YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39982363, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	294 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|39982363, gi|....

Description	E-value	Query Range	Subject Range
gi\|88937989, gi\|... - gi\|88937989\|ref\|ZP_01143511.1\| Tyrosine recombinase XerC [Geobacter uraniumreducens Rf4], gi\|8891527...	233.0	[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]	230.0	[0..1]	[292..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\|...	228.0	[0..1]	[292..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	228.0	[0..1]	[292..1]
gi\|77545197, gi\|... - gi\|77919114\|ref\|YP_356929.1\| site-specific recombinase [Pelobacter carbinolicus DSM 2380], gi\|775451...	228.0	[0..1]	[291..1]
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	227.0	[0..1]	[292..4]
gi\|98662087 - gi\|98662087\|dbj\|GAA00976.1\| unnamed protein product [Pelotomaculum thermopropionicum SI]	227.0	[0..1]	[292..47]
gi\|83573258, gi\|... - gi\|83590344\|ref\|YP_430353.1\| tyrosine recombinase XerD subunit [Moorella thermoacetica ATCC 39073], ...	226.0	[0..1]	[292..1]
XERD_COREF - Tyrosine recombinase xerD OS=Corynebacterium efficiens GN=xerD PE=3 SV=1 XERD_COREF - Tyrosine recombinase XerD OS=Corynebacterium efficiens (strain DSM 44549 / YS-314 / AJ 12310 / JCM 1...	225.0	[0..1]	[292..3]
gi\|51892959, gi\|... - gi\|51892959\|ref\|YP_075650.1\| recombinase [Symbiobacterium thermophilum IAM 14863], gi\|51856648\|dbj\|B...	224.0	[0..1]	[292..1]

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Predicted Domain #1

Region A:
Residues: [1-294]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEFEVTTFIR YLENERAVSP HTRAAYESDL AQFRDFVRGE LGAGAGAAAI SHLLVRRWLA  60
   61 QLHQSHARSS IGRKLAAVRA FFTYLVRTGA LPRNPAELVS TPKREKKVPF HLNIDEVTAL 120
  121 VESPREPGVL SLRDRAILET LYSCGVRVSE LTGLNVGGID LADGTVRVLG KGGKERVVPI 180
  181 GSHARLALSS YLAARNHPPL EVPLFTNARG GRLTARSVRR VVDKHILKVA AMRKISPHTL 240
  241 RHTFATHLLE GGADLRAIQE LLGHASLSTT QKYTHVGIDR LMEVYDKAHP KART

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	50.09691
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: