SMTL ID : 1nxd.4 (7 other biounits)

Crystal structure of MnMn Concanavalin A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

4 x AZI: AZIDE ION(Non-covalent)

AZI.1: 2 residues within 4Å: Chain A: D.218, S.220 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.220 AZI.2: 4 residues within 4Å: Chain A: K.138, L.140, I.141, Y.176 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.140 Water bridges: A:L.142 AZI.3: 4 residues within 4Å: Chain A: T.147, T.157, R.158, V.159 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.157, A:R.158, A:R.158, A:V.159 AZI.4: 3 residues within 4Å: Chain A: Y.12, P.13 Ligands: GOL.10 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.13 Water bridges: A:Y.12, A:Y.12, A:T.15

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

MN.5: 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.2 MN.6: 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.2, H2O.4

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

NA.7: 2 residues within 4Å: Chain A: L.107, N.131 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.131

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 4 residues within 4Å: Chain A: A.1, P.234, D.235, N.237 3 PLIP interactions: 3 interactions with chain A Water bridges: A:D.2, A:D.2, A:D.235 GOL.9: 8 residues within 4Å: Chain A: Y.12, N.14, G.98, L.99, Y.100, A.207, D.208, R.228 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.14, A:G.98, A:L.99, A:Y.100, A:Y.100 GOL.10: 5 residues within 4Å: Chain A: P.13, N.14, T.15, D.16 Ligands: AZI.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.13, A:T.15, A:D.16 Water bridges: A:T.15 GOL.11: 7 residues within 4Å: Chain A: S.113, N.124, A.125, L.126, P.178, V.179, H.180 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.124, A:H.180, A:H.180 GOL.12: 3 residues within 4Å: Chain A: G.144, I.221 Ligands: GOL.13 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.144 GOL.13: 5 residues within 4Å: Chain A: Q.143, G.144, S.220, I.221 Ligands: GOL.12 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.143, A:Q.143, A:G.144, A:I.221

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lopez-Jaramillo, F.J. et al., Structure of concanavalin A at pH 8: bound solvent and crystal contacts. Acta Crystallogr.,Sect.D (2004)

Release Date

2004-03-30

Peptides

concanavalin A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
4

concanavalin A

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