- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.55 Å
- Oligo State
- homo-tetramer
- Ligands
- 6 x DCP: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE(Non-covalent)
- 2 x DTP: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE(Non-covalent)
DTP.2: 18 residues within 4Å:- Chain A: R.221, F.225, R.240, K.242, N.246, K.411
- Chain B: V.5, I.6, N.7, H.13
- Chain C: V.44, F.45, R.260, H.264, K.265, V.266
- Ligands: MG.3, GTP.12
20 PLIP interactions:11 interactions with chain A, 7 interactions with chain C, 2 interactions with chain B- Hydrogen bonds: A:R.221, A:N.246, A:N.246, B:N.7, B:N.7
- Salt bridges: A:R.221, A:R.240, A:K.242, A:K.242, A:K.242, A:K.411, C:H.264, C:H.264, C:K.265, C:K.265, C:K.265
- pi-Cation interactions: A:R.221, A:R.221
- Hydrophobic interactions: C:V.44, C:F.45
DTP.6: 18 residues within 4Å:- Chain A: V.5, I.6, N.7, H.13
- Chain B: R.221, F.225, R.240, K.242, N.246, K.411
- Chain D: V.44, F.45, R.260, H.264, K.265, V.266
- Ligands: MG.4, GTP.16
22 PLIP interactions:12 interactions with chain B, 8 interactions with chain D, 2 interactions with chain A- Hydrogen bonds: B:R.221, B:N.246, B:N.246, A:N.7, A:N.7
- Water bridges: B:K.411, D:K.265
- Salt bridges: B:R.221, B:R.240, B:K.242, B:K.242, B:K.242, B:K.411, D:H.264, D:H.264, D:K.265, D:K.265, D:K.265
- pi-Cation interactions: B:R.221, B:R.221
- Hydrophobic interactions: D:V.44, D:F.45
- 4 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 4 residues within 4Å:- Chain A: K.411
- Chain B: K.4
- Ligands: DTP.2, GTP.12
No protein-ligand interaction detected (PLIP)MG.4: 4 residues within 4Å:- Chain A: K.4
- Chain B: K.411
- Ligands: DTP.6, GTP.16
No protein-ligand interaction detected (PLIP)MG.8: 4 residues within 4Å:- Chain C: K.411
- Chain D: K.4
- Ligands: DCP.7, GTP.13
No protein-ligand interaction detected (PLIP)MG.9: 4 residues within 4Å:- Chain C: K.4
- Chain D: K.411
- Ligands: GTP.10, DCP.14
No protein-ligand interaction detected (PLIP)- 4 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
GTP.10: 16 residues within 4Å:- Chain B: Y.43, V.44, V.266, R.339, K.343
- Chain C: K.4, V.5, I.6, I.24, D.25, Q.30, R.33, F.53
- Chain D: K.411
- Ligands: MG.9, DCP.14
16 PLIP interactions:4 interactions with chain B, 10 interactions with chain C, 2 interactions with chain D- Salt bridges: B:R.339, B:K.343, B:K.343, C:K.4, C:K.4, C:K.4, C:D.25, D:K.411, D:K.411
- pi-Cation interactions: B:R.339
- Hydrogen bonds: C:V.5, C:Q.30, C:R.33
- Water bridges: C:K.4, C:K.4, C:V.5
GTP.12: 16 residues within 4Å:- Chain A: K.411
- Chain B: K.4, V.5, I.6, I.24, D.25, Q.30, R.33, F.53
- Chain C: Y.43, V.44, V.266, R.339, K.343
- Ligands: DTP.2, MG.3
16 PLIP interactions:9 interactions with chain B, 2 interactions with chain A, 5 interactions with chain C- Hydrogen bonds: B:V.5, B:Q.30, B:R.33, C:R.339
- Water bridges: B:K.4, B:K.4
- Salt bridges: B:K.4, B:K.4, B:K.4, B:D.25, A:K.411, A:K.411, C:R.339, C:K.343, C:K.343
- pi-Cation interactions: C:R.339
GTP.13: 16 residues within 4Å:- Chain A: Y.43, V.44, V.266, R.339, K.343
- Chain C: K.411
- Chain D: K.4, V.5, I.6, I.24, D.25, Q.30, R.33, F.53
- Ligands: DCP.7, MG.8
17 PLIP interactions:10 interactions with chain D, 5 interactions with chain A, 2 interactions with chain C- Hydrogen bonds: D:V.5, D:Q.30, D:R.33, A:R.339
- Water bridges: D:K.4, D:K.4, D:V.5
- Salt bridges: D:K.4, D:K.4, D:K.4, D:D.25, A:R.339, A:K.343, A:K.343, C:K.411, C:K.411
- pi-Cation interactions: A:R.339
GTP.16: 16 residues within 4Å:- Chain A: K.4, V.5, I.6, I.24, D.25, Q.30, R.33, F.53
- Chain B: K.411
- Chain D: Y.43, V.44, V.266, R.339, K.343
- Ligands: MG.4, DTP.6
16 PLIP interactions:7 interactions with chain D, 2 interactions with chain B, 7 interactions with chain A- Hydrogen bonds: D:R.339, A:V.5, A:Q.30, A:R.33
- Water bridges: D:K.265, D:K.265
- Salt bridges: D:R.339, D:K.343, D:K.343, B:K.411, B:K.411, A:K.4, A:K.4, A:K.4, A:D.25
- pi-Cation interactions: D:R.339
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ji, X. et al., Structural basis of cellular dNTP regulation by SAMHD1. Proc.Natl.Acad.Sci.USA (2014)
- Release Date
- 2014-10-01
- 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
- 6 x DCP: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE(Non-covalent)
- 2 x DTP: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE(Non-covalent)
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 4 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ji, X. et al., Structural basis of cellular dNTP regulation by SAMHD1. Proc.Natl.Acad.Sci.USA (2014)
- Release Date
- 2014-10-01
- Peptides
- Deoxynucleoside triphosphate triphosphohydrolase SAMHD1: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D