YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24373917, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	288 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|24373917, gi|....

Description	E-value	Query Range	Subject Range
XERC_OCEIH - Tyrosine recombinase XerC OS=Oceanobacillus iheyensis (strain DSM 14371 / JCM 11309 / KCTC 3954 / HT... XERC_OCEIH - Tyrosine recombinase xerC OS=Oceanobacillus iheyensis GN=xerC PE=3 SV=1	178.0	[0..1]	[286..68]
gi\|221323009 - gi\|221323009\|ref\|ZP_03604303.1\| site-specific tyrosine recombinase XerC [Bacillus subtilis subsp. su... gi\|221318738 - gi\|221318738\|ref\|ZP_03600032.1\| site-specific tyrosine recombinase XerC [Bacillus subtilis subsp. su... gi\|221313814 - gi\|221313814\|ref\|ZP_03595619.1\| site-specific tyrosine recombinase XerC [Bacillus subtilis subsp. su... XERC_BACSU - Tyrosine recombinase xerC OS=Bacillus subtilis GN=xerC PE=1 SV=1 XERC_BACSU - Tyrosine recombinase XerC OS=Bacillus subtilis (strain 168) GN=xerC PE=1 SV=1	177.0	[0..1]	[284..68]
gi\|98662087 - gi\|98662087\|dbj\|GAA00976.1\| unnamed protein product [Pelotomaculum thermopropionicum SI]	175.0	[0..2]	[284..112]
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...	173.0	[0..2]	[284..71]
gi\|254912513, gi... - gi\|254912513\|ref\|ZP_05262525.1\| hypothetical protein LmonJ2_06931 [Listeria monocytogenes J2818], gi... gi\|133729635, gi... - gi\|254827160\|ref\|ZP_05231847.1\| hypothetical protein LmonocytogeFSL_01770 [Listeria monocytogenes FS... XERD_LISMO - Tyrosine recombinase xerD OS=Listeria monocytogenes GN=xerD PE=3 SV=1 gi\|254936840 - gi\|254936840\|ref\|ZP_05268537.1\| hypothetical protein LmonF6_06921 [Listeria monocytogenes F6900] gi\|47097098, gi\|... - gi\|47097098\|ref\|ZP_00234668.1\| integrase/recombinase XerD [Listeria monocytogenes str. 1/2a F6854], ... gi\|255028942 - gi\|255028942\|ref\|ZP_05300893.1\| hypothetical protein LmonL_06711 [Listeria monocytogenes LO28] XERD_LISMO - Tyrosine recombinase XerD OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e) GN=xe... gi\|224498595 - gi\|224498595\|ref\|ZP_03666944.1\| hypothetical protein LmonF1_02414 [Listeria monocytogenes Finland 19... gi\|224501245 - gi\|224501245\|ref\|ZP_03669552.1\| hypothetical protein LmonFR_01770 [Listeria monocytogenes FSL R2-561... gi\|254899348, gi... - gi\|254899348\|ref\|ZP_05259272.1\| hypothetical protein LmonJ_06029 [Listeria monocytogenes J0161], gi\|...	172.0	[0..2]	[284..67]
XERD_LISIN - Tyrosine recombinase xerD OS=Listeria innocua GN=xerD PE=3 SV=1 XERD_LISIN - Tyrosine recombinase XerD OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=xerD PE=3 SV=1	172.0	[0..2]	[284..67]
gi\|41583295, gi\|... - gi\|42519008\|ref\|NP_964938.1\| integrase/recombinase XerD [Lactobacillus johnsonii NCC 533], gi\|415832...	172.0	[0..2]	[284..65]
gi\|71492418, gi\|... - gi\|71540897\|ref\|ZP_00662720.1\| Phage integrase:Phage integrase, N-terminal SAM-like [Syntrophomonas ...	172.0	[0..4]	[283..69]
gi\|77545197, gi\|... - gi\|77919114\|ref\|YP_356929.1\| site-specific recombinase [Pelobacter carbinolicus DSM 2380], gi\|775451...	171.0	[0..1]	[283..65]

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Predicted Domain #1

Region A:
Residues: [1-288]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDNALKTKV AILSSFYTYL ISEEFCERNP AQIWLNHSRF ALNKQYQNQT DEDENSLAFT  60
   61 ELQWSYVMTT VTQLAEILPE LHQRSLFLIS LTYSCYLRIS DVSARVGYSP VMGQFRQNTQ 120
  121 TGIWSFHIPL SKGGKKRSVA ISKALLAGLV KYRQFLGLPD YPSQGELHPL FVRHRAAGRG 180
  181 RDVGLVNANL GIRQIREEIQ AIINLAADKA QTDGFIQDAA QMRKLTAHNI RHTGITHDIN 240
  241 INRRPLSHVQ ADAGHESIDT TSKYLHTTQI ERHESAYNKP LDHLQGID

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	36.522879
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
catalytic activity	2.22520758916604	bayes_pls_golite062009
integrase activity	1.98780702210031	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: