YRC Public Data Repository - Protein Structure Prediction

Protein:	RSMA_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	268 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 RSMA_SHEON.

Description	E-value	Query Range	Subject Range
gi\|84375694, gi\|... - gi\|84393695\|ref\|ZP_00992445.1\| dimethyladenosine transferase [Vibrio splendidus 12B01], gi\|84375694\|...	277.0	[0..1]	[265..1]
gi\|85834110, gi\|... - gi\|86148123\|ref\|ZP_01066423.1\| dimethyladenosine transferase [Vibrio sp. MED222], gi\|85834110\|gb\|EAQ... RSMA_VIBTL - Ribosomal RNA small subunit methyltransferase A OS=Vibrio tasmaniensis (strain LGP32) GN=rsmA PE=3 S...	276.0	[0..1]	[266..1]
gi\|91188760, gi\|... - gi\|91227108\|ref\|ZP_01261592.1\| dimethyladenosine transferase [Vibrio alginolyticus 12G01], gi\|911887... gi\|194539151, gi... - gi\|75854655\|ref\|ZP_00762334.1\| COG0030: Dimethyladenosine transferase (rRNA methylation) [Vibrio sp....	273.0	[0..1]	[265..1]
RSMA_PHOLL, KSGA... - Ribosomal RNA small subunit methyltransferase A OS=Photorhabdus luminescens subsp. laumondii GN=rsmA... RSMA_PHOLL - Ribosomal RNA small subunit methyltransferase A OS=Photorhabdus luminescens subsp. laumondii (strain...	273.0	[0..1]	[266..1]
RSMA_VIBPA - Ribosomal RNA small subunit methyltransferase A OS=Vibrio parahaemolyticus serotype O3:K6 (strain RI... gi\|149747565, gi... - gi\|153838977\|ref\|ZP_01991644.1\| dimethyladenosine transferase [Vibrio parahaemolyticus AQ3810], gi\|1... KSGA_VIBPA, RSMA... - Ribosomal RNA small subunit methyltransferase A OS=Vibrio parahaemolyticus GN=rsmA PE=3 SV=1, Dimeth...	273.0	[0..1]	[265..1]
KSGA_VIBCH, RSMA... - Ribosomal RNA small subunit methyltransferase A OS=Vibrio cholerae GN=rsmA PE=3 SV=2, Dimethyladenos... RSMA_VIBCH - Ribosomal RNA small subunit methyltransferase A OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / ... gi\|229507082, gi... - gi\|229507082\|ref\|ZP_04396588.1\| dimethyladenosine transferase [Vibrio cholerae BX 330286], gi\|229355... gi\|229354166, gi... - gi\|229508763\|ref\|ZP_04398255.1\| dimethyladenosine transferase [Vibrio cholerae B33], gi\|229354166\|gb... gi\|229512627, gi... - gi\|229512627\|ref\|ZP_04402096.1\| dimethyladenosine transferase [Vibrio cholerae TMA 21], gi\|229350304... gi\|229519750, gi... - gi\|229519750\|ref\|ZP_04409193.1\| dimethyladenosine transferase [Vibrio cholerae RC9], gi\|229344439\|gb... gi\|229519987, gi... - gi\|229519987\|ref\|ZP_04409416.1\| dimethyladenosine transferase [Vibrio cholerae TM 11079-80], gi\|2293... gi\|229338717, gi... - gi\|229525136\|ref\|ZP_04414541.1\| dimethyladenosine transferase [Vibrio cholerae bv. albensis VL426], ... gi\|229530287, gi... - gi\|229530287\|ref\|ZP_04419675.1\| dimethyladenosine transferase [Vibrio cholerae 12129(1)], gi\|2293320... gi\|229368917, gi... - gi\|229606262\|ref\|YP_002876910.1\| dimethyladenosine transferase [Vibrio cholerae MJ-1236], gi\|2293689... gi\|254850674, gi... - gi\|254850674\|ref\|ZP_05240024.1\| dimethyladenosine transferase [Vibrio cholerae MO10], gi\|254846379\|g... RSMA_VIBC3 - Ribosomal RNA small subunit methyltransferase A OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / ... gi\|121591750, gi... - gi\|121591750\|ref\|ZP_01678961.1\| dimethyladenosine transferase [Vibrio cholerae 2740-80], gi\|12154638... gi\|75814191 - gi\|75814191\|ref\|ZP_00744817.1\| COG0030: Dimethyladenosine transferase (rRNA methylation) [Vibrio cho... gi\|153217221, gi... - gi\|153217221\|ref\|ZP_01950985.1\| dimethyladenosine transferase [Vibrio cholerae 1587], gi\|124113744\|g... gi\|153224715, gi... - gi\|153224715\|ref\|ZP_01954560.1\| dimethyladenosine transferase [Vibrio cholerae MAK 757], gi\|12411750... gi\|124120912, gi... - gi\|153803545\|ref\|ZP_01958131.1\| dimethyladenosine transferase [Vibrio cholerae MZO-3], gi\|124120912\|... gi\|126509241, gi... - gi\|153820212\|ref\|ZP_01972879.1\| dimethyladenosine transferase [Vibrio cholerae NCTC 8457], gi\|126509...	272.0	[0..1]	[263..1]
gi\|148873688, gi... - gi\|153830829\|ref\|ZP_01983496.1\| dimethyladenosine transferase [Vibrio cholerae 623-39], gi\|148873688... gi\|9654867, gi\|1... - gi\|9654867\|gb\|AAF93616.1\| dimethyladenosine transferase [Vibrio cholerae O1 biovar El Tor str. N1696... gi\|11256758 - gi\|11256758\|pir\|\|B82323 dimethyladenosine transferase VC0443 [imported] - Vibrio cholerae (strain N1... gi\|227080654, gi... - gi\|227080654\|ref\|YP_002809205.1\| dimethyladenosine transferase [Vibrio cholerae M66-2], gi\|227008542... gi\|121729955, gi... - gi\|121729955\|ref\|ZP_01682375.1\| dimethyladenosine transferase [Vibrio cholerae V52], gi\|121628295\|gb... gi\|227116847, gi... - gi\|227116847\|ref\|YP_002818743.1\| dimethyladenosine transferase [Vibrio cholerae O395], gi\|227012297\|... gi\|197750445, gi... - gi\|254292213\|ref\|ZP_04962980.1\| dimethyladenosine transferase [Vibrio cholerae AM-19226], gi\|1977504...	272.0	[0..1]	[263..12]
RSMA_VIBVU, KSGA... - Ribosomal RNA small subunit methyltransferase A OS=Vibrio vulnificus GN=rsmA PE=3 SV=1, Dimethyladen... RSMA_VIBVY - Ribosomal RNA small subunit methyltransferase A OS=Vibrio vulnificus (strain YJ016) GN=rsmA PE=3 SV=... RSMA_VIBVU - Ribosomal RNA small subunit methyltransferase A OS=Vibrio vulnificus (strain CMCP6) GN=rsmA PE=3 SV=...	269.0	[0..1]	[263..1]
RSMA_SHESR - Ribosomal RNA small subunit methyltransferase A OS=Shewanella sp. (strain MR-7) GN=rsmA PE=3 SV=1	269.0	[0..1]	[268..1]
RSMA_SHESM - Ribosomal RNA small subunit methyltransferase A OS=Shewanella sp. (strain MR-4) GN=rsmA PE=3 SV=1	267.0	[0..1]	[268..1]

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Predicted Domain #1

Region A:
Residues: [1-268]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSKVHLGHT ARKRFGQNFL TDDNVINRIV GAIAPDNDHV MVEIGPGLGA LTEPVATAID  60
   61 NLTVVELDRD LVERLQNHPV LKDKLTIHQG DALQFDFSQL VVPGKKLKVF GNLPYNISTP 120
  121 LMFHLFEFAE QIETMHFMLQ KEVVLRLSAS PGTKAYGRLT VMAQYFCQVV PVLEVPPHSF 180
  181 APPPKVDSAV VRLLPYAEKP FPCKDVNVLR QLCTTAFNMR RKTLRNNLKQ VLSDEEFEQL 240
  241 GIDQNLRPEQ ISVEQYVAMA NMVCDKQA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	60.522879
Match:	1qyrA
Description:	2.1 Angstrom Crystal structure of KsgA: A Universally Conserved Adenosine Dimethyltransferase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
methyltransferase activity	4.15445027778357	bayes_pls_golite062009
rRNA methyltransferase activity	4.09362182773099	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	4.07153733729662	bayes_pls_golite062009
N-methyltransferase activity	3.67177992319602	bayes_pls_golite062009
protein methyltransferase activity	3.5512266163483	bayes_pls_golite062009
S-adenosylmethionine-dependent methyltransferase activity	3.39429041855776	bayes_pls_golite062009
RNA methyltransferase activity	3.07428840534971	bayes_pls_golite062009
histone methyltransferase activity	2.49492581548369	bayes_pls_golite062009
transferase activity	2.22303238506686	bayes_pls_golite062009
DNA-methyltransferase activity	2.14498896320526	bayes_pls_golite062009
protein-arginine N-methyltransferase activity	2.06652984530965	bayes_pls_golite062009
arginine N-methyltransferase activity	2.06652984530965	bayes_pls_golite062009
rRNA (adenine) methyltransferase activity	1.83964463328968	bayes_pls_golite062009
rRNA (adenine-N6,N6-)-dimethyltransferase activity	1.75675289134467	bayes_pls_golite062009
histone-arginine N-methyltransferase activity	1.63076727020333	bayes_pls_golite062009
transcription regulator activity	1.42049721553167	bayes_pls_golite062009
protein-arginine omega-N monomethyltransferase activity	1.26493190370687	bayes_pls_golite062009
catalytic activity	1.25333584501255	bayes_pls_golite062009
tRNA methyltransferase activity	1.12859857407629	bayes_pls_golite062009
rRNA (guanine) methyltransferase activity	1.10713374933008	bayes_pls_golite062009
DNA binding	1.03011331296251	bayes_pls_golite062009
nucleic acid binding	0.731396842794323	bayes_pls_golite062009
histone methyltransferase activity (H4-R3 specific)	0.720411427168235	bayes_pls_golite062009
site-specific DNA-methyltransferase (adenine-specific) activity	0.703178429468566	bayes_pls_golite062009
protein-arginine omega-N asymmetric methyltransferase activity	0.606920378432989	bayes_pls_golite062009
binding	0.546744797014504	bayes_pls_golite062009
mitochondrial transcription initiation factor activity	0.481383105532041	bayes_pls_golite062009
tRNA (cytosine-5-)-methyltransferase activity	0.299393192819978	bayes_pls_golite062009
tRNA (cytosine)-methyltransferase activity	0.299393192819978	bayes_pls_golite062009
rRNA (guanine-N1-)-methyltransferase activity	0.234572322347698	bayes_pls_golite062009
rRNA (uridine-2'-O-)-methyltransferase activity	0.188049877065151	bayes_pls_golite062009
transcription factor binding	0.149382105526243	bayes_pls_golite062009
rRNA (uridine) methyltransferase activity	0.130647573658872	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: