YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39996918, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	295 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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|39996918, gi|....

Description	E-value	Query Range	Subject Range
gi\|77545197, gi\|... - gi\|77919114\|ref\|YP_356929.1\| site-specific recombinase [Pelobacter carbinolicus DSM 2380], gi\|775451...	252.0	[0..1]	[295..1]
XERD_STAHJ - Tyrosine recombinase XerD OS=Staphylococcus haemolyticus (strain JCSC1435) GN=xerD PE=3 SV=1	242.0	[0..1]	[294..1]
gi\|98662087 - gi\|98662087\|dbj\|GAA00976.1\| unnamed protein product [Pelotomaculum thermopropionicum SI]	242.0	[0..1]	[294..47]
XERD_STAEQ - Tyrosine recombinase XerD OS=Staphylococcus epidermidis (strain ATCC 35984 / RP62A) GN=xerD PE=3 SV=...	242.0	[0..1]	[294..1]
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	242.0	[0..1]	[294..1]
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]	241.0	[0..1]	[294..1]
gi\|83573258, gi\|... - gi\|83590344\|ref\|YP_430353.1\| tyrosine recombinase XerD subunit [Moorella thermoacetica ATCC 39073], ...	240.0	[0..1]	[294..1]
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	239.0	[0..1]	[294..1]
XERD_STAS1 - Tyrosine recombinase XerD OS=Staphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305 / ...	239.0	[0..1]	[294..1]
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\|...	239.0	[0..1]	[294..1]

Back

Predicted Domain #1

Region A:
Residues: [1-295]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNQHLDLFLG YLVVEKGLAR NSVESYARDL SRYLGYVEQH AGGDPAAIRP LHVADFLAHL  60
   61 KESGLGARSR ARALSAVRMF HRFLLVEGYA ETNPTSIIEA PRVLAKLPQV LTGREVEMLL 120
  121 AAPAGDAPIE VRDRAMLELL YATGLRVSEL VGLRTRDVNT SAGYLMTVGK GEKERLVPMG 180
  181 ESACAAVVLY LSSARIQLGR GGESPFLFLS RLGERMTRQA FWNIIKKRSR QAGILKGISP 240
  241 HTLRHSFATH LLENGADLRS VQAMLGHADL STTQIYTHVT RERLKRLHEQ FHPRG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	54.221849
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: