SMTL ID : 2vrp.1 (1 other biounit)

Structure of rhodocytin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.41 Å

Oligo State

hetero-2-2-mer

Ligands

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

NA.1: 2 residues within 4Å: Chain A: S.91, S.92 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.92, A:S.92 NA.2: 1 residues within 4Å: Chain A: Y.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.12 NA.3: 4 residues within 4Å: Chain B: D.1, W.6, S.7, S.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.8, B:S.8 Water bridges: B:S.8 NA.6: 1 residues within 4Å: Chain B: G.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.5 NA.7: 2 residues within 4Å: Chain C: S.91, S.92 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.92, C:S.92 NA.8: 1 residues within 4Å: Chain C: Y.12 No protein-ligand interaction detected (PLIP) NA.9: 4 residues within 4Å: Chain D: D.1, W.6, S.7, S.8 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:D.1, D:S.8 Water bridges: D:S.8 NA.12: 1 residues within 4Å: Chain D: G.5 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:G.5

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

CL.4: 6 residues within 4Å: Chain B: N.70, I.71, W.72, H.73, S.94, E.95 Ligand excluded by PLIP CL.5: 1 residues within 4Å: Chain B: N.18 Ligand excluded by PLIP CL.10: 6 residues within 4Å: Chain D: N.70, I.71, W.72, H.73, S.94, E.95 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Chain D: N.18 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watson, A.A. et al., Crystal Structure of Rhodocytin, a Ligand for the Platelet-Activating Receptor Clec-2. Protein Sci. (2008)

Release Date

2008-07-08

Peptides

AGGRETIN ALPHA CHAIN: AC
AGGRETIN BETA CHAIN: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

AGGRETIN ALPHA CHAIN

AGGRETIN BETA CHAIN

Related Entries With Identical Sequence