YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|190407085
Organism:	Saccharomyces cerevisiae RM11-1a
Length:	320 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|190407085.

Description	E-value	Query Range	Subject Range
MRM2_YEAST - rRNA methyltransferase 2, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=... MRM2 - Mitochondrial 2' O-ribose methyltransferase, required for methylation of U(2791) in 21S rRNA; MRM2 d... gi\|190407085 - gi\|190407085\|gb\|EDV10352.1\| 2'O-ribose methyltransferase [Saccharomyces cerevisiae RM11-1a]	2.0E-81	[1..320]	[1..320]
FTSJ1 - FtsJ homolog 1 (E. coli)	1.0E-46	[33..229]	[5..195]
sp\|B7UJ72\|RLME_ECO27 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC)... RRMJ_ECOLI - Ribosomal RNA large subunit methyltransferase J (EC 2.1.1.-) (rRNA (uridine-2'-O-)-methyltransferase... RLME_SHIFL - Ribosomal RNA large subunit methyltransferase E OS=Shigella flexneri GN=rlmE PE=3 SV=1 gi\|24053650, gi\|... - gi\|24114468\|ref\|NP_708978.1\| 23S rRNA methyltransferase J [Shigella flexneri 2a str. 301], gi\|240536... RLME_ECOL6 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 7009... gi\|30042776, gi\|... - gi\|30064517\|ref\|NP_838688.1\| 23S rRNA methyltransferase J [Shigella flexneri 2a str. 2457T], gi\|3004... RLME_ECO57 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O157:H7 GN=rlmE PE=3 SV=1 EG11507 - 23S rRNA U2552 2'-O-ribose methyltransferase, SAM-dependent / 23S rRNA U2552 2'-O-ribose methyltrans... gi\|12517791, gi\|... - gi\|15803719\|ref\|NP_289753.1\| 23S rRNA methyltransferase J [Escherichia coli O157:H7 EDL933], gi\|1251... RLME_ECOLU - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExP... gi\|227887900, gi... - gi\|227887900\|ref\|ZP_04005705.1\| 23S rRNA methyltransferase J [Escherichia coli 83972], gi\|227835296\|... gi\|237706069, gi... - gi\|237706069\|ref\|ZP_04536550.1\| ribosomal RNA large subunit methyltransferase J [Escherichia sp. 3_2... RLME_ECOBW - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli (strain K12 / MC4100 / BW2952) G... gi\|251786449, gi... - gi\|251786449\|ref\|YP_003000753.1\| hypothetical protein B21_02995 [Escherichia coli BL21], gi\|24237872... gi\|253771987, gi... - gi\|254289871\|ref\|YP_003055619.1\| 23S rRNA methyltransferase [Escherichia coli BL21(DE3)], gi\|2539791... gi\|226839968, gi... - gi\|254038344\|ref\|ZP_04872402.1\| ribosomal RNA large subunit methyltransferase J [Escherichia sp. 1_1... gi\|253975022, gi... - gi\|254163121\|ref\|YP_003046229.1\| 23S rRNA methyltransferase [Escherichia coli B str. REL606], gi\|253... gi\|254594528, gi... - gi\|254795128\|ref\|YP_003079965.1\| 23S rRNA methyltransferase [Escherichia coli O157:H7 str. TW14359],... gi\|168754160, gi... - gi\|189358551\|gb\|EDU76970.1\| ribosomal RNA large subunit methyltransferase J [Escherichia coli O157:H... gi\|189001103, gi... - gi\|189001103\|gb\|EDU70089.1\| ribosomal RNA large subunit methyltransferase J [Escherichia coli O157:H... gi\|189364840, gi... - gi\|189364840\|gb\|EDU83256.1\| ribosomal RNA large subunit methyltransferase J [Escherichia coli O157:H... RLME_ECOK1 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O1:K1 / APEC GN=rlmE PE=3 SV=1 RLME_ECODH - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli (strain K12 / DH10B) GN=rlmE PE=... gi\|189373884, gi... - gi\|189373884\|gb\|EDU92300.1\| ribosomal RNA large subunit methyltransferase J [Escherichia coli O157:H... RLME_CITK8 - Ribosomal RNA large subunit methyltransferase E OS=Citrobacter koseri (strain ATCC BAA-895 / CDC 422... gi\|190901915, gi... - gi\|75228764\|ref\|ZP_00715373.1\| COG0293: 23S rRNA methylase [Escherichia coli B7A], gi\|191168046\|ref\|... gi\|217327701, gi... - gi\|217327701\|ref\|ZP_03443784.1\| ribosomal RNA large subunit methyltransferase J [Escherichia coli O1... gi\|190907511, gi... - gi\|75240798\|ref\|ZP_00724696.1\| COG0293: 23S rRNA methylase [Escherichia coli F11], gi\|191172201\|ref\|... RLME_ECO27 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC)... RLME_ECOHS - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O9:H4 (strain HS) GN=rlmE PE=3 S... RLME_ECO8A - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O8 (strain IAI1) GN=rlmE PE=3 SV... gi\|75208503, gi\|... - gi\|75208503\|ref\|ZP_00708823.1\| COG0293: 23S rRNA methylase [Escherichia coli B171], gi\|194430230\|ref... RLME_ESCF3 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia fergusonii (strain ATCC 35469 / DSM 1... RLME_ECOL6, RRMJ... - Ribosomal RNA large subunit methyltransferase J OS=Escherichia coli O6 GN=rrmJ PE=3 SV=1, Ribosomal ... RLME_SHIBS - Ribosomal RNA large subunit methyltransferase E OS=Shigella boydii serotype 4 (strain Sb227) GN=rlmE... RLME_ECO81 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O81 (strain ED1a) GN=rlmE PE=3 S... gi\|146027, gi\|89... - gi\|89109942\|ref\|AP_003722.1\| 23S rRNA methyltransferase [Escherichia coli str. K-12 substr. W3110], ... RLME_ECO45 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=r... gi\|188494253, gi... - gi\|75510976\|ref\|ZP_00733735.1\| COG0293: 23S rRNA methylase [Escherichia coli 53638], gi\|188494253\|re... RLME_ECO7I - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=... RLME_SHISS - Ribosomal RNA large subunit methyltransferase E OS=Shigella sonnei (strain Ss046) GN=rlmE PE=3 SV=1 RLME_ECO55 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli (strain 55989 / EAEC) GN=rlmE PE... gi\|13363531, gi\|... - gi\|15833312\|ref\|NP_312085.1\| 23S rRNA methyltransferase J [Escherichia coli O157:H7 str. Sakai], gi\|... RLME_ECOLC - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / C... RLME_SHIB3 - Ribosomal RNA large subunit methyltransferase E OS=Shigella boydii serotype 18 (strain CDC 3083-94 /... RLME_ECOL5 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) G... RLME_ECOSM - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=rlmE... RLME_SHIF8 - Ribosomal RNA large subunit methyltransferase E OS=Shigella flexneri serotype 5b (strain 8401) GN=rl... gi\|208727671, gi... - gi\|208807870\|ref\|ZP_03250207.1\| ribosomal RNA large subunit methyltransferase J [Escherichia coli O1... EG11507 - 23S rRNA U2552 2'-O-ribose methyltransferase, SAM-dependent / 23S rRNA U2552 2'-O-ribose methyltrans... gi\|195938398 - gi\|195938398\|ref\|ZP_03083780.1\| 23S rRNA methyltransferase J [Escherichia coli O157:H7 str. EC4024] gi\|208740393, gi... - gi\|208820270\|ref\|ZP_03260590.1\| ribosomal RNA large subunit methyltransferase J [Escherichia coli O1... RLME_ECO24 - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O139:H28 (strain E24377A / ETEC)... gi\|208812489, gi... - gi\|208812489\|ref\|ZP_03253818.1\| ribosomal RNA large subunit methyltransferase J [Escherichia coli O1... RLME_ECOSE - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli (strain SE11) GN=rlmE PE=3 SV=1 RLME_ECOUT - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli (strain UTI89 / UPEC) GN=rlmE PE... RLME_ECO5E - Ribosomal RNA large subunit methyltransferase E OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) G...	4.0E-46	[19..223]	[1..197]
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...	5.0E-46	[19..223]	[1..197]
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	6.0E-46	[19..223]	[1..197]
