SMTL ID : 6hri.1

Native YndL

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.03 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.37, E.42, H.98 Ligands: FLC.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.37, A:E.42, A:E.42, A:H.98

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: T.77, H.140, A.141, G.142, V.143, S.144, N.147 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:A.141, A:G.142, A:V.143, A:S.144, A:N.147 Water bridges: A:H.140, A:H.140 SO4.3: 3 residues within 4Å: Chain A: A.67, G.68, N.69 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.68, A:N.69, A:N.69 Water bridges: A:S.70, A:S.70

1 x FLC: CITRATE ANION(Non-covalent)

FLC.4: 10 residues within 4Å: Chain A: H.37, E.42, H.73, T.75, S.76, H.98, G.99, H.140, E.161 Ligands: ZN.1 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:H.73, A:T.75, A:S.76 Water bridges: A:S.76, A:T.77, A:N.147, A:E.161 Salt bridges: A:H.37, A:H.37, A:H.73, A:H.98, A:H.98, A:H.140

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.5: 3 residues within 4Å: Chain A: E.55, E.192, F.195 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ramaswamy, S. et al., The structure of PghL hydrolase bound to its substrate poly-gamma-glutamate. FEBS J. (2018)

Release Date

2018-10-10

Peptides

YndL: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

YndL

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