SMTL ID : 5b0p.1

Beta-1,2-Mannobiose phosphorylase from Listeria innocua - glycerol complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 8 residues within 4Å: Chain A: K.188, D.189, R.206, R.246, H.265, Y.273, F.314 Ligands: GOL.5 7 PLIP interactions: 7 interactions with chain A Water bridges: A:R.246, A:R.246, A:R.246 Salt bridges: A:K.188, A:R.206, A:R.246, A:H.265 SO4.2: 3 residues within 4Å: Chain A: V.17, K.18, R.110 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.18, A:K.18 Water bridges: A:R.110, A:R.110 Salt bridges: A:R.110 SO4.3: 3 residues within 4Å: Chain A: E.177, Q.179, R.226 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.179 Water bridges: A:Q.179, A:R.226 Salt bridges: A:R.226 SO4.9: 7 residues within 4Å: Chain B: K.188, D.189, R.206, R.246, H.265, Y.273, F.314 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:D.189, B:Y.273, B:Y.273 Water bridges: B:R.206, B:R.246, B:R.246 Salt bridges: B:K.188, B:R.206, B:R.246, B:H.265 SO4.10: 4 residues within 4Å: Chain B: R.89, M.90, R.246 Ligands: GOL.13 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Water bridges: B:K.188, B:S.208, B:R.246, A:S.211 Salt bridges: B:R.89, B:R.246 SO4.11: 4 residues within 4Å: Chain B: V.17, K.18, R.110, L.122 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:K.18 Water bridges: B:R.110, B:R.110, B:R.110, B:E.124 Salt bridges: B:R.110 SO4.12: 2 residues within 4Å: Chain B: Q.179, R.226 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.179 Salt bridges: B:R.226

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: R.46, L.103, E.140, V.158, K.188 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.46, A:K.188 Water bridges: A:R.46, A:S.156 GOL.5: 7 residues within 4Å: Chain A: N.31, R.89, Y.273, F.309, F.314, D.333 Ligands: SO4.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.31, A:R.89, A:Y.273 Water bridges: A:N.31, A:R.46, A:R.246, A:D.333 GOL.6: 4 residues within 4Å: Chain A: L.234, L.235, G.236, R.291 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.236, A:R.291 Water bridges: A:H.233, A:H.233 GOL.13: 5 residues within 4Å: Chain B: R.46, L.103, E.140, K.188 Ligands: SO4.10 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.46, B:K.188 Water bridges: B:R.46, B:S.156, B:K.188

4 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.7: 4 residues within 4Å: Chain A: I.20, H.21, E.22, Y.129 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.22 MES.8: 7 residues within 4Å: Chain A: I.147, G.148, D.149, T.150, H.152, K.171, Y.201 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.149, A:T.150 Salt bridges: A:K.171 MES.14: 4 residues within 4Å: Chain B: I.20, H.21, E.22, Y.129 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.22 MES.15: 6 residues within 4Å: Chain B: I.147, G.148, D.149, T.150, K.171, Y.201 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.149, B:T.150 Water bridges: B:R.226 Salt bridges: B:K.171

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tsuda, T. et al., Characterization and crystal structure determination of beta-1,2-mannobiose phosphorylase from Listeria innocua. Febs Lett. (2015)

Release Date

2015-12-02

Peptides

Lin0857 protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lin0857 protein

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