SMTL ID : 5z5p.1

Crystal structure of ConA-R3M

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

2 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: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.8, A:D.10, A:H.24, H2O.1, H2O.2 MN.7: 4 residues within 4Å: Chain B: E.8, D.10, D.19, H.24 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.8, B:D.10, B:H.24, H2O.7, H2O.9

3 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: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.10, A:Y.12, A:D.19, H2O.2, H2O.3 CA.5: 4 residues within 4Å: Chain B: D.10, Y.12, N.14, D.19 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.10, B:Y.12, B:D.19, H2O.9, H2O.9 CA.6: 1 residues within 4Å: Chain B: Y.176 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:Y.176

2 x R3M: 2-[2-(2-{4-[(alpha-D-mannopyranosyloxy)methyl]-1H-1,2,3-triazol-1-yl}ethoxy)ethoxy]ethyl 2-[3,6-bis(diethylamino)-9H-xanthen-9-yl]benzoate(Non-covalent)

R3M.3: 10 residues within 4Å: Chain A: Y.12, N.14, D.16, G.98, L.99, Y.100, A.207, D.208, G.227, R.228 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.99, A:L.99, A:Y.100, A:Y.100 Hydrogen bonds: A:N.14, A:N.14, A:L.99, A:Y.100, A:R.228 Water bridges: A:T.226, A:R.228, A:R.228, A:R.228 R3M.4: 9 residues within 4Å: Chain B: Y.12, N.14, G.98, L.99, Y.100, A.207, D.208, G.227, R.228 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:L.99, B:L.99 Hydrogen bonds: B:N.14, B:L.99, B:Y.100, B:Y.100, B:R.228 Water bridges: B:R.228, B:R.228

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, G.S. et al., Crystal structure of ConA-R3M. To Be Published

Release Date

2018-11-07

Peptides

Concanavalin-A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Concanavalin-A

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