SMTL ID : 8yj9.1

Crystallization Studies of Concanavalin A in-Complex with D-Arabinose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: Y.12, N.14, G.98, L.99, Y.100, A.207, D.208, R.228 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.14, A:N.14, A:G.98, A:L.99, A:Y.100 Water bridges: A:R.228 GOL.2: 6 residues within 4Å: Chain A: K.116, S.117, S.119, H.121, E.122, T.123 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.116, A:S.117, A:S.117, A:H.121, A:E.122, A:T.123 Water bridges: A:H.121, A:T.123 GOL.3: 3 residues within 4Å: Chain A: Q.43, N.69, A.70 3 PLIP interactions: 3 interactions with chain A Water bridges: A:Q.43, A:Q.43, A:D.71

1 x ROR: L-ribose(Non-covalent)

ROR.4: 8 residues within 4Å: Chain A: W.88, S.113, N.124, A.125, L.126, P.178, V.179, H.180 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.113, A:N.124, A:A.125, A:A.125, A:H.180

1 x CA: CALCIUM ION(Non-covalent)

CA.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.3, H2O.3

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

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.1, H2O.2

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 2 residues within 4Å: Chain A: T.15, S.21 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.21 SO4.8: 2 residues within 4Å: Chain A: P.86, E.87 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.87 Water bridges: A:W.88

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rasheed, S. et al., Crystallization Studies of Concanavalin A in-Complex with D-Arabinose. To Be Published

Release Date

2025-03-05

Peptides

Concanavalin-Br: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Concanavalin-Br

Related Entries With Identical Sequence