SMTL ID : 1puu.1

Mistletoe lectin I in complex with lactose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- FUL- NAG: beta-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUL-NAG.1: 3 residues within 4Å: Chain B: D.27, F.29, N.61 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 8 residues within 4Å: Chain A: F.214, N.215, P.217 Chain B: I.11, V.12, N.44, L.49, N.136 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.49 Hydrogen bonds: B:N.44

2 x BGC- GAL: beta-D-galactopyranose-(1-4)-beta-D-glucopyranose(Non-covalent)

BGC-GAL.3: 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.23, B:D.26, B:D.26, B:D.27, B:Q.36, B:K.41, B:K.41, B:N.47 BGC-GAL.4: 7 residues within 4Å: Chain B: D.235, V.236, A.237, Q.238, I.247, Y.249, N.256 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.235, B:Q.238, B:N.256, B:N.256

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 6 residues within 4Å: Chain A: K.90, D.91, N.112, S.114, D.117, R.120 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.90, A:S.114, A:S.114 NAG.21: 3 residues within 4Å: Chain B: W.94, N.96, L.228 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.96 Water bridges: B:G.95, B:N.96, B:L.228

16 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 7 residues within 4Å: Chain A: T.13, G.14, A.15, R.177, N.181 Chain B: R.149 Ligands: GOL.28 Ligand excluded by PLIP GOL.8: 3 residues within 4Å: Chain A: Q.178, S.182, A.184 Ligand excluded by PLIP GOL.10: 5 residues within 4Å: Chain A: F.18, W.174, R.177 Chain B: D.150 Ligands: GOL.28 Ligand excluded by PLIP GOL.12: 4 residues within 4Å: Chain A: G.63, D.64, S.65, R.143 Ligand excluded by PLIP GOL.13: 7 residues within 4Å: Chain A: R.234, D.235 Chain B: R.141, L.176, F.219, P.261 Ligands: GOL.25 Ligand excluded by PLIP GOL.14: 7 residues within 4Å: Chain A: P.171, W.174, R.175, Q.178 Chain B: Y.146, D.150, V.262 Ligand excluded by PLIP GOL.15: 7 residues within 4Å: Chain A: R.175, D.189, Y.191, L.222, P.223 Chain B: Y.146, P.263 Ligand excluded by PLIP GOL.16: 5 residues within 4Å: Chain A: A.94, G.95, A.96, E.97, T.98 Ligand excluded by PLIP GOL.22: 3 residues within 4Å: Chain B: Q.92, P.102, N.105 Ligand excluded by PLIP GOL.23: 4 residues within 4Å: Chain B: T.51, K.53, R.59, G.62 Ligand excluded by PLIP GOL.24: 2 residues within 4Å: Chain B: R.59, N.82 Ligand excluded by PLIP GOL.25: 9 residues within 4Å: Chain A: R.234, D.235 Chain B: L.133, R.141, L.176, Y.177, G.178 Ligands: GOL.13, GOL.26 Ligand excluded by PLIP GOL.26: 8 residues within 4Å: Chain A: R.234, I.237 Chain B: G.95, N.96, W.217, V.218, F.219 Ligands: GOL.25 Ligand excluded by PLIP GOL.27: 4 residues within 4Å: Chain B: T.66, F.79, A.84, V.85 Ligand excluded by PLIP GOL.28: 8 residues within 4Å: Chain A: R.177 Chain B: F.148, R.149, D.150, P.255, M.258 Ligands: GOL.6, GOL.10 Ligand excluded by PLIP GOL.29: 4 residues within 4Å: Chain B: E.142, E.170, R.173, K.185 Ligand excluded by PLIP

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 1 residues within 4Å: Chain A: R.150 Ligand excluded by PLIP CL.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain A: Q.205, H.208, N.216 Ligand excluded by PLIP

1 x DIO: 1,4-DIETHYLENE DIOXIDE(Non-covalent)

DIO.17: 5 residues within 4Å: Chain A: Y.115, P.116, R.125, T.197 Ligands: SO4.18 No protein-ligand interaction detected (PLIP)

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

SO4.18: 5 residues within 4Å: Chain A: E.119, H.124, R.125, D.126 Ligands: DIO.17 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.125, A:D.126 Water bridges: A:D.126 Salt bridges: A:H.124, A:R.125 SO4.19: 3 residues within 4Å: Chain A: S.30, R.41, Q.42 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.42, A:Q.42 Salt bridges: A:R.41 SO4.20: 3 residues within 4Å: Chain A: S.148, T.149, R.150 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.149, A:R.150 Water bridges: A:S.148

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mikeska, R. et al., Mistletoe lectin I in complex with galactose and lactose reveals distinct sugar-binding properties. Acta Crystallogr.,Sect.F (2005)

Release Date

2004-06-25

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

lectin I A chain

lectin I B chain

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