Atomistry » Copper » PDB 7s1f-7xmb » 7s4j
Atomistry »
  Copper »
    PDB 7s1f-7xmb »
      7s4j »

Copper in PDB 7s4j: Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution

Enzymatic activity of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution

All present enzymatic activity of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution:
1.14.13.25; 1.14.18.3;

Copper Binding Sites:

The binding sites of Copper atom in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution (pdb code 7s4j). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 9 binding sites of Copper where determined in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution, PDB code: 7s4j:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Copper binding site 1 out of 9 in 7s4j

Go back to Copper Binding Sites List in 7s4j
Copper binding site 1 out of 9 in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu501

b:59.6
occ:1.00
 NE2 A:HIS139 2.0 44.0 1.0
ND1 A:HIS33 2.1 52.8 1.0
ND1 A:HIS137 2.1 44.0 1.0
N A:HIS33 2.7 52.8 1.0
CD2 A:HIS139 2.9 44.0 1.0
CE1 A:HIS33 3.0 52.8 1.0
CG A:HIS137 3.1 44.0 1.0
CE1 A:HIS137 3.1 44.0 1.0
CE1 A:HIS139 3.1 44.0 1.0
CA A:HIS33 3.1 52.8 1.0
CG A:HIS33 3.2 52.8 1.0
CB A:HIS137 3.4 44.0 1.0
O A:HOH616 3.5 45.0 1.0
CB A:HIS33 3.5 52.8 1.0
CG A:HIS139 4.1 44.0 1.0
NE2 A:HIS33 4.1 52.8 1.0
ND1 A:HIS139 4.2 44.0 1.0
O A:HIS137 4.2 44.0 1.0
NE2 A:HIS137 4.2 44.0 1.0
CD2 A:HIS137 4.2 44.0 1.0
CD2 A:HIS33 4.2 52.8 1.0
OE2 A:GLU35 4.4 53.4 1.0
C A:HIS137 4.6 44.0 1.0
CA A:HIS137 4.6 44.0 1.0
OE1 A:GLU35 4.6 53.4 1.0
C A:HIS33 4.6 52.8 1.0
O A:HOH665 4.7 45.0 1.0
CD A:GLU35 4.9 53.4 1.0

Copper binding site 2 out of 9 in 7s4j

Go back to Copper Binding Sites List in 7s4j
Copper binding site 2 out of 9 in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu502

b:56.7
occ:1.00
 ND1 A:HIS48 1.9 44.0 1.0
ND1 A:HIS72 2.0 44.0 1.0
OE1 A:GLN404 2.4 45.8 1.0
CE1 A:HIS48 2.7 44.0 1.0
CE1 A:HIS72 2.9 44.0 1.0
CG A:HIS48 2.9 44.0 1.0
CG A:HIS72 3.0 44.0 1.0
CB A:HIS72 3.3 44.0 1.0
CB A:HIS48 3.5 44.0 1.0
O A:HIS72 3.5 44.0 1.0
CD A:GLN404 3.6 45.8 1.0
NE2 A:HIS48 3.8 44.0 1.0
CD2 A:HIS48 3.9 44.0 1.0
C A:HIS72 3.9 44.0 1.0
CD2 A:LEU390 4.0 44.0 1.0
NE2 A:HIS72 4.0 44.0 1.0
CD2 A:HIS72 4.1 44.0 1.0
CA A:PHE74 4.1 44.0 1.0
CA A:HIS72 4.2 44.0 1.0
N A:PHE74 4.3 44.0 1.0
N A:HIS48 4.3 44.0 1.0
NE2 A:GLN404 4.3 45.8 1.0
CD1 A:PHE74 4.3 44.0 1.0
CB A:PHE74 4.4 44.0 1.0
C A:VAL73 4.5 44.0 1.0
CA A:HIS48 4.5 44.0 1.0
CG A:GLN404 4.6 45.8 1.0
CG A:LEU390 4.7 44.0 1.0
O A:VAL73 4.7 44.0 1.0
N A:VAL73 4.7 44.0 1.0
CG A:PHE74 4.8 44.0 1.0
CD1 A:LEU390 4.9 44.0 1.0
N A:HIS72 5.0 44.0 1.0

