YRC Public Data Repository - Protein Structure Prediction

Protein:	TRMA_ECOLI
Organism:	Escherichia coli
Length:	366 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 TRMA_ECOLI.

Description	E-value	Query Range	Subject Range
Y687_BACHD - Uncharacterized RNA methyltransferase BH0687 OS=Bacillus halodurans GN=BH0687 PE=3 SV=1 Y687_BACHD - Uncharacterized RNA methyltransferase BH0687 OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197...	314.0	[0..5]	[366..88]
gi\|52784541, gi\|... - gi\|52784541\|ref\|YP_090370.1\| YefA [Bacillus licheniformis ATCC 14580], gi\|52347043\|gb\|AAU39677.1\| Ye...	312.0	[0..5]	[366..87]
TRMA_ECOUT - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Escherichia coli (strain UTI89 / UPEC) GN=trmA PE=3 SV... TRMA_ECOK1 - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Escherichia coli O1:K1 / APEC GN=trmA PE=3 SV=1 gi\|75240366, gi\|... - gi\|75240366\|ref\|ZP_00724306.1\| COG2265: SAM-dependent methyltransferases related to tRNA (uracil-5-)... TRMA_ECOL5 - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=trm... TRMA_ECO45 - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=trmA P... gi\|237703006, gi... - gi\|237703006\|ref\|ZP_04533487.1\| tRNA (uracil-5-)-methyltransferase [Escherichia sp. 3_2_53FAA], gi\|2... gi\|227885284, gi... - gi\|227885284\|ref\|ZP_04003089.1\| tRNA (uracil-5-)-methyltransferase [Escherichia coli 83972], gi\|2278...	309.0	[0..1]	[366..1]
TRMA_SHIFL - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Shigella flexneri GN=trmA PE=3 SV=1 gi\|24115259, gi\|... - gi\|24115259\|ref\|NP_709769.1\| tRNA (uracil-5-)-methyltransferase [Shigella flexneri 2a str. 301], gi\|... gi\|30043004, gi\|... - gi\|30064744\|ref\|NP_838915.1\| tRNA (uracil-5-)-methyltransferase [Shigella flexneri 2a str. 2457T], g... TRMA_SHIBS - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Shigella boydii serotype 4 (strain Sb227) GN=trmA PE=3...	309.0	[0..1]	[366..1]
gi\|209751938, gi... - pir\|\|E86088 tRNA (uracil-5-)-methyltransferase [imported] - Escherichia coli (strain O157:H7, substr... gi\|13364372, gi\|... - gi\|15834150\|ref\|NP_312923.1\| tRNA (uracil-5-)-methyltransferase [Escherichia coli O157:H7 str. Sakai... TRMA_ECO57 - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Escherichia coli O157:H7 GN=trmA PE=3 SV=1 gi\|12518892, gi\|... - gi\|15804563\|ref\|NP_290604.1\| tRNA (uracil-5-)-methyltransferase [Escherichia coli O157:H7 EDL933], g... gi\|217326606, gi... - gi\|217326606\|ref\|ZP_03442690.1\| tRNA (uracil-5-)-methyltransferase [Escherichia coli O157:H7 str. TW... gi\|168761641, gi... - gi\|189367875\|gb\|EDU86291.1\| tRNA (uracil-5-)-methyltransferase [Escherichia coli O157:H7 str. EC4501... gi\|189373235, gi... - gi\|189373235\|gb\|EDU91651.1\| tRNA (uracil-5-)-methyltransferase [Escherichia coli O157:H7 str. EC869]... gi\|168799442, gi... - gi\|189378014\|gb\|EDU96430.1\| tRNA (uracil-5-)-methyltransferase [Escherichia coli O157:H7 str. EC508]...	309.0	[0..1]	[366..1]
TRMA_SHIF8 - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Shigella flexneri serotype 5b (strain 8401) GN=trmA PE...	309.0	[0..1]	[366..1]
TRMA_SHIB3 - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS51... TRMA_SHISS - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Shigella sonnei (strain Ss046) GN=trmA PE=3 SV=1	309.0	[0..1]	[366..1]
gi\|188491419, gi... - gi\|75513849\|ref\|ZP_00736202.1\| COG2265: SAM-dependent methyltransferases related to tRNA (uracil-5-)...	309.0	[0..1]	[366..1]
TRMA_ECOL6 - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / ... TRMA_ECOL6 - tRNA (uracil(54)-C(5))-methyltransferase OS=Escherichia coli O6 GN=trmA PE=3 SV=1	307.0	[0..1]	[366..1]
TRMA_SHIDS - tRNA/tmRNA (uracil-C(5))-methyltransferase OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=trmA...	307.0	[0..1]	[366..1]

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Predicted Domain #1

Region A:
Residues: [1-366]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTPEHLPTEQ YEAQLAEKVV RLQSMMAPFS DLVPEVFRSP VSHYRMRAEF RIWHDGDDLY  60
   61 HIIFDQQTKS RIRVDSFPAA SELINQLMTA MIAGVRNNPV LRHKLFQIDY LTTLSNQAVV 120
  121 SLLYHKKLDD EWRQEAEALR DALRAQNLNV HLIGRATKTK IELDQDYIDE RLPVAGKEMI 180
  181 YRQVENSFTQ PNAAMNIQML EWALDVTKGS KGDLLELYCG NGNFSLALAR NFDRVLATEI 240
  241 AKPSVAAAQY NIAANHIDNV QIIRMAAEEF TQAMNGVREF NRLQGIDLKS YQCETIFVDP 300
  301 PRSGLDSETE KMVQAYPRIL YISCNPETLC KNLETLSQTH KVERLALFDQ FPYTHHMECG 360
  361 VLLTAK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	63.39794
Match:	1uwvA
Description:	Crystal Structure of RumA, the iron-sulfur cluster containing E. coli 23S Ribosomal RNA 5-Methyluridine Methyltransferase
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
tRNA methyltransferase activity	2.15176183511624	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
catalytic activity	1.62377578202456	bayes_pls_golite062009
histone methyltransferase activity	1.42140847541194	bayes_pls_golite062009
protein-arginine N-methyltransferase activity	1.40233857644962	bayes_pls_golite062009
arginine N-methyltransferase activity	1.40233857644962	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
tRNA (cytosine)-methyltransferase activity	0.661941246551751	bayes_pls_golite062009
tRNA (cytosine-5-)-methyltransferase activity	0.661941246551751	bayes_pls_golite062009
O-methyltransferase activity	0.59365370184158	bayes_pls_golite062009
tRNA (adenine)-methyltransferase activity	0.51194141894759	bayes_pls_golite062009
tRNA (adenine-N1-)-methyltransferase activity	0.51194141894759	bayes_pls_golite062009
protein-arginine omega-N monomethyltransferase activity	0.355464145533041	bayes_pls_golite062009
tRNA (guanine) methyltransferase activity	0.355378060639199	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: