YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39998442, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	296 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|39998442, gi|....

Description	E-value	Query Range	Subject Range
gi\|229330881, gi... - gi\|229498191\|ref\|ZP_04391888.1\| pseudouridine synthase, RluA family [Geobacillus sp. Y412MC52], gi\|2... gi\|56379523, gi\|... - gi\|56419681\|ref\|YP_146999.1\| hypothetical protein GK1146 [Geobacillus kaustophilus HTA426], gi\|56379... gi\|221087579, gi... - gi\|221087579\|ref\|ZP_03557116.1\| pseudouridine synthase, RluA family [Geobacillus sp. Y412MC61], gi\|2...	276.0	[0..4]	[292..5]
gi\|15615105, gi\|... - gi\|15615105\|ref\|NP_243408.1\| hypothetical protein BH2542 [Bacillus halodurans C-125], gi\|10175162\|db... gi\|25322336 - pir\|\|F83967 hypothetical protein BH2542 [imported] - Bacillus halodurans (strain C-125)	274.0	[0..2]	[290..4]
gi\|221322942 - gi\|221322942\|ref\|ZP_03604236.1\| hypothetical protein BsubsS_08522 [Bacillus subtilis subsp. subtilis... gi\|221318669 - gi\|221318669\|ref\|ZP_03599963.1\| hypothetical protein BsubsJ_08416 [Bacillus subtilis subsp. subtilis... gi\|221313745 - gi\|221313745\|ref\|ZP_03595550.1\| hypothetical protein BsubsN3_08482 [Bacillus subtilis subsp. subtili... YLYB_BACSU - Uncharacterized RNA pseudouridine synthase YlyB OS=Bacillus subtilis (strain 168) GN=ylyB PE=3 SV=3 YLYB_BACSU - Uncharacterized RNA pseudouridine synthase ylyB OS=Bacillus subtilis GN=ylyB PE=3 SV=3	271.0	[0..5]	[292..6]
gi\|32468746, gi\|... - gi\|50812225\|ref\|NP_389429.2\| hypothetical protein BSU15460 [Bacillus subtilis subsp. subtilis str. 1... YLYB_BACSU - Uncharacterized RNA pseudouridine synthase ylyB OS=Bacillus subtilis GN=ylyB PE=3 SV=2	270.0	[0..5]	[292..6]
gi\|89086689, gi\|... - gi\|89098727\|ref\|ZP_01171609.1\| ribosomal large subunit pseudouridine synthase D [Bacillus sp. NRRL B...	266.0	[0..2]	[291..3]
gi\|89153591, gi\|... - gi\|89208468\|ref\|ZP_01186973.1\| Pseudouridine synthase, RluD [Bacillus weihenstephanensis KBAB4], gi\|... gi\|228748331, gi... - gi\|229013077\|ref\|ZP_04170242.1\| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides D...	265.0	[0..2]	[291..4]
gi\|47570307, gi\|... - gi\|47570307\|ref\|ZP_00240954.1\| ribosomal large subunit pseudouridine synthase D [Bacillus cereus G92...	264.0	[0..2]	[291..4]
gi\|35210633, gi\|... - gi\|37519642\|ref\|NP_923019.1\| pseudouridine synthase [Gloeobacter violaceus PCC 7421], gi\|35210633\|db...	263.0	[0..3]	[294..9]
gi\|90961803, gi\|... - gi\|90961803\|ref\|YP_535719.1\| ribosomal large subunit pseudouridine synthase D [Lactobacillus salivar...	263.0	[0..5]	[292..4]
gi\|83652895, gi\|... - gi\|83719070\|ref\|YP_442774.1\| ribosomal large subunit pseudouridine synthase D [Burkholderia thailand...	262.0	[0..3]	[296..53]

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Predicted Domain #1

Region A:
Residues: [1-296]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MILTARVGAD QAGVRLDEGA ARLFPQLSKT RIRTIIDWGG CAVGGTMVRV ASRRLQAGDE  60
   61 IVLGVMEPER YREITLAPED ILFEDGGYLA VNKASGLNCQ RTPYQLKGTV EYAVTLHFRA 120
  121 CGSAEPARVI HRLDRGTSGV MIFPASRRAA AHISRELKEG RVEKVYWALV AGMPLADSWQ 180
  181 VDAPVAKVGT SRYGVAPVGK AALTEFRVVA RGNGATLVEA RPRTGRTHQI RVHLAHGGLS 240
  241 IIGDTTYGGI AAPRMMLHCR TMTFRAEDGR PVSATAPPDR EFTAACEQHG IQFGGA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	64.69897
Match:	1qyuA
Description:	Structure of the catalytic domain of 23S rRNA pseudouridine synthase RluD
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
pseudouridine synthase activity	5.60483019625575	bayes_pls_golite062009
intramolecular transferase activity	4.62815459483632	bayes_pls_golite062009
isomerase activity	3.43067391737824	bayes_pls_golite062009
catalytic activity	2.39224964671205	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: