YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24373023, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	188 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|24373023, gi|....

Description	E-value	Query Range	Subject Range
XERD_STAEQ - Tyrosine recombinase XerD OS=Staphylococcus epidermidis (strain ATCC 35984 / RP62A) GN=xerD PE=3 SV=...	163.0	[0..2]	[186..102]
XERD_STAEP - (Q7ZAJ2) Tyrosine recombinase xerD gi\|251805594, gi... - gi\|251810914\|ref\|ZP_04825387.1\| integrase/recombinase XerD [Staphylococcus epidermidis BCM-HMP0060],... XERD_STAES - Tyrosine recombinase XerD OS=Staphylococcus epidermidis (strain ATCC 12228) GN=xerD PE=3 SV=1	162.0	[0..2]	[186..102]
gi\|90961911, gi\|... - gi\|90961911\|ref\|YP_535827.1\| integrase/recombinase XerD/RipX family [Lactobacillus salivarius UCC118...	161.0	[0..2]	[185..104]
gi\|98662087 - gi\|98662087\|dbj\|GAA00976.1\| unnamed protein product [Pelotomaculum thermopropionicum SI]	160.0	[0..2]	[185..148]
XERC_PYRFU - Probable tyrosine recombinase xerC-like OS=Pyrococcus furiosus GN=PF1868 PE=3 SV=1 XERA_PYRFU - Tyrosine recombinase XerA OS=Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) GN=...	160.0	[0..2]	[188..94]
XERD_STAS1 - Tyrosine recombinase XerD OS=Staphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305 / ...	159.0	[0..2]	[186..102]
gi\|51892959, gi\|... - gi\|51892959\|ref\|YP_075650.1\| recombinase [Symbiobacterium thermophilum IAM 14863], gi\|51856648\|dbj\|B...	158.0	[0..2]	[185..101]
gi\|71492418, gi\|... - gi\|71540897\|ref\|ZP_00662720.1\| Phage integrase:Phage integrase, N-terminal SAM-like [Syntrophomonas ...	158.0	[0..2]	[186..103]
XERD_BACHD - Tyrosine recombinase XerD OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM ... XERD_BACHD - Tyrosine recombinase xerD OS=Bacillus halodurans GN=xerD PE=3 SV=1	158.0	[0..2]	[186..106]
gi\|116095121, gi... - gi\|116629539\|ref\|YP_814711.1\| integrase [Lactobacillus gasseri ATCC 33323], gi\|116095121\|gb\|ABJ60273... gi\|238834835, gi... - gi\|238852689\|ref\|ZP_04643099.1\| tyrosine recombinase XerD [Lactobacillus gasseri 202-4], gi\|23883483...	158.0	[0..2]	[185..107]

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Predicted Domain #1

Region A:
Residues: [1-188]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNEVEAVKNR DTIKLISYLL ERHFGQQMAD VWNIGLNLAL RISDLLAIKF SDIDGDRLSI  60
   61 IEQKTGKRAS IKLNPKTLAL IEAIHQRHPE HIYLFQSHRS SQAKDRQAPA KPLTRRAVAK 120
  121 AFAFVGDDIK LALGTHSMRK TRGYHLYQAC KDIGRVMRML RHQSEAVTLR YIGITQQQID 180
  181 KDFVELEI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	35.522879
Match:	1a0pA
Description:	SITE-SPECIFIC RECOMBINASE, XERD
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
site-specific recombinase activity	4.99325011803106	bayes_pls_golite062009
integrase activity	3.60695091575172	bayes_pls_golite062009
catalytic activity	2.22520758916604	bayes_pls_golite062009
structure-specific DNA binding	0.11292854906722	bayes_pls_golite062009
DNA binding	0.10970863758177	bayes_pls_golite062009
nucleic acid binding	0.06580979261817	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: