SMTL ID : 7ahv.1

Anti-FIXa Fab of mim8 in complex with human FIXa

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.11 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: E.1, G.26 Ligand excluded by PLIP SO4.2: 7 residues within 4Å: Chain A: Y.100, G.101, S.102, N.107 Chain B: K.50 Chain D: R.158 Ligands: SO4.7 Ligand excluded by PLIP SO4.3: 2 residues within 4Å: Chain A: R.16, S.17 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain A: F.27, T.28, Y.32 Ligand excluded by PLIP SO4.5: 5 residues within 4Å: Chain A: F.27, T.28, F.29, H.30, N.77 Ligand excluded by PLIP SO4.6: 4 residues within 4Å: Chain B: Q.37, K.39, K.42, K.45 Ligand excluded by PLIP SO4.7: 4 residues within 4Å: Chain B: Y.49, K.50, K.53 Ligands: SO4.2 Ligand excluded by PLIP SO4.8: 2 residues within 4Å: Chain B: P.59, R.61 Ligand excluded by PLIP SO4.9: 4 residues within 4Å: Chain B: P.59, S.60, R.61, Q.79 Ligand excluded by PLIP SO4.10: 7 residues within 4Å: Chain C: F.15, C.28, T.29 Chain D: I.110, A.111, D.112, K.229 Ligand excluded by PLIP SO4.12: 5 residues within 4Å: Chain D: H.76, H.77, W.227 Ligands: SO4.16, SO4.18 Ligand excluded by PLIP SO4.13: 4 residues within 4Å: Chain D: G.20, K.21, V.47, K.48 Ligand excluded by PLIP SO4.14: 3 residues within 4Å: Chain D: K.85, Y.86 Ligands: 0GJ.11 Ligand excluded by PLIP SO4.15: 4 residues within 4Å: Chain D: H.88, N.167, R.223 Ligands: SO4.18 Ligand excluded by PLIP SO4.16: 4 residues within 4Å: Chain D: H.77, N.78 Ligands: SO4.12, SO4.18 Ligand excluded by PLIP SO4.17: 7 residues within 4Å: Chain D: S.159, T.160, G.206, E.207, K.214, Y.215, I.217 Ligand excluded by PLIP SO4.18: 9 residues within 4Å: Chain D: H.76, N.78, H.88, N.167, R.223, Y.224 Ligands: SO4.12, SO4.15, SO4.16 Ligand excluded by PLIP

1 x 0GJ: L-alpha-glutamyl-N-{(1S)-4-{[amino(iminio)methyl]amino}-1-[(1S)-2-chloro-1-hydroxyethyl]butyl}glycinamide(Covalent)

0GJ.11: 16 residues within 4Å: Chain D: C.26, H.41, Y.86, D.179, S.180, C.181, Q.182, G.183, D.184, S.185, S.204, W.205, G.206, E.208, G.216 Ligands: SO4.14 10 PLIP interactions: 10 interactions with chain D Hydrogen bonds: D:Y.86, D:S.180, D:Q.182, D:G.183, D:S.185, D:S.204, D:G.206, D:G.206, D:E.208 Salt bridges: D:D.179

1 x CA: CALCIUM ION(Non-covalent)

CA.19: 6 residues within 4Å: Chain D: E.55, H.56, N.57, E.60, E.62, E.65 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.55, D:N.57, D:E.60, D:E.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ostergaard, H. et al., A factor VIIIa-mimetic bispecific antibody, Mim8, ameliorates bleeding upon severe vascular challenge in hemophilia A mice. Blood (2021)

Release Date

2021-07-07

Peptides

anti-FIXa Fab of mim8 heavy chain: A
anti-FIXa Fab of mim8 light chain: B
Coagulation factor IX: C
Coagulation factor IX: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
L

D
H

anti-FIXa Fab of mim8 heavy chain

anti-FIXa Fab of mim8 light chain

Coagulation factor IX

Coagulation factor IX

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