SMTL ID : 4z2q.1

The crystal structure of Sclerotium Rolfsii lectin variant 1 (SSR1) in complex with N-acetyl-glucosamine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.1: 1 residues within 4Å: Chain A: Y.72 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.131

2 x NDG: 2-acetamido-2-deoxy-alpha-D-glucopyranose(Non-covalent)

NDG.2: 11 residues within 4Å: Chain A: D.77, I.78, V.79, T.80, N.81, N.100, R.101, Y.112, V.114, K.115 Ligands: NAG.3 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.114 Hydrogen bonds: A:T.80, A:N.100, A:R.101, A:Y.112, A:Y.112 Water bridges: A:D.77, A:R.101 Salt bridges: A:R.101 NDG.6: 11 residues within 4Å: Chain B: D.77, I.78, V.79, T.80, N.81, N.100, R.101, Y.112, V.114, K.115 Ligands: NAG.7 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:T.80, B:V.114 Hydrogen bonds: B:D.77, B:T.80, B:Y.95, B:N.100, B:R.101 Water bridges: B:R.101, B:R.107, B:Y.112 Salt bridges: B:R.101

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

NAG.3: 11 residues within 4Å: Chain A: D.77, I.78, V.79, T.80, N.81, N.100, R.101, Y.112, V.114, K.115 Ligands: NDG.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.114 Hydrogen bonds: A:T.80, A:Y.95, A:N.100, A:R.101, A:Y.112, A:Y.112 Water bridges: A:D.77, A:R.101, A:R.101 Salt bridges: A:R.101 NAG.7: 11 residues within 4Å: Chain B: D.77, I.78, V.79, T.80, N.81, N.100, R.101, Y.112, V.114, K.115 Ligands: NDG.6 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:T.80, B:V.114 Hydrogen bonds: B:T.80, B:Y.95, B:N.100, B:R.101 Water bridges: B:R.101, B:R.107, B:Y.112, B:Y.112 Salt bridges: B:R.101

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.4: 3 residues within 4Å: Chain B: Y.27, A.28, S.47 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Y.27 Hydrogen bonds: B:A.28 MPD.5: 5 residues within 4Å: Chain B: S.47, G.48, H.70, N.71, Y.72 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.72 Hydrogen bonds: B:N.71 Water bridges: B:G.48, B:H.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Peppa, V.I. et al., Molecular Cloning, Carbohydrate Specificity and the Crystal Structure of Two Sclerotium rolfsii Lectin Variants. Molecules (2015)

Release Date

2015-07-01

Peptides

Lectin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lectin

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