Atomistry » Copper » PDB 2z7y-3aws » 2zwf
Atomistry »
  Copper »
    PDB 2z7y-3aws »
      2zwf »

Copper in PDB 2zwf: Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes

Enzymatic activity of Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes

All present enzymatic activity of Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes:
1.14.18.1;

Protein crystallography data

The structure of Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes, PDB code: 2zwf was solved by Y.Matoba, M.Sugiyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 1.40
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 65.160, 97.680, 54.990, 90.00, 90.00, 90.00
R / Rfree (%) 17.3 / 21.2

Copper Binding Sites:

The binding sites of Copper atom in the Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes (pdb code 2zwf). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 6 binding sites of Copper where determined in the Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes, PDB code: 2zwf:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6;

Copper binding site 1 out of 6 in 2zwf

Go back to Copper Binding Sites List in 2zwf
Copper binding site 1 out of 6 in the Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu501

b:19.2
occ:0.63
 CU A:CU501 0.0 19.2 0.6
CU A:CU501 1.8 16.1 0.4
O B:HOH547 2.0 15.8 1.0
O B:HOH582 2.0 19.2 1.0
NE2 A:HIS38 2.0 13.8 0.6
NE2 A:HIS54 2.1 19.8 1.0
NE2 A:HIS63 2.6 11.3 1.0
NE2 A:HIS38 2.6 13.5 0.4
CE1 A:HIS38 2.9 13.6 0.6
CD2 A:HIS54 2.9 18.9 1.0
CD2 A:HIS38 3.1 11.9 0.4
CD2 A:HIS38 3.1 11.7 0.6
CE1 A:HIS54 3.1 14.6 1.0
OE2 B:DAH98 3.2 14.9 0.4
CE1 A:HIS63 3.2 9.3 1.0
CU A:CU502 3.5 18.0 1.0
OZ B:DAH98 3.7 15.5 1.0
CD2 A:HIS63 3.7 10.7 1.0
CE1 A:HIS38 3.8 12.9 0.4
ND1 A:HIS38 4.0 12.7 0.6
CG A:HIS54 4.1 14.3 1.0
NE2 A:HIS216 4.1 10.6 1.0
ND1 A:HIS54 4.2 14.7 1.0
CG A:HIS38 4.2 11.5 0.6
CE2 A:PHE212 4.3 11.6 1.0
CZ A:PHE212 4.4 10.4 1.0
CG A:HIS38 4.4 11.0 0.4
CE2 B:DAH98 4.4 12.9 1.0
CE1 A:HIS216 4.4 11.5 1.0
ND1 A:HIS63 4.4 9.2 1.0
CZ B:DAH98 4.6 15.5 1.0
CD1 A:ILE42 4.6 25.1 1.0
NE2 A:HIS190 4.7 8.9 1.0
ND1 A:HIS38 4.7 12.5 0.4
CG A:HIS63 4.7 8.9 1.0
CE1 A:PHE59 4.9 7.5 1.0
NE2 A:HIS194 4.9 8.1 1.0

Copper binding site 2 out of 6 in 2zwf

Go back to Copper Binding Sites List in 2zwf
Copper binding site 2 out of 6 in the Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu501

b:16.1
occ:0.37
 CU A:CU501 0.0 16.1 0.4
CU A:CU501 1.8 19.2 0.6
O B:HOH547 2.1 15.8 1.0
OZ B:DAH98 2.1 15.5 1.0
NE2 A:HIS38 2.1 13.5 0.4
OE2 B:DAH98 2.1 14.9 0.4
CE1 A:HIS38 2.3 13.6 0.6
NE2 A:HIS38 2.4 13.8 0.6
NE2 A:HIS54 2.6 19.8 1.0
O B:HOH582 2.6 19.2 1.0
CE1 A:HIS38 2.9 12.9 0.4
CZ B:DAH98 3.0 15.5 1.0
CE2 B:DAH98 3.1 12.9 1.0
CD1 A:ILE42 3.2 25.1 1.0
CD2 A:HIS54 3.3 18.9 1.0
CD2 A:HIS38 3.3 11.9 0.4
ND1 A:HIS38 3.6 12.7 0.6
CE1 A:HIS54 3.6 14.6 1.0
CU A:CU502 3.7 18.0 1.0
CD2 A:HIS38 3.8 11.7 0.6
CG1 A:ILE42 4.1 25.9 1.0
ND1 A:HIS38 4.1 12.5 0.4
OG A:SER206 4.2 9.4 1.0
CG A:HIS38 4.3 11.5 0.6
CG A:HIS38 4.3 11.0 0.4
CE1 B:DAH98 4.4 11.4 1.0
NE2 A:HIS63 4.4 11.3 1.0
CD2 B:DAH98 4.4 10.2 1.0
CG A:HIS54 4.4 14.3 1.0
NE2 A:HIS194 4.5 8.1 1.0
O B:HOH556 4.5 16.4 1.0
CE1 A:HIS194 4.6 9.9 1.0
CE2 A:PHE212 4.6 11.6 1.0
ND1 A:HIS54 4.6 14.7 1.0
CB A:ILE42 4.8 19.3 1.0
CE1 A:HIS63 4.9 9.3 1.0
NE2 A:HIS190 5.0 8.9 1.0

Copper binding site 3 out of 6 in 2zwf

Go back to Copper Binding Sites List in 2zwf
Copper binding site 3 out of 6 in the Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu502

b:18.0
occ:1.00
 NE2 A:HIS194 2.0 8.1 1.0
O B:HOH547 2.0 15.8 1.0
NE2 A:HIS190 2.0 8.9 1.0
NE2 A:HIS216 2.1 10.6 1.0
O B:HOH582 2.5 19.2 1.0
CE1 A:HIS216 2.9 11.5 1.0
CE1 A:HIS194 2.9 9.9 1.0
CE1 A:HIS190 2.9 10.2 1.0
CD2 A:HIS190 3.0 8.3 1.0
CD2 A:HIS194 3.0 10.2 1.0
OE2 B:DAH98 3.2 14.9 0.4
CD2 A:HIS216 3.2 10.0 1.0
CU A:CU501 3.5 19.2 0.6
CU A:CU501 3.7 16.1 0.4
CE2 B:DAH98 3.8 12.9 1.0
OZ B:DAH98 4.0 15.5 1.0
ND1 A:HIS190 4.1 9.2 1.0
ND1 A:HIS194 4.1 9.8 1.0
ND1 A:HIS216 4.1 9.9 1.0
CG A:HIS190 4.1 8.5 1.0
CG A:HIS194 4.1 10.6 1.0
CE2 A:PHE212 4.2 11.6 1.0
CG A:HIS216 4.2 8.7 1.0
CZ B:DAH98 4.3 15.5 1.0
CD2 A:HIS215 4.5 11.3 1.0
NE2 A:HIS63 4.5 11.3 1.0
NE2 A:HIS215 4.6 10.7 1.0
CD2 B:DAH98 4.6 10.2 1.0
CZ A:PHE212 4.8 10.4 1.0
CE1 A:PHE59 4.8 7.5 1.0
CD2 A:PHE212 4.9 8.9 1.0
NE2 A:HIS38 4.9 13.8 0.6
CD2 A:HIS63 5.0 10.7 1.0

Copper binding site 4 out of 6 in 2zwf

Go back to Copper Binding Sites List in 2zwf
Copper binding site 4 out of 6 in the Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu504

b:45.4
occ:0.50
 NE2 A:HIS277 2.0 52.1 1.0
O A:HOH926 2.4 24.3 0.5
CE1 A:HIS277 2.8 51.9 1.0
O A:HOH888 2.9 44.6 1.0
CD2 A:HIS277 3.1 54.7 1.0
ND1 A:HIS277 4.0 53.9 1.0
CG A:HIS277 4.1 57.6 1.0
CG A:PRO231 4.6 22.4 1.0
O A:HOH733 4.8 30.8 1.0

Copper binding site 5 out of 6 in 2zwf

Go back to Copper Binding Sites List in 2zwf
Copper binding site 5 out of 6 in the Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu503

b:17.9
occ:0.66
 NE2 B:HIS82 2.0 13.4 0.7
NE2 B:HIS97 2.1 24.3 1.0
SD B:MET84 2.3 24.3 1.0
CE1 B:HIS82 2.8 15.5 0.3
CE1 B:HIS97 2.9 23.7 1.0
CE1 B:HIS82 2.9 15.4 0.7
CD2 B:HIS82 3.1 15.9 0.7
CG B:MET84 3.1 21.3 1.0
ND1 B:HIS82 3.2 14.6 0.3
O A:ILE42 3.2 16.1 1.0
CD2 B:HIS97 3.2 21.3 1.0
CE B:MET84 3.5 30.9 1.0
CB B:MET84 3.7 13.5 1.0
CA A:MET43 3.7 17.1 1.0
NE2 B:HIS82 4.0 15.5 0.3
ND1 B:HIS82 4.0 13.9 0.7
ND1 B:HIS97 4.1 18.3 1.0
O A:MET43 4.1 21.4 1.0
C A:ILE42 4.1 13.9 1.0
CG B:HIS82 4.2 12.8 0.7
C A:MET43 4.2 18.7 1.0
CG B:HIS97 4.3 17.0 1.0
N A:MET43 4.4 12.6 1.0
CG B:HIS82 4.5 13.0 0.3
O A:HOH576 4.6 18.4 1.0
CB A:MET43 4.7 17.6 1.0
CG A:MET43 4.8 19.8 1.0
CA B:MET84 4.8 13.7 1.0
CD1 B:ILE92 4.8 36.7 1.0
N B:MET84 4.9 12.2 1.0
CD2 B:HIS82 4.9 15.4 0.3
CG1 B:ILE92 5.0 14.9 1.0

Copper binding site 6 out of 6 in 2zwf

Go back to Copper Binding Sites List in 2zwf
Copper binding site 6 out of 6 in the Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Crystal Structure of the Copper-Bound Tyrosinase in Complex with A Caddie Protein From Streptomyces Castaneoglobisporus Obtained By Soaking the Deoxy-Form Crystal in Dioxygen-Saturated Solution For 80 Minutes within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu503

b:24.5
occ:0.34
 NE2 B:HIS82 2.6 15.5 0.3
CD2 B:HIS82 3.1 15.4 0.3
ND1 B:HIS82 3.7 13.9 0.7
CE1 B:HIS82 3.7 15.4 0.7
CE1 B:HIS82 3.8 15.5 0.3
O A:MET43 3.9 21.4 1.0
CG B:HIS82 4.4 13.0 0.3
O B:HOH586 4.7 19.0 1.0
ND1 B:HIS82 4.7 14.6 0.3
CG B:HIS82 5.0 12.8 0.7

Reference:

Y.Matoba, H.Yoshitsu, H.J.Jeon, K.Oda, M.Noda, T.Kumagai, M.Sugiyama. Crystallographic Evidence of Drastic Movement of A Copper Ion Toward the Substrate Tyrosine For Starting Hydroxylation Reaction of Tyrosinase To Be Published.
Page generated: Wed Jul 31 00:31:37 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