SMTL ID : 7tu1.1

Structure of the L. blandensis dGTPase R37A mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-hexamer

Ligands

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 5 residues within 4Å: Chain A: K.253, S.255, V.260, S.261, W.262 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.255, A:S.261, A:S.261 EDO.2: 6 residues within 4Å: Chain A: V.189, Q.192, Q.440, A.443, E.444, T.447 No protein-ligand interaction detected (PLIP) EDO.6: 6 residues within 4Å: Chain B: V.189, Q.192, Q.440, A.443, E.444, T.447 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.440, B:Q.440, B:T.447, B:T.447 EDO.13: 5 residues within 4Å: Chain D: K.253, S.255, V.260, S.261, W.262 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:S.255, D:S.261, D:S.261 EDO.14: 6 residues within 4Å: Chain D: V.189, Q.192, Q.440, A.443, E.444, T.447 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:T.447 EDO.18: 6 residues within 4Å: Chain E: V.189, Q.192, Q.440, A.443, E.444, T.447 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:Q.440, E:Q.440, E:T.447

18 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 6 residues within 4Å: Chain A: H.138, N.183, K.213, Y.214, K.231, D.275 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain A: R.34, R.41, R.202 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: R.164, R.407 Ligand excluded by PLIP SO4.7: 6 residues within 4Å: Chain B: H.138, H.147, N.183, K.213, Y.214, K.231 Ligand excluded by PLIP SO4.8: 3 residues within 4Å: Chain B: R.34, R.41, R.202 Ligand excluded by PLIP SO4.9: 2 residues within 4Å: Chain B: R.164, R.407 Ligand excluded by PLIP SO4.10: 3 residues within 4Å: Chain C: R.34, R.41, R.202 Ligand excluded by PLIP SO4.11: 3 residues within 4Å: Chain C: Y.161, R.164, R.407 Ligand excluded by PLIP SO4.12: 7 residues within 4Å: Chain C: H.138, H.147, N.183, K.213, Y.214, K.231, D.275 Ligand excluded by PLIP SO4.15: 6 residues within 4Å: Chain D: H.138, N.183, K.213, Y.214, K.231, D.275 Ligand excluded by PLIP SO4.16: 3 residues within 4Å: Chain D: R.34, R.41, R.202 Ligand excluded by PLIP SO4.17: 2 residues within 4Å: Chain D: R.164, R.407 Ligand excluded by PLIP SO4.19: 6 residues within 4Å: Chain E: H.138, H.147, N.183, K.213, Y.214, K.231 Ligand excluded by PLIP SO4.20: 3 residues within 4Å: Chain E: R.34, R.41, R.202 Ligand excluded by PLIP SO4.21: 2 residues within 4Å: Chain E: R.164, R.407 Ligand excluded by PLIP SO4.22: 3 residues within 4Å: Chain F: R.34, R.41, R.202 Ligand excluded by PLIP SO4.23: 3 residues within 4Å: Chain F: Y.161, R.164, R.407 Ligand excluded by PLIP SO4.24: 7 residues within 4Å: Chain F: H.138, H.147, N.183, K.213, Y.214, K.231, D.275 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Klemm, B.P. et al., High-resolution structures of the SAMHD1 dGTPase homolog from Leeuwenhoekiella blandensis reveal a novel mechanism of allosteric activation by dATP. J.Biol.Chem. (2022)

Release Date

2022-06-01

Peptides

dGTP triphosphohydrolase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

dGTP triphosphohydrolase

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