YRC Public Data Repository - Protein Structure Prediction

Protein:	DAPE_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	384 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 DAPE_SHEON.

Description	E-value	Query Range	Subject Range
DAPE_HAEI8 - Succinyl-diaminopimelate desuccinylase OS=Haemophilus influenzae (strain 86-028NP) GN=dapE PE=3 SV=1 gi\|229810152, gi... - gi\|229847068\|ref\|ZP_04467174.1\| succinyl-diaminopimelate desuccinylase [Haemophilus influenzae 7P49H...	302.0	[0..9]	[383..1]
DAPE_BORPA - Succinyl-diaminopimelate desuccinylase OS=Bordetella parapertussis GN=dapE PE=3 SV=1 DAPE_BORPA - Succinyl-diaminopimelate desuccinylase OS=Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NC...	301.0	[0..11]	[383..4]
DAPE_HAEIN - Succinyl-diaminopimelate desuccinylase OS=Haemophilus influenzae GN=dapE PE=1 SV=1 DAPE_HAEIN - Succinyl-diaminopimelate desuccinylase OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW...	301.0	[0..9]	[383..1]
gi\|46133772 - gi\|46133772\|ref\|ZP_00157694.2\| COG0624: Acetylornithine deacetylase/Succinyl-diaminopimelate desucci...	299.0	[0..9]	[383..1]
gi\|90309700, gi\|... - gi\|90409194\|ref\|ZP_01217307.1\| succinyl-diaminopimelate desuccinylase [Psychromonas sp. CNPT3], gi\|9...	299.0	[0..11]	[384..4]
DAPE_BORBR - Succinyl-diaminopimelate desuccinylase OS=Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 1325... DAPE_BORBR - Succinyl-diaminopimelate desuccinylase OS=Bordetella bronchiseptica GN=dapE PE=3 SV=1	299.0	[0..11]	[383..4]
DAPE_BORPE - Succinyl-diaminopimelate desuccinylase OS=Bordetella pertussis GN=dapE PE=3 SV=1 DAPE_BORPE - Succinyl-diaminopimelate desuccinylase OS=Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCT...	299.0	[0..11]	[383..4]
DAPE_PASMU - Succinyl-diaminopimelate desuccinylase OS=Pasteurella multocida (strain Pm70) GN=dapE PE=3 SV=1 DAPE_PASMU - Succinyl-diaminopimelate desuccinylase OS=Pasteurella multocida GN=dapE PE=3 SV=1	297.0	[0..9]	[383..1]
gi\|53732629 - gi\|53732629\|ref\|ZP_00154828.2\| COG0624: Acetylornithine deacetylase/Succinyl-diaminopimelate desucci... DAPE_HAEIE - Succinyl-diaminopimelate desuccinylase OS=Haemophilus influenzae (strain PittEE) GN=dapE PE=3 SV=1	297.0	[0..9]	[383..1]
DAPE_BORA1 - Succinyl-diaminopimelate desuccinylase OS=Bordetella avium (strain 197N) GN=dapE PE=3 SV=1	297.0	[0..11]	[383..2]

Back

Predicted Domain #1

Region A:
Residues: [1-384]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTDAAHSSQT GPVTELTKAL IARPSVTPLD EGCQTLMAER LAAIGFNIEA MVFEDTTNMW  60
   61 ARRGNTGPVF CFAGHTDVVP TGDLSRWHTP PFEPTIIDGY LYGRGAADMK GSLAAMVVAT 120
  121 ERFVAKHPNH PGSIAFLITS DEEGPFINGT TRVIDTLEAR NEKITWALVG EPSSTLKLGD 180
  181 VVKNGRRGSL TANLTVKGVQ GHVAYPHLAD NPIHKAAPFL AELSQTHWDN GNAFFPPTSM 240
  241 QIANINGGTG ASNVIPGALE VMFNFRYSTE VTAEILIERV ETLLTAHELD YDIRWTFNGL 300
  301 PFLTGEGPLL DATRHAIRQV TGYDTDPQTT GGTSDGRFIA PTGAKVLELG PVNATIHKVN 360
  361 ECVKVDDLEQ LALCYEVILE QLLC

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	76.69897
Match:	1vgyA
Description:	Crystal structure of succinyl diaminopimelate desuccinylase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
succinyl-diaminopimelate desuccinylase activity	3.13788333436821	bayes_pls_golite062009
hydrolase activity	3.0609849976664	bayes_pls_golite062009
peptidase activity	3.04706302825019	bayes_pls_golite062009
catalytic activity	2.3710874246093	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	2.30644893326426	bayes_pls_golite062009
exopeptidase activity	1.25673143627992	bayes_pls_golite062009
carboxypeptidase activity	0.76593160329727	bayes_pls_golite062009
N-formylglutamate deformylase activity	0.17769913093601	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	0.0926675628351197	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: