SMTL ID : 7tu2.1

Structure of the L. blandensis dGTPase R37A mutant bound to Mn

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.13 Å

Oligo State

homo-hexamer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: R.34, R.41, R.202 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.34, A:R.41, A:R.202 SO4.3: 3 residues within 4Å: Chain B: R.34, R.41, R.202 3 PLIP interactions: 3 interactions with chain B Salt bridges: B:R.34, B:R.41, B:R.202 SO4.5: 3 residues within 4Å: Chain C: R.34, R.41, R.202 3 PLIP interactions: 3 interactions with chain C Salt bridges: C:R.34, C:R.41, C:R.202 SO4.7: 3 residues within 4Å: Chain D: R.34, R.41, R.202 3 PLIP interactions: 3 interactions with chain D Salt bridges: D:R.34, D:R.41, D:R.202 SO4.9: 3 residues within 4Å: Chain E: R.34, R.41, R.202 3 PLIP interactions: 3 interactions with chain E Salt bridges: E:R.34, E:R.41, E:R.202 SO4.11: 3 residues within 4Å: Chain F: R.34, R.41, R.202 3 PLIP interactions: 3 interactions with chain F Salt bridges: F:R.34, F:R.41, F:R.202

6 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 5 residues within 4Å: Chain A: Q.74, H.90, H.138, D.139, D.275 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.90, A:H.138, A:D.139, A:D.275, H2O.1, H2O.2 MN.4: 4 residues within 4Å: Chain B: H.90, H.138, D.139, D.275 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.90, B:H.138, B:D.139, B:D.275, H2O.3, H2O.5 MN.6: 4 residues within 4Å: Chain C: H.90, H.138, D.139, D.275 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.90, C:D.139, C:D.275, H2O.6, H2O.7 MN.8: 5 residues within 4Å: Chain D: Q.74, H.90, H.138, D.139, D.275 6 PLIP interactions: 4 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:H.90, D:H.138, D:D.139, D:D.275, H2O.7, H2O.9 MN.10: 4 residues within 4Å: Chain E: H.90, H.138, D.139, D.275 6 PLIP interactions: 4 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:H.90, E:H.138, E:D.139, E:D.275, H2O.10, H2O.12 MN.12: 4 residues within 4Å: Chain F: H.90, H.138, D.139, D.275 5 PLIP interactions: 3 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:H.90, F:D.139, F:D.275, H2O.13, H2O.14

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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