Atomistry » Copper » PDB 2pp8-2vr6 » 2vm3
Atomistry »
  Copper »
    PDB 2pp8-2vr6 »
      2vm3 »

Copper in PDB 2vm3: Structure of Alcaligenes Xylosoxidans in Space Group R3 - 1 of 2

Protein crystallography data

The structure of Structure of Alcaligenes Xylosoxidans in Space Group R3 - 1 of 2, PDB code: 2vm3 was solved by M.A.Hough, S.V.Antonyuk, R.W.Strange, R.R.Eady, S.S.Hasnain, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 68.52 / 1.80
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 89.941, 89.941, 143.732, 90.00, 90.00, 120.00
R / Rfree (%) 18.4 / 21

Other elements in 2vm3:

The structure of Structure of Alcaligenes Xylosoxidans in Space Group R3 - 1 of 2 also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Copper Binding Sites:

The binding sites of Copper atom in the Structure of Alcaligenes Xylosoxidans in Space Group R3 - 1 of 2 (pdb code 2vm3). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 2 binding sites of Copper where determined in the Structure of Alcaligenes Xylosoxidans in Space Group R3 - 1 of 2, PDB code: 2vm3:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in 2vm3

Go back to Copper Binding Sites List in 2vm3
Copper binding site 1 out of 2 in the Structure of Alcaligenes Xylosoxidans in Space Group R3 - 1 of 2


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Structure of Alcaligenes Xylosoxidans in Space Group R3 - 1 of 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu501

b:24.3
occ:1.00
SG A:CYS130 2.1 23.6 1.0
ND1 A:HIS139 2.1 21.0 1.0
ND1 A:HIS89 2.1 21.2 1.0
SD A:MET144 2.5 23.0 1.0
CE1 A:HIS139 3.0 21.2 1.0
CB A:CYS130 3.1 21.6 1.0
CE1 A:HIS89 3.1 24.1 1.0
CG A:HIS139 3.1 20.2 1.0
CG A:HIS89 3.1 25.0 1.0
CE A:MET144 3.4 22.2 1.0
CB A:HIS89 3.4 24.5 1.0
CB A:HIS139 3.5 18.1 1.0
CA A:HIS89 3.8 25.4 1.0
CG A:PRO132 3.9 23.9 1.0
CG A:MET144 4.1 21.2 1.0
O A:PRO88 4.1 25.8 1.0
NE2 A:HIS139 4.2 22.7 1.0
CD2 A:HIS139 4.2 20.8 1.0
NE2 A:HIS89 4.2 23.5 1.0
CD2 A:HIS89 4.3 23.9 1.0
CD A:PRO132 4.3 22.9 1.0
SD A:MET56 4.4 23.9 1.0
CA A:CYS130 4.5 20.8 1.0
CB A:MET144 4.6 18.9 1.0
CA A:HIS139 4.7 17.5 1.0
N A:ASN90 4.7 24.8 1.0
N A:HIS89 4.8 25.9 1.0
C A:HIS89 4.9 25.6 1.0
C A:PRO88 4.9 26.9 1.0

Copper binding site 2 out of 2 in 2vm3

Go back to Copper Binding Sites List in 2vm3
Copper binding site 2 out of 2 in the Structure of Alcaligenes Xylosoxidans in Space Group R3 - 1 of 2


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Structure of Alcaligenes Xylosoxidans in Space Group R3 - 1 of 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu502

b:18.1
occ:1.00
O A:HOH2067 1.8 22.3 1.0
NE2 A:HIS129 2.0 18.7 1.0
NE2 A:HIS94 2.0 20.4 1.0
CE1 A:HIS94 2.9 18.8 1.0
CD2 A:HIS129 3.0 16.4 1.0
CE1 A:HIS129 3.1 18.4 1.0
CD2 A:HIS94 3.1 18.8 1.0
OD2 A:ASP92 3.6 30.5 1.0
ND1 A:HIS94 4.1 18.4 1.0
CG A:HIS129 4.1 18.5 1.0
ND1 A:HIS129 4.1 17.6 1.0
CG A:HIS94 4.2 18.1 1.0
CG A:ASP92 4.2 26.1 1.0
OD1 A:ASP92 4.6 25.8 1.0
O A:HOH2066 4.9 24.6 1.0

Reference:

M.A.Hough, S.V.Antonyuk, R.W.Strange, R.R.Eady, S.S.Hasnain. Crystallography with Online Optical and X-Ray Absorption Spectroscopies Demonstrates An Ordered Mechanism in Copper Nitrite Reductase. J.Mol.Biol. V. 378 353 2008.
ISSN: ISSN 0022-2836
PubMed: 18353369
DOI: 10.1016/J.JMB.2008.01.097
Page generated: Mon Jul 14 01:26:16 2025

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy