YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39996562, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	245 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 gi|39996562, gi|....

Description	E-value	Query Range	Subject Range
gi\|25316695 - pir\|\|A83664 tRNA/rRNA methyltransferase BH0113 [imported] - Bacillus halodurans (strain C-125) gi\|15612676, gi\|... - gi\|15612676\|ref\|NP_240979.1\| tRNA/rRNA methyltransferase [Bacillus halodurans C-125], gi\|10172725\|db...	279.0	[0..1]	[243..1]
gi\|106895728, gi... - gi\|158319524\|ref\|YP_001512031.1\| RNA methyltransferase [Alkaliphilus oremlandii OhILAs], gi\|15813972...	267.0	[0..1]	[243..1]
gi\|28212189, gi\|... - gi\|28212189\|ref\|NP_783133.1\| 23S rRNA methyltransferase [Clostridium tetani E88], gi\|28204633\|gb\|AAO...	263.0	[0..1]	[244..1]
gi\|48859457, gi\|... - gi\|67875040\|ref\|ZP_00504559.1\| RNA methyltransferase TrmH, group 3 [Clostridium thermocellum ATCC 27... gi\|196198671, gi... - gi\|196251913\|ref\|ZP_03150578.1\| RNA methyltransferase, TrmH family, group 3 [Clostridium thermocellu...	263.0	[0..4]	[243..36]
gi\|25316722 - pir\|\|H97287 rRNA methylase, YACO B. subtilis ortholog [imported] - Clostridium acetobutylicum gi\|15026220, gi\|... - gi\|15896402\|ref\|NP_349751.1\| rRNA methylase [Clostridium acetobutylicum ATCC 824], gi\|15026220\|gb\|AA...	263.0	[0..2]	[244..6]
gi\|164711125, gi... - gi\|165873145\|ref\|ZP_02217761.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|47569826, gi\|... - gi\|47569826\|ref\|ZP_00240496.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus cereus G9241], ... gi\|221237910, gi... - gi\|222093862\|ref\|YP_002527912.1\| tRNA/rRNA methyltransferase (SpoU); probable TrmH family [Bacillus ... gi\|225787673, gi... - gi\|225862144\|ref\|YP_002747522.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus cereus 03BB10... gi\|218539078, gi... - gi\|218901294\|ref\|YP_002449128.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus cereus AH820]... gi\|227007212, gi... - gi\|227812765\|ref\|YP_002812774.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str... gi\|229269066, gi... - gi\|229604658\|ref\|YP_002864743.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str... gi\|254684405 - gi\|254684405\|ref\|ZP_05148265.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|254724232 - gi\|254724232\|ref\|ZP_05186017.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|118475862, gi... - gi\|118475862\|ref\|YP_893013.1\| tRNA/rRNA methyltransferase [Bacillus thuringiensis str. Al Hakam], gi... gi\|254733754 - gi\|254733754\|ref\|ZP_05191469.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|254744606 - gi\|254744606\|ref\|ZP_05202285.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|254756310 - gi\|254756310\|ref\|ZP_05208339.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|167641947, gi... - gi\|167641947\|ref\|ZP_02400182.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|254758388 - gi\|254758388\|ref\|ZP_05210415.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|167635112, gi... - gi\|167635112\|ref\|ZP_02393429.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|170127585, gi... - gi\|170707589\|ref\|ZP_02898042.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|170689565, gi... - gi\|170689565\|ref\|ZP_02880751.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|190568999, gi... - gi\|190568999\|ref\|ZP_03021900.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis Tsia... gi\|177655588, gi... - gi\|177655588\|ref\|ZP_02936969.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus anthracis str.... gi\|217065144, gi... - gi\|217957667\|ref\|YP_002336211.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus cereus AH187]... gi\|196036983, gi... - gi\|196036983\|ref\|ZP_03104350.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus cereus W], gi\|... gi\|51978595, gi\|... - gi\|52145126\|ref\|YP_081703.1\| TrmH family tRNA methyltransferase [Bacillus cereus E33L], gi\|51978595\|... gi\|49183125, gi\|... - gi\|49183125\|ref\|YP_026377.1\| RNA methyltransferase [Bacillus anthracis str. Sterne], gi\|49177052\|gb\|... gi\|49328266, gi\|... - gi\|49476710\|ref\|YP_034444.1\| tRNA/rRNA methyltransferase SpoU [Bacillus thuringiensis serovar konkuk... gi\|42779172, gi\|... - gi\|42779172\|ref\|NP_976419.1\| RNA methyltransferase [Bacillus cereus ATCC 10987], gi\|42735087\|gb\|AAS3... gi\|47525346, gi\|... - gi\|47525346\|ref\|YP_016695.1\| RNA methyltransferase [Bacillus anthracis str. 'Ames Ancestor'], gi\|475... gi\|65317552, gi\|... - gi\|65317552\|ref\|ZP_00390511.1\| COG0566: rRNA methylases [Bacillus anthracis str. A2012], ref\|NP_6540... gi\|30253603, gi\|... - gi\|30260282\|ref\|NP_842659.1\| RNA methyltransferase [Bacillus anthracis str. Ames], gi\|30253603\|gb\|AA...	262.0	[0..1]	[243..1]
gi\|7469455 - pir\|\|S76163 hypothetical protein - Synechocystis sp. (strain PCC 6803) Y955_SYNY3 - Uncharacterized tRNA/rRNA methyltransferase slr0955 OS=Synechocystis sp. (strain ATCC 27184 / PCC 68... Y955_SYNY3 - Uncharacterized tRNA/rRNA methyltransferase slr0955 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) ...	262.0	[0..4]	[243..124]
gi\|152973939, gi... - gi\|89203255\|ref\|ZP_01181941.1\| RNA methyltransferase TrmH, group 3 [Bacillus cereus subsp. cytotoxis...	261.0	[0..1]	[243..1]
gi\|206732774, gi... - gi\|206972200\|ref\|ZP_03233147.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus cereus AH1134]... gi\|218160251, gi... - gi\|218232294\|ref\|YP_002364941.1\| RNA methyltransferase, TrmH family, group 3 [Bacillus cereus B4264]... gi\|30018362, gi\|... - gi\|30018362\|ref\|NP_829993.1\| 23S rRNA methyltransferase [Bacillus cereus ATCC 14579], gi\|29893902\|gb...	261.0	[0..1]	[243..1]
gi\|86558795, gi\|... - gi\|86610253\|ref\|YP_479015.1\| RNA methyltransferase [Synechococcus sp. JA-2-3B'a(2-13)], gi\|86558795\|... gi\|86610253 - gi\|86610253\|ref\|YP_479015.1\| RNA methyltransferase, TrmH family, group 3 [Cyanobacteria bacterium Ye...	261.0	[0..1]	[243..103]

