SMTL ID : 7d18.1

Crystal structure of Acidobacteriales bacterium glutaminyl cyclase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.33 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: D.112, E.146, H.260, H.261 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.112, A:E.146, A:E.146, A:H.261, H2O.2

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

NA.2: 4 residues within 4Å: Chain A: D.187, D.189, D.245, D.247 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.189 Water bridges: A:G.249

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

SO4.3: 5 residues within 4Å: Chain A: G.214, H.215, Y.218, H.273 Ligands: GOL.14 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.218 Salt bridges: A:H.215, A:H.273 SO4.4: 3 residues within 4Å: Chain A: G.35, E.74, R.76 6 PLIP interactions: 6 interactions with chain A Water bridges: A:H.39, A:E.74, A:E.74, A:E.74, A:R.76 Salt bridges: A:R.76 SO4.5: 3 residues within 4Å: Chain A: R.161, K.235, R.236 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.236 Water bridges: A:R.161, A:K.235 Salt bridges: A:R.161, A:K.235 SO4.6: 3 residues within 4Å: Chain A: K.85, P.131, Q.133 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.133 Water bridges: A:K.85 Salt bridges: A:K.85 SO4.7: 3 residues within 4Å: Chain A: T.252, S.254, M.255 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.254, A:S.254 Water bridges: A:S.254 SO4.8: 4 residues within 4Å: Chain A: K.221, N.222, D.247, R.251 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.222, A:N.222 Water bridges: A:R.251 Salt bridges: A:K.221, A:R.251 SO4.9: 1 residues within 4Å: Chain A: H.261 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.261

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 2 residues within 4Å: Chain A: W.201, R.292 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.292, A:R.292 GOL.11: 4 residues within 4Å: Chain A: R.63, F.64, T.65, H.162 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.63, A:R.63, A:T.65 GOL.12: 4 residues within 4Å: Chain A: K.211, G.214, H.215, S.216 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.214, A:S.216 Water bridges: A:K.211, A:N.212, A:G.214, A:A.217 GOL.13: 6 residues within 4Å: Chain A: E.60, R.81, K.166, W.167, D.170, T.172 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.81, A:R.81, A:W.167, A:D.170 GOL.14: 4 residues within 4Å: Chain A: R.12, T.213, H.215 Ligands: SO4.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.12, A:T.213

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.15: 4 residues within 4Å: Chain A: Q.16, S.271, A.272, H.273 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.272, A:H.273 Water bridges: A:Q.16, A:Q.16, A:Y.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, K.F. et al., A Unique Carboxylic-Acid Hydrogen-Bond Network (CAHBN) Confers Glutaminyl Cyclase Activity on M28 Family Enzymes. J.Mol.Biol. (2021)

Release Date

2021-04-14

Peptides

Peptidase M28: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peptidase M28