SMTL ID : 2znh.1

Crystal Structure of a Domain-Swapped Serpin Dimer

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: C.21, C.95, N.96 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG-MAN.2: 7 residues within 4Å: Chain A: N.18, P.19, M.20, N.155, T.157 Chain B: A.356, E.357 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:N.18 Hydrogen bonds: A:N.18 NAG-NAG-MAN.3: 7 residues within 4Å: Chain A: A.356, E.357 Chain B: N.18, P.19, M.20, N.155, T.157 No protein-ligand interaction detected (PLIP)

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

NAG.4: 1 residues within 4Å: Chain A: N.192 No protein-ligand interaction detected (PLIP) NAG.5: 1 residues within 4Å: Chain B: N.96 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.96

2 x CIT: CITRIC ACID(Non-functional Binders)

CIT.6: 4 residues within 4Å: Chain B: H.1, G.2, S.3, P.4 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.2 Salt bridges: B:H.1 CIT.7: 3 residues within 4Å: Chain B: R.145, W.189, K.193 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:K.193 Water bridges: B:R.145 Salt bridges: B:R.145, B:R.145, B:K.193, B:K.193, B:K.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yamasaki, M. et al., Crystal structure of a stable dimer reveals the molecular basis of serpin polymerization. Nature (2008)

Release Date

2008-10-21

Peptides

Antithrombin-III: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Antithrombin-III

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