Atomistry » Copper » PDB 4e9v-4hhg » 4gyb
Atomistry »
  Copper »
    PDB 4e9v-4hhg »
      4gyb »

Copper in PDB 4gyb: Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709

Protein crystallography data

The structure of Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709, PDB code: 4gyb was solved by A.Gabdulkhakov, S.Tischenko, L.Yurevich, A.Lisov, A.Leontievsky, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.38 / 2.40
Space group P 43 3 2
Cell size a, b, c (Å), α, β, γ (°) 177.540, 177.540, 177.540, 90.00, 90.00, 90.00
R / Rfree (%) 15.4 / 17.7

Other elements in 4gyb:

The structure of Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709 also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Sodium (Na) 1 atom

Copper Binding Sites:

The binding sites of Copper atom in the Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709 (pdb code 4gyb). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709, PDB code: 4gyb:
Jump to Copper binding site number: 1; 2; 3; 4;

Copper binding site 1 out of 4 in 4gyb

Go back to Copper Binding Sites List in 4gyb
Copper binding site 1 out of 4 in the Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu401

b:33.3
occ:1.00
ND1 A:HIS293 2.0 28.8 1.0
ND1 A:HIS231 2.0 34.1 1.0
SG A:CYS288 2.2 35.2 1.0
CE1 A:HIS293 2.9 32.4 1.0
CG A:HIS293 3.0 31.9 1.0
CE1 A:HIS231 3.0 32.1 1.0
CG A:HIS231 3.0 32.6 1.0
CB A:CYS288 3.2 29.4 1.0
CB A:HIS293 3.3 28.1 1.0
CB A:HIS231 3.4 29.1 1.0
SD A:MET298 3.6 37.1 1.0
CA A:HIS231 3.7 29.0 1.0
CE A:MET298 3.9 33.7 1.0
NE2 A:HIS293 4.1 34.6 1.0
CG2 A:VAL290 4.1 32.6 1.0
CD2 A:HIS293 4.1 30.2 1.0
O A:TYR230 4.1 27.8 1.0
CB A:VAL290 4.1 33.0 1.0
NE2 A:HIS231 4.1 32.2 1.0
CD2 A:HIS231 4.2 33.6 1.0
N A:THR232 4.5 26.4 1.0
CA A:CYS288 4.6 30.9 1.0
C A:HIS231 4.7 30.0 1.0
N A:HIS231 4.7 32.3 1.0
C A:TYR230 4.8 30.1 1.0
CA A:HIS293 4.9 31.5 1.0
CD2 A:PHE195 4.9 29.0 1.0
CG1 A:VAL290 5.0 30.9 1.0

Copper binding site 2 out of 4 in 4gyb

Go back to Copper Binding Sites List in 4gyb
Copper binding site 2 out of 4 in the Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu402

b:34.0
occ:1.00
NE2 A:HIS289 2.1 29.6 1.0
O A:HOH512 2.7 41.5 1.0
CD2 A:HIS289 3.0 28.6 1.0
CE1 A:HIS289 3.1 32.4 1.0
CU A:CU404 3.9 41.1 0.4
CG A:HIS289 4.1 30.2 1.0
ND1 A:HIS289 4.2 33.8 1.0
NE2 A:HIS234 4.2 38.8 1.0
CD2 A:HIS234 4.4 34.2 1.0
O A:HOH513 4.7 39.0 1.0
CE1 A:HIS234 4.8 31.5 1.0

Copper binding site 3 out of 4 in 4gyb

Go back to Copper Binding Sites List in 4gyb
Copper binding site 3 out of 4 in the Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu403

b:42.5
occ:1.00
NE2 A:HIS236 2.0 33.1 1.0
NE2 A:HIS287 2.2 35.0 1.0
O A:HOH512 2.5 41.5 1.0
CE1 A:HIS236 2.9 33.0 1.0
CD2 A:HIS287 3.2 34.4 1.0
CE1 A:HIS287 3.2 34.1 1.0
CD2 A:HIS236 3.2 36.1 1.0
O A:HOH513 3.6 39.0 1.0
ND1 A:HIS236 4.0 36.6 1.0
CU A:CU404 4.1 41.1 0.4
CD2 A:HIS234 4.1 34.2 1.0
CE A:MET285 4.2 43.1 1.0
CG A:HIS236 4.2 34.1 1.0
ND1 A:HIS287 4.3 37.0 1.0
CG A:HIS287 4.3 34.7 1.0
NE2 A:HIS234 4.4 38.8 1.0
SD A:MET285 4.7 51.9 0.8
NE2 A:HIS289 5.0 29.6 1.0

Copper binding site 4 out of 4 in 4gyb

Go back to Copper Binding Sites List in 4gyb
Copper binding site 4 out of 4 in the Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu404

b:41.1
occ:0.38
NE2 A:HIS234 2.0 38.8 1.0
O A:HOH511 2.8 37.0 1.0
CE1 A:HIS234 2.8 31.5 1.0
O A:HOH512 3.0 41.5 1.0
CD2 A:HIS234 3.0 34.2 1.0
CD2 A:HIS236 3.3 36.1 1.0
NE2 A:HIS236 3.4 33.1 1.0
CU A:CU402 3.9 34.0 1.0
CG A:HIS236 3.9 34.1 1.0
ND1 A:HIS234 4.0 35.4 1.0
CE1 A:HIS236 4.0 33.0 1.0
CU A:CU403 4.1 42.5 1.0
CG A:HIS234 4.1 33.8 1.0
ND1 A:HIS236 4.3 36.6 1.0
CA A:HIS236 4.6 32.7 1.0
CB A:HIS236 4.8 31.1 1.0
N A:HIS236 4.9 33.8 1.0
O A:HOH588 5.0 35.4 1.0
O A:MET235 5.0 33.9 1.0

Reference:

A.Gabdulkhakov, S.Tischenko, L.Yurevich, A.Lisov, A.Leontievsky. Two-Domain Laccase From Streptomyces Lividans at 2.4 A Resolution AC1709 To Be Published.
Page generated: Wed Jul 31 03:00:40 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy