SMTL ID : 5c9f.1

Crystal structure of a retropepsin-like aspartic protease from Rickettsia conorii

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

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

CL.1: 2 residues within 4Å: Chain A: N.16, R.17 Ligand excluded by PLIP CL.2: 4 residues within 4Å: Chain A: K.87, K.115, Y.128, A.129 Ligand excluded by PLIP CL.3: 4 residues within 4Å: Chain A: I.92, K.93, S.109, R.113 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain A: K.87, E.88, A.130 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain B: K.87, K.115, Y.128, A.129 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain C: R.118, I.119 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain C: K.87, R.113, K.115, Y.128, A.129 Ligand excluded by PLIP CL.9: 4 residues within 4Å: Chain C: I.92, K.93, S.109, R.113 Ligand excluded by PLIP CL.10: 4 residues within 4Å: Chain D: K.87, K.115, Y.128, A.129 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain D: I.92, K.93, S.109, R.113 Ligand excluded by PLIP CL.12: 7 residues within 4Å: Chain D: T.46, K.47, G.99, D.100, L.101 Ligands: NA.14, NA.15 Ligand excluded by PLIP CL.13: 1 residues within 4Å: Chain D: N.29 Ligand excluded by PLIP

3 x NA: SODIUM ION(Non-functional Binders)

NA.6: 5 residues within 4Å: Chain B: G.97, L.98, G.99, D.100, L.101 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.97 NA.14: 3 residues within 4Å: Chain D: K.47, D.100 Ligands: CL.12 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.47, D:D.100 NA.15: 5 residues within 4Å: Chain D: K.47, G.97, G.99, L.101 Ligands: CL.12 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:K.47, D:G.97, D:G.97, D:L.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, M. et al., Structure of RC1339/APRc from Rickettsia conorii, a retropepsin-like aspartic protease. Acta Crystallogr. D Biol. Crystallogr. (2015)

Release Date

2015-10-14

Peptides

ApRick protease: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

ApRick protease

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