SMTL ID : 6q9s.2 (2 other biounits)

HDMX (14-111; C17S) COMPLEXED WITH COMPOUND 14 AT 2.4A: Structural states of Hdm2 and HdmX: X-ray elucidation of adaptations and binding interactions for different chemical compound classes

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x HRN: 3-[[6-chloranyl-3-[3-[(1~{S})-1-(2,4-dichlorophenyl)ethyl]-5-phenyl-imidazol-4-yl]-1~{H}-indol-2-yl]carbonylamino]-4-[4-(2-oxidanylidene-1,3-oxazinan-3-yl)piperidin-1-yl]benzoic acid(Non-covalent)

HRN.1: 16 residues within 4Å: Chain A: K.39, M.42, H.43, L.45, G.46, I.49, M.50, Y.55, Q.60, F.79, V.81, P.84, L.87 Ligands: O4B.6, O4B.7, NA.11 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.45, A:I.49, A:I.49, A:Y.55, A:Y.55, A:Y.55, A:V.81 Hydrogen bonds: A:M.42, A:G.46 Salt bridges: A:K.39, A:H.43

7 x O4B: 1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE(Non-covalent)

O4B.2: 4 residues within 4Å: Chain A: L.20, P.21, K.24, L.69 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.24 O4B.3: 6 residues within 4Å: Chain A: V.16, V.38, Y.88, L.91, R.92, T.97 No protein-ligand interaction detected (PLIP) O4B.4: 5 residues within 4Å: Chain A: G.66, G.71, G.75, R.76, Q.77 No protein-ligand interaction detected (PLIP) O4B.5: 4 residues within 4Å: Chain A: K.19, P.21, K.93, N.94 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.19 O4B.6: 3 residues within 4Å: Chain A: V.81 Ligands: HRN.1, NA.11 No protein-ligand interaction detected (PLIP) O4B.7: 5 residues within 4Å: Chain A: H.43, G.46, Q.47, M.50 Ligands: HRN.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.47 O4B.8: 4 residues within 4Å: Chain A: E.72, L.73, G.75, K.93 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.93

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

SO4.9: 5 residues within 4Å: Chain A: K.24, A.28, Y.48, K.52, L.69 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.52 SO4.10: 3 residues within 4Å: Chain A: G.33, E.34, M.35 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.34, A:M.35

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

NA.11: 2 residues within 4Å: Ligands: HRN.1, O4B.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kallen, J. et al., Structural States of Hdm2 and HdmX: X-ray Elucidation of Adaptations and Binding Interactions for Different Chemical Compound Classes. Chemmedchem (2019)

Release Date

2019-05-15

Peptides

Protein Mdm4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Protein Mdm4

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