Atomistry » Calcium » PDB 3km6-3l4p » 3l1u
Atomistry »
  Calcium »
    PDB 3km6-3l4p »
      3l1u »

Calcium in PDB 3l1u: Crystal Structure of Calcium-Bound Gmhb From E. Coli.

Protein crystallography data

The structure of Crystal Structure of Calcium-Bound Gmhb From E. Coli., PDB code: 3l1u was solved by S.N.Sugiman-Marangos, M.S.Junop, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.57 / 1.95
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 50.553, 64.031, 105.236, 90.00, 90.00, 90.00
R / Rfree (%) 23.5 / 25.8

Other elements in 3l1u:

The structure of Crystal Structure of Calcium-Bound Gmhb From E. Coli. also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Calcium-Bound Gmhb From E. Coli. (pdb code 3l1u). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Calcium-Bound Gmhb From E. Coli., PDB code: 3l1u:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 3l1u

Go back to Calcium Binding Sites List in 3l1u
Calcium binding site 1 out of 2 in the Crystal Structure of Calcium-Bound Gmhb From E. Coli.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Calcium-Bound Gmhb From E. Coli. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca213

b:20.6
occ:1.00
OD2 A:ASP31 2.5 20.0 1.0
O A:HOH354 2.5 20.2 1.0
O A:ASP33 2.5 16.7 1.0
OD1 A:ASP156 2.5 25.1 1.0
O A:HOH355 2.5 25.9 1.0
O A:HOH353 2.6 16.6 1.0
OD1 A:ASP31 3.1 19.1 1.0
CG A:ASP31 3.1 18.1 1.0
CG A:ASP156 3.5 25.0 1.0
OD2 A:ASP156 3.7 27.6 1.0
C A:ASP33 3.7 21.9 1.0
O A:HOH219 4.1 19.1 1.0
CE A:LYS157 4.2 38.4 1.0
O A:HOH365 4.2 8.4 1.0
OD2 A:ASP160 4.3 18.8 1.0
CG A:LYS157 4.5 27.7 1.0
CD A:LYS157 4.5 33.9 1.0
CA A:ASP33 4.5 22.8 1.0
CB A:ASP33 4.5 20.6 1.0
CB A:ASP31 4.6 14.9 1.0
N A:ASP33 4.6 18.0 1.0
N A:GLY34 4.6 17.6 1.0
O A:HOH385 4.7 62.5 1.0
CA A:GLY34 4.7 14.9 1.0
O A:HOH223 4.7 17.9 1.0
N A:ASP156 4.8 19.8 1.0
CB A:ASP156 4.8 21.3 1.0
OD2 A:ASP39 4.8 29.9 1.0
NZ A:LYS157 4.9 40.4 1.0
OG1 A:THR35 5.0 19.0 1.0

Calcium binding site 2 out of 2 in 3l1u

Go back to Calcium Binding Sites List in 3l1u
Calcium binding site 2 out of 2 in the Crystal Structure of Calcium-Bound Gmhb From E. Coli.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Calcium-Bound Gmhb From E. Coli. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca213

b:23.1
occ:1.00
O B:ASP33 2.5 21.3 1.0
O B:HOH283 2.6 32.1 1.0
O B:HOH351 2.6 23.2 1.0
OD1 B:ASP156 2.6 27.1 1.0
OD2 B:ASP31 2.6 23.6 1.0
O B:HOH304 2.7 18.4 1.0
OD1 B:ASP31 3.0 23.2 1.0
CG B:ASP31 3.2 22.8 1.0
CG B:ASP156 3.5 27.6 1.0
C B:ASP33 3.7 26.9 1.0
OD2 B:ASP156 3.8 31.3 1.0
O B:HOH249 4.2 17.8 1.0
O B:HOH227 4.2 11.8 1.0
OD2 B:ASP160 4.2 20.9 1.0
CA B:ASP33 4.5 25.7 1.0
CB B:ASP33 4.5 26.2 1.0
O B:HOH235 4.5 29.6 1.0
CD B:LYS157 4.5 42.5 1.0
CB B:ASP31 4.6 19.9 1.0
N B:GLY34 4.6 23.7 1.0
CA B:GLY34 4.6 23.9 1.0
N B:ASP33 4.7 24.2 1.0
NZ B:LYS157 4.8 43.1 1.0
N B:ASP156 4.8 24.6 1.0
CG B:LYS157 4.8 38.1 1.0
OD2 B:ASP39 4.8 37.6 1.0
CB B:ASP156 4.9 28.7 1.0
OG1 B:THR35 4.9 24.4 1.0
O B:HOH264 4.9 18.6 1.0
CB B:LYS157 5.0 31.4 1.0

Reference:

P.L.Taylor, S.Sugiman-Marangos, K.Zhang, M.A.Valvano, G.D.Wright, M.S.Junop. Structural and Kinetic Characterization of the Lps Biosynthetic Enzyme D-Alpha,Beta-D-Heptose-1,7-Bisphosphate Phosphatase (Gmhb) From Escherichia Coli. Biochemistry V. 49 1033 2010.
ISSN: ISSN 0006-2960
PubMed: 20050699
DOI: 10.1021/BI901780J
Page generated: Sat Dec 12 04:18:14 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy