YRC Public Data Repository - Protein Structure Prediction

Protein:	TRMD_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	248 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 TRMD_SHEON.

Description	E-value	Query Range	Subject Range
TRMD_PHOLL - tRNA (guanine-N(1)-)-methyltransferase OS=Photorhabdus luminescens subsp. laumondii GN=trmD PE=3 SV=... TRMD_PHOLL - tRNA (guanine-N(1)-)-methyltransferase OS=Photorhabdus luminescens subsp. laumondii (strain DSM 1513...	450.0	[0..1]	[243..1]
TRMD_VIBVU - tRNA (guanine-N(1)-)-methyltransferase OS=Vibrio vulnificus (strain CMCP6) GN=trmD PE=3 SV=1 TRMD_VIBVU - tRNA (guanine-N(1)-)-methyltransferase OS=Vibrio vulnificus GN=trmD PE=3 SV=1 TRMD_VIBVY - tRNA (guanine-N(1)-)-methyltransferase OS=Vibrio vulnificus (strain YJ016) GN=trmD PE=3 SV=1	442.0	[0..1]	[243..1]
TRMD_SHELP - tRNA (guanine-N(1)-)-methyltransferase OS=Shewanella loihica (strain ATCC BAA-1088 / PV-4) GN=trmD P...	442.0	[0..1]	[240..1]
TRMD_SHEAM - tRNA (guanine-N(1)-)-methyltransferase OS=Shewanella amazonensis (strain ATCC BAA-1098 / SB2B) GN=tr...	436.0	[0..1]	[246..1]
TRMD_MANSM - tRNA (guanine-N(1)-)-methyltransferase OS=Mannheimia succiniciproducens (strain MBEL55E) GN=trmD PE=...	435.0	[0..1]	[243..1]
TRMD_VIBPA - tRNA (guanine-N(1)-)-methyltransferase OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 221063... gi\|149747883, gi... - gi\|153838723\|ref\|ZP_01991390.1\| tRNA (guanine-N1)-methyltransferase [Vibrio parahaemolyticus AQ3810]... TRMD_VIBPA - tRNA (guanine-N(1)-)-methyltransferase OS=Vibrio parahaemolyticus GN=trmD PE=3 SV=1	435.0	[0..1]	[243..1]
gi\|90438671, gi\|... - gi\|90580369\|ref\|ZP_01236176.1\| tRNA (guanine-N(1)-)-methyltransferase [Vibrio angustum S14], gi\|9043...	435.0	[0..1]	[243..1]
TRMD_VIBCB - tRNA (guanine-N(1)-)-methyltransferase OS=Vibrio campbellii (strain ATCC BAA-1116 / BB120) GN=trmD P... gi\|148865852, gi... - gi\|153835828\|ref\|ZP_01988495.1\| tRNA (guanine-N1)-methyltransferase [Vibrio harveyi HY01], gi\|148865... gi\|75854259, gi\|... - gi\|75854259\|ref\|ZP_00761964.1\| COG0336: tRNA-(guanine-N1)-methyltransferase [Vibrio sp. Ex25], gi\|25...	435.0	[0..1]	[243..1]
gi\|91228775, gi\|... - gi\|91228775\|ref\|ZP_01262685.1\| tRNA (guanine-N(1)-)-methyltransferase [Vibrio alginolyticus 12G01], ...	435.0	[0..1]	[243..1]
gi\|89075047, gi\|... - gi\|89075047\|ref\|ZP_01161488.1\| tRNA (guanine-N(1)-)-methyltransferase [Photobacterium sp. SKA34], gi...	433.0	[0..1]	[243..1]

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Predicted Domain #1

Region A:
Residues: [1-248]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MWLGVITLFP EMFRAVTDFG VTGRAVKNGL LELHTWNPRD FTHDRHSTVD DRPYGGGPGM  60
   61 LMMVQPLRDA IHAARAAAGE DAKVIYLSPQ GRKLDQQGVT ELAKSSRLIL VCGRYEGIDE 120
  121 RIIQTEVDEE WSVGDYVLSG GELPAMTMID AVSRLVPGVL GKQASAEQDS FSDGLLDCPH 180
  181 YTRPESLDGL DVPAVLLSGN HEQIRLWRLQ QSLGRTLLRR PELLQNLALT DEQSTLLAQF 240
  241 VEAMDKNA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	119.0
Match:	1uajA
Description:	tRNA(m1G37)-methyltransferase TrmD
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
RNA methyltransferase activity	4.77771076540343	bayes_pls_golite062009
methyltransferase activity	4.0901595540349	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	4.01958090893547	bayes_pls_golite062009
tRNA methyltransferase activity	3.35439517507384	bayes_pls_golite062009
tRNA (guanine) methyltransferase activity	3.10060782124076	bayes_pls_golite062009
tRNA (guanine-N1-)-methyltransferase activity	2.87460031907348	bayes_pls_golite062009
S-adenosylmethionine-dependent methyltransferase activity	2.59156540645412	bayes_pls_golite062009
rRNA methyltransferase activity	1.86192852581774	bayes_pls_golite062009
transferase activity	1.84002196534744	bayes_pls_golite062009
catalytic activity	1.16774040077235	bayes_pls_golite062009
N-methyltransferase activity	0.0655574594365502	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: