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Copper in PDB 1snr: Nitric Oxide Bound to Cu Nitrite Reductase

Enzymatic activity of Nitric Oxide Bound to Cu Nitrite Reductase

All present enzymatic activity of Nitric Oxide Bound to Cu Nitrite Reductase:
1.7.2.1;

Protein crystallography data

The structure of Nitric Oxide Bound to Cu Nitrite Reductase, PDB code: 1snr was solved by E.I.Tocheva, F.I.Rosell, A.G.Mauk, M.E.Murphy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.30 / 1.31
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 61.726, 102.595, 145.652, 90.00, 90.00, 90.00
R / Rfree (%) 12.4 / 14.1

Copper Binding Sites:

The binding sites of Copper atom in the Nitric Oxide Bound to Cu Nitrite Reductase (pdb code 1snr). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 6 binding sites of Copper where determined in the Nitric Oxide Bound to Cu Nitrite Reductase, PDB code: 1snr:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6;

Copper binding site 1 out of 6 in 1snr

Go back to Copper Binding Sites List in 1snr
Copper binding site 1 out of 6 in the Nitric Oxide Bound to Cu Nitrite Reductase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Nitric Oxide Bound to Cu Nitrite Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu501

b:10.0
occ:1.00
ND1 A:HIS145 2.1 9.8 1.0
ND1 A:HIS95 2.1 9.4 1.0
SG A:CYS136 2.2 9.7 1.0
SD A:MET150 2.4 9.9 1.0
CE1 A:HIS145 3.0 10.4 1.0
CE1 A:HIS95 3.0 10.3 1.0
CG A:HIS95 3.1 10.1 1.0
CG A:HIS145 3.1 9.2 1.0
CB A:CYS136 3.2 8.9 1.0
CE A:MET150 3.2 10.1 1.0
CB A:HIS95 3.5 9.4 1.0
CB A:HIS145 3.5 8.9 1.0
CG A:MET150 3.8 8.9 1.0
CA A:HIS95 3.8 9.3 1.0
NE2 A:HIS145 4.1 10.3 1.0
NE2 A:HIS95 4.1 10.7 1.0
CD2 A:HIS95 4.2 12.8 1.0
CD2 A:HIS145 4.2 11.5 1.0
CB A:MET150 4.3 8.8 1.0
CG A:PRO138 4.3 10.7 1.0
O A:MET94 4.3 9.4 1.0
SD A:MET62 4.4 11.9 1.0
CA A:CYS136 4.6 8.5 1.0
CD A:PRO138 4.7 9.2 1.0
N A:ASN96 4.7 9.0 1.0
CB A:MET62 4.7 11.1 1.0
CA A:HIS145 4.8 8.6 1.0
C A:HIS95 4.8 8.9 1.0
N A:HIS95 4.9 9.2 1.0

Copper binding site 2 out of 6 in 1snr

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Copper binding site 2 out of 6 in the Nitric Oxide Bound to Cu Nitrite Reductase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Nitric Oxide Bound to Cu Nitrite Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu502

b:9.9
occ:1.00
O A:NO503 1.9 25.9 1.0
N A:NO503 2.0 23.4 1.0
NE2 A:HIS100 2.0 9.2 1.0
NE2 B:HIS306 2.0 8.5 1.0
NE2 A:HIS135 2.1 8.1 1.0
CE1 A:HIS100 2.9 8.0 1.0
CE1 B:HIS306 3.0 8.2 1.0
CD2 A:HIS135 3.1 8.0 1.0
CD2 B:HIS306 3.1 9.2 1.0
CD2 A:HIS100 3.1 7.8 1.0
CE1 A:HIS135 3.1 7.9 1.0
OD1 A:ASP98 3.7 18.5 1.0
NE2 B:HIS255 4.0 14.4 1.0
ND1 A:HIS100 4.1 8.2 1.0
ND1 B:HIS306 4.1 8.0 1.0
CG A:HIS100 4.2 7.8 1.0
CE1 B:HIS255 4.2 13.7 1.0
ND1 A:HIS135 4.2 8.0 1.0
CG B:HIS306 4.2 8.2 1.0
CG A:HIS135 4.2 7.7 1.0
CG A:ASP98 4.4 13.8 1.0
CD2 B:HIS255 4.5 12.5 1.0
OD2 A:ASP98 4.7 15.6 1.0
ND1 B:HIS255 4.7 12.2 1.0
CD2 B:LEU308 4.9 9.9 1.0
O B:HOH1726 4.9 16.6 1.0
CG B:HIS255 4.9 9.9 1.0

Copper binding site 3 out of 6 in 1snr

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Copper binding site 3 out of 6 in the Nitric Oxide Bound to Cu Nitrite Reductase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Nitric Oxide Bound to Cu Nitrite Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu501

b:12.1
occ:1.00
ND1 B:HIS95 2.1 11.0 1.0
ND1 B:HIS145 2.1 11.2 1.0
SG B:CYS136 2.2 11.9 1.0
SD B:MET150 2.5 11.5 1.0
CE1 B:HIS145 3.0 12.2 1.0
CE1 B:HIS95 3.0 11.3 1.0
CG B:HIS95 3.1 11.6 1.0
CG B:HIS145 3.1 11.0 1.0
CB B:CYS136 3.2 10.8 1.0
CE B:MET150 3.3 11.1 1.0
CB B:HIS95 3.5 11.8 1.0
CB B:HIS145 3.5 10.5 1.0
CA B:HIS95 3.8 12.1 1.0
CG B:MET150 3.9 10.2 1.0
NE2 B:HIS145 4.1 12.5 1.0
NE2 B:HIS95 4.1 11.3 1.0
CG B:PRO138 4.2 12.9 1.0
CD2 B:HIS145 4.2 12.2 1.0
CD2 B:HIS95 4.2 11.9 1.0
O B:MET94 4.3 12.3 1.0
SD B:MET62 4.4 13.8 1.0
CB B:MET150 4.4 9.7 1.0
CD B:PRO138 4.5 11.7 1.0
CA B:CYS136 4.6 10.4 1.0
N B:ASN96 4.7 11.4 1.0
CA B:HIS145 4.8 10.6 1.0
C B:HIS95 4.8 11.9 1.0
N B:HIS95 4.8 12.2 1.0
CB B:MET62 4.8 11.1 1.0
C B:MET94 5.0 12.0 1.0

Copper binding site 4 out of 6 in 1snr

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Copper binding site 4 out of 6 in the Nitric Oxide Bound to Cu Nitrite Reductase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Nitric Oxide Bound to Cu Nitrite Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu502

b:11.5
occ:1.00
N B:NO503 2.0 26.3 1.0
NE2 B:HIS100 2.0 10.4 1.0
NE2 B:HIS135 2.1 10.4 1.0
NE2 C:HIS306 2.1 10.1 1.0
O B:NO503 2.1 27.2 1.0
CE1 B:HIS100 3.0 10.3 1.0
CD2 B:HIS135 3.0 10.3 1.0
CE1 C:HIS306 3.0 10.1 1.0
CE1 B:HIS135 3.1 9.5 1.0
CD2 C:HIS306 3.1 10.5 1.0
CD2 B:HIS100 3.1 10.2 1.0
OD1 B:ASP98 3.7 20.4 1.0
NE2 C:HIS255 4.0 15.8 1.0
ND1 B:HIS100 4.1 10.1 1.0
ND1 C:HIS306 4.2 9.4 1.0
ND1 B:HIS135 4.2 10.0 1.0
CG B:HIS135 4.2 9.8 1.0
CG B:HIS100 4.2 10.3 1.0
CG C:HIS306 4.2 9.8 1.0
CE1 C:HIS255 4.2 16.0 1.0
CG B:ASP98 4.3 15.4 1.0
CD2 C:HIS255 4.5 15.1 1.0
OD2 B:ASP98 4.7 17.5 1.0
ND1 C:HIS255 4.7 14.0 1.0
O C:HOH1700 4.9 17.7 1.0
CG C:HIS255 4.9 11.2 1.0
CD2 C:LEU308 5.0 12.7 1.0

Copper binding site 5 out of 6 in 1snr

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Copper binding site 5 out of 6 in the Nitric Oxide Bound to Cu Nitrite Reductase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Nitric Oxide Bound to Cu Nitrite Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu501

b:15.2
occ:1.00
ND1 C:HIS95 2.1 15.7 1.0
ND1 C:HIS145 2.1 14.6 1.0
SG C:CYS136 2.2 14.6 1.0
SD C:MET150 2.5 14.5 1.0
CE1 C:HIS145 3.0 15.2 1.0
CE1 C:HIS95 3.0 14.0 1.0
CG C:HIS95 3.1 14.8 1.0
CG C:HIS145 3.2 13.6 1.0
CB C:CYS136 3.2 13.7 1.0
CE C:MET150 3.3 15.1 1.0
CB C:HIS95 3.5 15.0 1.0
CB C:HIS145 3.6 13.0 1.0
CA C:HIS95 3.8 14.6 1.0
CG C:MET150 3.9 13.6 1.0
NE2 C:HIS95 4.1 15.0 1.0
NE2 C:HIS145 4.1 15.2 1.0
CD2 C:HIS95 4.2 15.7 1.0
CG C:PRO138 4.2 14.9 1.0
CD2 C:HIS145 4.2 14.3 1.0
O C:MET94 4.3 16.1 1.0
CB C:MET150 4.4 12.5 1.0
SD C:MET62 4.5 15.6 1.0
CD C:PRO138 4.6 13.9 1.0
CA C:CYS136 4.6 13.1 1.0
N C:ASN96 4.6 14.2 1.0
CB C:MET62 4.8 14.3 1.0
CA C:HIS145 4.8 12.6 1.0
C C:HIS95 4.8 14.5 1.0
N C:HIS95 4.8 14.9 1.0
C C:MET94 5.0 15.5 1.0

Copper binding site 6 out of 6 in 1snr

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Copper binding site 6 out of 6 in the Nitric Oxide Bound to Cu Nitrite Reductase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Nitric Oxide Bound to Cu Nitrite Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu502

b:12.9
occ:1.00
N C:NO503 2.0 24.6 1.0
O C:NO503 2.0 26.0 1.0
NE2 C:HIS100 2.0 10.9 1.0
NE2 C:HIS135 2.0 12.4 1.0
NE2 A:HIS306 2.1 10.2 1.0
CE1 C:HIS100 2.9 11.1 1.0
CD2 C:HIS135 3.0 12.8 1.0
CE1 A:HIS306 3.0 11.0 1.0
CE1 C:HIS135 3.1 12.1 1.0
CD2 A:HIS306 3.1 10.6 1.0
CD2 C:HIS100 3.1 11.0 1.0
OD1 C:ASP98 3.8 23.2 1.0
NE2 A:HIS255 4.0 16.4 1.0
ND1 C:HIS100 4.1 11.2 1.0
ND1 A:HIS306 4.1 10.9 1.0
ND1 C:HIS135 4.2 12.0 1.0
CG C:HIS135 4.2 12.6 1.0
CG C:HIS100 4.2 10.7 1.0
CE1 A:HIS255 4.2 16.9 1.0
CG A:HIS306 4.2 10.6 1.0
CG C:ASP98 4.4 18.1 1.0
CD2 A:HIS255 4.5 15.2 1.0
OD2 C:ASP98 4.7 19.3 1.0
ND1 A:HIS255 4.7 14.6 1.0
CG A:HIS255 4.9 11.5 1.0
O A:HOH1750 4.9 19.8 1.0
CD2 A:LEU308 4.9 11.8 1.0

Reference:

E.I.Tocheva, F.I.Rosell, A.G.Mauk, M.E.Murphy. Side-on Copper-Nitrosyl Coordination By Nitrite Reductase. Science V. 304 867 2004.
ISSN: ISSN 0036-8075
PubMed: 15131305
DOI: 10.1126/SCIENCE.1095109
Page generated: Thu Sep 3 16:19:02 2020
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