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Zinc in PDB 3l8g: Crystal Structure of D,D-Heptose 1.7-Bisphosphate Phosphatase From E. Coli Complexed with D-Glycero-D-Manno-Heptose 1 ,7-Bisphosphate

Protein crystallography data

The structure of Crystal Structure of D,D-Heptose 1.7-Bisphosphate Phosphatase From E. Coli Complexed with D-Glycero-D-Manno-Heptose 1 ,7-Bisphosphate, PDB code: 3l8g was solved by H.Nguyen, E.Peisach, K.N.Allen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 18.34 / 2.18
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 63.669, 51.572, 52.185, 90.00, 90.00, 90.00
R / Rfree (%) 18.8 / 25.5

Other elements in 3l8g:

The structure of Crystal Structure of D,D-Heptose 1.7-Bisphosphate Phosphatase From E. Coli Complexed with D-Glycero-D-Manno-Heptose 1 ,7-Bisphosphate also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Sodium (Na) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of D,D-Heptose 1.7-Bisphosphate Phosphatase From E. Coli Complexed with D-Glycero-D-Manno-Heptose 1 ,7-Bisphosphate (pdb code 3l8g). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of D,D-Heptose 1.7-Bisphosphate Phosphatase From E. Coli Complexed with D-Glycero-D-Manno-Heptose 1 ,7-Bisphosphate, PDB code: 3l8g:

Zinc binding site 1 out of 1 in 3l8g

Go back to Zinc Binding Sites List in 3l8g
Zinc binding site 1 out of 1 in the Crystal Structure of D,D-Heptose 1.7-Bisphosphate Phosphatase From E. Coli Complexed with D-Glycero-D-Manno-Heptose 1 ,7-Bisphosphate


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of D,D-Heptose 1.7-Bisphosphate Phosphatase From E. Coli Complexed with D-Glycero-D-Manno-Heptose 1 ,7-Bisphosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn189

b:33.6
occ:1.00
SG A:CYS109 2.3 35.0 1.0
ND1 A:HIS94 2.3 34.8 1.0
SG A:CYS107 2.3 31.1 1.0
SG A:CYS92 2.3 31.8 1.0
CB A:CYS107 3.2 34.4 1.0
CE1 A:HIS94 3.3 32.0 1.0
CG A:HIS94 3.3 31.8 1.0
CB A:CYS92 3.4 26.6 1.0
N A:ARG110 3.5 29.4 1.0
CB A:CYS109 3.6 29.9 1.0
CB A:HIS94 3.6 31.5 1.0
C A:CYS109 3.9 28.1 1.0
CA A:CYS109 4.0 30.2 1.0
N A:CYS109 4.0 30.6 1.0
CA A:CYS92 4.1 26.8 1.0
CB A:ARG110 4.2 26.9 1.0
CA A:ARG110 4.2 28.4 1.0
CD A:PRO93 4.3 27.9 1.0
N A:HIS94 4.4 28.8 1.0
NE2 A:HIS94 4.4 34.6 1.0
CD2 A:HIS94 4.4 31.9 1.0
C A:CYS92 4.6 27.3 1.0
CA A:HIS94 4.6 29.0 1.0
CA A:CYS107 4.6 33.3 1.0
N A:PRO93 4.7 28.8 1.0
O A:CYS109 4.8 27.3 1.0
O A:HOH246 4.9 33.3 1.0
N A:ASP108 5.0 35.7 1.0
C A:CYS107 5.0 35.3 1.0

Reference:

H.H.Nguyen, L.Wang, H.Huang, E.Peisach, D.Dunaway-Mariano, K.N.Allen. Structural Determinants of Substrate Recognition in the Had Superfamily Member D-Glycero-D-Manno-Heptose-1,7-Bisphosphate Phosphatase (Gmhb) . Biochemistry V. 49 1082 2010.
ISSN: ISSN 0006-2960
PubMed: 20050614
DOI: 10.1021/BI902019Q
Page generated: Wed Aug 20 11:14:22 2025

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