Copper in PDB 7ev9: Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)

All present enzymatic activity of Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I):
1.14.13.25; 1.14.18.3;

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Copper atom in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I) (pdb code 7ev9). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 24 binding sites of Copper where determined in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I), PDB code: 7ev9:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Copper binding site 1 out of 24 in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)


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 Particulate Methane Monooxygenase Associated with Cu(I) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu501 b:57.5 occ:1.00 ND1 A:HIS72 1.9 53.7 1.0 ND1 A:HIS48 1.9 53.7 1.0 CE1 A:HIS48 2.7 53.7 1.0 CE1 A:HIS72 2.9 53.7 1.0 CG A:HIS72 2.9 53.7 1.0 CG A:HIS48 3.0 53.7 1.0 CB A:HIS72 3.3 53.7 1.0 CB A:HIS48 3.5 53.7 1.0 CG A:GLN404 3.7 53.7 1.0 O A:HIS72 3.9 53.7 1.0 NE2 A:HIS48 3.9 53.7 1.0 NE2 A:HIS72 4.0 53.7 1.0 CD2 A:HIS72 4.0 53.7 1.0 CD2 A:LEU390 4.0 53.7 1.0 CD2 A:HIS48 4.1 53.7 1.0 NE2 A:GLN404 4.1 53.7 1.0 C A:HIS72 4.1 53.7 1.0 CD A:GLN404 4.2 53.7 1.0 CA A:HIS72 4.3 53.7 1.0 CA A:PHE74 4.3 53.7 1.0 CB A:PHE74 4.5 53.7 1.0 N A:PHE74 4.5 53.7 1.0 CD2 A:PHE74 4.6 53.7 1.0 N A:HIS48 4.6 53.7 1.0 CG A:LEU390 4.6 53.7 1.0 CA A:HIS48 4.7 53.7 1.0 C A:VAL73 4.7 53.7 1.0 N A:VAL73 4.8 53.7 1.0 O A:VAL73 4.9 53.7 1.0 CD1 A:LEU390 5.0 53.7 1.0

Copper binding site 2 out of 24 in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)


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 Particulate Methane Monooxygenase Associated with Cu(I) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu502 b:75.6 occ:1.00 ND1 A:HIS33 1.6 60.6 1.0 N A:HIS33 1.7 60.6 1.0 CG A:HIS33 2.0 60.6 1.0 CU A:CU1503 2.3 74.5 1.0 CA A:HIS33 2.4 60.6 1.0 CB A:HIS33 2.5 60.6 1.0 CE1 A:HIS33 2.6 60.6 1.0 ND1 A:HIS137 3.0 53.7 1.0 NE2 A:HIS139 3.0 53.7 1.0 CD2 A:HIS33 3.0 60.6 1.0 NE2 A:HIS33 3.3 60.6 1.0 C A:HIS33 3.8 60.6 1.0 CE1 A:HIS139 3.8 53.7 1.0 CG A:HIS137 3.9 53.7 1.0 CE1 A:HIS137 3.9 53.7 1.0 CB A:HIS137 4.0 53.7 1.0 CD2 A:HIS139 4.1 53.7 1.0 O A:HIS33 4.2 60.6 1.0 OE1 A:GLU35 4.6 56.5 1.0 OE2 A:GLU35 4.6 56.5 1.0 O A:HIS137 4.7 53.7 1.0 N A:GLY34 4.8 58.8 1.0

Copper binding site 3 out of 24 in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)


