SMTL ID : 1tei.2 (2 other biounits)

STRUCTURE OF CONCANAVALIN A COMPLEXED TO BETA-D-GLCNAC (1,2)ALPHA-D-MAN-(1,6)[BETA-D-GLCNAC(1,2)ALPHA-D-MAN (1,6)]ALPHA-D-MAN

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-tetramer

Ligands

4 x MAN- MAN- NAG- MAN- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose

MAN-MAN-NAG-MAN-NAG.1: 17 residues within 4Å: Chain A: Y.12, P.13, N.14, T.15, D.16, G.98, L.99, Y.100, S.168, H.205, A.207, D.208, G.224, T.226, G.227, R.228, L.229 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.14, A:G.98, A:L.99, A:Y.100, A:Y.100, A:R.228, A:R.228, A:S.168, A:T.226, A:T.226, A:L.229 MAN-MAN-NAG-MAN-NAG.2: 17 residues within 4Å: Chain B: Y.12, P.13, N.14, T.15, D.16, G.98, L.99, Y.100, S.168, H.205, A.207, D.208, G.224, T.226, G.227, R.228, L.229 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.14, B:G.98, B:L.99, B:Y.100, B:Y.100, B:R.228, B:R.228, B:S.168, B:T.226, B:T.226, B:R.228 MAN-MAN-NAG-MAN-NAG.3: 17 residues within 4Å: Chain C: Y.12, P.13, N.14, T.15, D.16, G.98, L.99, Y.100, S.168, H.205, A.207, D.208, G.224, T.226, G.227, R.228, L.229 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.14, C:N.14, C:G.98, C:L.99, C:Y.100, C:Y.100, C:R.228, C:R.228, C:S.168, C:T.226, C:T.226 MAN-MAN-NAG-MAN-NAG.4: 17 residues within 4Å: Chain D: Y.12, P.13, N.14, T.15, D.16, G.98, L.99, Y.100, S.168, H.205, A.207, D.208, G.224, T.226, G.227, R.228, L.229 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:N.14, D:N.14, D:G.98, D:L.99, D:Y.100, D:Y.100, D:R.228, D:T.226, D:T.226, D:L.229

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

MN.5: 4 residues within 4Å: Chain A: E.8, D.10, D.19, H.24 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.8, A:D.10, A:D.19, A:H.24, H2O.1, H2O.1 MN.7: 5 residues within 4Å: Chain B: E.8, D.10, D.19, H.24, S.34 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.8, B:D.10, B:D.19, B:H.24, H2O.1, H2O.1 MN.9: 5 residues within 4Å: Chain C: E.8, D.10, D.19, H.24, S.34 6 PLIP interactions: 4 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.8, C:D.10, C:D.19, C:H.24, H2O.1, H2O.2 MN.11: 5 residues within 4Å: Chain D: E.8, D.10, D.19, H.24, S.34 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.8, D:D.10, D:D.19, D:H.24, H2O.2

4 x CA: CALCIUM ION(Non-covalent)

CA.6: 4 residues within 4Å: Chain A: D.10, Y.12, N.14, D.19 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.10, A:Y.12, A:D.19, H2O.1, H2O.1 CA.8: 4 residues within 4Å: Chain B: D.10, Y.12, N.14, D.19 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.10, B:D.10, B:Y.12, B:D.19 CA.10: 4 residues within 4Å: Chain C: D.10, Y.12, N.14, D.19 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.10, C:Y.12, C:D.19, H2O.1, H2O.2 CA.12: 5 residues within 4Å: Chain D: D.10, Y.12, P.13, N.14, D.19 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.10, D:D.10, D:Y.12, D:D.19, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Moothoo, D.N. et al., Concanavalin A distorts the beta-GlcNAc-(1-->2)-Man linkage of beta-GlcNAc-(1-->2)-alpha-Man-(1-->3)-[beta-GlcNAc-(1-->2)-alpha-Man- (1-->6)]-Man upon binding. Glycobiology (1998)

Release Date

1997-08-20

Peptides

CONCANAVALIN A: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

CONCANAVALIN A

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