SMTL ID : 7wlf.1

Crystal structure of the HSA Fe complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: H.146, K.190, S.193, A.194 Ligands: CL.20 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.146, A:K.190, A:S.193

1 x 9IZ: 1-pyridin-2-yl-~{N}-(pyridin-2-ylmethyl)-~{N}-[(6-pyridin-2-ylpyridin-2-yl)methyl]methanamine(Non-covalent)

9IZ.2: 11 residues within 4Å: Chain A: F.156, F.157, K.159, R.160, K.281, E.285, H.288, C.289, E.292 Ligands: FE.3, CL.34 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.156, A:F.156, A:R.160, A:K.281 pi-Stacking: A:F.157 pi-Cation interactions: A:K.281

5 x FE: FE (III) ION(Non-covalent)

FE.3: 2 residues within 4Å: Chain A: H.288 Ligands: 9IZ.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.288 FE.4: 3 residues within 4Å: Chain A: H.128 Ligands: CL.23, CL.24 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.128, H2O.4 FE.5: 3 residues within 4Å: Chain A: H.367 Ligands: CL.21, CL.22 No protein-ligand interaction detected (PLIP) FE.6: 1 residues within 4Å: Chain A: S.454 No protein-ligand interaction detected (PLIP) FE.7: 1 residues within 4Å: Chain A: H.510 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.510

7 x PLM: PALMITIC ACID(Non-covalent)

PLM.8: 15 residues within 4Å: Chain A: S.342, V.344, R.348, P.384, L.387, I.388, Y.411, L.430, V.433, G.434, A.449, E.450, L.453, R.485 Ligands: PLM.9 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:P.384, A:L.387, A:I.388, A:I.388, A:L.430, A:V.433, A:A.449, A:E.450, A:L.453 Hydrogen bonds: A:S.342, A:L.345 Salt bridges: A:R.348, A:R.485 PLM.9: 12 residues within 4Å: Chain A: L.387, Y.411, V.415, V.418, T.422, L.457, L.460, H.464, R.485, F.488, S.489 Ligands: PLM.8 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.411, A:V.415, A:V.418, A:T.422, A:L.457, A:H.464, A:F.488, A:F.488 Hydrogen bonds: A:Y.411, A:Y.411 Salt bridges: A:R.410, A:K.414 PLM.10: 14 residues within 4Å: Chain A: R.10, L.14, L.22, V.23, V.46, L.66, F.70, Y.150, L.250, A.254, R.257, L.283, L.284, S.287 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.14, A:L.14, A:L.22, A:V.23, A:V.46, A:F.70, A:L.250, A:A.254 Hydrogen bonds: A:Y.150, A:Y.150, A:S.287 Water bridges: A:R.257, A:H.288 Salt bridges: A:R.257 PLM.11: 15 residues within 4Å: Chain A: Y.401, F.502, F.507, K.525, A.528, L.529, L.532, H.535, V.547, M.548, F.551, A.552, V.576, S.579, Q.580 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.502, A:F.507, A:F.507, A:F.507, A:A.528, A:L.529, A:L.532, A:V.547, A:M.548, A:F.551, A:F.551, A:Q.580 Hydrogen bonds: A:Y.401 Salt bridges: A:K.525 PLM.12: 12 residues within 4Å: Chain A: W.214, R.218, L.219, R.222, L.238, H.242, R.257, L.260, I.264, S.287, I.290, A.291 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:R.218, A:L.219, A:L.260, A:I.264, A:I.290, A:A.291 Salt bridges: A:H.242 PLM.13: 10 residues within 4Å: Chain A: R.209, A.210, A.213, V.216, D.324, L.327, L.347, A.350, K.351, V.482 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:A.210, A:A.213, A:V.216, A:L.327, A:L.347, A:A.350, A:K.351, A:V.482 PLM.14: 11 residues within 4Å: Chain A: R.117, Y.138, L.139, I.142, H.146, L.154, A.158, Y.161, F.165, R.186, G.189 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:R.117, A:Y.138, A:Y.138, A:L.139, A:I.142, A:I.142, A:I.142, A:L.154, A:A.158, A:Y.161, A:Y.161, A:Y.161, A:F.165 Salt bridges: A:H.146

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

DMS.15: 3 residues within 4Å: Chain A: L.135, K.136, A.158 No protein-ligand interaction detected (PLIP) DMS.16: 3 residues within 4Å: Chain A: E.244, E.252, D.256 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:E.244, A:E.252, A:D.256 DMS.17: 6 residues within 4Å: Chain A: Y.148, C.245, G.248, D.249, L.250, C.253 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.106 DMS.18: 1 residues within 4Å: Chain A: E.119 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.119

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

CL.19: 4 residues within 4Å: Chain A: V.426, N.429, V.456, Q.459 Ligand excluded by PLIP CL.20: 2 residues within 4Å: Chain A: R.197 Ligands: GOL.1 Ligand excluded by PLIP CL.21: 3 residues within 4Å: Chain A: H.367, A.371 Ligands: FE.5 Ligand excluded by PLIP CL.22: 2 residues within 4Å: Chain A: H.367 Ligands: FE.5 Ligand excluded by PLIP CL.23: 2 residues within 4Å: Chain A: H.128 Ligands: FE.4 Ligand excluded by PLIP CL.24: 2 residues within 4Å: Chain A: H.128 Ligands: FE.4 Ligand excluded by PLIP CL.25: 3 residues within 4Å: Chain A: D.183, R.186, D.187 Ligand excluded by PLIP CL.26: 1 residues within 4Å: Chain A: H.338 Ligand excluded by PLIP CL.27: 2 residues within 4Å: Chain A: P.339, D.340 Ligand excluded by PLIP CL.28: 2 residues within 4Å: Chain A: E.442, R.445 Ligand excluded by PLIP CL.29: 1 residues within 4Å: Chain A: W.214 Ligand excluded by PLIP CL.30: 2 residues within 4Å: Chain A: Y.30, L.250 Ligand excluded by PLIP CL.31: 3 residues within 4Å: Chain A: H.9, D.13, L.283 Ligand excluded by PLIP CL.32: 3 residues within 4Å: Chain A: V.418, S.419, T.422 Ligand excluded by PLIP CL.33: 2 residues within 4Å: Chain A: N.318, M.329 Ligand excluded by PLIP CL.34: 2 residues within 4Å: Chain A: K.281 Ligands: 9IZ.2 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bai, H.H. et al., Crystal structure of the HSA Fe complex. To be published

Release Date

2023-01-18

Peptides

Serum albumin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Serum albumin

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