Atomistry » Copper » PDB 4ysu-5c92 » 5akr
Atomistry »
  Copper »
    PDB 4ysu-5c92 »
      5akr »

Copper in PDB 5akr: Atomic Resolution Structure of Nitrite Bound State of the Achromobacter Cycloclastes Cu Nitrite Reductase at 0.87 A Resolution

Enzymatic activity of Atomic Resolution Structure of Nitrite Bound State of the Achromobacter Cycloclastes Cu Nitrite Reductase at 0.87 A Resolution

All present enzymatic activity of Atomic Resolution Structure of Nitrite Bound State of the Achromobacter Cycloclastes Cu Nitrite Reductase at 0.87 A Resolution:
1.7.2.1;

Protein crystallography data

The structure of Atomic Resolution Structure of Nitrite Bound State of the Achromobacter Cycloclastes Cu Nitrite Reductase at 0.87 A Resolution, PDB code: 5akr was solved by M.P.Blakeley, S.S.Hasnain, S.V.Antonyuk, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 17.41 / 0.87
Space group P 21 3
Cell size a, b, c (Å), α, β, γ (°) 94.948, 94.948, 94.948, 90.00, 90.00, 90.00
R / Rfree (%) 10.892 / 12.714

Copper Binding Sites:

The binding sites of Copper atom in the Atomic Resolution Structure of Nitrite Bound State of the Achromobacter Cycloclastes Cu Nitrite Reductase at 0.87 A Resolution (pdb code 5akr). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 2 binding sites of Copper where determined in the Atomic Resolution Structure of Nitrite Bound State of the Achromobacter Cycloclastes Cu Nitrite Reductase at 0.87 A Resolution, PDB code: 5akr:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in 5akr

Go back to Copper Binding Sites List in 5akr
Copper binding site 1 out of 2 in the Atomic Resolution Structure of Nitrite Bound State of the Achromobacter Cycloclastes Cu Nitrite Reductase at 0.87 A Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Atomic Resolution Structure of Nitrite Bound State of the Achromobacter Cycloclastes Cu Nitrite Reductase at 0.87 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu501

b:6.0
occ:1.00
ND1 A:HIS145 2.0 5.9 1.0
ND1 A:HIS95 2.0 5.8 1.0
SG A:CYS136 2.2 6.5 1.0
SD A:MET150 2.5 6.2 1.0
CE1 A:HIS145 3.0 6.5 1.0
HB3 A:HIS145 3.0 5.5 1.0
CE1 A:HIS95 3.0 6.0 1.0
HE1 A:HIS145 3.1 6.4 1.0
CG A:HIS95 3.1 5.8 1.0
HB3 A:HIS95 3.1 5.8 1.0
CG A:HIS145 3.1 5.8 1.0
HE1 A:HIS95 3.1 5.9 1.0
HB3 A:CYS136 3.2 5.8 1.0
CB A:CYS136 3.2 5.9 1.0
HA A:HIS95 3.2 5.9 1.0
HE3 A:MET150 3.3 7.0 1.0
CE A:MET150 3.3 7.2 1.0
HB2 A:CYS136 3.3 5.9 1.0
HE2 A:MET150 3.4 6.8 1.0
CB A:HIS95 3.5 5.9 1.0
CB A:HIS145 3.5 5.6 1.0
CA A:HIS95 3.9 5.7 1.0
CG A:MET150 3.9 5.8 1.0
H A:ASN96 3.9 5.8 1.0
HG2 A:PRO138 4.0 7.2 1.0
HG2 A:MET150 4.0 5.8 1.0
HB3 A:MET150 4.0 5.5 1.0
HB2 A:HIS145 4.1 5.6 1.0
HB3 A:MET62 4.1 6.5 1.0
HD3 A:PRO138 4.1 6.6 1.0
NE2 A:HIS145 4.1 6.9 1.0
NE2 A:HIS95 4.2 6.0 1.0
CD2 A:HIS145 4.2 6.9 1.0
O A:LEU94 4.2 7.7 1.0
HE1 A:MET150 4.2 6.9 1.0
CD2 A:HIS95 4.2 6.0 1.0
HB2 A:MET150 4.3 5.6 1.0
CG A:PRO138 4.3 7.3 1.0
CB A:MET150 4.3 5.5 1.0
SD A:MET62 4.4 7.7 1.0
HB2 A:HIS95 4.4 5.8 1.0
HA A:HIS145 4.6 5.4 1.0
CA A:CYS136 4.6 5.3 1.0
HG3 A:MET150 4.6 5.9 1.0
CD A:PRO138 4.7 6.5 1.0
N A:ASN96 4.7 5.8 1.0
CA A:HIS145 4.7 5.3 1.0
N A:HIS95 4.8 6.5 1.0
HE2 A:HIS145 4.9 6.6 1.0
C A:HIS95 4.9 5.9 1.0
CB A:MET62 4.9 6.7 1.0
HB2 A:MET62 4.9 6.8 1.0
C A:LEU94 4.9 6.6 1.0
HE2 A:HIS95 4.9 5.9 1.0
HA A:CYS136 4.9 5.3 1.0

Copper binding site 2 out of 2 in 5akr

Go back to Copper Binding Sites List in 5akr
Copper binding site 2 out of 2 in the Atomic Resolution Structure of Nitrite Bound State of the Achromobacter Cycloclastes Cu Nitrite Reductase at 0.87 A Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Atomic Resolution Structure of Nitrite Bound State of the Achromobacter Cycloclastes Cu Nitrite Reductase at 0.87 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu502

b:6.2
occ:1.00
NE2 A:HIS100 2.0 5.4 1.0
NE2 A:HIS135 2.0 6.2 1.0
N A:NO2508 2.1 8.0 0.5
O A:HOH2698 2.2 27.8 0.5
O1 A:NO2508 2.3 21.5 0.5
O2 A:NO2508 2.3 17.0 0.5
CE1 A:HIS100 2.9 5.3 1.0
CD2 A:HIS135 3.0 6.0 1.0
CE1 A:HIS135 3.0 6.3 1.0
CD2 A:HIS100 3.1 5.2 1.0
HD2 A:HIS135 3.2 5.8 1.0
HD2 A:HIS100 3.3 5.2 1.0
OD2 A:ASP98 3.8 13.1 0.5
ND1 A:HIS100 4.1 5.2 1.0
CG A:HIS135 4.2 5.2 1.0
ND1 A:HIS135 4.2 5.7 1.0
O A:HOH2476 4.2 15.5 0.5
CG A:HIS100 4.2 4.7 1.0
O A:HOH2169 4.2 8.9 0.4
CG A:ASP98 4.4 8.4 0.5
OD1 A:ASP98 4.6 8.2 0.5
HG13 A:VAL133 4.6 5.9 1.0
HD1 A:HIS100 4.9 5.0 1.0
HD1 A:HIS135 4.9 5.6 1.0

Reference:

M.P.Blakeley, S.S.Hasnain, S.V.Antonyuk. Sub-Atomic Resolution X-Ray Crystallography and Neutron Crystallography: Promise, Challenges and Potential. Iucrj V. 2 464 2015.
ISSN: ISSN 2052-2525
PubMed: 26175905
DOI: 10.1107/S2052252515011239
Page generated: Sun Dec 13 11:16:58 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