Chemical elements
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    Cuprous Compounds
    Complex Copper Compounds
    Cupric Compounds
    PDB 1a2v-1bxu
    PDB 1bxv-1fwx
    PDB 1g3d-1j9t
    PDB 1jcv-1mfm
    PDB 1mg2-1paz
      1mg2
      1mg3
      1mjg
      1mzy
      1mzz
      1n18
      1n19
      1n5w
      1n61
      1n62
      1n63
      1n68
      1n70
      1n9e
      1ndr
      1nds
      1ndt
      1nia
      1nib
      1nic
      1nid
      1nie
      1nif
      1nin
      1niq
      1nol
      1npj
      1npn
      1ntd
      1nwo
      1nwp
      1oac
      1oaj
      1oal
      1occ
      1oco
      1ocr
      1ocz
      1odb
      1oe1
      1oe2
      1oe3
      1of0
      1oow
      1opm
      1oq6
      1ot4
      1ov8
      1oxy
      1paz
    PDB 1pcs-1sii
    PDB 1sjm-1w6w
    PDB 1w77-2afn
    PDB 2ahk-2dv6
    PDB 2dws-2ggp
    PDB 2ghz-2mta
    PDB 2nrd-2vm3
    PDB 2vm4-2yah
    PDB 2yam-3bkt
    PDB 3bqv-3fyi
    PDB 3g5w-3mie
    PDB 3mif-3t6v
    PDB 3t6w-9pcy

Copper in the structure of Crystallographic Structure of A Substrate Bound Blue Copper Nitrite Reductase From Alcaligenes Xylosoxidans (pdb 1nds)






The binding sites of Copper atom in the structure of Crystallographic Structure of A Substrate Bound Blue Copper Nitrite Reductase From Alcaligenes Xylosoxidans (pdb code 1nds). This binding sites where shown with 5.0 Angstroms radius around Copper atom.
The 1nds structure was solved by F.E.DODD, S.S.HASNAIN, Z.H.L.ABRAHAM, R.R.EADY, B.E.SMITH, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)8.0-2.8
Space groupP212121
a (A)67.890
b (A)102.200
c (A)151.880
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)23.6
Rfree (%)28


Copper Binding Sites:

Copper binding site 1 out of 6 in 1nds


Copper binding site 1 out of 6 in 1nds
Click to enlarge
stereopicture of Copper binding site 1 out of 6 in 1nds
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Copper in the PDB 1nds. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Copper atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: His95, A: Cys136, A: His145, A: Met150,

conact list:


AtomAtomDistance (A)
CuNE2 A:His954.21
CuN A:His954.90
CuCB A:His953.56
CuND1 A:His952.14
CuCD2 A:His954.29
CuC A:His954.95
CuCE1 A:His953.06
CuCG A:His953.19
CuCA A:His953.94
CuCB A:Cys1363.26
CuSG A:Cys1362.08
CuCA A:Cys1364.67
CuNE2 A:His1454.04
CuCB A:His1453.51
CuND1 A:His1451.99
CuCD2 A:His1454.15
CuCE1 A:His1452.88
CuCG A:His1453.08
CuCA A:His1454.67
CuCB A:Met1504.58
CuCE A:Met1504.06
CuCG A:Met1503.99
CuSD A:Met1502.65

interactive model:


Copper binding site 2 out of 6 in 1nds


Copper binding site 2 out of 6 in 1nds
Click to enlarge
stereopicture of Copper binding site 2 out of 6 in 1nds
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Copper in the PDB 1nds. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Copper atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: His100, A: His135, B: His306, A: No2503,

conact list:


AtomAtomDistance (A)
CuNE2 A:His1002.18
CuND1 A:His1004.21
CuCD2 A:His1003.29
CuCE1 A:His1003.02
CuCG A:His1004.37
CuNE2 A:His1351.99
CuND1 A:His1354.04
CuCD2 A:His1353.07
CuCE1 A:His1352.89
CuCG A:His1354.16
CuNE2 B:His3062.09
CuND1 B:His3064.14
CuCD2 B:His3063.15
CuCE1 B:His3062.99
CuCG B:His3064.25
CuO1 A:No25032.37
CuO2 A:No25031.73
CuN A:No25032.48

interactive model:


Copper binding site 3 out of 6 in 1nds


Copper binding site 3 out of 6 in 1nds
Click to enlarge
stereopicture of Copper binding site 3 out of 6 in 1nds
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Copper in the PDB 1nds. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Copper atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: His95, B: Cys136, B: His145, B: Met150,

conact list:


AtomAtomDistance (A)
CuNE2 B:His954.13
CuN B:His954.91
CuCB B:His953.52
CuND1 B:His952.07
CuCD2 B:His954.22
CuC B:His954.97
CuCE1 B:His952.98
CuCG B:His953.13
CuCA B:His953.94
CuCB B:Cys1363.27
CuSG B:Cys1362.22
CuCA B:Cys1364.71
CuNE2 B:His1454.08
CuCB B:His1453.56
CuND1 B:His1452.04
CuCD2 B:His1454.20
CuCE1 B:His1452.92
CuCG B:His1453.13
CuCA B:His1454.72
CuCB B:Met1504.57
CuCE B:Met1504.03
CuCG B:Met1503.96
CuSD B:Met1502.64

interactive model:


Copper binding site 4 out of 6 in 1nds


Copper binding site 4 out of 6 in 1nds
Click to enlarge
stereopicture of Copper binding site 4 out of 6 in 1nds
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Copper in the PDB 1nds. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Copper atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: His100, B: His135, C: His306, B: No2503,

conact list:


AtomAtomDistance (A)
CuNE2 B:His1002.14
CuND1 B:His1004.13
CuCD2 B:His1003.29
CuCE1 B:His1002.93
CuCG B:His1004.33
CuNE2 B:His1352.05
CuND1 B:His1354.12
CuCD2 B:His1353.10
CuCE1 B:His1352.99
CuCG B:His1354.21
CuNE2 C:His3061.95
CuND1 C:His3064.02
CuCD2 C:His3063.01
CuCE1 C:His3062.88
CuCG C:His3064.12
CuO1 B:No25032.45
CuO2 B:No25031.76
CuN B:No25032.54

interactive model:


Copper binding site 5 out of 6 in 1nds


Copper binding site 5 out of 6 in 1nds
Click to enlarge
stereopicture of Copper binding site 5 out of 6 in 1nds
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 5 of Copper in the PDB 1nds. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Copper atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: C: His95, C: Cys136, C: His145, C: Met150,

conact list:


AtomAtomDistance (A)
CuNE2 C:His954.18
CuN C:His954.91
CuCB C:His953.55
CuND1 C:His952.12
CuCD2 C:His954.27
CuC C:His954.95
CuCE1 C:His953.03
CuCG C:His953.18
CuCA C:His953.93
CuCB C:Cys1363.30
CuSG C:Cys1362.20
CuCA C:Cys1364.72
CuNE2 C:His1453.99
CuCB C:His1453.49
CuND1 C:His1451.94
CuCD2 C:His1454.11
CuCE1 C:His1452.82
CuCG C:His1453.05
CuCA C:His1454.68
CuCB C:Met1504.57
CuCE C:Met1504.01
CuCG C:Met1503.97
CuSD C:Met1502.57

interactive model:


Copper binding site 6 out of 6 in 1nds


Copper binding site 6 out of 6 in 1nds
Click to enlarge
stereopicture of Copper binding site 6 out of 6 in 1nds
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 6 of Copper in the PDB 1nds. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Copper atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: His306, C: His100, C: His135, C: No2503,

conact list:


AtomAtomDistance (A)
CuNE2 A:His3062.01
CuND1 A:His3064.07
CuCD2 A:His3063.06
CuCE1 A:His3062.94
CuCG A:His3064.17
CuNE2 C:His1002.14
CuND1 C:His1004.16
CuCD2 C:His1003.25
CuCE1 C:His1002.98
CuCG C:His1004.33
CuNE2 C:His1352.04
CuND1 C:His1354.09
CuCD2 C:His1353.11
CuCE1 C:His1352.94
CuCG C:His1354.20
CuO1 C:No25032.41
CuO2 C:No25031.73
CuN C:No25032.50

interactive model:




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