SMTL ID : 1sv2.2 (1 other biounit)

Crystal Structure of Peptide Deformylase from Leptospira Interrogans (LiPDF) at pH7.5

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: Q.53, C.101, H.143, E.144, H.147 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.101, A:H.143, A:H.147, H2O.1 ZN.5: 5 residues within 4Å: Chain B: Q.53, C.101, H.143, E.144, H.147 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.101, B:H.143, B:H.147, H2O.2

2 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.2: 10 residues within 4Å: Chain A: V.47, Y.71, F.97, E.99, G.100, Y.136, I.139, V.140, H.143, E.144 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.71 Water bridges: A:V.47, A:G.48 DTT.6: 10 residues within 4Å: Chain B: V.47, Y.71, F.97, E.99, G.100, Y.136, I.139, V.140, H.143, E.144 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.71, B:E.144 Water bridges: B:V.47, B:G.48, B:Y.71

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 3 residues within 4Å: Chain A: E.24, E.29, F.30 No protein-ligand interaction detected (PLIP) FMT.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) FMT.7: 3 residues within 4Å: Chain B: E.24, E.29, F.30 No protein-ligand interaction detected (PLIP) FMT.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, Z. et al., Novel conformational states of peptide deformylase from pathogenic bacterium Leptospira interrogans: implications for population shift. J.Biol.Chem. (2005)

Release Date

2005-08-09

Peptides

Peptide deformylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

Peptide deformylase

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