- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.75 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x MAN- NAG- GAL: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose(Post Translational Modification)(Non-covalent)
- 2 x MAN- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose(Non-covalent)
MAN-NAG.2: 13 residues within 4Å:- Chain B: D.86, G.103, G.104, L.105, L.128, N.130, V.131, H.132, W.133, G.214, I.215, T.216, N.219
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:D.86, B:G.104, B:L.105, B:N.130, B:N.130, B:I.215, B:T.216, B:T.216, B:N.219
- Hydrophobic interactions: B:V.131
MAN-NAG.15: 13 residues within 4Å:- Chain D: D.86, G.103, G.104, L.105, L.128, N.130, V.131, H.132, W.133, G.214, I.215, T.216, N.219
5 PLIP interactions:5 interactions with chain D- Hydrogen bonds: D:D.86, D:G.104, D:L.105, D:N.130, D:N.130, D:I.215, D:T.216, D:N.219
- Hydrophobic interactions: D:V.131
- 4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Non-functional Binders)
NAG.3: 6 residues within 4Å:- Chain A: N.12, E.13, V.24, S.25
- Chain C: E.203, W.204
5 PLIP interactions:4 interactions with chain A, 1 interactions with chain C- Hydrophobic interactions: A:V.24
- Hydrogen bonds: A:N.12, A:E.13, A:E.13, C:E.203
NAG.11: 5 residues within 4Å:- Chain B: F.11, N.12, S.25
- Chain D: E.203, W.204
2 PLIP interactions:1 interactions with chain D, 1 interactions with chain B- Hydrogen bonds: D:E.203, B:N.12
NAG.16: 6 residues within 4Å:- Chain A: E.203, W.204
- Chain C: N.12, E.13, V.24, S.25
5 PLIP interactions:4 interactions with chain C, 1 interactions with chain A- Hydrophobic interactions: C:V.24
- Hydrogen bonds: C:N.12, C:E.13, C:E.13, A:E.203
NAG.24: 5 residues within 4Å:- Chain B: E.203, W.204
- Chain D: F.11, N.12, S.25
2 PLIP interactions:1 interactions with chain D, 1 interactions with chain B- Hydrogen bonds: D:N.12, B:E.203
- 4 x MN: MANGANESE (II) ION(Non-covalent)(Post Translational Modification)(Non-functional Binders)
MN.4: 4 residues within 4Å:- Chain A: E.124, D.126, D.134, H.139
6 PLIP interactions:4 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:E.124, A:D.126, A:D.134, A:H.139, H2O.1, H2O.1
MN.12: 5 residues within 4Å:- Chain B: E.124, D.126, D.134, H.139
- Ligands: CA.13
6 PLIP interactions:4 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:E.124, B:D.126, B:D.134, B:H.139, H2O.5, H2O.5
MN.17: 4 residues within 4Å:- Chain C: E.124, D.126, D.134, H.139
6 PLIP interactions:4 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:E.124, C:D.126, C:D.134, C:H.139, H2O.6, H2O.6
MN.25: 5 residues within 4Å:- Chain D: E.124, D.126, D.134, H.139
- Ligands: CA.26
6 PLIP interactions:4 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:E.124, D:D.126, D:D.134, D:H.139, H2O.11, H2O.11
- 4 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)
CA.5: 4 residues within 4Å:- Chain A: D.126, L.128, N.130, D.134
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.126, A:L.128, A:D.134, H2O.1, H2O.1
CA.13: 5 residues within 4Å:- Chain B: D.126, L.128, N.130, D.134
- Ligands: MN.12
5 PLIP interactions:3 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:D.126, B:L.128, B:D.134, H2O.5, H2O.5
CA.18: 4 residues within 4Å:- Chain C: D.126, L.128, N.130, D.134
5 PLIP interactions:3 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:D.126, C:L.128, C:D.134, H2O.6, H2O.6
CA.26: 5 residues within 4Å:- Chain D: D.126, L.128, N.130, D.134
- Ligands: MN.25
5 PLIP interactions:3 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:D.126, D:L.128, D:D.134, H2O.11, H2O.11
- 10 x EDO: 1,2-ETHANEDIOL(Non-covalent)(Non-functional Binders)
EDO.6: 5 residues within 4Å:- Chain A: L.166, S.179, V.181
- Chain B: T.168, V.177
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:S.179, B:T.168, B:T.168
EDO.7: 4 residues within 4Å:- Chain A: T.168, V.177
- Chain B: L.166, S.179
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:T.168, B:S.179
EDO.8: 8 residues within 4Å:- Chain A: S.2, Q.3, T.4, I.55, Q.56, S.232, K.233, L.234
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:Q.3, A:T.4, A:Q.56, A:S.232
EDO.9: 7 residues within 4Å:- Chain A: I.17, Q.19, V.95, G.96, S.97, Q.98, I.206
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Q.19, A:G.96, A:S.97
EDO.10: 8 residues within 4Å:- Chain A: F.8, R.10, F.11, N.12, N.15, L.16
- Chain C: S.2, W.204
4 PLIP interactions:2 interactions with chain A, 2 interactions with chain C- Hydrogen bonds: A:N.12, A:N.15, C:S.2, C:S.2
EDO.19: 5 residues within 4Å:- Chain C: L.166, S.179, V.181
- Chain D: T.168, V.177
2 PLIP interactions:1 interactions with chain C, 1 interactions with chain D- Hydrogen bonds: C:S.179, D:T.168
EDO.20: 4 residues within 4Å:- Chain C: T.168, V.177
- Chain D: L.166, S.179
3 PLIP interactions:1 interactions with chain D, 2 interactions with chain C- Hydrogen bonds: D:S.179, C:T.168, C:T.168
EDO.21: 8 residues within 4Å:- Chain C: S.2, Q.3, T.4, I.55, Q.56, S.232, K.233, L.234
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:Q.3, C:Q.56, C:S.232
- Water bridges: C:T.4, C:T.4
EDO.22: 7 residues within 4Å:- Chain C: I.17, Q.19, V.95, G.96, S.97, Q.98, I.206
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:Q.19, C:G.96, C:S.97
EDO.23: 8 residues within 4Å:- Chain A: S.2, W.204
- Chain C: F.8, R.10, F.11, N.12, N.15, L.16
4 PLIP interactions:2 interactions with chain A, 2 interactions with chain C- Hydrogen bonds: A:S.2, A:S.2, C:N.12, C:N.15
- Links
- RCSB PDBe PDBj PDBsum CATH PLIP
- Citation
- Nagae, M. et al., Phytohemagglutinin from Phaseolus vulgaris (PHA-E) displays a novel glycan recognition mode using a common legume lectin fold. Glycobiology (2014)
- Release Date
- 2014-04-09
- Peptides
- Erythroagglutinin: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.75 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x MAN- NAG- GAL: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose(Post Translational Modification)(Non-covalent)
- 2 x MAN- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose(Non-covalent)
- 4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Non-functional Binders)
- 4 x MN: MANGANESE (II) ION(Non-covalent)(Post Translational Modification)(Non-functional Binders)
- 4 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)
- 10 x EDO: 1,2-ETHANEDIOL(Non-covalent)(Non-functional Binders)
- Links
- RCSB PDBe PDBj PDBsum CATH PLIP
- Citation
- Nagae, M. et al., Phytohemagglutinin from Phaseolus vulgaris (PHA-E) displays a novel glycan recognition mode using a common legume lectin fold. Glycobiology (2014)
- Release Date
- 2014-04-09
- Peptides
- Erythroagglutinin: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B