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Chlorine in PDB 4knu: Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5

Protein crystallography data

The structure of Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5, PDB code: 4knu was solved by A.C.Rosenzweig, T.L.Lawton, L.A.Sayavedra-Soto, D.J.Arp, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.80 / 1.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 51.087, 136.940, 121.486, 90.00, 101.18, 90.00
R / Rfree (%) 17.1 / 20.9

Other elements in 4knu:

The structure of Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5 also contains other interesting chemical elements:

Copper (Cu) 12 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5 (pdb code 4knu). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5, PDB code: 4knu:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 4knu

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Chlorine binding site 1 out of 4 in the Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl403

b:36.7
occ:1.00
N B:ARG62 3.2 7.7 1.0
O B:ARG62 3.4 8.0 1.0
CA B:VAL61 3.8 7.6 1.0
C B:VAL61 4.0 7.6 1.0
CG1 B:VAL61 4.1 7.3 1.0
O B:HOH727 4.1 30.5 1.0
CA B:ARG62 4.1 7.9 1.0
C B:ARG62 4.1 8.0 1.0
O B:VAL60 4.3 8.4 1.0
CB B:VAL61 4.5 7.6 1.0
CB B:ARG62 4.5 8.4 1.0
O B:HOH666 4.9 22.7 1.0
N B:VAL61 4.9 7.6 1.0
CG1 B:VAL27 4.9 16.3 1.0
CG2 B:VAL29 5.0 11.6 1.0

Chlorine binding site 2 out of 4 in 4knu

Go back to Chlorine Binding Sites List in 4knu
Chlorine binding site 2 out of 4 in the Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl404

b:16.6
occ:1.00
O B:HOH641 2.9 21.1 1.0
NH2 B:ARG309 3.2 11.3 1.0
N B:VAL60 3.2 7.8 1.0
O B:HOH680 3.3 23.9 1.0
O B:HOH755 3.4 30.8 1.0
NE B:ARG309 3.6 11.8 1.0
O B:HOH574 3.7 24.5 1.0
CG2 B:VAL60 3.7 8.4 1.0
CA B:PRO59 3.8 7.5 1.0
CZ B:ARG309 3.9 11.8 1.0
CB B:VAL60 4.0 8.2 1.0
C B:PRO59 4.0 7.6 1.0
CA B:VAL60 4.2 7.9 1.0
CB B:LEU307 4.5 9.0 1.0
O B:GLY58 4.6 7.3 1.0
CB B:PRO59 4.6 7.5 1.0
CG B:GLU304 4.7 39.1 1.0
CD B:GLU304 4.8 41.7 1.0
OE1 B:GLU304 4.8 40.8 1.0
N B:PRO59 4.9 7.6 1.0
CD1 B:LEU307 4.9 8.4 1.0
CD B:ARG309 4.9 12.9 1.0

Chlorine binding site 3 out of 4 in 4knu

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Chlorine binding site 3 out of 4 in the Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl403

b:18.2
occ:1.00
O C:HOH550 3.1 22.2 1.0
NH2 C:ARG309 3.1 10.8 1.0
N C:VAL60 3.2 9.5 1.0
O C:HOH704 3.4 32.2 1.0
CG2 C:VAL60 3.7 9.6 1.0
NE C:ARG309 3.7 12.2 1.0
CA C:PRO59 3.8 8.7 1.0
O C:HOH536 3.8 22.7 1.0
CZ C:ARG309 3.9 11.5 1.0
CB C:VAL60 4.0 9.6 1.0
C C:PRO59 4.0 9.0 1.0
CA C:VAL60 4.2 9.6 1.0
CB C:PRO59 4.5 8.7 1.0
CB C:LEU307 4.5 11.2 1.0
O C:GLY58 4.7 8.3 1.0
CD1 C:LEU307 4.8 10.8 1.0
N C:PRO59 4.9 8.6 1.0
O C:VAL60 5.0 10.7 1.0

Chlorine binding site 4 out of 4 in 4knu

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Chlorine binding site 4 out of 4 in the Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Copper Nitrite Reductase From Nitrosomonas Europaea at pH 6.5 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cl403

b:16.2
occ:1.00
O E:HOH723 3.2 33.1 1.0
NH2 E:ARG309 3.2 12.5 1.0
O E:HOH509 3.3 23.4 1.0
N E:VAL60 3.4 8.9 1.0
NE E:ARG309 3.7 13.2 1.0
O E:HOH649 3.8 22.4 1.0
CG2 E:VAL60 3.8 9.2 1.0
CA E:PRO59 3.8 8.6 1.0
CZ E:ARG309 3.9 13.0 1.0
CB E:VAL60 4.1 9.0 1.0
C E:PRO59 4.1 8.5 1.0
CA E:VAL60 4.3 8.9 1.0
CB E:LEU307 4.5 11.7 1.0
CB E:PRO59 4.6 8.6 1.0
O E:GLY58 4.7 8.4 1.0
CD1 E:LEU307 4.7 11.8 1.0
N E:PRO59 4.9 8.5 1.0
CD E:ARG309 5.0 13.9 1.0

Reference:

T.J.Lawton, K.E.Bowen, L.A.Sayavedra-Soto, D.J.Arp, A.C.Rosenzweig. Characterization of A Nitrite Reductase Involved in Nitrifier Denitrification. J.Biol.Chem. V. 288 25575 2013.
ISSN: ISSN 0021-9258
PubMed: 23857587
DOI: 10.1074/JBC.M113.484543
Page generated: Sat Dec 12 10:50:59 2020

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