SMTL ID : 6ci6.1

Crystal structure of equine serum albumin in complex with nabumetone

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: K.412, T.539, K.540, E.541 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.540 Salt bridges: A:K.412, A:K.540 SO4.2: 5 residues within 4Å: Chain A: A.303, L.304, A.305, R.336 Ligands: TRS.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.304, A:A.305 Salt bridges: A:R.336 SO4.3: 4 residues within 4Å: Chain A: S.65, H.67, T.68, E.95 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.65, A:S.65, A:T.68 Salt bridges: A:H.67 SO4.4: 4 residues within 4Å: Chain A: E.118, P.119, D.120, A.121 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.120, A:A.121 SO4.5: 4 residues within 4Å: Chain A: R.427, K.431, D.518, I.522 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.518 Salt bridges: A:R.427, A:K.431

2 x NBO: nabumetone(Non-covalent)

NBO.6: 13 residues within 4Å: Chain A: N.390, C.391, F.402, R.409, Y.410, K.413, L.429, V.432, G.433, C.437, S.448, L.452, S.488 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:N.390, A:F.402, A:L.452, A:L.452 Hydrogen bonds: A:Y.410 NBO.7: 7 residues within 4Å: Chain A: D.401, N.404, A.405, K.540, E.541, K.544, L.547 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.405, A:K.540, A:K.544, A:K.544, A:K.544 Hydrogen bonds: A:N.404

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.8: 5 residues within 4Å: Chain A: Y.333, R.336, H.337, F.373 Ligands: SO4.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.333, A:R.336 Water bridges: A:Y.340, A:Y.340

1 x KNA: nonanoic acid(Non-covalent)

KNA.9: 7 residues within 4Å: Chain A: A.212, L.326, G.327, K.350, S.479, L.480, A.481 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.326, A:A.481 Hydrogen bonds: A:L.480 Salt bridges: A:K.350

8 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.10: 3 residues within 4Å: Chain A: G.21, L.24 Ligands: UNX.11 No protein-ligand interaction detected (PLIP) UNX.11: 2 residues within 4Å: Chain A: D.131 Ligands: UNX.10 No protein-ligand interaction detected (PLIP) UNX.12: 4 residues within 4Å: Chain A: T.428, L.454, A.455 Ligands: UNX.14 No protein-ligand interaction detected (PLIP) UNX.13: 2 residues within 4Å: Chain A: L.115 Ligands: UNX.15 No protein-ligand interaction detected (PLIP) UNX.14: 2 residues within 4Å: Chain A: L.190 Ligands: UNX.12 No protein-ligand interaction detected (PLIP) UNX.15: 1 residues within 4Å: Ligands: UNX.13 No protein-ligand interaction detected (PLIP) UNX.16: 2 residues within 4Å: Chain A: K.17, D.131 No protein-ligand interaction detected (PLIP) UNX.17: 1 residues within 4Å: Chain A: K.17 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Czub, M.P. et al., Albumin-Based Transport of Nonsteroidal Anti-Inflammatory Drugs in Mammalian Blood Plasma. J.Med.Chem. (2020)

Release Date

2018-03-07

Peptides

Serum albumin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Serum albumin

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