Zinc in PDB 3m4g: H57A Hfq From Pseudomonas Aeruginosa

The structure of H57A Hfq From Pseudomonas Aeruginosa, PDB code: 3m4g 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 / 2.05
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	66.460, 66.587, 68.713, 91.78, 115.32, 119.92
R / Rfree (%)	19.9 / 26.2

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Zinc atom in the H57A Hfq From Pseudomonas Aeruginosa (pdb code 3m4g). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 14 binding sites of Zinc where determined in the H57A Hfq From Pseudomonas Aeruginosa, PDB code: 3m4g:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 14 in the H57A Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of H57A Hfq From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn83 b:80.7 occ:0.93 ND1 A:HIS5 2.3 63.0 1.0 O A:HOH281 2.4 57.8 1.0 OD2 A:ASP9 2.5 70.5 1.0 OD1 A:ASP9 2.6 63.9 1.0 CG A:ASP9 2.8 60.4 1.0 CG A:HIS5 3.0 73.5 1.0 CE1 A:HIS5 3.0 66.9 1.0 NZ B:LYS3 3.1 79.3 1.0 CB A:HIS5 3.5 67.9 1.0 NE2 A:HIS5 3.9 68.7 1.0 CD2 A:HIS5 3.9 65.1 1.0 CE B:LYS3 4.3 78.3 1.0 CB A:ASP9 4.3 49.2 1.0 CG B:LYS3 4.4 71.8 1.0 O A:HOH117 4.8 67.0 1.0 CD B:LYS3 4.8 69.2 1.0 CA A:HIS5 5.0 69.7 1.0

Zinc binding site 2 out of 14 in the H57A Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of H57A Hfq From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn83 b:55.8 occ:0.51 NE2 B:HIS5 2.4 29.3 1.0 CE1 B:HIS5 2.6 50.9 1.0 O C:SER2 2.7 74.6 1.0 O B:HOH222 2.9 54.1 1.0 OD2 B:ASP9 3.4 84.8 1.0 CA C:LYS3 3.5 56.5 1.0 C C:SER2 3.6 58.5 1.0 CD2 B:HIS5 3.8 65.2 1.0 CA B:GLN41 3.8 43.8 1.0 N B:GLN41 3.8 35.4 1.0 ND1 B:HIS5 3.9 61.2 1.0 CG C:LYS3 3.9 56.0 1.0 CB C:LYS3 4.0 48.2 1.0 N C:LYS3 4.0 61.6 1.0 CB B:GLN41 4.0 45.7 1.0 OD1 B:ASP9 4.1 68.6 1.0 CG B:ASP9 4.2 69.0 1.0 C B:ASP40 4.2 37.6 1.0 CG B:HIS5 4.5 67.1 1.0 C C:LYS3 4.6 50.9 1.0 O B:ASP40 4.6 35.8 1.0 N C:GLY4 4.6 46.1 1.0 CG B:GLN41 4.7 48.9 1.0 O B:HOH335 4.7 60.5 1.0 CE C:LYS3 4.8 62.8 1.0 OE1 B:GLN41 4.9 72.3 1.0 CA C:SER2 4.9 77.0 1.0 CA B:ASP40 4.9 35.9 1.0 CD C:LYS3 5.0 51.6 1.0

Zinc binding site 3 out of 14 in the H57A Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of H57A Hfq From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn84 b:62.0 occ:0.81 OE2 B:GLU18 2.2 50.0 1.0 O B:HOH216 2.4 61.8 1.0 CD B:GLU18 2.9 46.3 1.0 OE1 B:GLU18 2.9 48.6 1.0 O B:ARG69 3.9 72.7 1.0 CG2 B:THR14 4.2 40.1 1.0 CG B:ARG69 4.2 69.4 1.0 N B:ARG69 4.3 53.8 1.0 CG B:GLU18 4.3 53.3 1.0 NH1 B:ARG66 4.4 44.5 1.0 C B:ARG69 4.8 66.8 1.0 CB B:ARG69 4.9 70.7 1.0 CA B:ARG69 4.9 67.2 1.0

Zinc binding site 4 out of 14 in the H57A Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of H57A Hfq From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn83 b:55.4 occ:1.00 OD1 C:ASP9 2.2 55.7 1.0 O C:HOH208 2.3 41.1 1.0 O C:HOH231 2.3 38.5 1.0 O C:HOH228 2.4 41.4 1.0 CD2 C:HIS5 2.5 70.2 1.0 CG C:ASP9 2.9 53.8 1.0 CG C:HIS5 2.9 67.6 1.0 OD2 C:ASP9 3.0 69.3 1.0 NE2 C:HIS5 3.3 76.3 1.0 CB C:HIS5 3.4 47.5 1.0 ND1 C:HIS5 3.8 81.5 1.0 CE1 C:HIS5 4.0 73.5 1.0 CB C:ASP9 4.4 49.0 1.0 NZ C:LYS56 4.7 47.3 1.0 OE1 C:GLN8 4.8 39.5 1.0 CG C:GLN41 4.9 62.2 1.0 CA C:HIS5 4.9 47.4 1.0 CA C:ASP9 4.9 39.4 1.0 CE2 C:PHE39 4.9 46.5 1.0 CA C:GLN41 4.9 54.8 1.0

Zinc binding site 5 out of 14 in the H57A Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of H57A Hfq From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn83 b:68.9 occ:0.75 O E:HOH234 2.3 51.0 1.0 OD1 D:ASP9 2.4 62.2 1.0 O D:HOH250 2.4 58.1 1.0 OD2 D:ASP9 2.7 62.2 1.0 CG D:ASP9 2.8 61.6 1.0 O D:HOH226 3.1 52.6 1.0 N E:LYS3 4.2 74.4 1.0 CB D:ASP9 4.3 46.5 1.0 OG D:SER6 4.7 68.6 1.0 CA D:GLN41 5.0 50.2 1.0 CB D:GLN41 5.0 46.5 1.0

Zinc binding site 6 out of 14 in the H57A Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of H57A Hfq From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn84 b:68.5 occ:1.00 OE2 D:GLU18 2.4 60.2 1.0 OE1 D:GLU18 2.7 44.0 1.0 CD D:GLU18 2.8 55.4 1.0 O D:ARG69 3.8 67.7 1.0 CG2 D:THR14 4.1 58.8 1.0 CG D:GLU18 4.1 53.6 1.0 O D:HOH137 4.2 62.8 1.0 CG D:ARG69 4.3 76.2 1.0 NE D:ARG69 4.4 71.2 1.0 N D:ARG69 4.4 57.1 1.0 NH1 D:ARG66 4.4 45.3 1.0 NH2 D:ARG66 4.7 50.1 1.0 C D:ARG69 4.8 71.1 1.0 CD D:ARG69 4.9 83.1 1.0

Zinc binding site 7 out of 14 in the H57A Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of H57A Hfq From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn83 b:65.5 occ:0.96 OD2 E:ASP9 2.4 79.4 1.0 O F:HOH327 2.6 69.2 1.0 OD1 E:ASP9 2.7 69.9 1.0 O E:HOH218 2.8 57.8 1.0 CG E:ASP9 2.9 64.3 1.0 CD2 E:HIS5 2.9 70.3 1.0 CG E:HIS5 2.9 62.7 1.0 O F:SER2 3.2 75.3 1.0 NE2 E:HIS5 3.4 72.0 1.0 ND1 E:HIS5 3.4 71.3 1.0 CB E:HIS5 3.4 60.6 1.0 CE1 E:HIS5 3.6 66.8 1.0 C F:SER2 4.2 69.6 1.0 CB E:ASP9 4.4 49.4 1.0 CB F:SER2 4.4 73.5 1.0 CA F:SER2 4.7 63.3 1.0 CA E:HIS5 4.9 53.4 1.0

Zinc binding site 8 out of 14 in the H57A Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of H57A Hfq From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ F:Zn83 b:55.1 occ:1.00 ND1 F:HIS5 2.2 70.0 1.0 O F:HOH84 2.2 39.6 1.0 O F:HOH221 2.4 36.3 1.0 OD1 F:ASP9 2.5 54.6 1.0 O F:HOH100 2.5 47.6 1.0 CE1 F:HIS5 2.9 68.2 1.0 CG F:HIS5 3.0 55.8 1.0 CG F:ASP9 3.2 51.2 1.0 OD2 F:ASP9 3.2 68.8 1.0 CB F:HIS5 3.5 58.6 1.0 NE2 F:HIS5 3.8 74.8 1.0 CD2 F:HIS5 3.9 64.6 1.0 CE2 F:PHE39 4.6 49.1 1.0 CB F:ASP9 4.7 51.7 1.0 O F:ASP40 4.7 41.9 1.0 CA F:GLN41 4.7 47.2 1.0 OE1 F:GLN8 4.8 41.9 1.0 C F:ASP40 5.0 47.8 1.0

Zinc binding site 9 out of 14 in the H57A Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of H57A Hfq From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ G:Zn83 b:81.1 occ:1.00 OD2 G:ASP9 2.3 58.1 1.0 ND1 G:HIS5 2.4 70.5 1.0 OD1 G:ASP9 2.6 62.4 1.0 CG G:ASP9 2.8 66.5 1.0 CE1 G:HIS5 3.0 69.6 1.0 CG G:HIS5 3.1 73.4 1.0 CB G:HIS5 3.6 72.7 1.0 NE2 G:HIS5 3.9 60.8 1.0 CD2 G:HIS5 4.0 64.0 1.0 CB G:ASP9 4.3 50.8 1.0 O G:HOH206 4.7 52.0 1.0 CA G:HIS5 4.7 70.9 1.0

Zinc binding site 10 out of 14 in the H57A Hfq From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of H57A Hfq From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ H:Zn83 b:73.1 occ:0.79 O H:HOH276 2.5 36.9 1.0 O H:HOH277 2.6 54.6 1.0 OD2 H:ASP9 3.2 71.8 1.0 ND1 H:HIS5 3.2 68.7 1.0 CE1 H:HIS5 3.3 71.4 1.0 OD1 H:ASP9 3.7 76.4 1.0 CD I:LYS3 3.9 66.7 1.0 CG H:ASP9 3.9 66.8 1.0 CA H:GLN41 3.9 41.5 1.0 N I:LYS3 3.9 55.5 1.0 N H:GLN41 3.9 41.5 1.0 CB I:LYS3 4.0 47.7 1.0 C H:ASP40 4.2 38.9 1.0 CB H:GLN41 4.2 41.4 1.0 CG I:LYS3 4.3 65.0 1.0 O H:ASP40 4.5 34.0 1.0 CG H:HIS5 4.5 68.8 1.0 CA I:LYS3 4.5 53.7 1.0 NE2 H:HIS5 4.5 76.7 1.0 CE2 H:PHE39 4.7 55.1 1.0 CG H:GLN41 4.7 45.3 1.0 CE I:LYS3 4.7 76.2 1.0 CA I:SER2 4.8 64.5 1.0 C I:SER2 4.8 61.9 1.0 CA H:ASP40 4.9 39.3 1.0 NZ I:LYS3 4.9 79.2 1.0

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