YRC Public Data Repository - Protein Structure Prediction

Protein:	RRMJ_ECOLI
Organism:	Escherichia coli
Length:	209 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 RRMJ_ECOLI.

Description	E-value	Query Range	Subject Range
RLME_VIBF1 - Ribosomal RNA large subunit methyltransferase E OS=Vibrio fischeri (strain ATCC 700601 / ES114) GN=r...	225.0	[0..1]	[208..1]
RLME_SHEAM - Ribosomal RNA large subunit methyltransferase E OS=Shewanella amazonensis (strain ATCC BAA-1098 / SB...	224.0	[0..1]	[208..1]
gi\|88860503, gi\|... - gi\|88860503\|ref\|ZP_01135141.1\| ribosomal RNA large subunit methyltransferase J [Pseudoalteromonas tu...	224.0	[0..1]	[208..1]
gi\|90580530, gi\|... - gi\|90580530\|ref\|ZP_01236335.1\| 23S rRNA methylase [Vibrio angustum S14], gi\|90438188\|gb\|EAS63374.1\| ... gi\|89072568, gi\|... - gi\|89072568\|ref\|ZP_01159140.1\| 23S rRNA methylase [Photobacterium sp. SKA34], gi\|89051672\|gb\|EAR5712...	223.0	[0..1]	[208..1]
RRMJ_SALPA, RLME... - Ribosomal RNA large subunit methyltransferase J OS=Salmonella paratyphi A GN=rrmJ PE=3 SV=1, Ribosom... RLME_SALPA - Ribosomal RNA large subunit methyltransferase E OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42... RLME_SALPK - Ribosomal RNA large subunit methyltransferase E OS=Salmonella paratyphi A (strain AKU_12601) GN=rlmE...	223.0	[0..1]	[208..1]
RRMJ_SALPB, RLME... - Ribosomal RNA large subunit methyltransferase J OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SP... gi\|195633188, gi... - gi\|195633188\|gb\|EDX51602.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica sub... gi\|168819637, gi... - gi\|205343455\|gb\|EDZ30219.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica sub... RLME_SALNS - Ribosomal RNA large subunit methyltransferase E OS=Salmonella newport (strain SL254) GN=rlmE PE=3 SV... RLME_SALPB - Ribosomal RNA large subunit methyltransferase E OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SP... RLME_SALHS - Ribosomal RNA large subunit methyltransferase E OS=Salmonella heidelberg (strain SL476) GN=rlmE PE=3... gi\|168231905, gi... - gi\|205333841\|gb\|EDZ20605.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica sub... gi\|168237996, gi... - gi\|197289104\|gb\|EDY28473.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica sub... gi\|168243130, gi... - gi\|205337840\|gb\|EDZ24604.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica sub... gi\|205348567, gi... - gi\|205348567\|gb\|EDZ35198.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica sub... RLME_SALTY - Ribosomal RNA large subunit methyltransferase E OS=Salmonella typhimurium (strain LT2 / SGSC1412 / A... gi\|205323210, gi... - gi\|205323210\|gb\|EDZ11049.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica sub... gi\|167995303, gi... - gi\|205327001\|gb\|EDZ13765.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica sub... lcl\|NC_016856.1_... - [gene=rrmJ] [protein=23S rRNA methyltransferase J] [protein_id=YP_005239475.1] [location=complement(... RLME_SALTY - Ribosomal RNA large subunit methyltransferase E OS=Salmonella typhimurium GN=rlmE PE=3 SV=1 RRMJ_SALTY - Ribosomal RNA large subunit methyltransferase J OS=Salmonella typhimurium GN=rrmJ PE=3 SV=1 RLME_SALDC - Ribosomal RNA large subunit methyltransferase E OS=Salmonella dublin (strain CT_02021853) GN=rlmE PE... gi\|200387675, gi... - gi\|200387675\|ref\|ZP_03214287.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica... RLME_SALG2 - Ribosomal RNA large subunit methyltransferase E OS=Salmonella gallinarum (strain 287/91 / NCTC 13346... RLME_SALEP - Ribosomal RNA large subunit methyltransferase E OS=Salmonella enteritidis PT4 (strain P125109) GN=rl... gi\|194457919, gi... - gi\|194471555\|ref\|ZP_03077539.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica... RLME_SALSV - Ribosomal RNA large subunit methyltransferase E OS=Salmonella schwarzengrund (strain CVM19633) GN=rl... RLME_SALA4 - Ribosomal RNA large subunit methyltransferase E OS=Salmonella agona (strain SL483) GN=rlmE PE=3 SV=1 gi\|197244231, gi... - gi\|197265976\|ref\|ZP_03166050.1\| ribosomal RNA large subunit methyltransferase J [Salmonella enterica...	223.0	[0..1]	[208..1]
RLME_SHELP - Ribosomal RNA large subunit methyltransferase E OS=Shewanella loihica (strain ATCC BAA-1088 / PV-4) ...	223.0	[0..1]	[208..1]
RLME_SHEFN - Ribosomal RNA large subunit methyltransferase E OS=Shewanella frigidimarina (strain NCIMB 400) GN=rl...	222.0	[0..1]	[208..1]
gi\|213646996 - gi\|213646996\|ref\|ZP_03377049.1\| 23S rRNA methyltransferase J [Salmonella enterica subsp. enterica se... RRMJ_SALTI - Ribosomal RNA large subunit methyltransferase J OS=Salmonella typhi GN=rrmJ PE=3 SV=1 gi\|213584091 - gi\|213584091\|ref\|ZP_03365917.1\| 23S rRNA methyltransferase J [Salmonella enterica subsp. enterica se... gi\|213425425 - gi\|213425425\|ref\|ZP_03358175.1\| 23S rRNA methyltransferase J [Salmonella enterica subsp. enterica se... gi\|213420316 - gi\|213420316\|ref\|ZP_03353382.1\| 23S rRNA methyltransferase J [Salmonella enterica subsp. enterica se... gi\|214000934 - gi\|214000934\|ref\|ZP_03411669.1\| 23S rRNA methyltransferase J [Salmonella enterica subsp. enterica se... gi\|213974511 - gi\|213974511\|ref\|ZP_03401770.1\| 23S rRNA methyltransferase J [Salmonella enterica subsp. enterica se... gi\|213852787 - gi\|213852787\|ref\|ZP_03382319.1\| 23S rRNA methyltransferase J [Salmonella enterica subsp. enterica se... gi\|29143548, gi\|... - gi\|29143548\|ref\|NP_806890.1\| 23S rRNA methyltransferase J [Salmonella enterica subsp. enterica serov... gi\|213027549 - gi\|213027549\|ref\|ZP_03341996.1\| 23S rRNA methyltransferase J [Salmonella enterica subsp. enterica se... gi\|16762059 - gi\|16762059\|ref\|NP_457676.1\| 23S rRNA methyltransferase J [Salmonella enterica subsp. enterica serov... RLME_SALTI - Ribosomal RNA large subunit methyltransferase E OS=Salmonella typhi GN=rlmE PE=3 SV=1	222.0	[0..1]	[208..1]
RLME_SHIDS - Ribosomal RNA large subunit methyltransferase E OS=Shigella dysenteriae serotype 1 (strain Sd197) GN...	222.0	[0..1]	[209..1]