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Predicted Domain #1

Region A:
Residues: [1-245]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKEEILYGIN SVMEALRGSR RAFELFVSRE THDRRTEKLL AFAAERGVPV RTRDKRDLAR  60
   61 LCGTDHHQGV ALRVEGFAYA ALEDIIASWQ SSGEPGLILV LDGIQDPHNL GALIRSAACA 120
  121 GAHGVIIPRD RAAGVTASVE KISAGATETI PVAQVTNVVQ ALETLKEEGF WAFGTADSAA 180
  181 SSLYSHDLTG NVVIVIGGEG EGVRPLVRKK CDFLVAIPLK GGVSSLNASV AGGVVLFEVV 240
  241 RQRLS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	66.39794
Match:	1gz0A
Description:	RlmB, C-terminal domain; RlmB, N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
RNA methyltransferase activity	4.23455016472464	bayes_pls_golite062009
methyltransferase activity	3.59960278169345	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	3.51722801996622	bayes_pls_golite062009
rRNA methyltransferase activity	3.14976989427746	bayes_pls_golite062009
tRNA methyltransferase activity	2.33123191403389	bayes_pls_golite062009
S-adenosylmethionine-dependent methyltransferase activity	2.23755555119187	bayes_pls_golite062009
tRNA (guanine) methyltransferase activity	2.14623472760939	bayes_pls_golite062009
transferase activity	1.63934797352054	bayes_pls_golite062009
structural constituent of ribosome	1.0137045454994	bayes_pls_golite062009
catalytic activity	0.797300463760338	bayes_pls_golite062009
N-methyltransferase activity	0.736216022000293	bayes_pls_golite062009
structural molecule activity	0.694233763389628	bayes_pls_golite062009
binding	0.650146274744039	bayes_pls_golite062009
nucleic acid binding	0.404179021204849	bayes_pls_golite062009
rRNA (guanine) methyltransferase activity	0.319046095835882	bayes_pls_golite062009
	0.16936231012632	bayes_pls_golite062009
snoRNA binding	0.155192244522672	bayes_pls_golite062009
protein binding	0.031057919963412	bayes_pls_golite062009
rRNA (guanine-N1-)-methyltransferase activity	6.26422903788337E-4	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: