SMTL ID : 4odr.1 (1 other biounit)

Structure of SlyD delta-IF from Thermus thermophilus in complex with FK506

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

monomer

Ligands

1 x FK5: 8-DEETHYL-8-[BUT-3-ENYL]-ASCOMYCIN(Non-covalent)

FK5.1: 14 residues within 4Å: Chain A: Y.13, L.15, D.23, L.27, N.35, L.36, I.37, L.40, A.62, Y.63, I.71, I.72, F.80 Ligands: GOL.6 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.13, A:L.27, A:I.37, A:L.40, A:I.71, A:I.72 Hydrogen bonds: A:D.23, A:I.37

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: H.97, H.99, H.101 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.97, A:H.99, A:H.101 ZN.3: 5 residues within 4Å: Chain A: Q.5, D.6, H.33 Ligands: ACT.9, ACT.10 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.6, A:D.6, A:H.33

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

CL.4: 6 residues within 4Å: Chain A: S.28, Y.29, L.30, N.35, H.99, A.100 Ligand excluded by PLIP

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: P.69, G.70, I.71, I.72, P.73 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.70, A:I.72 Water bridges: A:G.70 GOL.6: 5 residues within 4Å: Chain A: Y.13, Q.24, G.25, E.26 Ligands: FK5.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.13, A:Q.24, A:E.26, A:E.26 GOL.7: 7 residues within 4Å: Chain A: T.10, S.28, K.86, R.88, H.101, P.102, S.103 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.28, A:K.86, A:K.86, A:R.88, A:R.88, A:S.103 Water bridges: A:T.10, A:S.103, A:G.104 GOL.8: 5 residues within 4Å: Chain A: A.43, R.47, Q.54, A.55, H.56 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.47, A:H.56, A:H.56 Water bridges: A:Q.54

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.9: 4 residues within 4Å: Chain A: D.6, L.95 Ligands: ZN.3, ACT.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.6 Salt bridges: A:H.33 ACT.10: 4 residues within 4Å: Chain A: Q.5, D.6 Ligands: ZN.3, ACT.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Quistgaard, E.M. et al., Molecular insights into substrate recognition and catalytic mechanism of the chaperone and FKBP peptidyl-prolyl isomerase SlyD. BMC Biol. (2016)

Release Date

2015-01-14

Peptides

Peptidyl-prolyl cis-trans isomerase SlyD, Peptidyl-prolyl cis-trans isomerase FKBP1A chimera: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peptidyl-prolyl cis-trans isomerase SlyD, Peptidyl-prolyl cis-trans isomerase FKBP1A chimera

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