› 4nap

X-ray diffraction
2.3Å resolution

Crystal structure of a trap periplasmic solute binding protein from Desulfovibrio alaskensis G20 (DDE_0634), target EFI-510102, with bound d-tryptophan

Released:
DOI: 10.2210/pdb4nap/pdb
Model geometry
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Source organism: Oleidesulfovibrio alaskensis G20
Primary publication:
Experimental strategies for functional annotation and metabolism discovery: targeted screening of solute binding proteins and unbiased panning of metabolomes.
Vetting MW, Al-Obaidi N, Zhao S, San Francisco B, Kim J, Wichelecki DJ, Bouvier JT, Solbiati JO, Vu H, Zhang X, Rodionov DA, Love JD, Hillerich BS, Seidel RD, Quinn RJ, Osterman AL, Cronan JE, Jacobson MP, Gerlt JA, Almo SC
OpenAccess logo Biochemistry 54 909-31 (2015)
PMID: 25540822

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-174257 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Solute-binding protein Dde_0634 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 312 amino acids
Theoretical weight: 35.11 KDa
Source organism: Oleidesulfovibrio alaskensis G20
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q315G1 (Residues: 30-340; Coverage: 100%)
Gene name: Dde_0634
Sequence domains: Bacterial extracellular solute-binding protein, family 7
Structure domains: Bacterial extracellular solute-binding protein, family 7

Ligands and Environments

1 bound ligand:
Ligand DTR 4 x DTR
1 modified residue:
Ligand MSE 68 x MSE

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: APS BEAMLINE 31-ID
Spacegroup: P21
Unit cell:
a: 50.117Å b: 144.571Å c: 96.389Å
α: 90° β: 90.52° γ: 90°
R-values:
R R work R free
0.166 0.163 0.215
Expression system: Escherichia coli BL21(DE3)

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Citations

14 review citations

Enzyme Function Initiative-Enzyme Similarity Tool (EFI-EST): A web tool for generating protein sequence similarity networks.
Gerlt et al. (2015)
13 more

2 mentions without citation

Experimental strategies for functional annotation and metabolism discovery: targeted screening of solute binding proteins and unbiased panning of metabolomes.
Vetting et al. (2015)
1 more

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