YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24375372, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	310 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|24375372, gi|....

Description	E-value	Query Range	Subject Range
XERD_STAHJ - Tyrosine recombinase XerD OS=Staphylococcus haemolyticus (strain JCSC1435) GN=xerD PE=3 SV=1	216.0	[0..2]	[299..3]
gi\|98662087 - gi\|98662087\|dbj\|GAA00976.1\| unnamed protein product [Pelotomaculum thermopropionicum SI]	215.0	[0..3]	[299..50]
gi\|83573258, gi\|... - gi\|83590344\|ref\|YP_430353.1\| tyrosine recombinase XerD subunit [Moorella thermoacetica ATCC 39073], ...	215.0	[0..3]	[299..4]
gi\|77545197, gi\|... - gi\|77919114\|ref\|YP_356929.1\| site-specific recombinase [Pelobacter carbinolicus DSM 2380], gi\|775451...	214.0	[0..4]	[298..5]
XERD_STAS1 - Tyrosine recombinase XerD OS=Staphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305 / ...	213.0	[0..2]	[299..3]
gi\|151221617, gi... - gi\|151221617\|ref\|YP_001332439.1\| integrase/recombinase XerD [Staphylococcus aureus subsp. aureus str... gi\|227851953, gi... - gi\|227899993\|ref\|ZP_04017798.1\| site-specific recombinase [Staphylococcus aureus subsp. aureus TCH60... gi\|251801940, gi... - gi\|251814492\|ref\|ZP_04828965.1\| site-specific recombinase [Staphylococcus aureus subsp. aureus TCH70... gi\|253314865 - gi\|253314865\|ref\|ZP_04838078.1\| tyrosine recombinase XerD [Staphylococcus aureus subsp. aureus str. ... gi\|90582278, gi\|... - gi\|90582278\|ref\|ZP_01238042.1\| Tyrosine recombinase XerD [Staphylococcus aureus subsp. aureus JH1], ... gi\|253728795, gi... - gi\|253733255\|ref\|ZP_04867420.1\| site-specific recombinase [Staphylococcus aureus subsp. aureus TCH13... gi\|255006283 - gi\|255006283\|ref\|ZP_05144884.2\| tyrosine recombinase XerD [Staphylococcus aureus subsp. aureus Mu50-... gi\|88195302, gi\|... - gi\|88195302\|ref\|YP_500106.1\| integrase/recombinase XerD [Staphylococcus aureus subsp. aureus NCTC 83... gi\|87160007, gi\|... - gi\|87160007\|ref\|YP_494143.1\| tyrosine recombinase XerD [Staphylococcus aureus subsp. aureus USA300_F... gi\|87160007\|ref\|... - tyrosine recombinase XerD [Staphylococcus aureus subsp. aureus USA300], tyrosine recombinase XerD [S... gi\|269203124\|ref... - tyrosine recombinase XerD [Staphylococcus aureus subsp. aureus ED98] gi\|90585115, gi\|... - gi\|90585115\|ref\|ZP_01240826.1\| Tyrosine recombinase XerD [Staphylococcus aureus subsp. aureus JH9], ... gi\|221137807 - gi\|221137807\|ref\|ZP_03562609.1\| integrase/recombinase XerD [Staphylococcus aureus subsp. aureus str.... gi\|160368534, gi... - gi\|161509725\|ref\|YP_001575384.1\| integrase/recombinase XerD [Staphylococcus aureus subsp. aureus USA... gi\|156721951, gi... - gi\|156979816\|ref\|YP_001442075.1\| site-specific recombinase [Staphylococcus aureus subsp. aureus Mu3]... gi\|221140082 - gi\|221140082\|ref\|ZP_03564575.1\| integrase/recombinase XerD [Staphylococcus aureus subsp. aureus str.... XERD_STAAN - Tyrosine recombinase XerD OS=Staphylococcus aureus (strain N315) GN=xerD PE=1 SV=1 XERD_STAAR - Tyrosine recombinase XerD OS=Staphylococcus aureus (strain MRSA252) GN=xerD PE=3 SV=1 XERD_STAAS - Tyrosine recombinase XerD OS=Staphylococcus aureus (strain MSSA476) GN=xerD PE=3 SV=1 XERD_STAAU - Tyrosine recombinase XerD OS=Staphylococcus aureus GN=xerD PE=3 SV=1 XERD_STAAW - Tyrosine recombinase XerD OS=Staphylococcus aureus (strain MW2) GN=xerD PE=3 SV=1 XERD_STAAC - Tyrosine recombinase XerD OS=Staphylococcus aureus (strain COL) GN=xerD PE=3 SV=1 XERD_STAAM - Tyrosine recombinase XerD OS=Staphylococcus aureus (strain Mu50 / ATCC 700699) GN=xerD PE=3 SV=1 gi\|227245825, gi... - gi\|227557693\|ref\|ZP_03987740.1\| site-specific recombinase [Staphylococcus aureus subsp. aureus MN8],...	213.0	[0..2]	[299..3]
gi\|153167810, gi... - gi\|153167810\|ref\|ZP_01927895.1\| tyrosine recombinase XerD [Listeria monocytogenes FSL N1-017], gi\|13... gi\|254992940 - gi\|254992940\|ref\|ZP_05275130.1\| integrase/recombinase [Listeria monocytogenes FSL J2-064] gi\|153202948, gi... - gi\|254931873\|ref\|ZP_05265232.1\| integrase/recombinase [Listeria monocytogenes HPB2262], gi\|153202948... gi\|254877926 - gi\|254877926\|ref\|ZP_05250636.1\| integrase/recombinase [Listeria monocytogenes FSL J2-071] gi\|255520096 - gi\|255520096\|ref\|ZP_05387333.1\| integrase/recombinase [Listeria monocytogenes FSL J1-175] XERD_LISMF - Tyrosine recombinase XerD OS=Listeria monocytogenes serotype 4b (strain F2365) GN=xerD PE=3 SV=1 gi\|47093384, gi\|... - gi\|47093384\|ref\|ZP_00231151.1\| integrase/recombinase XerD [Listeria monocytogenes str. 4b H7858], gi... gi\|226224560, gi... - gi\|226224560\|ref\|YP_002758667.1\| integrase/recombinase [Listeria monocytogenes Clip81459], gi\|225877... gi\|254852857 - gi\|254852857\|ref\|ZP_05242205.1\| integrase/recombinase [Listeria monocytogenes FSL R2-503] gi\|254825549 - gi\|254825549\|ref\|ZP_05230550.1\| integrase/recombinase [Listeria monocytogenes FSL J1-194]	213.0	[0..2]	[299..3]
gi\|82751090, gi\|... - gi\|82751090\|ref\|YP_416831.1\| site-specific recombinase [Staphylococcus aureus RF122], gi\|82656621\|em...	213.0	[0..2]	[299..3]
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	213.0	[0..2]	[299..3]
XERD_STAEQ - Tyrosine recombinase XerD OS=Staphylococcus epidermidis (strain ATCC 35984 / RP62A) GN=xerD PE=3 SV=...	213.0	[0..2]	[299..3]

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Predicted Domain #1

Region A:
Residues: [1-310]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTTATAYALY LSRLAPNSQR SIASQMRSIA QLMDWPDEVI GKQLSSINYQ QAMQIRALLI  60
   61 HEQWSARSIN RAMTAIKSIV KVAALMGEAD MQQVAHINSI ANMKHGAHQG NPLSAEQVTK 120
  121 LLALLSKRQD TYGLRTLAIF ALFLGTGLRR SELAALTLAD YDSATSTIKV VAGKGNKSRI 180
  181 LFLPDWVEQH VIAWLNVRKM QLGPLICHCR TTGIIVHYRP VSRDALYRLV KDKLGDIGVV 240
  241 GASPHDLRRT FITRLLEQNV DINTVRQMAG HADISTTTIY DKRGDAFMRE AAATLNYVSA 300
  301 PNERGGKTRC

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	47.0
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: