- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.55 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x FE: FE (III) ION(Non-covalent)
- 8 x DG3: 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
DG3.2: 17 residues within 4Å:- Chain A: R.72, H.75, H.114, D.115, H.118, H.123, G.127, H.141, E.142, D.219, K.220, Y.223, H.278, Y.282, N.288, M.413
- Ligands: FE.1
17 PLIP interactions:17 interactions with chain A- Hydrophobic interactions: A:Y.282, A:Y.282
- Hydrogen bonds: A:H.114, A:H.123, A:H.141, A:Y.223, A:N.288
- Salt bridges: A:R.72, A:H.114, A:H.118, A:H.118, A:H.123, A:H.123, A:H.141, A:H.141, A:K.220
- pi-Stacking: A:H.123
DG3.4: 12 residues within 4Å:- Chain A: K.24, V.25, I.26, D.45, Q.50, R.53, F.73
- Chain B: Y.63, V.64, V.286, R.359
- Ligands: MG.5
11 PLIP interactions:3 interactions with chain B, 8 interactions with chain A- Hydrogen bonds: B:R.359, A:K.24, A:K.24, A:Q.50, A:R.53
- Salt bridges: B:R.359, A:K.24, A:K.24, A:D.45
- pi-Cation interactions: B:R.359
- Hydrophobic interactions: A:I.26
DG3.7: 15 residues within 4Å:- Chain B: R.72, H.75, H.114, D.115, H.118, H.123, G.127, H.141, E.142, D.219, K.220, Y.223, H.278, Y.282
- Ligands: FE.6
19 PLIP interactions:19 interactions with chain B- Hydrophobic interactions: B:Y.282, B:Y.282
- Hydrogen bonds: B:H.123, B:E.142, B:N.288
- Water bridges: B:H.123, B:H.123, B:N.412, B:N.412, B:N.412
- Salt bridges: B:R.72, B:H.114, B:H.118, B:H.118, B:H.123, B:H.123, B:H.141, B:K.220
- pi-Stacking: B:H.123
DG3.8: 15 residues within 4Å:- Chain A: Y.63, V.64, V.286, R.359, L.361
- Chain B: K.24, V.25, I.26, V.41, I.44, D.45, Q.50, R.53, F.73
- Ligands: MG.10
12 PLIP interactions:9 interactions with chain B, 3 interactions with chain A- Hydrophobic interactions: B:I.26
- Hydrogen bonds: B:K.24, B:K.24, B:Q.50, B:R.53, A:R.359
- Salt bridges: B:K.24, B:K.24, B:K.24, B:D.45, A:R.359
- pi-Cation interactions: A:R.359
DG3.12: 18 residues within 4Å:- Chain C: R.72, H.75, H.114, D.115, H.118, H.123, G.127, H.141, E.142, D.219, K.220, Y.223, H.278, Y.282, N.288, D.291, M.413
- Ligands: FE.11
15 PLIP interactions:15 interactions with chain C- Hydrophobic interactions: C:Y.282, C:Y.282
- Hydrogen bonds: C:H.114, C:H.123, C:Y.223, C:D.291
- Salt bridges: C:R.72, C:H.114, C:H.118, C:H.118, C:H.123, C:H.123, C:H.141, C:K.220
- pi-Stacking: C:H.123
DG3.13: 15 residues within 4Å:- Chain C: K.24, V.25, I.26, V.41, I.44, D.45, Q.50, R.53, F.73
- Chain D: Y.63, V.64, V.286, R.359, L.361
- Ligands: MG.14
11 PLIP interactions:9 interactions with chain C, 2 interactions with chain D- Hydrophobic interactions: C:I.26
- Hydrogen bonds: C:K.24, C:K.24, C:Q.50, C:R.53
- Water bridges: C:Q.50
- Salt bridges: C:K.24, C:K.24, C:D.45, D:R.359
- pi-Cation interactions: D:R.359
DG3.16: 15 residues within 4Å:- Chain D: R.72, H.75, H.114, D.115, H.118, H.123, G.127, H.141, E.142, D.219, K.220, Y.223, H.278, N.288
- Ligands: FE.15
14 PLIP interactions:14 interactions with chain D- Hydrogen bonds: D:N.288
- Water bridges: D:H.123, D:H.123, D:H.123, D:K.220
- Salt bridges: D:R.72, D:H.114, D:H.118, D:H.118, D:H.123, D:H.123, D:H.141, D:K.220
- pi-Stacking: D:H.123
DG3.17: 15 residues within 4Å:- Chain C: Y.63, V.64, V.286, R.359, L.361
- Chain D: K.24, V.25, I.26, V.41, I.44, D.45, Q.50, R.53, F.73
- Ligands: MG.20
11 PLIP interactions:8 interactions with chain D, 3 interactions with chain C- Hydrophobic interactions: D:I.26
- Hydrogen bonds: D:K.24, D:K.24, D:Q.50, D:R.53, C:R.359
- Salt bridges: D:K.24, D:K.24, D:D.45, C:R.359
- pi-Cation interactions: C:R.359
- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.3: 3 residues within 4Å:- Chain A: I.233, Q.234, R.280
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.234
- Salt bridges: A:R.280
SO4.9: 4 residues within 4Å:- Chain B: K.347, R.350, E.351, K.354
2 PLIP interactions:2 interactions with chain B- Salt bridges: B:R.350, B:K.354
SO4.18: 3 residues within 4Å:- Chain D: K.347, R.350, E.351
1 PLIP interactions:1 interactions with chain D- Salt bridges: D:R.350
SO4.19: 2 residues within 4Å:- Chain D: K.377, R.378
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:R.378
- Salt bridges: D:R.378
- 4 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)
MG.5: 1 residues within 4Å:- Ligands: DG3.4
No protein-ligand interaction detected (PLIP)MG.10: 3 residues within 4Å:- Chain A: V.286, L.361
- Ligands: DG3.8
No protein-ligand interaction detected (PLIP)MG.14: 1 residues within 4Å:- Ligands: DG3.13
No protein-ligand interaction detected (PLIP)MG.20: 1 residues within 4Å:- Ligands: DG3.17
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Arnold, L.H. et al., Phospho-Dependent Regulation of Samhd1 Oligomerisation Couples Catalysis and Restriction. Plos Pathog. (2015)
- Release Date
- 2015-10-14
- Peptides
- DEOXYNUCLEOSIDE TRIPHOSPHATE TRIPHOSPHOHYDROLASE SAMHD1: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.55 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x FE: FE (III) ION(Non-covalent)
- 8 x DG3: 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- 4 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Arnold, L.H. et al., Phospho-Dependent Regulation of Samhd1 Oligomerisation Couples Catalysis and Restriction. Plos Pathog. (2015)
- Release Date
- 2015-10-14
- Peptides
- DEOXYNUCLEOSIDE TRIPHOSPHATE TRIPHOSPHOHYDROLASE SAMHD1: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D