SMTL ID : 6r46.1

Crystal structure of LPOR (Thermosynechococcus elongatus) complexed with NADP+ at 2.5A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 24 residues within 4Å: Chain A: G.13, S.15, S.16, G.17, V.18, G.19, C.37, R.38, N.39, K.42, L.62, D.63, L.64, S.65, N.90, A.91, A.92, V.93, T.114, L.143, K.197, Y.223, C.226, V.227 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:S.15, A:S.15, A:S.16, A:S.16, A:S.16, A:S.16, A:V.18, A:G.19, A:R.38, A:N.39, A:D.63, A:D.63, A:L.64, A:S.65, A:N.90, A:N.90, A:A.92, A:K.197, A:Y.223, A:V.227 Salt bridges: A:K.42 pi-Stacking: A:Y.223

5 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: H.61 Ligands: CL.8, CL.9 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.61 ZN.3: 3 residues within 4Å: Chain A: H.116, N.200, T.203 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.116 ZN.4: 2 residues within 4Å: Chain A: H.212 Ligands: CL.7 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.212 ZN.5: 1 residues within 4Å: Chain A: E.213 No protein-ligand interaction detected (PLIP) ZN.6: 2 residues within 4Å: Chain A: E.305, R.309 No protein-ligand interaction detected (PLIP)

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 1 residues within 4Å: Ligands: ZN.4 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain A: H.61, S.69 Ligands: ZN.2, CL.9 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain A: H.61 Ligands: ZN.2, CL.8 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain A: R.71, L.121 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, S. et al., Structural basis for enzymatic photocatalysis in chlorophyll biosynthesis. Nature (2019)

Release Date

2019-10-30

Peptides

NADPH-protochlorophyllide oxidoreductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

NADPH-protochlorophyllide oxidoreductase