SMTL ID : 8chl.1 (1 other biounit)

Human FKBP12 in complex with (1S,5S,6R)-9-((3,5-dichlorophenyl)sulfonyl)-3-(pyridin-2-ylmethyl)-5-vinyl-3,9-diazabicyclo[4.2.1]nonan-2-one

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x USV: (1~{S},5~{S},6~{R})-10-[3,5-bis(chloranyl)phenyl]sulfonyl-5-ethenyl-3-(pyridin-2-ylmethyl)-3,10-diazabicyclo[4.3.1]decan-2-one(Non-covalent)

USV.1: 16 residues within 4Å: Chain A: Y.26, G.28, F.36, D.37, F.46, E.54, V.55, I.56, W.59, Y.82, H.87, I.90, I.91, L.97, F.99 Ligands: GOL.3 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.26, A:D.37, A:F.46, A:F.46, A:F.46, A:V.55, A:W.59, A:W.59, A:W.59, A:Y.82, A:I.90 Hydrogen bonds: A:I.56, A:Y.82

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

DMS.2: 8 residues within 4Å: Chain A: M.29, L.30, E.31, D.32, G.33, K.34, K.73, V.98 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.32

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: Q.53, E.54, V.55, I.56, Y.82, H.87 Ligands: USV.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.53 GOL.4: 2 residues within 4Å: Chain A: K.34, K.35 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.35 Water bridges: A:K.34, A:K.35 GOL.5: 1 residues within 4Å: Chain A: P.9 No protein-ligand interaction detected (PLIP)

4 x CD: CADMIUM ION(Non-covalent)

CD.6: 3 residues within 4Å: Chain A: H.25, E.102, L.104 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.25, A:E.102, H2O.3, H2O.4 CD.7: 1 residues within 4Å: Chain A: D.32 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.32 CD.8: 2 residues within 4Å: Chain A: E.31, T.96 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.31, H2O.1, H2O.4 CD.9: 1 residues within 4Å: Chain A: E.61 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.61, H2O.1

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

SO4.10: 4 residues within 4Å: Chain A: G.1, V.2, Q.3, S.77 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.1 Water bridges: A:Q.3, A:Q.3 SO4.11: 5 residues within 4Å: Chain A: Y.82, G.83, A.84, T.85, G.86 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.84, A:T.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Purder, P.L. et al., Deconstructing Protein Binding of Sulfonamides and Sulfonamide Analogues. Jacs Au (2023)

Release Date

2023-09-06

Peptides

Peptidyl-prolyl cis-trans isomerase FKBP1A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peptidyl-prolyl cis-trans isomerase FKBP1A

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