Back

Predicted Domain #1

Region A:
Residues: [1-209]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTGKKRSASS SRWLQEHFSD KYVQQAQKKG LRSRAWFKLD EIQQSDKLFK PGMTVVDLGA  60
   61 APGGWSQYVV TQIGGKGRII ACDLLPMDPI VGVDFLQGDF RDELVMKALL ERVGDSKVQV 120
  121 VMSDMAPNMS GTPAVDIPRA MYLVELALEM CRDVLAPGGS FVVKVFQGEG FDEYLREIRS 180
  181 LFTKVKVRKP DSSRARSREV YIVATGRKP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	47.69897
Match:	1eizA
Description:	RNA methyltransferase FtsJ
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
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
DNA-methyltransferase activity	1.63765148226572	bayes_pls_golite062009
histone-arginine N-methyltransferase activity	1.63076727020333	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
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
rRNA (guanine-N2-)-methyltransferase activity	0.427131446117391	bayes_pls_golite062009
rRNA (cytosine) methyltransferase activity	0.346042596102079	bayes_pls_golite062009
transcription regulator activity	0.316272167949639	bayes_pls_golite062009
tRNA (cytosine-5-)-methyltransferase activity	0.299393192819978	bayes_pls_golite062009
tRNA (cytosine)-methyltransferase activity	0.299393192819978	bayes_pls_golite062009
DNA binding	0.26945982114479	bayes_pls_golite062009
O-methyltransferase activity	0.250946859465502	bayes_pls_golite062009
rRNA (guanine-N1-)-methyltransferase activity	0.234572322347698	bayes_pls_golite062009
nucleic acid binding	0.0339414270453529	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: