SMTL ID : 4nt5.1

Crystal structure of human von Willebrand factor CTCK domain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.28 Å

Oligo State

homo-dimer

Ligands

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 5 residues within 4Å: Chain A: S.32, C.33, N.84, S.86 Ligands: SO4.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.32, A:S.86, A:S.86 NAG.8: 5 residues within 4Å: Chain B: S.32, C.33, N.84, S.86 Ligands: SO4.12 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.32, B:S.86, B:S.86

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 2 residues within 4Å: Chain A: D.40, H.42 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.40, A:D.40, A:H.42 ZN.9: 2 residues within 4Å: Chain B: D.40, H.42 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.40, B:D.40, B:H.42

10 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 1 residues within 4Å: Chain A: Y.89 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.89 SO4.4: 3 residues within 4Å: Chain A: S.55, I.56, D.57 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.56, A:D.57, A:D.57 SO4.5: 3 residues within 4Å: Chain A: G.31, S.32 Ligands: NAG.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.32 SO4.6: 2 residues within 4Å: Chain A: K.29, K.34 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.29, A:K.34 SO4.7: 2 residues within 4Å: Chain A: S.101, R.103 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.101 Salt bridges: A:R.103 SO4.10: 1 residues within 4Å: Chain B: Y.89 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.89 SO4.11: 3 residues within 4Å: Chain B: S.55, I.56, D.57 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:I.56, B:D.57, B:D.57 SO4.12: 3 residues within 4Å: Chain B: G.31, S.32 Ligands: NAG.8 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.32 SO4.13: 2 residues within 4Å: Chain B: K.29, K.34 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:K.29, B:K.34 SO4.14: 2 residues within 4Å: Chain B: S.101, R.103 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.101 Salt bridges: B:R.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, Y.F. et al., Highly reinforced structure of a C-terminal dimerization domain in von Willebrand factor. Blood (2014)

Release Date

2014-01-01

Peptides

von Willebrand factor: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

von Willebrand factor