SMTL ID : 4x1w.2 (1 other biounit)

Crystal structure of unbound RHDVb P domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 12 residues within 4Å: Chain A: T.134, V.136, Q.137, G.169, V.170, A.171 Chain B: T.134, V.136, Q.137, G.169, V.170, A.171 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.134, A:Q.137, A:A.171, B:T.134, B:A.171 EDO.2: 6 residues within 4Å: Chain A: H.60, D.61, S.85, A.86, A.87, D.88 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.61, A:A.86, A:D.88, A:D.88 EDO.3: 3 residues within 4Å: Chain B: T.145, G.146, Q.161 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.146, B:Q.161 EDO.4: 6 residues within 4Å: Chain B: H.60, D.61, S.85, A.86, A.87, D.88 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.61, B:D.61, B:A.86, B:D.88, B:D.88 Water bridges: B:D.61

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

CL.5: 3 residues within 4Å: Chain B: N.42, N.44, S.46 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain B: N.89, P.96, D.97 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Leuthold, M.M. et al., Structural analysis of a rabbit hemorrhagic disease virus binding to histo-blood group antigens. J.Virol. (2015)

Release Date

2015-01-14

Peptides

VP1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

VP1

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