SMTL ID : 5t55.1

LECTIN FROM BAUHINIA FORFICATA IN COMPLEX WITH GLOBOTETRAOSE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.43 Å

Oligo State

homo-dimer

Ligands

1 x GAL- NGA: 2-acetamido-2-deoxy-beta-D-galactopyranose-(1-3)-beta-D-galactopyranose(Non-covalent)

GAL-NGA.1: 12 residues within 4Å: Chain A: Q.43, A.77, D.78, G.95, G.96, Y.97, W.122, N.124, E.126, W.127, G.211, Q.212 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:Q.43, A:D.78, A:G.96, A:N.124, A:N.124, A:E.126, A:Q.212 Hydrophobic interactions: A:Y.97, A:E.126, A:W.127 Water bridges: A:G.211

1 x BGC- GAL- GLA- NGA: 2-acetamido-2-deoxy-beta-D-galactopyranose-(1-3)-alpha-D-galactopyranose-(1-4)-beta-D-galactopyranose-(1-4)-beta-D-glucopyranose

BGC-GAL-GLA-NGA.2: 13 residues within 4Å: Chain B: Q.43, A.77, D.78, G.95, G.96, Y.97, W.122, N.124, T.125, E.126, W.127, G.211, Q.212 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Y.97, B:E.126, B:W.127 Hydrogen bonds: B:D.78, B:G.96, B:N.124, B:N.124, B:E.126, B:Q.212, B:T.125, B:E.126, B:Q.43 Water bridges: B:G.211

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain A: E.118, D.120, E.129, H.134 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.118, A:D.120, A:E.129, A:H.134, H2O.2, H2O.3 CA.4: 4 residues within 4Å: Chain A: D.120, W.122, N.124, E.129 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.120, A:W.122, A:E.129, H2O.3, H2O.3 CA.12: 4 residues within 4Å: Chain B: E.118, D.120, E.129, H.134 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.118, B:D.120, B:E.129, B:H.134, H2O.9, H2O.10 CA.13: 4 residues within 4Å: Chain B: D.120, W.122, N.124, E.129 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.120, B:W.122, B:E.129, H2O.10, H2O.12

10 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 6 residues within 4Å: Chain A: F.61, Y.62, S.224, T.226 Chain B: N.185 Ligands: EDO.14 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Water bridges: B:N.185 Hydrogen bonds: A:S.224, A:T.226 EDO.6: 3 residues within 4Å: Chain A: Q.43, R.44, Y.94 No protein-ligand interaction detected (PLIP) EDO.7: 2 residues within 4Å: Chain A: P.24, R.25 No protein-ligand interaction detected (PLIP) EDO.8: 6 residues within 4Å: Chain A: R.146, T.148, Y.186, V.187 Chain B: S.60 Ligands: EDO.15 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:S.60, B:D.168, A:R.146, A:N.185, A:V.187 Water bridges: A:R.146 EDO.9: 2 residues within 4Å: Chain A: W.122, V.123 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.123 EDO.10: 1 residues within 4Å: Chain A: Q.11 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.11, A:Q.11 EDO.11: 1 residues within 4Å: Chain A: N.104 No protein-ligand interaction detected (PLIP) EDO.14: 6 residues within 4Å: Chain A: S.60 Chain B: R.146, T.148, Y.186, V.187 Ligands: EDO.5 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.146, B:N.185, B:V.187, A:S.60, A:D.168 EDO.15: 8 residues within 4Å: Chain A: N.185 Chain B: S.60, F.61, Y.62, S.224, S.225, T.226 Ligands: EDO.8 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.224 Water bridges: A:N.185 EDO.16: 10 residues within 4Å: Chain B: F.67, V.68, I.69, W.150, D.154, V.155, S.157, R.158, S.159, Y.180 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:I.69, B:R.158, B:Y.180, B:Y.180

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

CL.17: 1 residues within 4Å: Chain B: R.44 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lubkowski, J. et al., Structural analysis and unique molecular recognition properties of a Bauhinia forficata lectin that inhibits cancer cell growth. FEBS J. (2017)

Release Date

2016-12-28

Peptides

Lectin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lectin

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