SMTL ID : 5s7b.1 (1 other biounit)

XChem group deposition -- Crystal Structure of human ACVR1 in complex with FM000329d

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.32 Å

Oligo State

monomer

Ligands

3 x LU8: 4-methyl-3-[4-(1-methylpiperidin-4-yl)phenyl]-5-(3,4,5-trimethoxyphenyl)pyridine(Non-covalent)

LU8.1: 17 residues within 4Å: Chain A: V.16, V.24, A.35, K.37, L.65, L.83, T.85, H.86, Y.87, H.88, G.91, D.95, K.142, N.143, L.145, A.155, D.156 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.16, A:V.16, A:A.35, A:Y.87, A:L.145, A:L.145 Hydrogen bonds: A:T.85, A:H.88 Water bridges: A:D.156 Salt bridges: A:D.95 LU8.7: 6 residues within 4Å: Chain A: V.6, A.7, R.8, W.29, D.71 Ligands: LU8.8 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.6, A:R.8 Hydrogen bonds: A:A.7 LU8.8: 3 residues within 4Å: Chain A: W.29, I.68 Ligands: LU8.7 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.29

8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 8 residues within 4Å: Chain A: H.61, E.62, I.64, L.65, G.66, H.86, H.88, C.153 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.66, A:H.88 EDO.3: 7 residues within 4Å: Chain A: F.233, D.235, V.236, Q.255, R.256, P.257, N.258 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.258 Water bridges: A:F.233, A:N.258, A:N.258 EDO.4: 2 residues within 4Å: Chain A: R.247, V.252 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.247, A:R.247 EDO.5: 6 residues within 4Å: Chain A: R.182, F.233, Y.234, V.237, P.238, N.239 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.182, A:R.182, A:P.238 EDO.14: 7 residues within 4Å: Chain A: V.57, M.58, L.59, R.60, H.120, G.130, K.131 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.60, A:R.60, A:G.130 EDO.15: 4 residues within 4Å: Chain A: N.223, I.225, R.262, S.265 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.265 Water bridges: A:S.222, A:R.262 EDO.16: 3 residues within 4Å: Chain A: G.19, R.20, Y.21 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.20, A:Y.21 EDO.17: 3 residues within 4Å: Chain A: R.218, K.230, Y.234 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.218, A:R.218 Water bridges: A:Y.234, A:Y.234

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.6: 1 residues within 4Å: Chain A: H.86 No protein-ligand interaction detected (PLIP)

2 x XH7: (3R)-thiolane-3-carboxylic acid(Non-covalent)

XH7.9: 3 residues within 4Å: Chain A: E.44, K.45, F.48 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.45, A:F.48 Salt bridges: A:K.45 XH7.10: 5 residues within 4Å: Chain A: H.61, S.116, H.120, I.123, I.125 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:H.120 Water bridges: A:H.120, A:K.294 Salt bridges: A:H.120, A:K.294

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

SO4.11: 3 residues within 4Å: Chain A: H.88, K.147, K.148 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.148 Water bridges: A:E.89, A:N.149 Salt bridges: A:H.88 SO4.12: 2 residues within 4Å: Chain A: P.260, N.261 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.261 Water bridges: A:R.262 SO4.13: 4 residues within 4Å: Chain A: R.182, N.239, D.240, P.241 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.240, A:D.240 Water bridges: A:R.182, A:R.182, A:N.239 Salt bridges: A:R.182

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Williams, E.P. et al., XChem group deposition. To Be Published

Release Date

2021-06-23

Peptides

Activin receptor type-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Activin receptor type-1

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