Copper binding site 3 out of 9 in 7s4j

Go back to Copper Binding Sites List in 7s4j
Copper binding site 3 out of 9 in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu301

b:30.0
occ:1.00
 NE2 C:HIS160 2.0 47.9 1.0
NE2 C:HIS173 2.2 50.3 1.0
OD2 C:ASP156 2.4 44.0 1.0
CE1 C:HIS160 2.4 47.9 1.0
OD1 C:ASP156 2.5 44.0 1.0
CG C:ASP156 2.7 44.0 1.0
CE1 C:HIS173 3.0 50.3 1.0
CD2 C:HIS173 3.2 50.3 1.0
CD2 C:HIS160 3.3 47.9 1.0
NH1 C:ARG165 3.4 61.2 1.0
ND1 C:HIS160 3.6 47.9 1.0
NH2 C:ARG165 3.8 61.2 1.0
CZ C:ARG165 4.0 61.2 1.0
CG C:HIS160 4.1 47.9 1.0
ND1 C:HIS173 4.2 50.3 1.0
CB C:ASP156 4.2 44.0 1.0
CG C:HIS173 4.2 50.3 1.0
O C:ASP156 4.7 44.0 1.0
CG2 C:THR170 4.7 54.4 1.0
OE1 C:GLU176 4.9 46.4 1.0
CE2 C:PHE177 5.0 50.6 1.0

Copper binding site 4 out of 9 in 7s4j

Go back to Copper Binding Sites List in 7s4j
Copper binding site 4 out of 9 in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cu501

b:59.6
occ:1.00
 NE2 E:HIS139 2.0 44.0 1.0
ND1 E:HIS33 2.1 52.8 1.0
ND1 E:HIS137 2.1 44.0 1.0
N E:HIS33 2.7 52.8 1.0
CD2 E:HIS139 2.9 44.0 1.0
CE1 E:HIS33 3.0 52.8 1.0
CG E:HIS137 3.1 44.0 1.0
CE1 E:HIS137 3.1 44.0 1.0
CE1 E:HIS139 3.1 44.0 1.0
CA E:HIS33 3.1 52.8 1.0
CG E:HIS33 3.2 52.8 1.0
CB E:HIS137 3.4 44.0 1.0
O E:HOH610 3.5 45.0 1.0
CB E:HIS33 3.5 52.8 1.0
CG E:HIS139 4.1 44.0 1.0
NE2 E:HIS33 4.1 52.8 1.0
ND1 E:HIS139 4.2 44.0 1.0
O E:HIS137 4.2 44.0 1.0
NE2 E:HIS137 4.2 44.0 1.0
CD2 E:HIS137 4.2 44.0 1.0
CD2 E:HIS33 4.2 52.8 1.0
OE2 E:GLU35 4.4 53.4 1.0
C E:HIS137 4.6 44.0 1.0
CA E:HIS137 4.6 44.0 1.0
OE1 E:GLU35 4.6 53.4 1.0
C E:HIS33 4.6 52.8 1.0
O E:HOH659 4.6 45.0 1.0
CD E:GLU35 4.9 53.4 1.0

Copper binding site 5 out of 9 in 7s4j

Go back to Copper Binding Sites List in 7s4j
Copper binding site 5 out of 9 in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cu502

b:56.7
occ:1.00
 ND1 E:HIS48 1.9 44.0 1.0
ND1 E:HIS72 2.0 44.0 1.0
OE1 E:GLN404 2.4 45.8 1.0
CE1 E:HIS48 2.7 44.0 1.0
CE1 E:HIS72 2.9 44.0 1.0
CG E:HIS48 2.9 44.0 1.0
CG E:HIS72 3.0 44.0 1.0
CB E:HIS72 3.3 44.0 1.0
CB E:HIS48 3.5 44.0 1.0
O E:HIS72 3.5 44.0 1.0
CD E:GLN404 3.6 45.8 1.0
NE2 E:HIS48 3.8 44.0 1.0
CD2 E:HIS48 3.9 44.0 1.0
C E:HIS72 3.9 44.0 1.0
CD2 E:LEU390 4.0 44.0 1.0
NE2 E:HIS72 4.0 44.0 1.0
CD2 E:HIS72 4.1 44.0 1.0
CA E:PHE74 4.1 44.0 1.0
CA E:HIS72 4.2 44.0 1.0
N E:PHE74 4.3 44.0 1.0
N E:HIS48 4.3 44.0 1.0
NE2 E:GLN404 4.3 45.8 1.0
CD1 E:PHE74 4.3 44.0 1.0
CB E:PHE74 4.4 44.0 1.0
C E:VAL73 4.5 44.0 1.0
CA E:HIS48 4.5 44.0 1.0
CG E:GLN404 4.6 45.8 1.0
CG E:LEU390 4.7 44.0 1.0
O E:VAL73 4.7 44.0 1.0
N E:VAL73 4.7 44.0 1.0
CG E:PHE74 4.8 44.0 1.0
CD1 E:LEU390 4.9 44.0 1.0
N E:HIS72 5.0 44.0 1.0

Copper binding site 6 out of 9 in 7s4j

Go back to Copper Binding Sites List in 7s4j
Copper binding site 6 out of 9 in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Cu501

b:59.6
occ:1.00
 NE2 I:HIS139 2.0 44.0 1.0
ND1 I:HIS33 2.1 52.8 1.0
ND1 I:HIS137 2.1 44.0 1.0
N I:HIS33 2.7 52.8 1.0
CD2 I:HIS139 2.9 44.0 1.0
CE1 I:HIS33 3.0 52.8 1.0
CG I:HIS137 3.1 44.0 1.0
CE1 I:HIS137 3.1 44.0 1.0
CE1 I:HIS139 3.1 44.0 1.0
CA I:HIS33 3.1 52.8 1.0
CG I:HIS33 3.2 52.8 1.0
CB I:HIS137 3.4 44.0 1.0
CB I:HIS33 3.5 52.8 1.0
CG I:HIS139 4.1 44.0 1.0
NE2 I:HIS33 4.1 52.8 1.0
ND1 I:HIS139 4.2 44.0 1.0
O I:HIS137 4.2 44.0 1.0
NE2 I:HIS137 4.2 44.0 1.0
CD2 I:HIS137 4.2 44.0 1.0
CD2 I:HIS33 4.2 52.8 1.0
OE2 I:GLU35 4.4 53.4 1.0
C I:HIS137 4.6 44.0 1.0
CA I:HIS137 4.6 44.0 1.0
OE1 I:GLU35 4.6 53.4 1.0
C I:HIS33 4.6 52.8 1.0
O I:HOH663 4.7 45.0 1.0
CD I:GLU35 4.9 53.4 1.0

Copper binding site 7 out of 9 in 7s4j

Go back to Copper Binding Sites List in 7s4j
Copper binding site 7 out of 9 in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 7 of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Cu502

b:56.7
occ:1.00
 ND1 I:HIS48 1.9 44.0 1.0
ND1 I:HIS72 2.0 44.0 1.0
OE1 I:GLN404 2.4 45.8 1.0
CE1 I:HIS48 2.7 44.0 1.0
CE1 I:HIS72 2.9 44.0 1.0
CG I:HIS48 2.9 44.0 1.0
CG I:HIS72 3.0 44.0 1.0
CB I:HIS72 3.3 44.0 1.0
CB I:HIS48 3.5 44.0 1.0
O I:HIS72 3.5 44.0 1.0
CD I:GLN404 3.6 45.8 1.0
NE2 I:HIS48 3.8 44.0 1.0
CD2 I:HIS48 3.9 44.0 1.0
C I:HIS72 3.9 44.0 1.0
CD2 I:LEU390 4.0 44.0 1.0
NE2 I:HIS72 4.0 44.0 1.0
CD2 I:HIS72 4.1 44.0 1.0
CA I:PHE74 4.1 44.0 1.0
CA I:HIS72 4.2 44.0 1.0
N I:PHE74 4.3 44.0 1.0
N I:HIS48 4.3 44.0 1.0
NE2 I:GLN404 4.3 45.8 1.0
CD1 I:PHE74 4.3 44.0 1.0
CB I:PHE74 4.4 44.0 1.0
C I:VAL73 4.5 44.0 1.0
CA I:HIS48 4.5 44.0 1.0
CG I:GLN404 4.6 45.8 1.0
CG I:LEU390 4.7 44.0 1.0
O I:VAL73 4.7 44.0 1.0
N I:VAL73 4.7 44.0 1.0
CG I:PHE74 4.8 44.0 1.0
CD1 I:LEU390 4.9 44.0 1.0
N I:HIS72 5.0 44.0 1.0

Copper binding site 8 out of 9 in 7s4j

Go back to Copper Binding Sites List in 7s4j
Copper binding site 8 out of 9 in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 8 of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Cu302

b:30.0
occ:1.00
 NE2 G:HIS160 2.0 47.9 1.0
NE2 G:HIS173 2.2 50.3 1.0
OD2 G:ASP156 2.4 44.0 1.0
CE1 G:HIS160 2.4 47.9 1.0
OD1 G:ASP156 2.5 44.0 1.0
CG G:ASP156 2.7 44.0 1.0
CE1 G:HIS173 3.0 50.3 1.0
CD2 G:HIS173 3.2 50.3 1.0
CD2 G:HIS160 3.3 47.9 1.0
NH1 G:ARG165 3.4 61.2 1.0
ND1 G:HIS160 3.6 47.9 1.0
NH2 G:ARG165 3.8 61.2 1.0
CZ G:ARG165 4.0 61.2 1.0
CG G:HIS160 4.1 47.9 1.0
ND1 G:HIS173 4.2 50.3 1.0
CB G:ASP156 4.2 44.0 1.0
CG G:HIS173 4.2 50.3 1.0
O G:ASP156 4.7 44.0 1.0
CG2 G:THR170 4.7 54.4 1.0
OE1 G:GLU176 4.9 46.4 1.0
CE2 G:PHE177 5.0 50.6 1.0

Copper binding site 9 out of 9 in 7s4j

Go back to Copper Binding Sites List in 7s4j
Copper binding site 9 out of 9 in the Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 9 of Cryoem Structure of Methylococcus Capsulatus (Bath) Pmmo in A Native Lipid Nanodisc at 2.16 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Cu302

b:30.0
occ:1.00
 NE2 K:HIS160 2.0 47.9 1.0
NE2 K:HIS173 2.2 50.3 1.0
OD2 K:ASP156 2.4 44.0 1.0
CE1 K:HIS160 2.4 47.9 1.0
OD1 K:ASP156 2.5 44.0 1.0
CG K:ASP156 2.7 44.0 1.0
CE1 K:HIS173 3.0 50.3 1.0
CD2 K:HIS173 3.2 50.3 1.0
CD2 K:HIS160 3.3 47.9 1.0
NH1 K:ARG165 3.4 61.2 1.0
ND1 K:HIS160 3.6 47.9 1.0
NH2 K:ARG165 3.8 61.2 1.0
CZ K:ARG165 4.0 61.2 1.0
CG K:HIS160 4.1 47.9 1.0
ND1 K:HIS173 4.2 50.3 1.0
CB K:ASP156 4.2 44.0 1.0
CG K:HIS173 4.2 50.3 1.0
O K:ASP156 4.7 44.0 1.0
CG2 K:THR170 4.7 54.4 1.0
OE1 K:GLU176 4.9 46.4 1.0
CE2 K:PHE177 5.0 50.6 1.0

Reference:

C.W.Koo, F.J.Tucci, Y.He, A.C.Rosenzweig. Recovery of Particulate Methane Monooxygenase Structure and Activity in A Lipid Bilayer. Science V. 375 1287 2022.
ISSN: ESSN 1095-9203
PubMed: 35298269
DOI: 10.1126/SCIENCE.ABM3282
Page generated: Wed Jul 31 09:11:00 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy