SMTL ID : 6xp0.1

Structure of human PYCR1 complexed with N-formyl L-proline

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-10-mer

Ligands

10 x FPK: 1-formyl-L-proline(Non-covalent)

FPK.1: 9 residues within 4Å: Chain A: V.253, S.255, G.258, A.259, T.260 Chain B: A.119, M.143, T.193, G.197 9 PLIP interactions: 7 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.255, A:S.255, A:A.259, A:T.260, A:T.260, A:T.260 Water bridges: A:I.261 Hydrophobic interactions: B:A.119, B:T.193 FPK.2: 10 residues within 4Å: Chain A: A.119, M.143, T.193, G.197, L.290 Chain B: V.253, S.255, G.258, A.259, T.260 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.255, B:S.255, B:A.259, B:T.260 Water bridges: B:S.255, B:G.258 Hydrophobic interactions: A:A.119, A:T.193 FPK.3: 8 residues within 4Å: Chain C: V.253, S.255, G.258, A.259, T.260 Chain D: A.119, T.193, G.197 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:S.255, C:A.259, C:T.260, C:T.260, C:T.260 Water bridges: C:I.261 Hydrophobic interactions: D:A.119, D:T.193 FPK.4: 8 residues within 4Å: Chain C: A.119, T.193, G.197 Chain D: V.253, S.255, G.258, A.259, T.260 7 PLIP interactions: 5 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:S.255, D:S.255, D:A.259, D:T.260 Water bridges: D:I.261 Hydrophobic interactions: C:A.119, C:T.193 FPK.5: 8 residues within 4Å: Chain E: V.253, S.255, G.258, A.259, T.260 Chain J: A.119, T.193, G.197 8 PLIP interactions: 6 interactions with chain E, 2 interactions with chain J Hydrogen bonds: E:S.255, E:S.255, E:A.259, E:T.260, E:T.260, E:T.260 Hydrophobic interactions: J:A.119, J:T.193 FPK.6: 9 residues within 4Å: Chain F: V.253, S.255, G.258, A.259, T.260 Chain G: A.119, M.143, T.193, G.197 9 PLIP interactions: 7 interactions with chain F, 2 interactions with chain G Hydrogen bonds: F:S.255, F:S.255, F:A.259, F:T.260, F:T.260, F:T.260 Water bridges: F:I.261 Hydrophobic interactions: G:A.119, G:T.193 FPK.7: 10 residues within 4Å: Chain F: A.119, M.143, T.193, G.197, L.290 Chain G: V.253, S.255, G.258, A.259, T.260 8 PLIP interactions: 2 interactions with chain F, 6 interactions with chain G Hydrophobic interactions: F:A.119, F:T.193 Hydrogen bonds: G:S.255, G:S.255, G:A.259, G:T.260 Water bridges: G:S.255, G:G.258 FPK.8: 8 residues within 4Å: Chain H: V.253, S.255, G.258, A.259, T.260 Chain I: A.119, T.193, G.197 8 PLIP interactions: 2 interactions with chain I, 6 interactions with chain H Hydrophobic interactions: I:A.119, I:T.193 Hydrogen bonds: H:S.255, H:A.259, H:T.260, H:T.260, H:T.260 Water bridges: H:I.261 FPK.9: 8 residues within 4Å: Chain H: A.119, T.193, G.197 Chain I: V.253, S.255, G.258, A.259, T.260 7 PLIP interactions: 5 interactions with chain I, 2 interactions with chain H Hydrogen bonds: I:S.255, I:S.255, I:A.259, I:T.260 Water bridges: I:I.261 Hydrophobic interactions: H:A.119, H:T.193 FPK.10: 8 residues within 4Å: Chain E: A.119, T.193, G.197 Chain J: V.253, S.255, G.258, A.259, T.260 8 PLIP interactions: 6 interactions with chain J, 2 interactions with chain E Hydrogen bonds: J:S.255, J:S.255, J:A.259, J:T.260, J:T.260, J:T.260 Hydrophobic interactions: E:A.119, E:T.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Christensen, E.M. et al., In crystallo screening for proline analog inhibitors of the proline cycle enzyme PYCR1. J.Biol.Chem. (2020)

Release Date

2020-11-04

Peptides

Pyrroline-5-carboxylate reductase 1, mitochondrial: ABCDEFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
A

G
B

H
C

I
D

J
E

Pyrroline-5-carboxylate reductase 1, mitochondrial

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