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 Particulate Methane Monooxygenase Associated with Cu(I) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu503 b:74.5 occ:1.00 ND1 A:HIS137 1.6 53.7 1.0 NE2 A:HIS139 1.6 53.7 1.0 CE1 A:HIS139 2.0 53.7 1.0 CE1 A:HIS137 2.2 53.7 1.0 CU A:CU1502 2.3 75.6 1.0 N A:HIS33 2.6 60.6 1.0 CG A:HIS137 2.9 53.7 1.0 CD2 A:HIS139 2.9 53.7 1.0 ND1 A:HIS139 3.2 53.7 1.0 NE2 A:HIS137 3.4 53.7 1.0 ND1 A:HIS33 3.6 60.6 1.0 CG A:HIS139 3.7 53.7 1.0 CB A:HIS137 3.7 53.7 1.0 CD2 A:HIS137 3.7 53.7 1.0 CA A:HIS33 4.0 60.6 1.0 OE2 A:GLU35 4.1 56.5 1.0 CE1 A:HIS33 4.1 60.6 1.0 O A:HIS137 4.2 53.7 1.0 CG A:HIS33 4.3 60.6 1.0 OE1 A:GLU35 4.3 56.5 1.0 C A:HIS137 4.5 53.7 1.0 CA A:GLY154 4.5 53.7 1.0 CB A:HIS33 4.6 60.6 1.0 CD A:GLU35 4.6 56.5 1.0 CA A:HIS137 4.6 53.7 1.0 NE2 A:HIS33 5.0 60.6 1.0

Copper binding site 4 out of 24 in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)


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 Particulate Methane Monooxygenase Associated with Cu(I) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu504 b:74.7 occ:1.00 OE1 A:GLU316 2.5 53.7 1.0 CE2 A:TYR330 3.0 53.7 1.0 OH A:TYR330 3.2 53.7 1.0 CZ A:TYR330 3.2 53.7 1.0 NH1 A:ARG323 3.6 53.7 1.0 CD A:GLU316 3.7 53.7 1.0 CD2 A:TYR330 3.8 53.7 1.0 CZ A:PHE394 3.9 53.9 1.0 NH2 A:ARG400 4.0 53.7 1.0 CD1 A:PHE392 4.2 53.7 1.0 CG A:PHE392 4.2 53.7 1.0 CE1 A:TYR330 4.2 53.7 1.0 CD A:ARG400 4.3 53.7 1.0 OE2 A:GLU316 4.4 53.7 1.0 CE1 A:PHE394 4.5 53.9 1.0 CB A:PHE392 4.5 53.7 1.0 CE1 A:PHE392 4.5 53.7 1.0 CD2 A:PHE392 4.6 53.7 1.0 CB A:GLU316 4.6 53.7 1.0 CZ A:ARG323 4.7 53.7 1.0 CG A:TYR330 4.7 53.7 1.0 CG A:GLU316 4.8 53.7 1.0 CD1 A:TYR330 4.8 53.7 1.0 CE2 A:PHE394 4.9 53.9 1.0 CZ A:PHE392 4.9 53.7 1.0 CE2 A:PHE392 4.9 53.7 1.0 NE A:ARG323 5.0 53.7 1.0 CZ A:ARG400 5.0 53.7 1.0

Copper binding site 5 out of 24 in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)


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 Particulate Methane Monooxygenase Associated with Cu(I) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu505 b:93.8 occ:1.00 OD2 A:ASP395 2.0 67.3 1.0 OD1 A:ASP395 2.0 67.3 1.0 CG A:ASP395 2.2 67.3 1.0 CB A:SER310 3.1 66.2 1.0 CU A:CU1506 3.4 89.6 1.0 O A:SER310 3.7 66.2 1.0 CB A:ASP395 3.7 67.3 1.0 OG A:SER310 3.9 66.2 1.0 CA A:SER310 3.9 66.2 1.0 N A:SER310 3.9 66.2 1.0 C A:SER310 4.0 66.2 1.0 CG2 A:ILE312 4.2 56.4 1.0 CA A:ASP395 4.6 67.3 1.0 N A:ASN309 4.7 69.2 1.0 OE1 A:GLN401 4.7 53.7 1.0 C A:ASN309 4.8 69.2 1.0 N A:PRO311 5.0 61.6 1.0

Copper binding site 6 out of 24 in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)


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 Particulate Methane Monooxygenase Associated with Cu(I) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu506 b:89.6 occ:1.00 OD1 A:ASN306 2.7 59.5 1.0 OG1 A:THR281 2.7 59.3 1.0 CU A:CU1505 3.4 93.8 1.0 CA A:GLY308 3.4 64.9 1.0 CB A:THR281 3.6 59.3 1.0 CG2 A:ILE312 3.7 56.4 1.0 N A:GLY308 3.8 64.9 1.0 CG A:ASN306 3.8 59.5 1.0 O A:THR281 3.9 59.3 1.0 CG2 A:VAL282 4.0 54.2 1.0 C A:THR281 4.2 59.3 1.0 O A:SER310 4.3 66.2 1.0 ND2 A:ASN306 4.3 59.5 1.0 CD A:GLN401 4.4 53.7 1.0 OE1 A:GLN401 4.4 53.7 1.0 OD1 A:ASP395 4.4 67.3 1.0 C A:GLY308 4.4 64.9 1.0 CG A:GLN401 4.5 53.7 1.0 CA A:THR281 4.5 59.3 1.0 N A:ASN309 4.5 69.2 1.0 CG2 A:THR281 4.8 59.3 1.0 N A:VAL282 4.8 54.2 1.0 C A:HIS307 4.9 61.0 1.0 NE2 A:GLN401 4.9 53.7 1.0 OD2 A:ASP395 4.9 67.3 1.0 CB A:ILE312 5.0 56.4 1.0

Copper binding site 7 out of 24 in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)


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 Particulate Methane Monooxygenase Associated with Cu(I) within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu301 b:88.4 occ:1.00 OD1 B:ASN103 3.0 61.3 1.0 CE B:MET42 3.1 79.9 1.0 NE2 B:HIS38 3.3 76.5 1.0 SD B:MET42 3.4 79.9 1.0 CE2 B:PHE50 3.4 56.0 1.0 CG C:GLU154 3.5 88.6 1.0 NH1 B:ARG104 3.8 54.5 1.0 NE B:ARG104 3.9 54.5 1.0 CE1 B:HIS38 3.9 76.5 1.0 CG B:ASN103 4.0 61.3 1.0 CB B:GLU100 4.0 59.8 1.0 CZ B:PHE50 4.1 56.0 1.0 CB C:GLU154 4.1 88.6 1.0 CU B:CU1302 4.2 96.4 1.0 CZ B:ARG104 4.3 54.5 1.0 CD2 B:HIS38 4.3 76.5 1.0 CG B:MET42 4.4 79.9 1.0 CB B:ASN103 4.4 61.3 1.0 CD2 B:PHE50 4.4 56.0 1.0 CA B:GLU100 4.6 59.8 1.0 OE2 B:GLU100 4.6 59.8 1.0 CD C:GLU154 4.7 88.6 1.0 CD B:ARG104 5.0 54.5 1.0 OE2 C:GLU154 5.0 88.6 1.0

Copper binding site 8 out of 24 in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)


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 Particulate Methane Monooxygenase Associated with Cu(I) within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu302 b:96.4 occ:1.00 CE B:MET42 1.9 79.9 1.0 OE2 B:GLU100 2.6 59.8 1.0 SD B:MET42 3.6 79.9 1.0 CD2 B:HIS38 3.7 76.5 1.0 CB B:ALA41 3.7 77.3 1.0 CD B:GLU100 3.8 59.8 1.0 NE2 B:HIS38 3.9 76.5 1.0 CD1 B:LEU96 4.1 61.8 1.0 CU B:CU1301 4.2 88.4 1.0 CE B:MET45 4.3 75.4 1.0 CG B:MET42 4.4 79.9 1.0 CB B:GLU100 4.5 59.8 1.0 OE1 B:GLU100 4.5 59.8 1.0 C B:ALA41 4.6 77.3 1.0 NH1 B:ARG104 4.6 54.5 1.0 CG B:LEU96 4.6 61.8 1.0 N B:MET42 4.7 79.9 1.0 CA B:ALA41 4.8 77.3 1.0 O B:ALA41 4.8 77.3 1.0 CG B:GLU100 4.8 59.8 1.0 CD2 B:LEU96 4.9 61.8 1.0 O B:HIS38 4.9 76.5 1.0 CG B:HIS38 5.0 76.5 1.0

Copper binding site 9 out of 24 in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)


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 Particulate Methane Monooxygenase Associated with Cu(I) within 5.0Å range: probe atom residue distance (Å) B Occ E:Cu501 b:59.4 occ:1.00 ND1 E:HIS72 1.9 53.7 1.0 ND1 E:HIS48 1.9 53.7 1.0 CE1 E:HIS48 2.7 53.7 1.0 CE1 E:HIS72 2.9 53.7 1.0 CG E:HIS72 2.9 53.7 1.0 CG E:HIS48 3.0 53.7 1.0 CB E:HIS72 3.3 53.7 1.0 CB E:HIS48 3.5 53.7 1.0 CG E:GLN404 3.7 53.7 1.0 O E:HIS72 3.9 53.7 1.0 NE2 E:HIS48 3.9 53.7 1.0 NE2 E:HIS72 4.0 53.7 1.0 CD2 E:HIS72 4.0 53.7 1.0 CD2 E:LEU390 4.0 53.7 1.0 CD2 E:HIS48 4.1 53.7 1.0 NE2 E:GLN404 4.1 53.7 1.0 C E:HIS72 4.1 53.7 1.0 CD E:GLN404 4.2 53.7 1.0 CA E:HIS72 4.3 53.7 1.0 CA E:PHE74 4.3 53.7 1.0 CB E:PHE74 4.5 53.7 1.0 N E:PHE74 4.5 53.7 1.0 CD2 E:PHE74 4.6 53.7 1.0 N E:HIS48 4.6 53.7 1.0 CG E:LEU390 4.6 53.7 1.0 CA E:HIS48 4.7 53.7 1.0 C E:VAL73 4.7 53.7 1.0 N E:VAL73 4.8 53.7 1.0 O E:VAL73 4.9 53.7 1.0 CD1 E:LEU390 5.0 53.7 1.0

Copper binding site 10 out of 24 in the Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 10 of Cryoem Structure of Particulate Methane Monooxygenase Associated with Cu(I) within 5.0Å range: probe atom residue distance (Å) B Occ E:Cu502 b:79.9 occ:1.00 ND1 E:HIS33 1.6 63.5 1.0 N E:HIS33 1.7 63.5 1.0 CG E:HIS33 2.0 63.5 1.0 CU E:CU1503 2.3 74.2 1.0 CA E:HIS33 2.4 63.5 1.0 CB E:HIS33 2.5 63.5 1.0 CE1 E:HIS33 2.6 63.5 1.0 ND1 E:HIS137 3.0 53.7 1.0 NE2 E:HIS139 3.0 53.7 1.0 CD2 E:HIS33 3.0 63.5 1.0 NE2 E:HIS33 3.3 63.5 1.0 C E:HIS33 3.8 63.5 1.0 CE1 E:HIS139 3.8 53.7 1.0 CG E:HIS137 3.9 53.7 1.0 CE1 E:HIS137 3.9 53.7 1.0 CB E:HIS137 4.0 53.7 1.0 CD2 E:HIS139 4.1 53.7 1.0 O E:HIS33 4.2 63.5 1.0 OE1 E:GLU35 4.6 58.0 1.0 OE2 E:GLU35 4.6 58.0 1.0 O E:HIS137 4.7 53.7 1.0 N E:GLY34 4.8 61.3 1.0

W.H.Chang, H.H.Lin, I.K.Tsai, S.H.Huang, S.C.Chung, I.P.Tu, S.S.Yu, S.I.Chan. Copper Centers in the Cryo-Em Structure of Particulate Methane Monooxygenase Reveal the Catalytic Machinery of Methane Oxidation. J.Am.Chem.Soc. V. 143 9922 2021.
ISSN: ESSN 1520-5126
PubMed: 34170126
DOI: 10.1021/JACS.1C04082