SMTL ID : 6hc7.4 (3 other biounits)

The crystal structure of BSAP, a zinc aminopeptidase from Bacillus subtilis (medium resolution)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-trimer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.250, D.262, D.323 Ligands: ZN.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.250, A:D.262, A:D.323, A:D.323, H2O.1 ZN.2: 6 residues within 4Å: Chain A: D.262, E.295, Y.400, H.401, E.452 Ligands: ZN.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.262, A:E.295, A:H.401, A:E.452, H2O.1 ZN.7: 5 residues within 4Å: Chain B: H.250, D.262, E.294, D.323 Ligands: ZN.8 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.250, B:D.262, B:D.323, H2O.4, H2O.9 ZN.8: 6 residues within 4Å: Chain B: D.262, E.295, Y.400, H.401, E.452 Ligands: ZN.7 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.262, B:E.295, B:H.401, B:E.452, H2O.4 ZN.13: 4 residues within 4Å: Chain C: H.250, D.262, D.323 Ligands: ZN.14 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.250, C:D.262, C:D.323, C:D.323, H2O.10 ZN.14: 6 residues within 4Å: Chain C: D.262, E.295, Y.400, H.401, E.452 Ligands: ZN.13 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.262, C:E.295, C:H.401, C:E.452, H2O.10

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

SO4.3: 3 residues within 4Å: Chain A: R.275, K.278 Chain B: K.46 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Water bridges: A:R.275 Salt bridges: A:R.275, A:K.278, B:K.46 SO4.4: 1 residues within 4Å: Chain A: Y.346 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.346 SO4.9: 4 residues within 4Å: Chain B: P.42, K.44, R.275 Chain C: S.50 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Salt bridges: B:K.44, B:R.275 Hydrogen bonds: C:S.50, C:S.50

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

ACT.5: 2 residues within 4Å: Chain A: H.241, K.311 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.241, A:K.311 ACT.10: 4 residues within 4Å: Chain A: R.39 Chain B: S.411, K.412, E.413 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Water bridges: A:R.39 Salt bridges: A:R.39 Hydrogen bonds: B:K.412, B:E.413 ACT.15: 1 residues within 4Å: Chain C: Q.90 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:Q.90 Hydrogen bonds: C:Q.90

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

CL.6: 3 residues within 4Å: Chain A: K.412 Chain C: P.42, R.275 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Chain B: L.363 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain B: R.39, Y.427 Ligand excluded by PLIP CL.16: 2 residues within 4Å: Chain A: K.46 Chain C: R.275 Ligand excluded by PLIP CL.17: 3 residues within 4Å: Chain A: K.46 Chain C: K.46, H.47 Ligand excluded by PLIP CL.18: 1 residues within 4Å: Chain C: R.39 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alhadeff, R. et al., The crystal structure of BSAP, a zinc aminopeptidase from Bacillus subtilis (medium resolution). To Be Published

Release Date

2019-08-28

Peptides

Aminopeptidase Y (Arg Lys Leu preference): ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Aminopeptidase Y (Arg Lys Leu preference)

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