YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39985196, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	250 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|39985196, gi|....

Description	E-value	Query Range	Subject Range
gi\|90961803, gi\|... - gi\|90961803\|ref\|YP_535719.1\| ribosomal large subunit pseudouridine synthase D [Lactobacillus salivar...	235.0	[0..1]	[235..77]
gi\|78044742, gi\|... - gi\|78044742\|ref\|YP_360337.1\| ribosomal large subunit pseudouridine synthase A [Carboxydothermus hydr...	234.0	[0..1]	[233..82]
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...	234.0	[0..1]	[239..82]
gi\|113526224, gi... - gi\|113867448\|ref\|YP_725937.1\| pseudouridylate synthase, 23S RNA-specific [Ralstonia eutropha H16], g...	234.0	[0..1]	[246..122]
gi\|74019202, gi\|... - gi\|74019202\|ref\|ZP_00689820.1\| Pseudouridine synthase, RluD [Burkholderia ambifaria AMMD], gi\|726081...	233.0	[0..1]	[234..135]
gi\|91687424, gi\|... - gi\|91783470\|ref\|YP_558676.1\| ribosomal large subunit pseudouridine synthase D [Burkholderia xenovora...	233.0	[0..1]	[246..143]
gi\|114843803, gi... - gi\|114843803\|ref\|ZP_01454263.1\| Pseudouridine synthase, RluD [Thermoanaerobacter ethanolicus X514], ...	232.0	[0..1]	[233..83]
gi\|34497647, gi\|... - gi\|34497647\|ref\|NP_901862.1\| pseudouridine synthase D [Chromobacterium violaceum ATCC 12472], gi\|341...	232.0	[0..1]	[242..100]
gi\|110684317, gi... - gi\|110803816\|ref\|YP_699133.1\| pseudouridine synthase [Clostridium perfringens SM101], gi\|110684317\|g...	231.0	[0..1]	[233..82]
gi\|134295824, gi... - gi\|67543710\|ref\|ZP_00421641.1\| Pseudouridine synthase, RluD [Burkholderia vietnamiensis G4], gi\|6753...	231.0	[0..1]	[234..135]

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Predicted Domain #1

Region A:
Residues: [1-250]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEILFRDQYL VAVHKPAGLL VHRSPIDRHE TRFALQEVRD LLGRRVYPVH RLDKPTSGVL  60
   61 VFALDPATAR SLGDAFAGGR VNKTYLAVTR GIVPPEGIID HSLSEEPDRL DGAKSSPAAP 120
  121 QPAVTVFRRL AEAELPVVTG RYASSRYSLA ELTPHTGRRH QLRRHMKHIF HPIIGDTTYG 180
  181 EGRHNRFFRE EFGCGRLLLH AAELSLPHPA SGETLTIAAP PDRELARLLD RLGWLAAATG 240
  241 RGRPGMPAPP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	55.0
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: