Atomistry » Cadmium » PDB 3heq-3o7s » 3inz
Atomistry »
  Cadmium »
    PDB 3heq-3o7s »
      3inz »

Cadmium in PDB 3inz: H57T Hfq From Pseudomonas Aeruginosa

Protein crystallography data

The structure of H57T Hfq From Pseudomonas Aeruginosa, PDB code: 3inz was solved by O.Moskaleva, B.Melnik, A.Gabdulkhakov, M.Garber, S.Nikonov, E.Stolboushkina, A.Nikulin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 1.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 61.290, 71.160, 104.410, 90.00, 90.00, 90.00
R / Rfree (%) 14.9 / 21.8

Other elements in 3inz:

The structure of H57T Hfq From Pseudomonas Aeruginosa also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Sodium (Na) 1 atom

Cadmium Binding Sites:

The binding sites of Cadmium atom in the H57T Hfq From Pseudomonas Aeruginosa (pdb code 3inz). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 9 binding sites of Cadmium where determined in the H57T Hfq From Pseudomonas Aeruginosa, PDB code: 3inz:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Cadmium binding site 1 out of 9 in 3inz

Go back to Cadmium Binding Sites List in 3inz
Cadmium binding site 1 out of 9 in the H57T Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of H57T Hfq From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd83

b:56.6
occ:0.65
OD2 A:ASP9 2.5 47.8 1.0
OD1 A:ASP9 2.5 44.4 1.0
O A:HOH286 2.6 35.4 1.0
O A:HOH287 2.7 42.8 1.0
CG A:ASP9 2.8 44.0 1.0
O A:HOH288 3.1 74.4 1.0
O A:HOH350 3.2 52.6 1.0
CB A:ASP9 4.3 38.1 1.0
CA A:GLN41 4.7 29.7 1.0
OG A:SER6 4.7 60.2 1.0
CB A:GLN41 4.9 34.5 1.0

Cadmium binding site 2 out of 9 in 3inz

Go back to Cadmium Binding Sites List in 3inz
Cadmium binding site 2 out of 9 in the H57T Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of H57T Hfq From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd83

b:62.3
occ:0.75
OD2 B:ASP9 2.4 43.3 1.0
O B:HOH305 2.5 47.1 1.0
O B:HOH365 2.6 76.2 1.0
O B:HOH304 2.7 57.1 1.0
OD1 B:ASP9 2.8 40.3 1.0
CG B:ASP9 3.0 40.7 1.0
N B:HIS5 3.6 55.4 1.0
O B:HOH372 3.7 57.6 1.0
CB B:ASP9 4.4 35.9 1.0
CA B:HIS5 4.9 56.4 1.0
CA B:GLN41 4.9 31.7 1.0

Cadmium binding site 3 out of 9 in 3inz

Go back to Cadmium Binding Sites List in 3inz
Cadmium binding site 3 out of 9 in the H57T Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of H57T Hfq From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd84

b:51.8
occ:0.33
O B:HOH238 2.4 51.6 1.0
OE2 B:GLU18 2.5 37.2 1.0
O B:HOH236 2.5 32.9 1.0
O B:HOH237 2.6 58.2 1.0
OE1 B:GLU18 2.8 36.6 1.0
CD B:GLU18 2.9 34.8 1.0
NH2 B:ARG69 3.1 65.7 1.0
CZ B:ARG69 3.8 66.4 1.0
NE B:ARG69 4.0 63.6 1.0
CB B:ARG69 4.4 50.1 1.0
CG B:GLU18 4.4 32.1 1.0
O B:ARG69 4.4 47.8 1.0
N B:ARG69 4.8 43.3 1.0
NH1 B:ARG69 4.8 67.8 1.0
NH2 B:ARG66 4.8 37.2 1.0
NH1 B:ARG66 4.9 39.6 1.0
CG2 B:THR14 4.9 31.1 1.0

Cadmium binding site 4 out of 9 in 3inz

Go back to Cadmium Binding Sites List in 3inz
Cadmium binding site 4 out of 9 in the H57T Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of H57T Hfq From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cd83

b:47.8
occ:0.76
O C:HOH85 2.3 53.3 1.0
OD1 C:ASP9 2.4 39.0 1.0
OD2 C:ASP9 2.5 40.0 1.0
O C:HOH86 2.5 31.6 1.0
O C:HOH84 2.7 49.2 1.0
CG C:ASP9 2.8 38.6 1.0
CB C:ASP9 4.3 35.1 1.0
N C:HIS5 4.4 63.3 1.0
CA C:HIS5 4.5 61.9 1.0
NZ C:LYS56 4.8 28.0 1.0
CA C:GLN41 4.9 27.6 1.0

Cadmium binding site 5 out of 9 in 3inz

Go back to Cadmium Binding Sites List in 3inz
Cadmium binding site 5 out of 9 in the H57T Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of H57T Hfq From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cd83

b:63.2
occ:0.59
OD2 D:ASP9 2.4 37.4 1.0
O D:HOH368 2.6 55.1 1.0
OD1 D:ASP9 2.6 40.2 1.0
O E:HOH87 2.7 61.5 1.0
O D:HOH120 2.8 42.2 1.0
CG D:ASP9 2.8 37.3 1.0
O D:HOH121 3.2 54.7 1.0
N D:HIS5 3.5 82.0 1.0
CB D:HIS5 3.7 83.0 1.0
CA D:HIS5 4.2 80.1 1.0
CB D:ASP9 4.3 31.6 1.0
N E:LYS3 4.6 77.5 1.0
CA D:GLN41 4.7 30.6 1.0
O D:HOH119 4.8 69.2 1.0
O D:HIS5 4.9 71.3 1.0

Cadmium binding site 6 out of 9 in 3inz

Go back to Cadmium Binding Sites List in 3inz
Cadmium binding site 6 out of 9 in the H57T Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of H57T Hfq From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cd83

b:60.2
occ:0.78
OD2 E:ASP9 2.3 40.8 1.0
ND1 E:HIS5 2.6 68.8 1.0
O E:HOH156 2.7 33.5 1.0
OD1 E:ASP9 3.0 36.5 1.0
CG E:ASP9 3.0 37.9 1.0
O E:HOH157 3.2 66.7 1.0
CE1 E:HIS5 3.4 69.1 1.0
O E:HOH155 3.5 42.2 1.0
CG E:HIS5 3.6 67.8 1.0
CB E:HIS5 3.9 65.1 1.0
CB E:ASP9 4.5 36.7 1.0
NE2 E:HIS5 4.5 68.7 1.0
CD2 E:HIS5 4.6 68.4 1.0

Cadmium binding site 7 out of 9 in 3inz

Go back to Cadmium Binding Sites List in 3inz
Cadmium binding site 7 out of 9 in the H57T Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of H57T Hfq From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cd83

b:56.2
occ:0.70
OD2 F:ASP9 2.2 38.3 1.0
ND1 F:HIS5 2.5 56.7 1.0
O F:HOH306 2.7 43.5 1.0
O F:HOH373 2.7 72.3 1.0
CG F:ASP9 2.9 36.4 1.0
OD1 F:ASP9 2.9 39.1 1.0
O F:HOH307 3.3 39.8 1.0
O F:HOH374 3.4 62.2 1.0
CE1 F:HIS5 3.4 57.0 1.0
CG F:HIS5 3.4 57.1 1.0
CB F:HIS5 3.7 54.5 1.0
CD A:LYS3 4.0 80.0 1.0
CE A:LYS3 4.3 78.2 1.0
CB F:ASP9 4.4 28.3 1.0
NE2 F:HIS5 4.4 59.2 1.0
CD2 F:HIS5 4.5 58.0 1.0
CA F:HIS5 4.9 53.5 1.0
CG A:LYS3 4.9 80.6 1.0
N F:HIS5 4.9 59.6 1.0

Cadmium binding site 8 out of 9 in 3inz

Go back to Cadmium Binding Sites List in 3inz
Cadmium binding site 8 out of 9 in the H57T Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 8 of H57T Hfq From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cd84

b:67.0
occ:0.44
OE2 F:GLU18 2.4 44.2 1.0
O F:HOH183 2.4 79.4 1.0
O F:HOH182 2.5 71.6 1.0
OE1 F:GLU18 2.6 42.2 1.0
O F:HOH308 2.6 0.1 1.0
CD F:GLU18 2.8 40.6 1.0
O F:HOH181 2.9 52.7 1.0
N F:ARG69 4.3 56.2 1.0
CB F:ARG69 4.3 63.6 1.0
CG F:GLU18 4.3 32.6 1.0
CG1 F:VAL68 4.6 47.4 1.0
O F:ARG69 4.7 68.2 1.0
NH1 F:ARG66 4.8 43.1 1.0
CA F:ARG69 4.8 62.1 1.0
NH2 F:ARG66 4.8 38.1 1.0

Cadmium binding site 9 out of 9 in 3inz

Go back to Cadmium Binding Sites List in 3inz
Cadmium binding site 9 out of 9 in the H57T Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 9 of H57T Hfq From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cd85

b:29.0
occ:0.47
OD1 F:ASN48 2.5 58.0 1.0
O F:HOH125 2.7 56.5 1.0
O F:HOH126 2.7 63.2 1.0
O F:HOH127 2.8 70.5 1.0
CG F:ASN48 2.9 59.2 1.0
ND2 F:ASN48 3.0 63.0 1.0
CB F:ASN48 4.0 56.0 1.0
CA F:ASN48 4.2 49.9 1.0
C F:ASN48 4.4 50.6 1.0
NZ F:LYS47 4.5 33.5 1.0
O F:ASN48 4.6 53.5 1.0
N F:THR49 5.0 48.5 1.0

Reference:

O.Moskaleva, B.Melnik, A.Gabdulkhakov, M.Garber, S.Nikonov, E.Stolboushkina, A.Nikulin. The Structures of Mutant Forms of Hfq From Pseudomonas Aeruginosa Reveal the Importance of the Conserved HIS57 For the Protein Hexamer Organization. Acta Crystallogr.,Sect.F V. 66 760 2010.
ISSN: ESSN 1744-3091
PubMed: 20606268
DOI: 10.1107/S1744309110017331
Page generated: Thu Jul 10 12:42:46 2025

Last articles

Cl in 3OEX
Cl in 3OFM
Cl in 3OEU
Cl in 3OBK
Cl in 3ODG
Cl in 3OCT
Cl in 3OCL
Cl in 3OCH
Cl in 3OCF
Cl in 3OCE
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy