Atomistry » Copper » PDB 2idq-2pp7 » 2j55
Atomistry »
  Copper »
    PDB 2idq-2pp7 »
      2j55 »

Copper in PDB 2j55: X-Ray Reduced Paraccocus Denitrificans Methylamine Dehydrogenase O-Quinone in Complex with Amicyanin.

Enzymatic activity of X-Ray Reduced Paraccocus Denitrificans Methylamine Dehydrogenase O-Quinone in Complex with Amicyanin.

All present enzymatic activity of X-Ray Reduced Paraccocus Denitrificans Methylamine Dehydrogenase O-Quinone in Complex with Amicyanin.:
1.4.99.3;

Protein crystallography data

The structure of X-Ray Reduced Paraccocus Denitrificans Methylamine Dehydrogenase O-Quinone in Complex with Amicyanin., PDB code: 2j55 was solved by A.R.Pearson, R.Pahl, V.L.Davidson, C.M.Wilmot, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 21.70 / 2.15
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 122.733, 122.733, 246.591, 90.00, 90.00, 90.00
R / Rfree (%) 18.9 / 24.5

Copper Binding Sites:

The binding sites of Copper atom in the X-Ray Reduced Paraccocus Denitrificans Methylamine Dehydrogenase O-Quinone in Complex with Amicyanin. (pdb code 2j55). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 2 binding sites of Copper where determined in the X-Ray Reduced Paraccocus Denitrificans Methylamine Dehydrogenase O-Quinone in Complex with Amicyanin., PDB code: 2j55:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in 2j55

Go back to Copper Binding Sites List in 2j55
Copper binding site 1 out of 2 in the X-Ray Reduced Paraccocus Denitrificans Methylamine Dehydrogenase O-Quinone in Complex with Amicyanin.


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of X-Ray Reduced Paraccocus Denitrificans Methylamine Dehydrogenase O-Quinone in Complex with Amicyanin. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1106

b:66.5
occ:1.00
SG A:CYS92 2.1 64.0 1.0
ND1 A:HIS95 2.3 52.7 1.0
ND1 A:HIS53 2.4 71.0 1.0
SD A:MET98 2.5 61.3 1.0
CG A:HIS53 3.0 70.4 1.0
CB A:HIS53 3.1 67.1 1.0
CB A:CYS92 3.2 63.1 1.0
CG A:HIS95 3.2 62.0 1.0
CE A:MET98 3.3 62.0 1.0
CE1 A:HIS95 3.3 60.9 1.0
CE1 A:HIS53 3.4 72.9 1.0
CB A:HIS95 3.4 63.2 1.0
CA A:HIS53 3.5 67.6 1.0
O A:PRO52 3.8 68.8 1.0
CD2 A:HIS53 4.1 73.0 1.0
CG A:MET98 4.3 56.9 1.0
NE2 A:HIS53 4.3 70.2 1.0
CD2 A:HIS95 4.4 63.5 1.0
N A:HIS53 4.4 67.7 1.0
NE2 A:HIS95 4.4 65.2 1.0
CG A:PRO94 4.5 62.0 1.0
C A:PRO52 4.5 68.0 1.0
N A:HIS95 4.5 65.9 1.0
CA A:HIS95 4.6 64.2 1.0
N A:ASN54 4.6 65.9 1.0
C A:HIS53 4.6 67.4 1.0
CA A:CYS92 4.6 64.0 1.0
CE A:MET28 4.7 66.1 1.0
CB A:MET98 4.9 63.1 1.0
O A:HIS95 5.0 67.1 1.0

Copper binding site 2 out of 2 in 2j55

Go back to Copper Binding Sites List in 2j55
Copper binding site 2 out of 2 in the X-Ray Reduced Paraccocus Denitrificans Methylamine Dehydrogenase O-Quinone in Complex with Amicyanin.


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of X-Ray Reduced Paraccocus Denitrificans Methylamine Dehydrogenase O-Quinone in Complex with Amicyanin. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu1106

b:65.1
occ:1.00
ND1 B:HIS95 1.8 43.2 1.0
SG B:CYS92 2.1 56.0 1.0
ND1 B:HIS53 2.1 50.7 1.0
CE1 B:HIS95 2.4 50.9 1.0
SD B:MET98 3.0 61.0 1.0
CG B:HIS95 3.0 55.2 1.0
CB B:CYS92 3.0 55.1 1.0
CE1 B:HIS53 3.1 48.1 1.0
CG B:HIS53 3.1 53.3 1.0
CB B:HIS53 3.5 54.8 1.0
CE B:MET98 3.6 59.1 1.0
NE2 B:HIS95 3.6 51.3 1.0
CA B:HIS53 3.7 53.8 1.0
CB B:HIS95 3.7 57.9 1.0
O B:PRO52 3.9 54.2 1.0
CD2 B:HIS95 3.9 49.1 1.0
NE2 B:HIS53 4.2 54.9 1.0
CD2 B:HIS53 4.2 56.3 1.0
CG B:MET98 4.3 58.5 1.0
N B:ASN54 4.4 53.3 1.0
CA B:CYS92 4.5 55.3 1.0
CG B:PRO94 4.5 55.5 1.0
C B:HIS53 4.6 52.6 1.0
N B:HIS53 4.7 53.5 1.0
C B:PRO52 4.7 54.5 1.0
N B:HIS95 4.7 56.7 1.0
CB B:MET98 4.7 59.6 1.0
CA B:HIS95 4.8 57.2 1.0
CD B:PRO94 5.0 56.2 1.0
C B:CYS92 5.0 56.0 1.0
CE B:MET28 5.0 62.2 1.0

Reference:

A.R.Pearson, R.Pahl, E.G.Kovaleva, V.L.Davidson, C.M.Wilmot. Tracking X-Ray-Derived Redox Changes in Crystals of A Methylamine Dehydrogenase/Amicyanin Complex Using Single-Crystal Uv/Vis Microspectrophotometry. J.Synchrotron Radiat. V. 14 92 2007.
ISSN: ISSN 0909-0495
PubMed: 17211075
DOI: 10.1107/S0909049506051259
Page generated: Sun Dec 13 11:05:28 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy