YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39983385, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	247 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|39983385, gi|....

Description	E-value	Query Range	Subject Range
gi\|134051705, gi... - gi\|88945031\|ref\|ZP_01148252.1\| Pseudouridine synthase, Rsu [Desulfotomaculum reducens MI-1], gi\|8892...	233.0	[0..1]	[241..1]
gi\|78193687, gi\|... - gi\|78222432\|ref\|YP_384179.1\| ribosomal large subunit pseudouridine synthase B [Geobacter metalliredu...	232.0	[0..1]	[234..1]
gi\|196252016, gi... - gi\|196252016\|ref\|ZP_03150680.1\| pseudouridine synthase [Clostridium thermocellum DSM 4150], gi\|19619... gi\|125713436, gi... - gi\|67917292\|ref\|ZP_00510945.1\| Pseudouridine synthase, Rsu [Clostridium thermocellum ATCC 27405], gi...	231.0	[0..2]	[232..3]
gi\|27262400 - gi\|27262400\|gb\|AAN87481.1\| Ribosomal large subunit pseudouridine synthase B [Heliobacillus mobilis]	229.0	[0..2]	[239..10]
gi\|20516335, gi\|... - gi\|20807779\|ref\|NP_622950.1\| 16S rRNA uridine-516 pseudouridylate synthase family protein [Thermoana... gi\|20807779 - gi\|20807779\|ref\|NP_622950.1\| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridyla... gi\|214035392, gi... - gi\|254478705\|ref\|ZP_05092076.1\| conserved hypothetical protein, putative [Carboxydibrachium pacificu...	228.0	[0..4]	[237..3]
gi\|166854456, gi... - gi\|167040216\|ref\|YP_001663201.1\| pseudouridine synthase [Thermoanaerobacter sp. X514], gi\|166854456\|... gi\|242231811, gi... - gi\|242256647\|ref\|ZP_04801534.1\| pseudouridine synthase [Thermoanaerobacter sp. X513], gi\|242231811\|g... gi\|241902757, gi... - gi\|241902757\|ref\|ZP_04787488.1\| pseudouridine synthase [Thermoanaerobacter brockii subsp. finnii Ako... gi\|167037554, gi... - gi\|76796400\|ref\|ZP_00778763.1\| Pseudouridine synthase, Rsu [Thermoanaerobacter ethanolicus ATCC 3322...	227.0	[0..3]	[237..2]
gi\|220931567, gi... - gi\|89211767\|ref\|ZP_01190111.1\| Pseudouridine synthase, Rsu [Halothermothrix orenii H 168], gi\|891586...	225.0	[0..3]	[237..2]
gi\|255307056 - gi\|255307056\|ref\|ZP_05351227.1\| putative 23S RNA and tRNA pseudouridine synthase [Clostridium diffic... gi\|115251104, gi... - gi\|126699667\|ref\|YP_001088564.1\| putative 23S RNA and tRNA pseudouridine synthase [Clostridium diffi... gi\|255101182 - gi\|255101182\|ref\|ZP_05330159.1\| putative 23S RNA and tRNA pseudouridine synthase [Clostridium diffic...	225.0	[0..3]	[235..1]
gi\|255517442 - gi\|255517442\|ref\|ZP_05385118.1\| putative 23S RNA and tRNA pseudouridine synthase [Clostridium diffic... gi\|255650552 - gi\|255650552\|ref\|ZP_05397454.1\| putative 23S RNA and tRNA pseudouridine synthase [Clostridium diffic... gi\|90574437, gi\|... - gi\|90574437\|ref\|ZP_01230937.1\| hypothetical protein CdifQ_02002193 [Clostridium difficile QCD-32g58]... gi\|254975638 - gi\|254975638\|ref\|ZP_05272110.1\| putative 23S RNA and tRNA pseudouridine synthase [Clostridium diffic... gi\|255093025 - gi\|255093025\|ref\|ZP_05322503.1\| putative 23S RNA and tRNA pseudouridine synthase [Clostridium diffic... gi\|255314767 - gi\|255314767\|ref\|ZP_05356350.1\| putative 23S RNA and tRNA pseudouridine synthase [Clostridium diffic...	223.0	[0..3]	[235..1]
gi\|15024828, gi\|... - gi\|15895126\|ref\|NP_348475.1\| pseudouridylate synthase [Clostridium acetobutylicum ATCC 824], gi\|1502... gi\|25323995 - pir\|\|D97128 probable pseudouridylate synthase [imported] - Clostridium acetobutylicum	222.0	[0..1]	[237..1]

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Predicted Domain #1

Region A:
Residues: [1-247]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEERLQKLLS QAGVASRREA ERFITEGRVA VNGTVVTELG SKADPERDRI TVDGQPVRPA  60
   61 EKKVYLILNK PVGYMTTLRD PEGRPIVTDL LKGLDVRVFP VGRLDYNTEG LLLLTNDGAW 120
  121 ANRLAHPRHE VDKEYLVRVR GAVAKEQIRR LATGVELDDG PTAPAKVEVS SQSDNNTWLS 180
  181 IVIHEGRYRQ VRRMCEAVSL SVVRLRRVRY GAVSLGDLKP GEYRPLSPTE VAALAGREKR 240
  241 EQRRRKA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	50.69897
Match:	1vioA
Description:	Crystal structure of pseudouridylate synthase
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
structural constituent of ribosome	1.93805098366683	bayes_pls_golite062009
structural molecule activity	1.65902435754631	bayes_pls_golite062009
RNA binding	0.351909066993469	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: