SMTL ID : 4zwg.3 (2 other biounits)

Crystal structure of the GTP-dATP-bound catalytic core of SAMHD1 phosphomimetic T592E mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

4 x DTP: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE(Non-covalent)

DTP.1: 15 residues within 4Å: Chain A: Q.37, L.38, R.52, R.94, N.95, H.98, H.103, H.121, D.199, K.200, Y.203, D.207, R.254, H.258, Y.262 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:Y.262 Hydrogen bonds: A:Q.37, A:R.52, A:R.52, A:Y.203 Water bridges: A:M.104, A:M.104, A:R.108, A:K.200, A:N.268, A:D.271 Salt bridges: A:R.52, A:R.94, A:R.94, A:H.98, A:H.103, A:H.103, A:H.121, A:H.121, A:K.200, A:R.254 pi-Stacking: A:Y.262 pi-Cation interactions: A:H.103 DTP.3: 5 residues within 4Å: Chain A: R.221, R.240, K.242, N.246, K.411 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:R.221, A:N.246, A:N.246 Salt bridges: A:R.221, A:R.240, A:K.242, A:K.242, A:K.242, A:K.411 pi-Cation interactions: A:R.221, A:R.221 DTP.4: 6 residues within 4Å: Chain B: R.221, F.225, R.240, K.242, N.246, K.411 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:R.221, B:N.246, B:N.246 Salt bridges: B:R.221, B:R.240, B:K.242, B:K.242, B:K.242, B:K.411 pi-Cation interactions: B:R.221, B:R.221 DTP.7: 15 residues within 4Å: Chain B: Q.37, L.38, R.52, R.94, N.95, H.98, H.103, H.121, D.199, K.200, Y.203, D.207, R.254, Y.262, Q.263 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:Y.262 Hydrogen bonds: B:Q.37, B:R.52, B:Y.203, B:Q.263 Water bridges: B:R.108, B:R.108 Salt bridges: B:R.52, B:R.94, B:R.94, B:H.98, B:H.103, B:H.103, B:H.121, B:H.121, B:K.200, B:K.200, B:R.254 pi-Stacking: B:H.103

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.2: 14 residues within 4Å: Chain A: K.4, V.5, I.6, V.21, I.24, D.25, Q.30, R.33, F.53 Chain B: Y.43, V.44, V.266, R.339, K.343 14 PLIP interactions: 5 interactions with chain B, 9 interactions with chain A Hydrogen bonds: B:R.339, A:V.5, A:Q.30, A:R.33 Salt bridges: B:R.339, B:K.343, B:K.343, A:K.4, A:K.4, A:K.4, A:D.25 pi-Cation interactions: B:R.339 Water bridges: A:V.5, A:D.25 GTP.6: 13 residues within 4Å: Chain A: Y.43, V.44, V.266, R.339 Chain B: K.4, V.5, I.6, I.24, D.25, Q.30, R.33, F.53 Ligands: MG.5 9 PLIP interactions: 2 interactions with chain A, 7 interactions with chain B Salt bridges: A:R.339, B:K.4, B:K.4, B:K.4, B:D.25 pi-Cation interactions: A:R.339 Hydrogen bonds: B:V.5, B:Q.30, B:R.33

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 2 residues within 4Å: Chain B: K.4 Ligands: GTP.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tang, C. et al., Impaired dNTPase Activity of SAMHD1 by Phosphomimetic Mutation of Thr-592. J.Biol.Chem. (2015)

Release Date

2015-09-02

Peptides

Deoxynucleoside triphosphate triphosphohydrolase SAMHD1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

Deoxynucleoside triphosphate triphosphohydrolase SAMHD1

Related Entries With Identical Sequence