SMTL ID : 6x7z.1

Inositol-bound structure of Marinomonas primoryensis PA14 carbohydrate-binding domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.00 Å

Oligo State

monomer

Ligands

6 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)

CA.1: 7 residues within 4Å: Chain A: D.101, D.102, D.146, Q.147, G.148, D.150 Ligands: INS.6 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.101, A:D.102, A:D.146, A:G.148, A:D.150 CA.2: 3 residues within 4Å: Chain A: G.55, D.72, P.73 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:G.55, A:D.72, A:P.73, H2O.3, H2O.5 CA.3: 4 residues within 4Å: Chain A: Q.18, T.77, D.78, Q.147 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.78, A:Q.147, H2O.1, H2O.7, H2O.8 CA.4: 4 residues within 4Å: Chain A: Y.13, V.29, K.32, E.33 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:Y.13, A:V.29, A:K.32, H2O.7, H2O.8 CA.7: 1 residues within 4Å: Chain A: G.63 No protein-ligand interaction detected (PLIP) CA.8: 2 residues within 4Å: Chain A: S.121 Ligands: INS.6 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.121, H2O.1, H2O.7

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 3 residues within 4Å: Chain A: T.56, Q.59, E.60 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.56 Water bridges: A:E.60

1 x INS: 1,2,3,4,5,6-HEXAHYDROXY-CYCLOHEXANE(Non-covalent)

INS.6: 13 residues within 4Å: Chain A: D.101, D.102, N.119, Q.120, S.121, V.122, D.146, Q.147, G.148, G.149, D.150 Ligands: CA.1, CA.8 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.102, A:Q.147, A:G.148, A:D.150 Water bridges: A:N.119, A:S.121

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guo, S. et al., Structural Basis of Ligand Selectivity by a Bacterial Adhesin Lectin Involved in Multispecies Biofilm Formation. Mbio (2021)

Release Date

2021-06-02

Peptides

Antifreeze protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Antifreeze protein

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