SMTL ID : 6i58.1

Allosteric activation of human prekallikrein by apple domain disc rotation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 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: 2 residues within 4Å: Chain A: N.108, S.110 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 2 residues within 4Å: Chain B: N.108, S.110 No protein-ligand interaction detected (PLIP)

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

CL.2: 1 residues within 4Å: Chain A: D.289 Ligand excluded by PLIP CL.3: 1 residues within 4Å: Chain A: R.308 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: H.214, H.274 Ligand excluded by PLIP CL.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.6: 2 residues within 4Å: Chain A: D.204, A.205 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Chain B: D.289 Ligand excluded by PLIP CL.12: 1 residues within 4Å: Chain B: R.308 Ligand excluded by PLIP CL.13: 2 residues within 4Å: Chain B: H.214, H.274 Ligand excluded by PLIP CL.14: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.15: 2 residues within 4Å: Chain B: D.204, A.205 Ligand excluded by PLIP

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 6 residues within 4Å: Chain A: E.361, T.364, W.383, Y.474, R.479, P.480 No protein-ligand interaction detected (PLIP) PEG.16: 6 residues within 4Å: Chain B: E.361, T.364, W.383, Y.474, R.479, P.480 No protein-ligand interaction detected (PLIP)

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

NAG.8: 1 residues within 4Å: Chain A: N.72 No protein-ligand interaction detected (PLIP) NAG.9: 4 residues within 4Å: Chain A: N.432, S.434, N.512, T.513 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.434, A:S.434, A:N.512 NAG.17: 1 residues within 4Å: Chain B: N.72 No protein-ligand interaction detected (PLIP) NAG.18: 4 residues within 4Å: Chain B: N.432, S.434, N.512, T.513 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.434, B:S.434, B:N.512

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, C. et al., Plasma kallikrein structure reveals apple domain disc rotated conformation compared to factor XI. J.Thromb.Haemost. (2019)

Release Date

2019-03-06

Peptides

Coagulation factor XI: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Coagulation factor XI

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