SMTL ID : 5hvh.1

Crystal Structure of Thrombin-activatable Fibrinolysis Inhibitor in Complex with two Inhibitory Nanobodies

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-1-1-1-mer

Ligands

3 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.22, T.25 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 5 residues within 4Å: Chain A: S.3, E.28, N.51, A.52, S.53 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 5 residues within 4Å: Chain A: N.63 Chain C: V.54, G.55, S.56, T.57 No protein-ligand interaction detected (PLIP)

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

NAG.4: 6 residues within 4Å: Chain A: S.85, N.86, V.89, E.99, Q.100, E.376 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.100 Hydrogen bonds: A:Q.100

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 3 residues within 4Å: Chain A: H.159, E.162, H.288 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.159, A:E.162, A:E.162, A:H.288

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, X. et al., Elucidation of the molecular mechanisms of two nanobodies that inhibit thrombin-activatable fibrinolysis inhibitor activation and activated thrombin-activatable fibrinolysis inhibitor activity. J.Thromb.Haemost. (2016)

Release Date

2016-06-22

Peptides

Carboxypeptidase B2: A
VHH-a204: B
VHH-i83: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Carboxypeptidase B2

VHH-a204

VHH-i83

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