SMTL ID : 9dpu.1

BMP-9 G389S Dimer in Acidic pH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

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

CL.1: 3 residues within 4Å: Chain A: T.52, K.53 Chain B: G.101 Ligand excluded by PLIP CL.2: 3 residues within 4Å: Chain A: F.43, P.44, L.45 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: K.96, Y.97, H.98 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: Y.97, H.98 Ligand excluded by PLIP CL.5: 6 residues within 4Å: Chain A: V.49, T.50, P.51, G.108, C.109, R.110 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain A: G.101 Chain B: T.52, K.53 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain B: F.43, P.44, L.45 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain B: K.96, Y.97, H.98 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain B: Y.97, H.98 Ligand excluded by PLIP CL.13: 6 residues within 4Å: Chain B: V.49, T.50, P.51, G.108, C.109, R.110 Ligand excluded by PLIP

2 x NA: SODIUM ION(Non-functional Binders)

NA.6: 4 residues within 4Å: Chain A: F.65, P.66, T.67, K.68 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.67, A:T.67, A:T.67 NA.14: 4 residues within 4Å: Chain B: F.65, P.66, T.67, K.68 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.67

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 4 residues within 4Å: Chain A: I.82, S.83, Y.97, H.98 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.97, A:H.98 Water bridges: A:P.81 GOL.8: 5 residues within 4Å: Chain A: W.25, V.84, Y.86, K.96, Y.99 No protein-ligand interaction detected (PLIP) GOL.15: 4 residues within 4Å: Chain B: I.82, S.83, Y.97, H.98 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.97, B:H.98 Water bridges: B:P.81 GOL.16: 5 residues within 4Å: Chain B: W.25, V.84, Y.86, K.96, Y.99 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schwartze, T.A. et al., Molecular Basis of Interchain Disulfide Bond Formation in BMP-9 and BMP-10. J.Mol.Biol. (2025)

Release Date

2025-03-05

Peptides

Growth/differentiation factor 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Growth/differentiation factor 2

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