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Zinc in PDB 3qzc: Structure of the Periplasmic Stress Response Protein Cpxp

Protein crystallography data

The structure of Structure of the Periplasmic Stress Response Protein Cpxp, PDB code: 3qzc was solved by G.L.Thede, R.A.Edwards, J.N.M.Glover, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.02 / 2.85
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 88.031, 88.031, 134.931, 90.00, 90.00, 120.00
R / Rfree (%) 24.7 / 29.8

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of the Periplasmic Stress Response Protein Cpxp (pdb code 3qzc). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 9 binding sites of Zinc where determined in the Structure of the Periplasmic Stress Response Protein Cpxp, PDB code: 3qzc:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Zinc binding site 1 out of 9 in 3qzc

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Zinc binding site 1 out of 9 in the Structure of the Periplasmic Stress Response Protein Cpxp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Periplasmic Stress Response Protein Cpxp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2

b:81.2
occ:1.00
NE2 A:HIS136 2.0 70.3 1.0
OE2 B:GLU79 2.1 43.5 1.0
O B:HOH7 2.2 57.6 1.0
OE1 B:GLU79 2.3 51.3 1.0
CD B:GLU79 2.6 47.3 1.0
CE1 A:HIS136 3.0 71.5 1.0
CD2 A:HIS136 3.0 73.4 1.0
NE B:ARG83 3.6 74.9 1.0
OE1 A:GLN137 3.8 70.2 1.0
CG B:GLU79 4.1 50.0 1.0
ND1 A:HIS136 4.1 68.8 1.0
CG A:HIS136 4.1 71.4 1.0
CD2 B:HIS82 4.2 58.8 1.0
NH2 B:ARG83 4.3 86.9 1.0
CD B:ARG83 4.4 74.0 1.0
CZ B:ARG83 4.4 81.3 1.0
CD A:GLN137 4.6 68.3 1.0
CG B:HIS82 4.7 58.3 1.0
NE2 B:HIS82 4.8 61.6 1.0
O B:GLU79 4.8 61.1 1.0
CG A:MET140 4.8 78.9 1.0
CB B:GLU79 4.9 55.4 1.0
CA B:GLU79 5.0 60.2 1.0

Zinc binding site 2 out of 9 in 3qzc

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Zinc binding site 2 out of 9 in the Structure of the Periplasmic Stress Response Protein Cpxp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Periplasmic Stress Response Protein Cpxp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn3

b:74.5
occ:1.00
O A:LYS101 2.0 75.9 1.0
OE1 A:GLU105 2.2 36.1 1.0
OE2 A:GLU105 2.3 49.0 1.0
OE2 A:GLU77 2.5 74.9 1.0
OE1 A:GLU77 2.5 73.9 1.0
CD A:GLU105 2.5 47.4 1.0
CD A:GLU77 2.7 73.3 1.0
C A:LYS101 3.2 72.4 1.0
CA A:MET102 3.9 72.7 1.0
N A:MET102 4.0 69.4 1.0
CG A:GLU105 4.0 50.7 1.0
CG A:GLU77 4.1 69.7 1.0
ND2 A:ASN74 4.2 65.1 1.0
CA A:LYS101 4.3 74.6 1.0
CG A:LYS101 4.3 80.6 1.0
C A:MET102 4.5 72.3 1.0
N A:GLU105 4.6 64.1 1.0
O A:MET102 4.6 72.3 1.0
CB A:ASN104 4.6 81.4 1.0
CB A:LYS101 4.6 73.4 1.0
OD1 A:ASN104 4.7 99.6 1.0
CB A:GLU105 4.8 54.3 1.0

Zinc binding site 3 out of 9 in 3qzc

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Zinc binding site 3 out of 9 in the Structure of the Periplasmic Stress Response Protein Cpxp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of the Periplasmic Stress Response Protein Cpxp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn4

b:77.8
occ:1.00
O A:HOH12 2.1 31.0 0.5
OE1 A:GLU69 2.4 26.5 1.0
OE2 A:GLU112 2.5 56.0 1.0
OE2 A:GLU69 3.0 53.0 1.0
OE1 A:GLU112 3.0 75.5 1.0
CD A:GLU69 3.1 46.2 1.0
CD A:GLU112 3.1 67.4 1.0
CE A:LYS115 4.1 69.4 1.0
NZ A:LYS115 4.2 77.5 1.0
CD A:LYS115 4.2 59.8 1.0
CG A:GLU69 4.5 51.2 1.0
CG A:GLU112 4.6 58.0 1.0

Zinc binding site 4 out of 9 in 3qzc

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Zinc binding site 4 out of 9 in the Structure of the Periplasmic Stress Response Protein Cpxp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of the Periplasmic Stress Response Protein Cpxp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn5

b:99.0
occ:1.00
ND1 A:HIS82 2.0 78.6 1.0
O A:HOH6 2.2 83.6 1.0
O A:HOH154 2.2 62.2 1.0
O B:HOH5 2.3 34.0 1.0
CE1 A:HIS82 2.8 82.3 1.0
CG A:HIS82 3.0 79.5 1.0
CB A:HIS82 3.4 76.1 1.0
NE2 B:GLN42 3.7 0.8 1.0
CA A:HIS82 3.8 75.9 1.0
NE2 A:HIS82 3.9 84.7 1.0
CD2 A:HIS82 4.0 84.7 1.0
NH1 B:ARG139 4.0 0.6 1.0
ND1 B:HIS136 4.2 73.6 1.0
CG B:HIS136 4.7 66.8 1.0
N A:HIS82 4.8 75.8 1.0
CE1 B:HIS136 4.8 79.8 1.0
C A:HIS82 4.9 76.5 1.0
CB B:HIS136 4.9 58.9 1.0
CD B:GLN42 5.0 0.5 1.0
CZ B:ARG139 5.0 0.1 1.0
O A:HIS82 5.0 73.7 1.0