RLME_PSEAB - Ribosomal RNA large subunit methyltransferase E OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=rlm... RLME_PSEAE - Ribosomal RNA large subunit methyltransferase E OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 ... RLME_PSEAE, RRMJ... - Ribosomal RNA large subunit methyltransferase J OS=Pseudomonas aeruginosa GN=rrmJ PE=3 SV=2, Ribosom... RLME_PSEA8 - Ribosomal RNA large subunit methyltransferase E OS=Pseudomonas aeruginosa (strain LESB58) GN=rlmE PE...	3.0E-45	[24..223]	[3..194]
gi\|229899719, gi... - gi\|229899719\|ref\|ZP_04514860.1\| 23S rRNA methyltransferase [Yersinia pestis biovar Orientalis str. I... gi\|229896644, gi... - gi\|229896644\|ref\|ZP_04511811.1\| 23S rRNA methyltransferase [Yersinia pestis Pestoides A], gi\|2297004... gi\|89104073 - gi\|89104073\|ref\|ZP_01176627.1\| COG0293: 23S rRNA methylase [Yersinia pestis biovar Orientalis str. I... gi\|229695521, gi... - gi\|229839155\|ref\|ZP_04459314.1\| 23S rRNA methyltransferase [Yersinia pestis biovar Orientalis str. P... RLME_YERPA - Ribosomal RNA large subunit methyltransferase E OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=r... RLME_YERPP - Ribosomal RNA large subunit methyltransferase E OS=Yersinia pestis (strain Pestoides F) GN=rlmE PE=3... RRMJ_YERPS, RLME... - Ribosomal RNA large subunit methyltransferase J OS=Yersinia pseudotuberculosis GN=rrmJ PE=3 SV=1, Ri... gi\|77634745 - gi\|77634745\|ref\|ZP_00796839.1\| COG0293: 23S rRNA methylase [Yersinia pestis Angola] RLME_YERP3 - Ribosomal RNA large subunit methyltransferase E OS=Yersinia pseudotuberculosis serotype O:1b (strain... gi\|161484877 - gi\|161484877\|ref\|NP_668018.2\| 23S rRNA methyltransferase J [Yersinia pestis KIM] gi\|161511441 - gi\|161511441\|ref\|NP_991973.2\| 23S rRNA methyltransferase J [Yersinia pestis biovar Microtus str. 910... RLME_YERPN - Ribosomal RNA large subunit methyltransferase E OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=... RLME_YERPY - Ribosomal RNA large subunit methyltransferase E OS=Yersinia pseudotuberculosis serotype O:3 (strain ... RLME_YERPB - Ribosomal RNA large subunit methyltransferase E OS=Yersinia pseudotuberculosis serotype IB (strain P... RLME_YERPE - Ribosomal RNA large subunit methyltransferase E OS=Yersinia pestis GN=rlmE PE=3 SV=1 gi\|153997280, gi... - gi\|153997280\|ref\|ZP_02022380.1\| ribosomal RNA large subunit methyltransferase J [Yersinia pestis CA8... gi\|16123649, gi\|... - gi\|218930517\|ref\|YP_002348392.1\| 23S rRNA methyltransferase J [Yersinia pestis CO92], gi\|16123649\|re... RLME_YERPS - Ribosomal RNA large subunit methyltransferase E OS=Yersinia pseudotuberculosis serotype I (strain IP...	2.0E-44	[19..223]	[1..197]
RRMJ_PASMU, RLME... - Ribosomal RNA large subunit methyltransferase J OS=Pasteurella multocida GN=rrmJ PE=3 SV=1, Ribosoma... RLME_PASMU - Ribosomal RNA large subunit methyltransferase E OS=Pasteurella multocida (strain Pm70) GN=rlmE PE=3 ...	9.0E-44	[19..223]	[1..197]

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Predicted Domain #1

Region A:
Residues: [1-226]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MILVYNRIRS IISSSLGRIH VRYNSNSQNR WLNRQLKDPY TKEAKVQNLR SRAAFKLMQI  60
   61 DDKYRLFSKN RTDQRILDLG YAPGAWSQVA RQRSSPNSMI LGVDILPCEP PHGVNSIQAN 120
  121 ILAKRTHDLI RLFFSKHFQL NRHDDLHKDH GYFQNMLEEE LTHVKDTELY REIFTSDDIY 180
  181 ETPNTNSTLI EREKFPVDVI ISDMYEPWPQ TTGFWNNITN QAYFRM

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	110.201249
Match:	1eizA_
Description:	RNA methyltransferase FtsJ
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [227-320]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ANTSGVSIRD HYQSIDLCDA ALVTAIDLLR PLGSFVCKLY TGEEENLFKK RMQAVFTNVH  60
   61 KFKPDASRDE SKETYYIGLK KKRNVDKLDV FSNS

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	13.02
Match:	1eizA
Description:	RNA methyltransferase FtsJ
Matching Structure (courtesy of the PDB):

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