YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39982401, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	282 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|39982401, gi|....

Description	E-value	Query Range	Subject Range
gi\|78224185, gi\|... - gi\|78224185\|ref\|YP_385932.1\| diaminopimelate epimerase [Geobacter metallireducens GS-15], gi\|7819544...	315.0	[0..1]	[282..1]
DAPF_CLOTH - Diaminopimelate epimerase OS=Clostridium thermocellum (strain ATCC 27405 / DSM 1237 / NBRC 103400 / ... gi\|196196818, gi... - gi\|196253761\|ref\|ZP_03152372.1\| Diaminopimelate epimerase [Clostridium thermocellum DSM 4150], gi\|19...	311.0	[0..1]	[282..1]
DAPF_LEPIC - Diaminopimelate epimerase OS=Leptospira interrogans serogroup Icterohaemorrhagiae serovar copenhagen... DAPF_LEPIC - Diaminopimelate epimerase OS=Leptospira interrogans serogroup Icterohaemorrhagiae serovar copenhagen...	310.0	[0..1]	[279..4]
gi\|110601591, gi... - gi\|222054498\|ref\|YP_002536860.1\| Diaminopimelate epimerase [Geobacter sp. FRC-32], gi\|221563787\|gb\|A...	307.0	[0..1]	[279..1]
DAPF_LEPIN - Diaminopimelate epimerase OS=Leptospira interrogans GN=dapF PE=3 SV=1 DAPF_LEPIN - Diaminopimelate epimerase OS=Leptospira interrogans serogroup Icterohaemorrhagiae serovar Lai (strai...	307.0	[0..1]	[279..4]
gi\|88936893, gi\|... - gi\|88936893\|ref\|ZP_01142487.1\| Diaminopimelate epimerase [Geobacter uraniumreducens Rf4], gi\|8891635...	305.0	[0..1]	[279..1]
DAPF_SHELP - Diaminopimelate epimerase OS=Shewanella loihica (strain ATCC BAA-1088 / PV-4) GN=dapF PE=1 SV=1	305.0	[0..1]	[277..2]
gi\|90414246, gi\|... - gi\|90414246\|ref\|ZP_01222226.1\| diaminopimelate epimerase [Photobacterium profundum 3TCK], gi\|9032469...	304.0	[0..1]	[279..3]
DAPF_PHOPR - Diaminopimelate epimerase OS=Photobacterium profundum GN=dapF PE=1 SV=1 DAPF_PHOPR - Diaminopimelate epimerase OS=Photobacterium profundum (strain SS9) GN=dapF PE=1 SV=1	304.0	[0..1]	[279..3]
DAPF_METMP - Diaminopimelate epimerase OS=Methanococcus maripaludis GN=dapF PE=3 SV=1 DAPF_METMP - Diaminopimelate epimerase OS=Methanococcus maripaludis (strain S2 / LL) GN=dapF PE=1 SV=1	303.0	[0..1]	[279..1]

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Predicted Domain #1

Region A:
Residues: [1-282]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKFTKMHGAG NDYVYVNCFE ETVGNPEQTA IKVSNRNFGI GSDGLILIMP SDKADVRMRM  60
   61 FNSDGSESEM CGNGIRCVAK YAYDHGIVTK KEITAETGAG VLTLQLFTGA DGRVDRVRVN 120
  121 MGKPRLTRAE IPMLGDPGDG QVVGQPLNIL HTTFNITCVS MGNPHCVIFV DDVENFQVEK 180
  181 YGPLIENHEM FPRRTNVEFV QIISRTEVRQ RTWERGAGET LACGTGASAV CVAGALNGLT 240
  241 EKNILNHLSG GDLELEWAED GFLYMTGPAT EVFSGEINLG TL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	81.045757
Match:	1gqzA
Description:	Diaminopimelate epimerase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
diaminopimelate epimerase activity	4.22926504608084	bayes_pls_golite062009
amino-acid racemase activity	3.36270508746492	bayes_pls_golite062009
racemase and epimerase activity, acting on amino acids and derivatives	3.23874676534548	bayes_pls_golite062009
catalytic activity	1.37892559560737	bayes_pls_golite062009
racemase and epimerase activity	0.0469151339756061	bayes_pls_golite062009
isomerase activity	0.0304048110491	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: