- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.78 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 2 x GOL: GLYCEROL(Non-functional Binders)
GOL.2: 7 residues within 4Å:- Chain A: N.41, Q.44, K.62, N.65, H.87
- Chain B: G.67, S.68
6 PLIP interactions:4 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:N.41, A:Q.44, A:K.62, B:S.68
- Water bridges: A:N.65, B:N.65
GOL.11: 7 residues within 4Å:- Chain A: G.67, S.68
- Chain B: N.41, Q.44, K.62, N.65, H.87
6 PLIP interactions:2 interactions with chain A, 4 interactions with chain B- Hydrogen bonds: A:S.68, B:N.41, B:Q.44, B:K.62
- Water bridges: A:N.65, B:N.65
- 4 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 5 residues within 4Å:- Chain A: E.28, Q.174, E.351, R.353
- Ligands: SO4.5
3 PLIP interactions:2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:E.28, A:E.351, H2O.21
MG.4: 4 residues within 4Å:- Chain A: E.28, E.90, V.92
- Ligands: ATP.1
3 PLIP interactions:2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:E.28, A:E.90, H2O.19
MG.12: 5 residues within 4Å:- Chain B: E.28, Q.174, E.351, R.353
- Ligands: SO4.14
3 PLIP interactions:2 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:E.28, B:E.351, H2O.43
MG.13: 4 residues within 4Å:- Chain B: E.28, E.90, V.92
- Ligands: ATP.10
3 PLIP interactions:2 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:E.28, B:E.90, H2O.41
- 10 x SO4: SULFATE ION(Non-functional Binders)
SO4.5: 5 residues within 4Å:- Chain A: M.64, P.269, K.272, R.353
- Ligands: MG.3
4 PLIP interactions:4 interactions with chain A- Water bridges: A:K.272, A:R.353
- Salt bridges: A:K.272, A:R.353
SO4.6: 6 residues within 4Å:- Chain A: A.153, G.154, N.155, G.156, I.157, S.158
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:N.155, A:G.156, A:I.157, A:S.158
- Water bridges: A:A.153, A:N.155
SO4.7: 6 residues within 4Å:- Chain A: W.113, H.117, I.133, Q.134, S.135, E.136
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.136
- Salt bridges: A:H.117
SO4.8: 4 residues within 4Å:- Chain A: T.169, P.170, S.171
- Chain B: N.262
4 PLIP interactions:1 interactions with chain B, 3 interactions with chain A- Water bridges: B:N.262
- Hydrogen bonds: A:T.169, A:S.171, A:S.171
SO4.9: 3 residues within 4Å:- Chain A: E.240, K.243, Y.310
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Y.310
- Water bridges: A:E.240
- Salt bridges: A:K.243
SO4.14: 5 residues within 4Å:- Chain B: M.64, P.269, K.272, R.353
- Ligands: MG.12
4 PLIP interactions:4 interactions with chain B- Water bridges: B:K.272, B:R.353
- Salt bridges: B:K.272, B:R.353
SO4.15: 6 residues within 4Å:- Chain B: A.153, G.154, N.155, G.156, I.157, S.158
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:N.155, B:G.156, B:I.157, B:S.158
- Water bridges: B:A.153, B:N.155
SO4.16: 6 residues within 4Å:- Chain B: W.113, H.117, I.133, Q.134, S.135, E.136
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:E.136, B:E.136
- Salt bridges: B:H.117
SO4.17: 4 residues within 4Å:- Chain A: N.262
- Chain B: T.169, P.170, S.171
4 PLIP interactions:1 interactions with chain A, 3 interactions with chain B- Water bridges: A:N.262
- Hydrogen bonds: B:T.169, B:S.171, B:S.171
SO4.18: 3 residues within 4Å:- Chain B: E.240, K.243, Y.310
1 PLIP interactions:1 interactions with chain B- Salt bridges: B:K.243
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Durand, E. et al., Structure of a VgrG Vibrio cholerae toxin ACD domain in complex with ATP and Mg++. J.Biol.Chem. (2012)
- Release Date
- 2012-08-29
- Peptides
- VgrG protein: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.78 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 2 x GOL: GLYCEROL(Non-functional Binders)
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 10 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Durand, E. et al., Structure of a VgrG Vibrio cholerae toxin ACD domain in complex with ATP and Mg++. J.Biol.Chem. (2012)
- Release Date
- 2012-08-29
- Peptides
- VgrG protein: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A