SMTL ID : 4dtg.1

Hemostatic effect of a monoclonal antibody mAb 2021 blocking the interaction between FXa and TFPI in a rabbit hemophilia model

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-1-mer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 11 residues within 4Å: Chain A: Q.165, S.167, S.181, S.182, T.183 Chain B: F.174, P.175, V.177, S.185, L.186, S.187 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.185, B:S.187, B:S.187, B:S.187, A:S.167, A:T.183 GOL.2: 8 residues within 4Å: Chain A: L.42, K.44, Q.50, L.52, P.64, F.67, E.86, D.87 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.44, A:Q.50, A:D.87 GOL.3: 5 residues within 4Å: Chain A: L.9, Y.92, G.105, G.106, K.108 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.9, A:Y.92, A:G.105 Water bridges: A:K.108, A:K.108 GOL.4: 2 residues within 4Å: Chain A: S.68, K.79 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.68, A:S.68 GOL.5: 5 residues within 4Å: Chain A: T.14, P.15, K.112, R.113, T.114 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.14, A:R.113 Water bridges: A:T.114 GOL.6: 5 residues within 4Å: Chain A: E.148, K.150, T.202, H.203, Q.204 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.202 Water bridges: A:Q.204 GOL.7: 3 residues within 4Å: Chain A: T.185, L.186, S.187 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.187 Water bridges: A:N.163, A:T.185, A:S.187 GOL.12: 6 residues within 4Å: Chain B: P.41, T.91, T.116, T.118, E.156 Ligands: PGE.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.118 Water bridges: B:Y.184 GOL.13: 7 residues within 4Å: Chain A: G.46, Q.47, S.48 Chain B: Y.95, Q.113 Ligands: PGE.9, GOL.14 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.46, A:Q.47 GOL.14: 5 residues within 4Å: Chain B: G.114, T.115, T.116, P.157 Ligands: GOL.13 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.116, B:T.116 Water bridges: B:G.9, B:T.116

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.8: 5 residues within 4Å: Chain B: N.163, S.164, T.203, N.205, D.216 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.164, B:T.203, B:N.205 Salt bridges: B:D.216

3 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.9: 8 residues within 4Å: Chain A: Q.43 Chain B: Q.39, T.40, P.41, K.43, V.93 Ligands: GOL.12, GOL.13 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.43 PGE.10: 10 residues within 4Å: Chain A: Q.101 Chain B: A.33, W.47, T.50, L.99, D.106 Chain C: E.11, R.34, F.35 Ligands: PGE.11 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:E.11, C:E.11, B:W.47, B:T.50 Water bridges: C:K.36 PGE.11: 8 residues within 4Å: Chain B: N.31, Y.32, R.53 Chain C: E.11, N.26, T.29, E.33 Ligands: PGE.10 11 PLIP interactions: 5 interactions with chain C, 6 interactions with chain B Hydrogen bonds: C:E.11 Water bridges: C:E.11, C:N.26, C:N.26, C:N.26, B:Y.32, B:A.33, B:R.53, B:R.53, B:Y.102, B:Y.102

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hilden, I. et al., Hemostatic effect of a monoclonal antibody mAb 2021 blocking the interaction between FXa and TFPI in a rabbit hemophilia model. Blood (2012)

Release Date

2012-06-13

Peptides

Humanized recombinant FAB fragment, FAB 2021, of a murine antibody, light chain: A
Humanized recombinant FAB fragment, FAB 2021, of a murine antibody, heavy chain: B
Tissue factor pathway inhibitor: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
K

Humanized recombinant FAB fragment, FAB 2021, of a murine antibody, light chain

Humanized recombinant FAB fragment, FAB 2021, of a murine antibody, heavy chain

Tissue factor pathway inhibitor