SMTL ID : 1m6w.1

Binary complex of Human glutathione-dependent formaldehyde dehydrogenase and 12-Hydroxydodecanoic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.96, G.97, C.99, C.102, C.110 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.96, A:C.99, A:C.102, A:C.110 ZN.2: 5 residues within 4Å: Chain A: C.44, T.46, H.66, C.173 Ligands: 12H.7 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.44, A:H.66, A:C.173 ZN.8: 5 residues within 4Å: Chain B: C.96, G.97, C.99, C.102, C.110 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.96, B:C.99, B:C.102, B:C.110 ZN.9: 5 residues within 4Å: Chain B: C.44, T.46, H.66, C.173 Ligands: 12H.11 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.44, B:H.66, B:C.173

2 x K: POTASSIUM ION(Non-covalent)

K.3: 4 residues within 4Å: Chain A: A.186, K.187, E.189, Y.263 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:A.186, A:K.187, A:E.189, A:Y.263, H2O.4 K.10: 4 residues within 4Å: Chain B: A.186, K.187, E.189, Y.263 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:A.186, B:K.187, B:E.189, B:Y.263, H2O.19

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 2 residues within 4Å: Chain A: K.314 Chain B: K.314 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Water bridges: A:K.314, A:K.314, B:K.314 Salt bridges: A:K.314, B:K.314 PO4.5: 2 residues within 4Å: Chain A: K.83, K.158 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.86 Water bridges: A:K.83, A:K.158, A:K.158 Salt bridges: A:K.83, A:K.158 PO4.6: 6 residues within 4Å: Chain A: H.45, G.200, G.201, V.202, M.361, R.368 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:H.45, A:G.201, A:V.202, A:I.367 Water bridges: A:G.203, A:C.267, A:R.368, A:R.368 Salt bridges: A:H.45, A:R.368

2 x 12H: 12-HYDROXYDODECANOIC ACID(Non-covalent)

12H.7: 16 residues within 4Å: Chain A: C.44, T.46, H.66, Y.92, L.109, Q.111, R.114, M.140, C.173, G.292, V.293, A.317 Chain B: K.283, V.308, T.309 Ligands: ZN.2 9 PLIP interactions: 3 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:V.308, B:T.309, A:T.46, A:L.109, A:A.317 Salt bridges: B:K.283, A:R.114 Hydrogen bonds: A:T.46, A:Q.111 12H.11: 16 residues within 4Å: Chain A: K.283, V.308 Chain B: C.44, T.46, H.66, Y.92, I.93, L.109, C.110, Q.111, R.114, M.140, C.173, V.293, A.317 Ligands: ZN.9 9 PLIP interactions: 7 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:T.46, B:Y.92, B:I.93, B:V.293, B:A.317, A:V.308 Hydrogen bonds: B:Q.111 Salt bridges: B:R.114, A:K.283

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sanghani, P.C. et al., Human glutathione-dependent formaldehyde dehydrogenase. Structures of apo, binary, and inhibitory ternary complexes. Biochemistry (2002)

Release Date

2002-07-26

Peptides

Glutathione-dependent formaldehyde dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glutathione-dependent formaldehyde dehydrogenase

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