SMTL ID : 2bwm.1

1.8A CRYSTAL STRUCTURE OF of Psathyrella velutina LECTIN IN COMPLEX WITH METHYL 2-ACETAMIDO-1,2-DIDEOXY-1-SELENO-BETA-D-GLUCOPYRANOSIDE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.343, T.345, D.347, C.349, D.351 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.343, A:T.345, A:D.347, A:C.349, H2O.15 CA.2: 5 residues within 4Å: Chain A: D.177, T.179, D.181, L.183, D.185 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.177, A:T.179, A:D.181, A:L.183, A:D.185

5 x SNG: methyl 2-acetamido-2-deoxy-1-seleno-beta-D-glucopyranoside(Non-covalent)

SNG.3: 7 residues within 4Å: Chain A: N.46, G.52, W.54, H.59, G.78, E.79, N.80 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.54 Hydrogen bonds: A:N.46, A:N.46, A:G.52, A:W.54, A:E.79 Water bridges: A:N.80 SNG.4: 8 residues within 4Å: Chain A: N.103, G.109, W.111, H.116, G.135, D.136, Y.140, A.153 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.111 Hydrogen bonds: A:G.109, A:D.136, A:Y.140 SNG.5: 8 residues within 4Å: Chain A: N.159, Q.164, G.165, W.166, H.171, G.190, E.191, Y.195 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.166 Hydrogen bonds: A:N.159, A:N.159, A:Q.164, A:W.166, A:E.191 Water bridges: A:N.192 SNG.6: 7 residues within 4Å: Chain A: N.214, G.220, W.222, H.227, G.246, V.247, Y.251 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.222 Hydrogen bonds: A:N.214, A:N.214, A:G.220, A:W.222, A:V.247 Water bridges: A:A.248 SNG.7: 8 residues within 4Å: Chain A: D.270, S.275, G.276, W.277, H.282, G.301, D.302, Y.306 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.277 Hydrogen bonds: A:D.270, A:S.275, A:W.277, A:D.302 Water bridges: A:A.303

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

SO4.8: 6 residues within 4Å: Chain A: G.356, E.357, N.358, S.359, W.361 Ligands: GOL.10 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.357, A:N.358, A:N.358, A:S.359 Water bridges: A:W.332 SO4.9: 2 residues within 4Å: Chain A: T.126, R.128 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.128 Salt bridges: A:R.128

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 5 residues within 4Å: Chain A: N.325, W.332, W.361, I.374 Ligands: SO4.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.325, A:N.325 Water bridges: A:W.332

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cioci, G. et al., Beta-Propeller Crystal Structure of Psathyrella Velutina Lectin: An Integrin-Like Fungal Protein Interacting with Monosaccharides and Calcium. J.Mol.Biol. (2006)

Release Date

2006-01-23

Peptides

PSATHYRELLA VELUTINA LECTIN PVL: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PSATHYRELLA VELUTINA LECTIN PVL

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