YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|169749238, gi...
Organism:	Yersinia pseudotuberculosis YPIII
Length:	321 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|169749238, gi....

Description	E-value	Query Range	Subject Range
gi\|54310476, gi\|... - gi\|54310476\|ref\|YP_131496.1\| putative dihydrouridine synthase [Photobacterium profundum SS9], gi\|469...	9.0E-77	[1..321]	[1..321]
gi\|90325623, gi\|... - gi\|90413381\|ref\|ZP_01221374.1\| putative Dihydrouridine synthase [Photobacterium profundum 3TCK], gi\|...	1.0E-76	[1..321]	[1..321]
gi\|89075353, gi\|... - gi\|89075353\|ref\|ZP_01161775.1\| putative Dihydrouridine synthase [Photobacterium sp. SKA34], gi\|89048... gi\|90581290, gi\|... - gi\|90581290\|ref\|ZP_01237087.1\| putative Dihydrouridine synthase [Vibrio angustum S14], gi\|90437529\|g...	4.0E-76	[1..321]	[1..321]
gi\|56552023, gi\|... - gi\|56552023\|ref\|YP_162862.1\| tRNA-dihydrouridine synthase [Zymomonas mobilis subsp. mobilis ZM4], gi...	5.0E-76	[1..317]	[16..332]
gi\|52424587, gi\|... - gi\|52424587\|ref\|YP_087724.1\| hypothetical protein MS0532 [Mannheimia succiniciproducens MBEL55E], gi...	6.0E-76	[2..320]	[20..338]
gi\|45438491, gi\|... - gi\|45443621\|ref\|NP_995160.1\| tRNA-dihydrouridine synthase B [Yersinia pestis biovar Microtus str. 91... gi\|162353775, gi... - gi\|162420960\|ref\|YP_001605752.1\| tRNA-dihydrouridine synthase B [Yersinia pestis Angola], gi\|1623537... gi\|167401994, gi... - gi\|167401994\|ref\|ZP_02307477.1\| dihydrouridine synthase [Yersinia pestis biovar Antiqua str. UG05-04... gi\|22124133, gi\|... - gi\|22124133\|ref\|NP_667556.1\| tRNA-dihydrouridine synthase B [Yersinia pestis KIM], gi\|21956887\|gb\|AA...	1.0E-75	[1..321]	[35..355]
gi\|238718217, gi... - gi\|77961459\|ref\|ZP_00825296.1\| COG0042: tRNA-dihydrouridine synthase [Yersinia mollaretii ATCC 43969...	1.0E-75	[1..321]	[1..321]
gi\|77978760 - gi\|77978760\|ref\|ZP_00834185.1\| COG0042: tRNA-dihydrouridine synthase [Yersinia intermedia ATCC 29909...	1.0E-75	[1..321]	[1..321]
gi\|77973468 - gi\|77973468\|ref\|ZP_00829016.1\| COG0042: tRNA-dihydrouridine synthase [Yersinia frederiksenii ATCC 33...	1.0E-75	[1..321]	[1..321]
gi\|67853187, gi\|... - gi\|67924974\|ref\|ZP_00518361.1\| Dihydrouridine synthase TIM-barrel protein nifR3 [Crocosphaera watson...	2.0E-75	[1..321]	[16..335]

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Predicted Domain #1

Region A:
Residues: [1-321]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRIGHFQLTN CLIAAPMAGI TDRPFRALCH GMGAGMAVSE MLSSNPEVWR TDKSRLRMVH  60
   61 VDEPGIRNVQ IAGNDPDEMA AAARINVASG AQIIDINMGC PAKKVNRKLA GSALLQHPDL 120
  121 VKQILSAVVN AVDVPVTLKI RTGWSPEHRN CIEIAQLAEN CGIQALTIHG RTRSCLFNGE 180
  181 AEYDSIRAVK QTVSIPVIAN GDITDPHKAR AVLDYTGADA LMIGRAAQGR PWIFREIQHY 240
  241 LDTGELLPPM PLGEVQRLLD GHIRELHDFY GPGKGFRIAR KHVSWYLQEH APNDQFRRTF 300
  301 NAIEDASEQL EALEAYFENL A

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	52.69897
Match:	1vhnA
Description:	Crystal structure of a putative flavin oxidoreductase with flavin
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.94749091175302	bayes_pls_golite062009
tRNA dihydrouridine synthase activity	1.94490879164338	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: