SMTL ID : 6brk.2 (1 other biounit)

The SAM domain of mouse SAMHD1 is critical for its activation and regulation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

homo-dimer

Ligands

6 x DGT: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

DGT.1: 17 residues within 4Å: Chain A: Q.195, L.196, G.199, R.210, H.213, R.252, N.253, H.256, H.261, H.279, E.280, D.357, K.358, Y.361, D.365, Y.431, D.440 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:L.196, A:Y.431 Hydrogen bonds: A:Q.195, A:L.196, A:G.199, A:R.210, A:N.253, A:D.357 Salt bridges: A:R.210, A:R.252, A:R.252, A:H.256, A:H.261, A:H.261, A:H.261, A:H.279, A:H.279, A:K.358, A:K.358, A:D.440 pi-Stacking: A:Y.431 DGT.2: 11 residues within 4Å: Chain A: V.202, F.203, R.429, H.433, K.434 Chain B: V.163, F.164, N.165, H.171 Ligands: MG.3, DGT.4 11 PLIP interactions: 7 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:V.202, A:F.203 Hydrogen bonds: A:R.429, B:V.163, B:N.165, B:H.171, B:H.171 Salt bridges: A:H.433, A:K.434, A:K.434, A:K.434 DGT.4: 14 residues within 4Å: Chain A: Y.201, V.202, I.435, R.508 Chain B: R.89, K.162, V.163, F.164, D.183, Q.188, R.191, F.211 Ligands: DGT.2, MG.3 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.164 Hydrogen bonds: B:Q.188, B:R.191 Salt bridges: B:R.89, B:K.162, B:K.162, B:K.162, B:D.183, A:R.508 pi-Cation interactions: A:R.508 DGT.5: 17 residues within 4Å: Chain B: Q.195, L.196, G.199, R.210, H.213, R.252, N.253, H.256, H.261, H.279, E.280, D.357, K.358, Y.361, D.365, Y.431, D.440 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:L.196, B:Y.431 Hydrogen bonds: B:Q.195, B:L.196, B:G.199, B:R.210, B:N.253, B:D.357 Salt bridges: B:R.210, B:R.252, B:R.252, B:H.256, B:H.261, B:H.261, B:H.261, B:H.279, B:H.279, B:K.358, B:K.358, B:D.440 pi-Stacking: B:Y.431 DGT.6: 11 residues within 4Å: Chain A: V.163, F.164, N.165, H.171 Chain B: V.202, F.203, R.429, H.433, K.434 Ligands: MG.7, DGT.8 11 PLIP interactions: 7 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:V.202, B:F.203 Hydrogen bonds: B:R.429, A:V.163, A:N.165, A:H.171, A:H.171 Salt bridges: B:H.433, B:K.434, B:K.434, B:K.434 DGT.8: 14 residues within 4Å: Chain A: R.89, K.162, V.163, F.164, D.183, Q.188, R.191, F.211 Chain B: Y.201, V.202, I.435, R.508 Ligands: DGT.6, MG.7 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.164 Hydrogen bonds: A:Q.188, A:R.191 Salt bridges: A:R.89, A:K.162, A:K.162, A:K.162, A:D.183, B:R.508 pi-Cation interactions: B:R.508

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain B: K.162 Ligands: DGT.2, DGT.4 No protein-ligand interaction detected (PLIP) MG.7: 3 residues within 4Å: Chain A: K.162 Ligands: DGT.6, DGT.8 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Buzovetsky, O. et al., The SAM domain of mouse SAMHD1 is critical for its activation and regulation. Nat Commun (2018)

Release Date

2018-02-14

Peptides

Deoxynucleoside triphosphate triphosphohydrolase SAMHD1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Deoxynucleoside triphosphate triphosphohydrolase SAMHD1

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