\|gb\|EDU83537.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O157:H... gi\|189354681, gi... - gi\|189354681\|gb\|EDU73100.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O157:H... gi\|168752263, gi... - gi\|188013841\|gb\|EDU51963.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O157:H... gi\|189373894, gi... - gi\|189373894\|gb\|EDU92310.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O157:H... gi\|188998877, gi... - gi\|188998877\|gb\|EDU67863.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O157:H... gi\|168777854, gi... - gi\|187767005\|gb\|EDU30849.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O157:H... gi\|189361764, gi... - gi\|189361764\|gb\|EDU80183.1\| ribosomal RNA small subunit methyltransferase B [Escherichia coli O157:H... gi\|254594625, gi... - gi\|254795225\|ref\|YP_003080062.1\| 16S rRNA m5C967 methyltransferase [Escherichia coli O157:H7 str. TW...	374.0	[0..1]	[429..1]
gi\|15833408, gi\|... - gi\|15833408\|ref\|NP_312181.1\| 16S rRNA methyltransferase B [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|25303751 - pir\|\|B91148 RNA methyltransferase [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509... gi\|15833408, gi\|... - gi\|15833408\|ref\|NP_312181.1\| RNA methyltransferase [Escherichia coli O157:H7], gi\|13363627\|dbj\|BAB37...	374.0	[0..1]	[429..1]
RSMB_SHIBS - Ribosomal RNA small subunit methyltransferase B OS=Shigella boydii serotype 4 (strain Sb227) GN=rsmB...	374.0	[0..1]	[429..1]
gi\|77974958, gi\|... - gi\|77974958\|ref\|ZP_00830495.1\| COG0144: tRNA and rRNA cytosine-C5-methylases [Yersinia frederiksenii...	374.0	[0..1]	[429..1]
RSMB_ECO24 - Ribosomal RNA small subunit methyltransferase B OS=Escherichia coli O139:H28 (strain E24377A / ETEC)... RSMB_ECO8A - Ribosomal RNA small subunit methyltransferase B OS=Escherichia coli O8 (strain IAI1) GN=rsmB PE=3 SV... RSMB_ECO55 - Ribosomal RNA small subunit methyltransferase B OS=Escherichia coli (strain 55989 / EAEC) GN=rsmB PE... RSMB_ECOSE - Ribosomal RNA small subunit methyltransferase B OS=Escherichia coli (strain SE11) GN=rsmB PE=3 SV=1 gi\|192925853, gi... - gi\|75255413\|ref\|ZP_00727225.1\| COG0144: tRNA and rRNA cytosine-C5-methylases [Escherichia coli E22],... gi\|75214906, gi\|... - gi\|75214906\|ref\|ZP_00713385.1\| COG0144: tRNA and rRNA cytosine-C5-methylases [Escherichia coli E1100... gi\|194430276, gi... - gi\|75208439\|ref\|ZP_00708768.1\| COG0144: tRNA and rRNA cytosine-C5-methylases [Escherichia coli B171]...	374.0	[0..1]	[429..1]
gi\|77978258, gi\|... - gi\|77978258\|ref\|ZP_00833690.1\| COG0144: tRNA and rRNA cytosine-C5-methylases [Yersinia intermedia AT...	373.0	[0..1]	[429..1]

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Predicted Domain #1

Region A:
Residues: [1-429]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKKQRNLRSM AAQAVEQVVE QGQSLSNILP PLQQKVSDKD KALLQELCFG VLRTLSQLDW  60
   61 LINKLMARPM TGKQRTVHYL IMVGLYQLLY TRIPPHAALA ETVEGAIAIK RPQLKGLING 120
  121 VLRQFQRQQE ELLAEFNASD ARYLHPSWLL KRLQKAYPEQ WQSIVEANNQ RPPMWLRINR 180
  181 THHSRDSWLA LLDEAGMKGF PHADYPDAVR LETPAPVHAL PGFEDGWVTV QDASAQGCMT 240
  241 WLAPQNGEHI LDLCAAPGGK TTHILEVAPE AQVVAVDIDE QRLSRVYDNL KRLGMKATVK 300
  301 QGDGRYPSQW CGEQQFDRIL LDAPCSATGV IRRHPDIKWL RRDRDIPELA QLQSEILDAI 360
  361 WPHLKTGGTL VYATCSVLPE ENSLQIKAFL QRTADAELCE TGTPEQPGKQ NLPGAEEGDG 420
  421 FFYAKLIKK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	104.0
Match:	1sqfA
Description:	The crystal structure of E. coli Fmu binary complex with S-Adenosylmethionine at 2.1 A resolution
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
methyltransferase activity	4.64500705012502	bayes_pls_golite062009
rRNA methyltransferase activity	4.60300178039953	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	4.57389022626587	bayes_pls_golite062009
S-adenosylmethionine-dependent methyltransferase activity	3.74830027382001	bayes_pls_golite062009
RNA methyltransferase activity	3.6174490060285	bayes_pls_golite062009
N-methyltransferase activity	3.00112136063228	bayes_pls_golite062009
protein methyltransferase activity	2.74535979387581	bayes_pls_golite062009
transferase activity	2.42370637689376	bayes_pls_golite062009
rRNA (adenine) methyltransferase activity	2.03602074114015	bayes_pls_golite062009
rRNA (adenine-N6,N6-)-dimethyltransferase activity	1.93015827477588	bayes_pls_golite062009
DNA-methyltransferase activity	1.8182614465692	bayes_pls_golite062009
transcription termination factor activity	1.81209017364408	bayes_pls_golite062009
catalytic activity	1.62377578202456	bayes_pls_golite062009
histone methyltransferase activity	1.42140847541194	bayes_pls_golite062009
arginine N-methyltransferase activity	1.40233857644962	bayes_pls_golite062009
protein-arginine N-methyltransferase activity	1.40233857644962	bayes_pls_golite062009
tRNA methyltransferase activity	1.32437128142157	bayes_pls_golite062009
rRNA (guanine) methyltransferase activity	1.26573118969035	bayes_pls_golite062009
site-specific DNA-methyltransferase (adenine-specific) activity	0.88654745691593	bayes_pls_golite062009
histone-arginine N-methyltransferase activity	0.67380437956274	bayes_pls_golite062009
O-methyltransferase activity	0.59365370184158	bayes_pls_golite062009
rRNA (guanine-N2-)-methyltransferase activity	0.427131446117391	bayes_pls_golite062009
protein-arginine omega-N monomethyltransferase activity	0.355464145533041	bayes_pls_golite062009
rRNA (cytosine) methyltransferase activity	0.346042596102079	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: