SMTL ID : 6fxl.1

Structure of Trypanosoma cruzi type B ribose 5-phosphate isomerase (TcRpiB)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-tetramer

Ligands

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

PO4.1: 10 residues within 4Å: Chain A: Y.66, C.89, G.90, S.91, I.93, G.94 Chain D: I.118, H.122, N.123 Ligands: PO4.2 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:G.90, A:S.91, A:S.91, A:I.93, A:G.94, D:N.123 Water bridges: A:R.133 Salt bridges: D:H.122 PO4.2: 9 residues within 4Å: Chain A: D.30, Y.66, C.89, G.90, R.133 Chain D: H.122, R.161 Ligands: PO4.1, PO4.11 10 PLIP interactions: 4 interactions with chain D, 6 interactions with chain A Water bridges: D:R.161, D:R.161, A:H.31, A:R.133 Salt bridges: D:H.122, D:R.161, A:R.133 Hydrogen bonds: A:D.30, A:D.30, A:G.90 PO4.3: 6 residues within 4Å: Chain A: R.157, R.161 Chain D: H.31, P.32, R.133 Ligands: PO4.13 5 PLIP interactions: 1 interactions with chain D, 4 interactions with chain A Salt bridges: D:R.133, A:R.157, A:R.161 Water bridges: A:R.157, A:R.161 PO4.4: 10 residues within 4Å: Chain B: Y.66, C.89, G.90, S.91, I.93, G.94 Chain C: I.118, H.122, N.123 Ligands: PO4.5 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:G.90, B:S.91, B:I.93, B:G.94, C:N.123, C:N.123 Water bridges: B:S.91, B:S.91, B:R.133 Salt bridges: C:H.122 PO4.5: 8 residues within 4Å: Chain B: D.30, Y.66, G.90, R.133 Chain C: H.122, R.161 Ligands: PO4.4, PO4.6 10 PLIP interactions: 5 interactions with chain B, 5 interactions with chain C Hydrogen bonds: B:G.90 Water bridges: B:H.31, B:V.64, B:R.133, C:R.161, C:R.161, C:R.161 Salt bridges: B:R.133, C:H.122, C:R.161 PO4.6: 6 residues within 4Å: Chain B: H.31, P.32, R.133 Chain C: R.157, R.161 Ligands: PO4.5 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Water bridges: B:H.31, B:V.64, C:R.161 Salt bridges: B:R.133, C:R.161 PO4.7: 2 residues within 4Å: Chain B: T.22, R.24 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.22, B:T.22, B:T.22, B:T.22 Salt bridges: B:R.24 PO4.8: 6 residues within 4Å: Chain B: R.157, R.161 Chain C: H.31, P.32, R.133 Ligands: PO4.10 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B Water bridges: C:H.31, C:V.64, B:R.161 Salt bridges: C:R.133, B:R.161 PO4.9: 9 residues within 4Å: Chain B: H.122, N.123 Chain C: Y.66, C.89, G.90, S.91, I.93, G.94 Ligands: PO4.10 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:S.91, C:I.93, C:G.94 Water bridges: C:S.91, C:S.91, C:R.133 Salt bridges: B:H.122 PO4.10: 8 residues within 4Å: Chain B: H.122, R.161 Chain C: D.30, Y.66, G.90, R.133 Ligands: PO4.8, PO4.9 11 PLIP interactions: 4 interactions with chain B, 7 interactions with chain C Water bridges: B:R.161, B:R.161, C:H.31, C:R.133 Salt bridges: B:H.122, B:R.161, C:R.133 Hydrogen bonds: C:D.30, C:D.30, C:D.30, C:G.90 PO4.11: 6 residues within 4Å: Chain A: H.31, P.32, R.133 Chain D: R.157, R.161 Ligands: PO4.2 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:R.157 Water bridges: D:R.161 Salt bridges: D:R.161, A:R.133 PO4.12: 10 residues within 4Å: Chain A: I.118, H.122, N.123 Chain D: Y.66, C.89, G.90, S.91, I.93, G.94 Ligands: PO4.13 10 PLIP interactions: 2 interactions with chain A, 8 interactions with chain D Hydrogen bonds: A:N.123, D:G.90, D:S.91, D:S.91, D:I.93, D:G.94 Salt bridges: A:H.122 Water bridges: D:S.91, D:S.91, D:R.133 PO4.13: 8 residues within 4Å: Chain A: H.122, R.161 Chain D: D.30, Y.66, G.90, R.133 Ligands: PO4.3, PO4.12 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain D Water bridges: A:R.161, D:D.30, D:V.64, D:R.133 Salt bridges: A:H.122, A:R.161, D:R.133 Hydrogen bonds: D:G.90

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ronin, C. et al., Structure of Trypanosoma cruzi type B ribose 5-phosphate isomerase (TcRpiB). To Be Published

Release Date

2019-05-22

Peptides

Ribose 5-phosphate isomerase, putative: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Ribose 5-phosphate isomerase, putative