SMTL ID : 5uav.2 (3 other biounits)

Structure of human PYCR-1 complexed with NADPH and L-tetrahydrofuroic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.1: 27 residues within 4Å: Chain A: I.28, G.29, A.30, G.31, Q.32, L.33, S.55, S.56, P.57, D.58, N.78, A.91, V.92, K.93, P.94, I.96, I.100, C.117, A.118, A.119, M.143, T.144, N.145, T.146 Chain B: N.252, V.253 Ligands: TFB.4 15 PLIP interactions: 1 interactions with chain B, 14 interactions with chain A Hydrogen bonds: B:N.252, A:A.30, A:A.30, A:Q.32, A:L.33, A:D.58, A:N.78, A:V.92, A:A.119 Hydrophobic interactions: A:L.33 Water bridges: A:G.31, A:A.34, A:T.146 Salt bridges: A:K.93, A:K.93 NDP.3: 25 residues within 4Å: Chain B: I.28, G.29, A.30, G.31, Q.32, L.33, S.55, S.56, P.57, D.58, N.78, A.91, V.92, K.93, P.94, I.96, I.100, C.117, A.118, A.119, M.143, T.144, N.145, T.146 Ligands: TFB.2 18 PLIP interactions: 1 interactions with chain A, 17 interactions with chain B Water bridges: A:T.260, B:G.31, B:Q.32, B:A.34, B:K.93, B:K.93, B:T.146 Hydrogen bonds: B:A.30, B:A.30, B:Q.32, B:L.33, B:S.56, B:D.58, B:N.78, B:V.92, B:A.119 Salt bridges: B:K.93, B:K.93

2 x TFB: TETRAHYDROFURAN-2-CARBOXYLIC ACID(Non-covalent)

TFB.2: 9 residues within 4Å: Chain A: S.255, G.258, A.259, T.260 Chain B: A.119, T.193, G.197, S.198 Ligands: NDP.3 9 PLIP interactions: 7 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:A.259, A:T.260, A:T.260, A:T.260 Water bridges: A:S.255, A:S.255, A:S.255 Hydrophobic interactions: B:A.119, B:T.193 TFB.4: 10 residues within 4Å: Chain A: A.119, M.143, T.193, G.197, S.198 Chain B: V.253, S.255, A.259, T.260 Ligands: NDP.1 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.255, B:A.259, B:T.260, B:T.260, B:T.260 Water bridges: B:S.255 Hydrophobic interactions: A:A.119, A:T.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Christensen, E.M. et al., Resolving the cofactor-binding site in the proline biosynthetic enzyme human pyrroline-5-carboxylate reductase 1. J. Biol. Chem. (2017)

Release Date

2017-03-15

Peptides

Pyrroline-5-carboxylate reductase 1, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pyrroline-5-carboxylate reductase 1, mitochondrial

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