SMTL ID : 2g4i.1

Anomalous substructure of Concanavalin A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

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

MN.1: 4 residues within 4Å: Chain A: E.8, D.10, D.19, H.24 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.8, A:D.10, A:D.19, A:H.24, H2O.1 MN.7: 4 residues within 4Å: Chain B: E.8, D.10, D.19, H.24 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.8, B:D.10, B:D.19, B:H.24, H2O.2 MN.13: 4 residues within 4Å: Chain C: E.8, D.10, D.19, H.24 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.8, C:D.10, C:D.19, C:H.24, H2O.3 MN.19: 4 residues within 4Å: Chain D: E.8, D.10, D.19, H.24 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.4

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.10, Y.12, N.14, D.19 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.10, A:D.10, A:Y.12, A:D.19, H2O.1 CA.8: 4 residues within 4Å: Chain B: D.10, Y.12, N.14, D.19 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.10, B:D.10, B:Y.12, B:D.19, H2O.2 CA.14: 4 residues within 4Å: Chain C: D.10, Y.12, N.14, D.19 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.10, C:D.10, C:Y.12, C:D.19, H2O.3 CA.20: 4 residues within 4Å: Chain D: D.10, Y.12, 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.4

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

NA.3: 4 residues within 4Å: Chain A: L.107, N.131, G.152, N.153 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.153 NA.9: 4 residues within 4Å: Chain B: L.107, N.131, G.152, N.153 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.131 NA.15: 4 residues within 4Å: Chain C: L.107, N.131, G.152, N.153 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:L.107 NA.21: 4 residues within 4Å: Chain D: L.107, N.131, G.152, N.153 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:L.107

12 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 2 residues within 4Å: Chain A: P.222, S.223 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: A.38, K.39 Ligand excluded by PLIP CL.6: 1 residues within 4Å: Chain A: L.142 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain B: P.222, S.223 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain B: A.38, K.39 Ligand excluded by PLIP CL.12: 1 residues within 4Å: Chain B: L.142 Ligand excluded by PLIP CL.16: 2 residues within 4Å: Chain C: P.222, S.223 Ligand excluded by PLIP CL.17: 2 residues within 4Å: Chain C: A.38, K.39 Ligand excluded by PLIP CL.18: 1 residues within 4Å: Chain C: L.142 Ligand excluded by PLIP CL.22: 2 residues within 4Å: Chain D: P.222, S.223 Ligand excluded by PLIP CL.23: 2 residues within 4Å: Chain D: A.38, K.39 Ligand excluded by PLIP CL.24: 1 residues within 4Å: Chain D: L.142 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mueller-Dieckmann, C. et al., On the routine use of soft X-rays in macromolecular crystallography. Part IV. Efficient determination of anomalous substructures in biomacromolecules using longer X-ray wavelengths. Acta Crystallogr.,Sect.D (2007)

Release Date

2007-02-20

Peptides

Concanavalin A: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Concanavalin A

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