SMTL ID : 6xp2.1

Structure of human PYCR1 complexed with L-thiazolidine-4-carboxylate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-10-mer

Ligands

4 x PRS: THIOPROLINE(Non-covalent)

PRS.1: 9 residues within 4Å: Chain A: V.253, S.255, G.258, A.259, T.260 Chain B: A.119, T.193, G.197, S.198 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:V.253, A:S.255, A:A.259, A:T.260, A:T.260, B:G.197 PRS.5: 9 residues within 4Å: Chain E: V.253, S.255, G.258, A.259, T.260 Chain J: A.119, T.193, G.197, S.198 5 PLIP interactions: 4 interactions with chain E, 1 interactions with chain J Hydrogen bonds: E:S.255, E:A.259, E:T.260, E:T.260, J:G.197 PRS.6: 9 residues within 4Å: Chain F: V.253, S.255, G.258, A.259, T.260 Chain G: A.119, T.193, G.197, S.198 6 PLIP interactions: 5 interactions with chain F, 1 interactions with chain G Hydrogen bonds: F:V.253, F:S.255, F:A.259, F:T.260, F:T.260, G:G.197 PRS.10: 9 residues within 4Å: Chain E: A.119, T.193, G.197, S.198 Chain J: V.253, S.255, G.258, A.259, T.260 5 PLIP interactions: 4 interactions with chain J, 1 interactions with chain E Hydrogen bonds: J:S.255, J:A.259, J:T.260, J:T.260, E:G.197

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

SO4.2: 6 residues within 4Å: Chain A: A.119 Chain B: V.253, S.255, G.258, A.259, T.260 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.255, B:S.255, B:S.255, B:A.259, B:T.260, B:T.260 Water bridges: B:I.261 SO4.3: 4 residues within 4Å: Chain C: V.253, S.255, A.259, T.260 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:S.255, C:S.255, C:A.259, C:T.260, C:T.260 SO4.4: 6 residues within 4Å: Chain C: A.119 Chain D: V.253, S.255, G.258, A.259, T.260 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:S.255, D:S.255, D:S.255, D:A.259, D:T.260, D:T.260, D:T.260 Water bridges: D:I.261 SO4.7: 6 residues within 4Å: Chain F: A.119 Chain G: V.253, S.255, G.258, A.259, T.260 7 PLIP interactions: 7 interactions with chain G Hydrogen bonds: G:S.255, G:S.255, G:S.255, G:A.259, G:T.260, G:T.260 Water bridges: G:I.261 SO4.8: 4 residues within 4Å: Chain H: V.253, S.255, A.259, T.260 5 PLIP interactions: 5 interactions with chain H Hydrogen bonds: H:S.255, H:S.255, H:A.259, H:T.260, H:T.260 SO4.9: 6 residues within 4Å: Chain H: A.119 Chain I: V.253, S.255, G.258, A.259, T.260 8 PLIP interactions: 8 interactions with chain I Hydrogen bonds: I:S.255, I:S.255, I:S.255, I:A.259, I:T.260, I:T.260, I:T.260 Water bridges: I:I.261

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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