SMTL ID : 2c4d.1

2.6A Crystal Structure of Psathyrella velutina Lectin in Complex with N-acetylglucosamine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 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: 5 interactions with chain A Metal complexes: A:D.343, A:T.345, A:D.347, A:C.349, A:D.351

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.2: 8 residues within 4Å: Chain A: N.46, G.52, G.53, W.54, H.59, G.78, E.79, W.83 8 PLIP interactions: 8 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, A:N.80 NAG.3: 7 residues within 4Å: Chain A: N.103, G.109, W.111, H.116, G.135, D.136, Y.140 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.103, A:N.103, A:G.109, A:G.109, A:W.111, A:D.136, A:Y.140 NAG.4: 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, A:Y.195 NAG.5: 8 residues within 4Å: Chain A: N.214, G.220, G.221, W.222, H.227, G.246, V.247, Y.251 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.222, A:V.247 Hydrogen bonds: A:N.214, A:N.214, A:G.220, A:W.222, A:V.247, A:Y.251 NAG.6: 8 residues within 4Å: Chain A: N.325, Q.330, G.331, W.332, H.337, G.356, E.357, W.361 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.332 Hydrogen bonds: A:N.325, A:N.325, A:Q.330, A:W.332, A:E.357 NAG.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 Hydrogen bonds: A:D.270, A:S.275, A:W.277, A:D.302 Water bridges: A:A.303, A:R.321

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

SO4.8: 2 residues within 4Å: Chain A: T.126, R.128 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.128 SO4.9: 2 residues within 4Å: Chain A: Y.106, R.112 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.112 SO4.10: 2 residues within 4Å: Chain A: Y.328, R.333 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.328 Salt bridges: A:R.333 SO4.11: 1 residues within 4Å: Chain A: R.55 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.55

Links

RCSB   PDBe   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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