YRC Public Data Repository - Protein Structure Prediction

Protein:	YRDD_ECOLI
Organism:	Escherichia coli
Length:	180 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 YRDD_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|77918021, gi\|... - gi\|77918021\|ref\|YP_355836.1\| DNA topoisomerase I [Pelobacter carbinolicus DSM 2380], gi\|77544104\|gb\|...	215.0	[0..1]	[179..577]
gi\|53803091, gi\|... - gi\|53803091\|ref\|YP_115233.1\| DNA topoisomerase I [Methylococcus capsulatus str. Bath], gi\|53756852\|g...	207.0	[0..1]	[180..578]
gi\|110546916, gi... - gi\|222054655\|ref\|YP_002537017.1\| DNA topoisomerase I [Geobacter sp. FRC-32], gi\|221563944\|gb\|ACM1991...	206.0	[0..3]	[177..575]
gi\|95929067, gi\|... - gi\|95929067\|ref\|ZP_01311812.1\| DNA topoisomerase [Desulfuromonas acetoxidans DSM 684], gi\|95134968\|g...	206.0	[0..1]	[175..579]
gi\|27804881 - gi\|27804881\|gb\|AAO22915.1\| topoisomerase [Myxococcus xanthus]	204.0	[0..1]	[179..1039]
gi\|108463650, gi... - gi\|108759770\|ref\|YP_631211.1\| putative DNA protecting protein DprA/DNA topoisomerase I [Myxococcus x...	204.0	[0..1]	[179..1047]
gi\|34499724, gi\|... - gi\|34499724\|ref\|NP_903939.1\| DNA topoisomerase I [Chromobacterium violaceum ATCC 12472], gi\|34105575...	204.0	[0..1]	[179..571]
gi\|114776899, gi... - gi\|114776899\|ref\|ZP_01451942.1\| DNA topoisomerase I [Mariprofundus ferrooxydans PV-1], gi\|114552985\|...	201.0	[0..3]	[179..574]
gi\|39997644, gi\|... - gi\|39997644\|ref\|NP_953595.1\| DNA topoisomerase I [Geobacter sulfurreducens PCA], gi\|39984536\|gb\|AAR3...	200.0	[0..1]	[176..574]
gi\|167010060 - gi\|167010060\|ref\|ZP_02274991.1\| DNA topoisomerase I [Francisella tularensis subsp. holarctica FSC200... gi\|89143667\|emb\|... - DNA topoisomerase I [Francisella tularensis subsp. holarctica LVS] gi\|89255836, gi\|... - gi\|89255836\|ref\|YP_513198.1\| DNA topoisomerase I [Francisella tularensis subsp. holarctica], gi\|8914... gi\|115314325, gi... - gi\|115314325\|ref\|YP_763048.1\| DNA topoisomerase I [Francisella tularensis subsp. holarctica OSU18], ... gi\|254367199, gi... - gi\|254367199\|ref\|ZP_04983229.1\| DNA topoisomerase I [Francisella tularensis subsp. holarctica 257], ... gi\|156501816, gi... - gi\|156501816\|ref\|YP_001427881.1\| DNA topoisomerase I [Francisella tularensis subsp. holarctica FTNF0...	200.0	[0..1]	[180..579]

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Predicted Domain #1

Region A:
Residues: [1-180]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKSALFTVR NNESCPKCGA ELVIRSGKHG PFLGCSQYPA CDYVRPLKSS ADGHIVKVLE  60
   61 GQVCPACGAN LVLRQGRFGM FIGCINYPEC EHTELIDKPD ETAITCPQCR TGHLVQRRSR 120
  121 YGKTFHSCDR YPECQFAINF KPIAGECPEC HYPLLIEKKT AQGVKHFCAS KQCGKPVSAE 180
  181

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.15
Match:	2fiyA
Description:	The crystal structure of the FdhE protein from Pseudomonas aeruginosa
Matching Structure (courtesy of the PDB):

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