SMTL ID : 6owz.1

Spy H96L:Im7 L19pI-Phe complex; multiple anomalous datasets contained herein for element identification

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

11 x ZN: ZINC ION(Non-covalent)

ZN.1: 2 residues within 4Å: Chain A: Q.14, E.17 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.17, H2O.1, H2O.2 ZN.2: 1 residues within 4Å: Chain A: E.32 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.32, H2O.2 ZN.3: 2 residues within 4Å: Chain A: D.39 Ligands: IMD.18 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.39, A:D.39, H2O.1, H2O.2 ZN.4: 2 residues within 4Å: Chain A: D.47, K.50 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.47, H2O.2, H2O.2 ZN.5: 2 residues within 4Å: Chain A: E.59 Ligands: IMD.12 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.59, A:E.59, H2O.1 ZN.6: 6 residues within 4Å: Chain A: F.92, E.93 Chain B: R.35, H.38 Ligands: CL.10, IMD.13 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Metal complexes: A:E.93, B:H.38 ZN.7: 6 residues within 4Å: Chain A: R.35, H.38 Chain B: F.92, E.93 Ligands: CL.11, IMD.18 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Metal complexes: A:H.38, B:E.93, B:E.93 ZN.8: 1 residues within 4Å: Chain A: E.71 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.71, A:E.71 ZN.9: 2 residues within 4Å: Chain A: E.60, K.63 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.60, A:E.60, H2O.2 ZN.16: 2 residues within 4Å: Chain B: D.47, K.50 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.47, B:D.47, H2O.3 ZN.17: 1 residues within 4Å: Chain B: E.71 No protein-ligand interaction detected (PLIP)

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

CL.10: 7 residues within 4Å: Chain A: F.92, E.93 Chain B: R.34, R.35, H.38 Ligands: ZN.6, IMD.13 Ligand excluded by PLIP CL.11: 7 residues within 4Å: Chain A: R.34, R.35, H.38 Chain B: F.92, E.93 Ligands: ZN.7, IMD.18 Ligand excluded by PLIP

3 x IMD: IMIDAZOLE(Non-covalent)

IMD.12: 3 residues within 4Å: Chain A: A.56, E.59 Ligands: ZN.5 No protein-ligand interaction detected (PLIP) IMD.13: 6 residues within 4Å: Chain A: E.93 Chain B: R.35, H.38, D.39 Ligands: ZN.6, CL.10 No protein-ligand interaction detected (PLIP) IMD.18: 7 residues within 4Å: Chain A: R.35, H.38, D.39 Chain B: E.93 Ligands: ZN.3, ZN.7, CL.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.38

4 x IOD: IODIDE ION(Non-functional Binders)

IOD.14: 3 residues within 4Å: Chain A: Q.73, I.76, F.88 Ligand excluded by PLIP IOD.15: 2 residues within 4Å: Chain A: M.19, T.72 Ligand excluded by PLIP IOD.19: 3 residues within 4Å: Chain B: F.88, N.91, F.92 Ligand excluded by PLIP IOD.20: 3 residues within 4Å: Chain B: Q.73, I.76, F.88 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rocchio, S. et al., Identifying dynamic, partially occupied residues using anomalous scattering. Acta Crystallogr D Struct Biol (2019)

Release Date

2019-05-29

Peptides

Periplasmic chaperone Spy: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Periplasmic chaperone Spy

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