SMTL ID : 4xea.1

Crystal structure of putative M16-like peptidase from Alicyclobacillus acidocaldarius

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 4 residues within 4Å: Chain A: M.67, E.69, F.115, S.118 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.115 NA.7: 4 residues within 4Å: Chain B: M.67, E.69, F.115, S.118 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.69

2 x NI: NICKEL (II) ION(Non-covalent)

NI.2: 3 residues within 4Å: Chain A: H.61, H.65, E.136 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.61, A:H.65, A:E.136, H2O.1 NI.8: 3 residues within 4Å: Chain B: H.61, H.65, E.136 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.61, B:H.65, B:E.136, H2O.7

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

ACT.3: 1 residues within 4Å: Chain A: A.216 No protein-ligand interaction detected (PLIP) ACT.4: 6 residues within 4Å: Chain A: A.281, H.335, V.339, I.344, D.345, A.348 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.281, A:A.348 Hydrogen bonds: A:D.345 Salt bridges: A:H.335 ACT.9: 1 residues within 4Å: Chain B: A.216 No protein-ligand interaction detected (PLIP) ACT.10: 6 residues within 4Å: Chain B: A.281, H.335, V.339, I.344, D.345, A.348 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:A.281, B:A.348 Hydrogen bonds: B:D.345 Salt bridges: B:H.335

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain A: R.10, W.12, A.208, E.212 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.10, A:E.212, A:E.212 GOL.6: 2 residues within 4Å: Chain A: T.11, A.384 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.11 GOL.11: 4 residues within 4Å: Chain B: R.10, W.12, A.208, E.212 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.10, B:E.212 GOL.12: 2 residues within 4Å: Chain B: T.11, A.384 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Michalska, K. et al., Crystal structure of putative M16-like peptidase from Alicyclobacillus acidocaldarius. To Be Published

Release Date

2015-03-18

Peptides

Peptidase M16 domain protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Peptidase M16 domain protein