SMTL ID : 8gyr.2 (1 other biounit)

Crystal structure of a variable region segment of Leptospira host-interacting outer surface protein, LigA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.87 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: V.9, T.12, K.83, T.84 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:V.9, H2O.4, H2O.5, H2O.6

1 x IOD: IODIDE ION(Non-functional Binders)

IOD.2: 2 residues within 4Å: Chain A: S.10, T.12 Ligand excluded by PLIP

3 x K: POTASSIUM ION(Non-covalent)

K.3: 4 residues within 4Å: Chain A: S.46, S.48, K.49, L.51 No protein-ligand interaction detected (PLIP) K.4: 4 residues within 4Å: Chain A: S.95, I.96, S.171, S.172 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.171, H2O.1 K.9: 1 residues within 4Å: Chain A: N.138 No protein-ligand interaction detected (PLIP)

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

EDO.5: 3 residues within 4Å: Chain A: H.134, K.164, T.166 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.164, A:K.164, A:T.166 EDO.6: 2 residues within 4Å: Chain A: K.45, S.47 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.45

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.7: 3 residues within 4Å: Chain A: T.110, K.112, Q.152 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.152 Water bridges: A:K.112 Salt bridges: A:K.112

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

NA.8: 1 residues within 4Å: Chain A: N.138 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.138 NA.10: 3 residues within 4Å: Chain A: I.38, Q.41, L.77 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.41, A:Q.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, P. et al., Crystal structure of a variable region segment of Leptospira host-interacting outer surface protein, LigA, reveals the orientation of Ig-like domains. Int.J.Biol.Macromol. (2023)

Release Date

2023-06-28

Peptides

LigA: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

LigA