SMTL ID : 6beg.1

Crystal structure of VACV D13 F486A mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

homo-trimer

Ligands

7 x FMT: FORMIC ACID(Non-functional Binders)

FMT.1: 5 residues within 4Å: Chain A: P.90, Y.275, Y.285, D.427, F.435 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.275, A:Y.285 FMT.2: 2 residues within 4Å: Chain A: D.327, D.329 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.327 FMT.3: 5 residues within 4Å: Chain A: T.403, S.404, N.407, Y.409, N.410 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.403 FMT.6: 7 residues within 4Å: Chain B: S.311, N.348, M.351, Y.409, N.410, G.411, N.413 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.311, B:N.410, B:G.411, B:N.413 FMT.8: 4 residues within 4Å: Chain C: I.360, Y.361, N.362, K.365 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.362 FMT.9: 6 residues within 4Å: Chain C: P.90, K.95, Y.275, Y.285, I.425, D.427 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.95 FMT.10: 3 residues within 4Å: Chain A: K.471 Chain C: N.123, N.124 1 PLIP interactions: 1 interactions with chain C Water bridges: C:N.124

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 8 residues within 4Å: Chain A: Y.361, N.391, I.393, D.394, I.397, H.518, P.519, I.520 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.391, A:H.518, A:I.520 Water bridges: A:Y.361 EDO.5: 3 residues within 4Å: Chain A: V.166, E.167, D.168 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.166 EDO.7: 8 residues within 4Å: Chain B: Y.361, N.391, I.393, D.394, I.397, H.518, P.519, I.520 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.391, B:H.518, B:I.520 EDO.11: 7 residues within 4Å: Chain C: Y.361, N.391, I.393, I.397, H.518, P.519, I.520 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.391, C:H.518, C:I.520

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garriga, D. et al., Structural basis for the inhibition of poxvirus assembly by the antibiotic rifampicin. Proc. Natl. Acad. Sci. U.S.A. (2018)

Release Date

2018-07-18

Peptides

Scaffold protein D13: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Scaffold protein D13