YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39982541, 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|39982541, gi|....

Description	E-value	Query Range	Subject Range
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)	278.0	[0..2]	[281..5]
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	273.0	[0..4]	[283..6]
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...	273.0	[0..2]	[281..4]
gi\|20807974, gi\|... - gi\|20807974\|ref\|NP_623145.1\| pseudouridylate synthase, 23S RNA-specific [Thermoanaerobacter tengcong... gi\|20807974 - gi\|20807974\|ref\|NP_623145.1\| Pseudouridylate synthase, 23S RNA-specific [Thermoanaerobacter tengcong...	272.0	[0..8]	[286..13]
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	272.0	[0..4]	[283..6]
gi\|90961803, gi\|... - gi\|90961803\|ref\|YP_535719.1\| ribosomal large subunit pseudouridine synthase D [Lactobacillus salivar...	271.0	[0..1]	[282..1]
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...	271.0	[0..1]	[281..4]
gi\|48858431, gi\|... - gi\|67916216\|ref\|ZP_00509934.1\| Pseudouridine synthase, RluD [Clostridium thermocellum ATCC 27405], g... gi\|196253292, gi... - gi\|196253292\|ref\|ZP_03151926.1\| pseudouridine synthase, RluA family [Clostridium thermocellum DSM 41...	270.0	[0..1]	[281..1]
gi\|47570307, gi\|... - gi\|47570307\|ref\|ZP_00240954.1\| ribosomal large subunit pseudouridine synthase D [Bacillus cereus G92...	268.0	[0..1]	[281..4]
gi\|228987037, gi... - gi\|228987037\|ref\|ZP_04147162.1\| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringien... gi\|228625921, gi... - gi\|229157471\|ref\|ZP_04285548.1\| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus ATC... gi\|51975065, gi\|... - gi\|52141596\|ref\|YP_085233.1\| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus E33L...	267.0	[0..1]	[281..4]

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Predicted Domain #1

Region A:
Residues: [1-296]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLTYQITDID HCRSAESFLR NLLPAAPSAY IRKLISAGHL KINGGAVAPD TLLAAGNTAT  60
   61 IKESDRTRQL LAAAKPQLDI LWEDDYCVIV NKPAGLPVHR TAEAGEANLV ELAEHFMAGR 120
  121 GTAVKLRPVN RLDRGTSGAT ILAKSSSSAG MLGRYVKEEG LDKLYLAVTD GSLPDAGTID 180
  181 TPLDGKDAHT DFRTLARDTA VSFALVIPIS GRMHQIRKHL SAIGHPVRGD RRYRGTLLTG 240
  241 YPGHLLHAFR VALIHPVTGR KLIVHAPLPP AFIQYLPTGA PLVWHDLLRE IASRPD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	67.0
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: