- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x CA: CALCIUM ION(Non-covalent)
- 4 x MN: MANGANESE (II) ION(Non-covalent)
MN.2: 4 residues within 4Å:- Chain A: E.125, D.127, D.134, H.139
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:E.125, A:D.127, A:D.134, A:H.139, H2O.1
MN.8: 4 residues within 4Å:- Chain B: E.125, D.127, D.134, H.139
5 PLIP interactions:4 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:E.125, B:D.127, B:D.134, B:H.139, H2O.2
MN.14: 4 residues within 4Å:- Chain C: E.125, D.127, D.134, H.139
5 PLIP interactions:4 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:E.125, C:D.127, C:D.134, C:H.139, H2O.3
MN.20: 4 residues within 4Å:- Chain D: E.125, D.127, D.134, H.139
5 PLIP interactions:4 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: D:E.125, D:D.127, D:D.134, D:H.139, H2O.4
- 4 x A2G: 2-acetamido-2-deoxy-alpha-D-galactopyranose(Non-covalent)
A2G.3: 10 residues within 4Å:- Chain A: A.88, D.89, G.106, G.107, F.129, N.131, G.214, L.215, S.216, H.219
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:D.89, A:G.107, A:N.131, A:N.131, A:L.215, A:S.216
A2G.9: 10 residues within 4Å:- Chain B: A.88, D.89, G.106, G.107, F.129, N.131, G.214, L.215, S.216, H.219
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:D.89, B:G.107, B:N.131, B:N.131, B:L.215, B:S.216
A2G.15: 10 residues within 4Å:- Chain C: A.88, D.89, G.106, G.107, F.129, N.131, G.214, L.215, S.216, H.219
6 PLIP interactions:6 interactions with chain C- Hydrogen bonds: C:D.89, C:G.107, C:N.131, C:N.131, C:L.215, C:S.216
A2G.21: 10 residues within 4Å:- Chain D: A.88, D.89, G.106, G.107, F.129, N.131, G.214, L.215, S.216, H.219
6 PLIP interactions:6 interactions with chain D- Hydrogen bonds: D:D.89, D:G.107, D:N.131, D:N.131, D:L.215, D:S.216
- 4 x CIT: CITRIC ACID(Non-functional Binders)
CIT.4: 11 residues within 4Å:- Chain A: S.85, K.86, T.87, T.128, F.129, S.130, S.136, A.137, R.138, H.219
- Ligands: SO4.6
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:R.138
- Hydrogen bonds: A:T.87, A:T.87, A:S.130
- Salt bridges: A:H.219
CIT.10: 11 residues within 4Å:- Chain B: S.85, K.86, T.87, T.128, F.129, S.130, S.136, A.137, R.138, H.219
- Ligands: SO4.12
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:R.138
- Hydrogen bonds: B:T.87, B:T.87, B:S.130
- Salt bridges: B:H.219
CIT.16: 11 residues within 4Å:- Chain C: S.85, K.86, T.87, T.128, F.129, S.130, S.136, A.137, R.138, H.219
- Ligands: SO4.18
5 PLIP interactions:5 interactions with chain C- Hydrophobic interactions: C:R.138
- Hydrogen bonds: C:T.87, C:T.87, C:S.130
- Salt bridges: C:H.219
CIT.22: 11 residues within 4Å:- Chain D: S.85, K.86, T.87, T.128, F.129, S.130, S.136, A.137, R.138, H.219
- Ligands: SO4.24
5 PLIP interactions:5 interactions with chain D- Hydrophobic interactions: D:R.138
- Hydrogen bonds: D:T.87, D:T.87, D:S.130
- Salt bridges: D:H.219
- 4 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 5 residues within 4Å:- Chain A: P.135, S.136, A.137, Y.152, K.154
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:S.136, A:A.137, A:Y.152, A:K.154
GOL.11: 5 residues within 4Å:- Chain B: P.135, S.136, A.137, Y.152, K.154
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:S.136, B:A.137, B:Y.152, B:K.154
GOL.17: 5 residues within 4Å:- Chain C: P.135, S.136, A.137, Y.152, K.154
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:S.136, C:A.137, C:K.154
GOL.23: 5 residues within 4Å:- Chain D: P.135, S.136, A.137, Y.152, K.154
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:S.136, D:A.137, D:K.154
- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.6: 4 residues within 4Å:- Chain A: K.86, F.129, H.219
- Ligands: CIT.4
2 PLIP interactions:2 interactions with chain A- Salt bridges: A:K.86, A:H.219
SO4.12: 4 residues within 4Å:- Chain B: K.86, F.129, H.219
- Ligands: CIT.10
2 PLIP interactions:2 interactions with chain B- Salt bridges: B:K.86, B:H.219
SO4.18: 4 residues within 4Å:- Chain C: K.86, F.129, H.219
- Ligands: CIT.16
2 PLIP interactions:2 interactions with chain C- Salt bridges: C:K.86, C:H.219
SO4.24: 4 residues within 4Å:- Chain D: K.86, F.129, H.219
- Ligands: CIT.22
2 PLIP interactions:2 interactions with chain D- Salt bridges: D:K.86, D:H.219
- Links
- RCSB PDBe PDBj PDBsum CATH PLIP
- Citation
- Sousa, B.L. et al., Crystal structure of a recombinant Vatairea macrocarpa seed lectin. Int.J.Biochem.Cell Biol. (2016)
- Release Date
- 2016-01-27
- Peptides
- Seed lectin: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x CA: CALCIUM ION(Non-covalent)
- 4 x MN: MANGANESE (II) ION(Non-covalent)
- 4 x A2G: 2-acetamido-2-deoxy-alpha-D-galactopyranose(Non-covalent)
- 4 x CIT: CITRIC ACID(Non-functional Binders)
- 4 x GOL: GLYCEROL(Non-functional Binders)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBj PDBsum CATH PLIP
- Citation
- Sousa, B.L. et al., Crystal structure of a recombinant Vatairea macrocarpa seed lectin. Int.J.Biochem.Cell Biol. (2016)
- Release Date
- 2016-01-27
- Peptides
- Seed lectin: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A