Zinc binding site 5 out of 9 in 3qzc

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Zinc binding site 5 out of 9 in the Structure of the Periplasmic Stress Response Protein Cpxp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of the Periplasmic Stress Response Protein Cpxp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn7

b:0.4
occ:1.00
NE2 A:HIS68 2.0 0.1 1.0
O B:LYS151 2.2 0.9 1.0
O A:HOH8 2.2 85.8 1.0
CE1 A:HIS68 2.7 0.1 1.0
C B:LYS151 3.3 0.7 1.0
CD2 A:HIS68 3.3 99.7 1.0
OXT B:LYS151 3.6 0.4 1.0
ND1 A:HIS68 3.9 0.2 1.0
CG A:HIS68 4.2 0.9 1.0
CA B:LYS151 4.5 94.2 1.0
O B:GLN150 4.6 84.2 1.0

Zinc binding site 6 out of 9 in 3qzc

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Zinc binding site 6 out of 9 in the Structure of the Periplasmic Stress Response Protein Cpxp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of the Periplasmic Stress Response Protein Cpxp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1

b:78.7
occ:1.00
ND1 B:HIS82 2.1 62.4 1.0
O A:HOH152 2.2 50.4 1.0
O A:HOH153 2.2 58.0 1.0
O A:HOH1 2.3 35.1 1.0
CE1 B:HIS82 2.9 64.4 1.0
CG B:HIS82 3.2 58.3 1.0
CB B:HIS82 3.6 57.4 1.0
NH1 A:ARG139 3.9 74.9 1.0
NE2 B:HIS82 4.1 61.6 1.0
CA B:HIS82 4.1 50.6 1.0
CD2 B:HIS82 4.2 58.8 1.0
ND1 A:HIS136 4.4 68.8 1.0
NH2 A:ARG117 4.6 99.3 1.0
CG A:HIS136 4.8 71.4 1.0
CE1 A:HIS136 4.9 71.5 1.0
N B:HIS82 5.0 52.4 1.0

Zinc binding site 7 out of 9 in 3qzc

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Zinc binding site 7 out of 9 in the Structure of the Periplasmic Stress Response Protein Cpxp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of the Periplasmic Stress Response Protein Cpxp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn6

b:0.8
occ:1.00
OD2 B:ASP145 2.1 0.3 1.0
OE2 B:GLU141 2.1 80.0 1.0
O B:HOH11 2.3 73.2 1.0
OD1 B:ASP145 2.6 95.8 1.0
CG B:ASP145 2.7 95.3 1.0
CD B:GLU141 3.1 86.1 1.0
CG B:GLU141 3.4 80.1 1.0
CB B:ASP145 4.2 84.3 1.0
OE1 B:GLU141 4.2 92.0 1.0
O B:GLU141 4.7 70.0 1.0
CB B:GLU141 4.9 72.5 1.0

Zinc binding site 8 out of 9 in 3qzc

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Zinc binding site 8 out of 9 in the Structure of the Periplasmic Stress Response Protein Cpxp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Structure of the Periplasmic Stress Response Protein Cpxp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn8

b:1.0
occ:1.00
OE1 A:GLU79 2.6 0.5 1.0
NE2 B:HIS136 2.6 77.7 1.0
CD2 B:HIS136 3.2 70.6 1.0
CD A:GLU79 3.7 0.1 1.0
CE1 B:HIS136 3.8 79.8 1.0
OE2 A:GLU79 4.2 0.1 1.0
CG B:GLN137 4.2 72.1 1.0
CG B:HIS136 4.5 66.8 1.0
CD2 A:HIS82 4.7 84.7 1.0
ND1 B:HIS136 4.8 73.6 1.0
CA A:GLU79 4.8 75.3 1.0
CB A:GLU79 4.8 83.4 1.0
CG A:GLU79 4.9 90.7 1.0
CG B:MET140 4.9 70.5 1.0

Zinc binding site 9 out of 9 in 3qzc

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Zinc binding site 9 out of 9 in the Structure of the Periplasmic Stress Response Protein Cpxp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Structure of the Periplasmic Stress Response Protein Cpxp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn9

b:0.8
occ:1.00
OE1 B:GLU77 2.1 77.8 1.0
OE1 B:GLU105 2.1 0.3 1.0
O B:HOH14 2.2 62.0 1.0
O B:HOH13 2.2 0.1 1.0
OE2 B:GLU105 2.6 0.0 1.0
CD B:GLU105 2.7 0.1 1.0
CD B:GLU77 3.1 80.1 1.0
CG B:GLU77 3.5 76.5 1.0
ND2 B:ASN74 4.1 78.5 1.0
CG B:GLU105 4.2 95.7 1.0
OE2 B:GLU77 4.3 81.0 1.0
OD1 B:ASN74 4.3 81.0 1.0
CG B:ASN74 4.5 83.2 1.0
CG B:MET102 4.5 58.1 1.0
CE B:LYS101 4.6 98.0 1.0
CA B:MET102 4.7 59.9 1.0
CB B:GLU105 4.8 87.8 1.0
CB B:GLU77 5.0 73.2 1.0

Reference:

G.L.Thede, D.C.Arthur, R.A.Edwards, D.R.Buelow, J.L.Wong, T.L.Raivio, J.N.Glover. Structure of the Periplasmic Stress Response Protein Cpxp. J.Bacteriol. V. 193 2149 2011.
ISSN: ISSN 0021-9193
PubMed: 21317318
DOI: 10.1128/JB.01296-10
Page generated: Wed Dec 16 04:46:34 2020

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