SMTL ID : 5z2k.1 (1 other biounit)

Structure of S38A mutant Mn-bound periplasmic metal binding protein from candidatus liberibacter asiaticus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: H.39, H.106, E.172, N.193, D.247 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.39, A:H.106, A:E.172, A:E.172, A:D.247

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

SO4.2: 5 residues within 4Å: Chain A: V.28, T.29, T.30, E.33, K.50 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:V.28, A:T.30, A:E.33 Water bridges: A:T.30, A:T.30, A:K.50, A:K.50 Salt bridges: A:K.50

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

ACT.3: 1 residues within 4Å: Chain A: R.211 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.211 ACT.4: 4 residues within 4Å: Chain A: R.198, T.223, N.224, S.225 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.225 Water bridges: A:R.198, A:T.223 Salt bridges: A:R.198 ACT.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ACT.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ACT.7: 3 residues within 4Å: Chain A: G.87, N.89, P.90 No protein-ligand interaction detected (PLIP) ACT.8: 1 residues within 4Å: Chain A: N.74 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Q.52, A:Y.71

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 1 residues within 4Å: Chain A: R.141 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.141, A:R.141 Water bridges: A:E.142 GOL.10: 5 residues within 4Å: Chain A: S.12, G.15, D.16, V.28, T.30 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.12 Water bridges: A:T.30, A:T.30, A:E.33 GOL.11: 3 residues within 4Å: Chain A: H.205, N.208, Q.209 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.205, A:N.208, A:Q.209 Water bridges: A:H.205 GOL.12: 2 residues within 4Å: Chain A: Q.19, N.20 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.19, A:N.20, A:N.20 Water bridges: A:K.146 GOL.13: 4 residues within 4Å: Chain A: S.199, P.200, S.201, R.204 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.201, A:S.201, A:R.204, A:R.204 GOL.14: 3 residues within 4Å: Chain A: T.44, A.46, D.47 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.44 Water bridges: A:S.45, A:D.47 GOL.15: 4 residues within 4Å: Chain A: Y.245, S.250, K.251, G.254 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.245, A:K.251 Water bridges: A:S.222, A:S.222, A:Y.245

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Saini, G. et al., The analysis of subtle internal communications through mutation studies in periplasmic metal uptake protein CLas-ZnuA2. J. Struct. Biol. (2018)

Release Date

2018-10-03

Peptides

Periplasmic solute binding protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Periplasmic solute binding protein

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