SMTL ID : 7bt8.1

Mevo lectin complex with mannotriose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-heptamer

Ligands

3 x BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose

BMA-MAN-MAN.1: 8 residues within 4Å: Chain A: G.13, G.14, T.15, R.89, G.128, S.129, D.130, D.132 No protein-ligand interaction detected (PLIP) BMA-MAN-MAN.2: 7 residues within 4Å: Chain D: G.13, G.14, R.89, G.128, S.129, D.130, D.132 2 PLIP interactions: 2 interactions with chain D Water bridges: D:K.60 Salt bridges: D:K.60 BMA-MAN-MAN.3: 7 residues within 4Å: Chain E: G.13, G.14, R.89, G.128, S.129, D.130, D.132 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:S.129, E:S.129

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

EDO.4: 5 residues within 4Å: Chain A: Y.37, L.39, H.41, K.60, D.130 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.60, A:K.60 EDO.7: 5 residues within 4Å: Chain C: K.30, E.64 Chain F: V.9, G.10, Y.82 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain C Hydrogen bonds: F:G.10, C:K.30 EDO.8: 6 residues within 4Å: Chain C: V.9, G.10, Y.82 Chain D: K.30, E.64, I.66 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:G.10, D:K.30 Water bridges: D:K.30, D:E.44

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 8 residues within 4Å: Chain A: K.30, E.64, I.66 Chain E: T.7, E.8, V.9, G.10, Y.82 5 PLIP interactions: 3 interactions with chain E, 2 interactions with chain A Hydrogen bonds: E:G.10, E:G.10, E:Y.82, A:K.30, A:K.30 GOL.6: 6 residues within 4Å: Chain C: G.77, S.78, V.79, K.94, L.95, T.96 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.94 GOL.9: 5 residues within 4Å: Chain D: V.79, K.94, M.104, F.108 Ligands: GOL.10 No protein-ligand interaction detected (PLIP) GOL.10: 4 residues within 4Å: Chain D: G.77, V.79, T.96 Ligands: GOL.9 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:S.78, D:T.96 GOL.11: 7 residues within 4Å: Chain D: T.7, E.8, G.10, Y.82 Chain E: K.30, E.64, I.66 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain D Hydrogen bonds: E:K.30, D:G.10 GOL.12: 5 residues within 4Å: Chain E: G.77, S.78, V.79, K.94, T.96 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:G.77, E:T.96 GOL.13: 8 residues within 4Å: Chain F: K.30, E.64, I.66 Chain G: T.7, E.8, V.9, G.10, Y.82 3 PLIP interactions: 1 interactions with chain G, 2 interactions with chain F Hydrogen bonds: G:G.10, F:K.30, F:K.30 GOL.14: 1 residues within 4Å: Chain G: K.140 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sivaji, N. et al., Structural and related studies on Mevo lectin from Methanococcus voltae A3: the first thorough characterization of an archeal lectin and its interactions. Glycobiology (2021)

Release Date

2021-02-03

Peptides

lectin: ABCDEFG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
G

C
A

D
D

E
E

F
F

G
C

lectin

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