SMTL ID : 3uk9.2 (1 other biounit)

Galactose-specific lectin from Dolichos lablab

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.11 Å

Oligo State

homo-tetramer

Ligands

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

EDO.1: 4 residues within 4Å: Chain A: A.65, G.66, L.237, S.238 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.237 EDO.5: 4 residues within 4Å: Chain B: E.186, V.203 Chain D: T.190, V.199 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.186 EDO.6: 4 residues within 4Å: Chain B: T.190 Chain D: E.186, L.188, V.203 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:T.190, B:T.190, D:E.186 EDO.9: 6 residues within 4Å: Chain A: T.190, V.199 Chain C: E.186, L.188, S.201, V.203 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:E.186, A:T.190 EDO.10: 6 residues within 4Å: Chain C: L.188, T.190, V.199, S.201, I.212, L.267 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:L.188, C:T.190, C:S.201

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 1 residues within 4Å: Chain A: K.56 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.56 PEG.11: 1 residues within 4Å: Chain C: K.56 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.56

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.108, G.126, D.148, F.150, N.152, D.156 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.148, A:D.148, A:F.150, A:D.156 CA.7: 6 residues within 4Å: Chain B: G.126, D.148, F.150, N.152, W.155, D.156 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.148, B:F.150, B:D.156, H2O.1, H2O.1 CA.12: 6 residues within 4Å: Chain C: G.126, D.148, F.150, N.152, W.155, D.156 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.148, C:F.150, C:D.156, H2O.1, H2O.1 CA.14: 5 residues within 4Å: Chain D: D.108, D.148, F.150, N.152, D.156 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.148, D:D.148, D:F.150, D:D.156, H2O.1

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

MN.4: 5 residues within 4Å: Chain A: E.146, D.148, D.156, H.161, S.171 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.146, A:D.148, A:D.156, A:H.161, H2O.1 MN.8: 4 residues within 4Å: Chain B: E.146, D.148, D.156, H.161 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.146, B:D.148, B:D.156, B:H.161, H2O.1, H2O.1 MN.13: 4 residues within 4Å: Chain C: E.146, D.148, D.156, H.161 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.146, C:D.148, C:D.156, C:H.161, H2O.1 MN.15: 4 residues within 4Å: Chain D: E.146, D.148, D.156, H.161 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.146, D:D.148, D:D.156, D:H.161, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shetty, K.N. et al., Affinity of a galactose-specific legume lectin from Dolichos lablab to adenine revealed by X-ray cystallography. Iubmb Life (2013)

Release Date

2012-11-14

Peptides

Legume lectin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

Legume lectin

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