SMTL ID : 1m2t.1

Mistletoe Lectin I from Viscum album in Complex with Adenine Monophosphate. Crystal Structure at 1.9 A Resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

hetero-1-1-mer

Ligands

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Non-functional Binders)(Post Translational Modification)

NAG.1: 6 residues within 4Å: Chain A: D.91, N.112, S.114, D.117 Ligands: FUC.2, NAG.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.112, A:S.114, A:S.114 NAG.3: 2 residues within 4Å: Ligands: NAG.1, FUC.2 No protein-ligand interaction detected (PLIP) NAG.9: 4 residues within 4Å: Chain B: D.27, F.29, N.61 Ligands: FUC.10 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.29 Hydrogen bonds: B:N.61 Water bridges: B:F.29 NAG.11: 4 residues within 4Å: Chain B: W.94, N.96, Y.126, L.228 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.126 Hydrogen bonds: B:N.96 Water bridges: B:G.95, B:N.96 NAG.12: 9 residues within 4Å: Chain A: F.214, N.215, P.217 Chain B: I.11, V.12, N.44, L.49, N.136 Ligands: NAG.13 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:V.12 Hydrogen bonds: B:I.11, B:I.11, B:N.44, B:N.44, B:N.136 Water bridges: B:I.11 NAG.13: 4 residues within 4Å: Chain B: I.11, N.44, L.49 Ligands: NAG.12 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.49 Hydrogen bonds: B:N.44

2 x FUC: alpha-L-fucopyranose(Non-functional Binders)

FUC.2: 2 residues within 4Å: Ligands: NAG.1, NAG.3 No protein-ligand interaction detected (PLIP) FUC.10: 1 residues within 4Å: Ligands: NAG.9 No protein-ligand interaction detected (PLIP)

1 x ADE: ADENINE(Non-covalent)

ADE.4: 10 residues within 4Å: Chain A: L.75, Y.76, V.77, G.113, S.114, Y.115, I.160, S.164, E.165, R.168 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:V.77, A:G.113, A:E.165, A:R.168, A:R.168 Water bridges: A:Y.76 pi-Stacking: A:Y.76, A:Y.76

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: G.63, D.64, T.65, G.83, R.143 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.63, A:T.65, A:G.83, A:R.143 Water bridges: A:D.64, A:E.81, A:R.143 GOL.6: 3 residues within 4Å: Chain A: Q.148, T.149, K.150 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.148, A:T.149, A:K.150 GOL.7: 5 residues within 4Å: Chain A: P.171, W.174, R.175, Q.178 Chain B: Y.146 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:P.171, A:R.175, A:R.175 Water bridges: A:Q.178, A:Q.178, B:D.150 GOL.8: 6 residues within 4Å: Chain A: R.234, D.235 Chain B: L.133, R.141, Y.177, G.178 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.177, A:R.234, A:D.235 Water bridges: B:Y.177 GOL.14: 7 residues within 4Å: Chain B: D.235, V.236, A.237, Q.238, I.247, Y.249, N.256 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.238, B:N.256 Water bridges: B:S.200, B:D.235, B:N.256 GOL.15: 10 residues within 4Å: Chain B: D.23, V.24, R.25, D.26, D.27, Q.36, W.38, K.41, N.47, Q.48 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:D.26, B:D.27, B:D.27, B:Q.36, B:K.41, B:K.41, B:N.47 Water bridges: B:Q.36 GOL.16: 8 residues within 4Å: Chain A: W.174, R.177 Chain B: G.147, F.148, R.149, D.150, P.255, M.258 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:R.149, B:D.150, B:D.150, A:R.177 Water bridges: A:R.177, A:R.177, A:N.181 GOL.17: 3 residues within 4Å: Chain B: F.79, A.84, V.85 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krauspenhaar, R. et al., Crystallisation under microgravity of mistletoe lectin I from Viscum album with adenine monophosphate and the crystal structure at 1.9 A resolution. Acta Crystallogr.,Sect.D (2002)

Release Date

2003-06-24

Peptides

mistletoe lectin I A chain: A
mistletoe lectin I B chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

mistletoe lectin I A chain

mistletoe lectin I B chain

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