SMTL ID : 5mua.1

PSL1a-E64 complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.49 Å

Oligo State

homo-dimer

Ligands

2 x GAL: beta-D-galactopyranose(Non-covalent)

GAL.1: 8 residues within 4Å: Chain A: D.72, L.73, A.74, G.75, H.76, I.85, Y.87, N.94 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.72, A:G.75, A:N.94 Salt bridges: A:H.76 GAL.8: 8 residues within 4Å: Chain B: D.72, L.73, A.74, G.75, H.76, I.85, Y.87, N.94 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.72, B:G.75, B:H.76, B:H.76, B:N.94 Salt bridges: B:H.76

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: E.204, D.207, D.209, D.210 Chain B: D.176 Ligands: CA.3 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Metal complexes: A:E.204, A:D.207, A:D.209, A:D.210, B:D.176 CA.3: 6 residues within 4Å: Chain A: D.207, D.209 Chain B: S.175, D.176 Ligands: CA.2, E64.4 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:S.175, B:D.176, A:D.207, A:D.209, H2O.5 CA.6: 6 residues within 4Å: Chain A: D.176 Chain B: E.204, D.207, D.209, D.210 Ligands: CA.7 5 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:D.176, B:E.204, B:D.209, B:D.210, H2O.10 CA.7: 6 residues within 4Å: Chain A: S.175, D.176 Chain B: D.207, D.209 Ligands: CA.6, E64.9 5 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:S.175, A:D.176, B:D.207, B:D.209, H2O.16

2 x E64: N-[N-[1-HYDROXYCARBOXYETHYL-CARBONYL]LEUCYLAMINO-BUTYL]-GUANIDINE(Covalent)

E64.4: 12 residues within 4Å: Chain A: W.201, D.207, C.208, D.209, F.240, A.247, H.248, A.249, Y.282 Chain B: L.174, S.175 Ligands: CA.3 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.240, A:F.240, A:A.247, B:L.174 Hydrogen bonds: A:C.208, A:A.247, A:A.247 Water bridges: A:Q.268, A:Q.268, B:L.174 Salt bridges: A:H.248 E64.9: 15 residues within 4Å: Chain A: G.153, A.154, L.174, S.175, D.176 Chain B: W.201, D.207, C.208, D.209, F.240, A.247, H.248, A.249, Y.282 Ligands: CA.7 10 PLIP interactions: 1 interactions with chain A, 9 interactions with chain B Hydrogen bonds: A:S.175, B:C.208, B:A.247 Hydrophobic interactions: B:D.209, B:F.240, B:F.240, B:A.247 Water bridges: B:Q.268, B:Q.268 Salt bridges: B:H.248

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.5: 2 residues within 4Å: Chain A: T.271, Y.272 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.272

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cordara, G. et al., Family of Papain-Like Fungal Chimerolectins with Distinct Ca(2+)-Dependent Activation Mechanism. Biochemistry (2017)

Release Date

2017-07-12

Peptides

Ricin B-related lectin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ricin B-related lectin

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