Mercury in PDB 4yix: Structure of MRB1590 Bound to Adp

The structure of Structure of MRB1590 Bound to Adp, PDB code: 4yix was solved by P.L.R.Shaw, M.A.Schumacher, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.60 / 2.60
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	105.584, 184.709, 73.639, 90.00, 90.00, 90.00
R / Rfree (%)	20.4 / 26.2

The structure of Structure of MRB1590 Bound to Adp also contains other interesting chemical elements:

Magnesium

(Mg)

3 atoms

Pages:

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

Binding sites:

The binding sites of Mercury atom in the Structure of MRB1590 Bound to Adp (pdb code 4yix). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 11 binding sites of Mercury where determined in the Structure of MRB1590 Bound to Adp, PDB code: 4yix:
Jump to Mercury binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Mercury binding site 1 out of 11 in the Structure of MRB1590 Bound to Adp


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of Structure of MRB1590 Bound to Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg704 b:55.9 occ:1.00 CB A:CYS288 2.5 27.5 1.0 CE2 A:TYR252 3.2 27.1 1.0 SG A:CYS288 3.3 45.3 1.0 CD2 A:TYR252 3.6 26.2 1.0 CD1 A:PHE255 3.8 20.5 1.0 CA A:CYS288 3.8 25.9 1.0 CZ A:TYR252 3.9 26.8 1.0 CE1 A:PHE255 3.9 21.4 1.0 O A:HOH882 4.0 26.5 1.0 N A:SER289 4.0 25.7 1.0 C A:CYS288 4.1 25.2 1.0 O A:SER289 4.2 24.4 1.0 OH A:TYR252 4.3 28.4 1.0 CG A:TYR252 4.4 25.2 1.0 C A:SER289 4.6 24.3 1.0 CE1 A:TYR252 4.7 25.1 1.0 CG A:PHE255 4.8 18.5 1.0 CA A:GLY303 4.8 22.4 1.0 O A:CYS288 4.8 23.8 1.0 CA A:SER289 4.9 25.2 1.0 CD1 A:TYR252 4.9 24.3 1.0 N A:CYS288 4.9 26.5 1.0

Mercury binding site 2 out of 11 in the Structure of MRB1590 Bound to Adp


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of Structure of MRB1590 Bound to Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg705 b:0.9 occ:1.00 SG A:CYS107 0.1 74.9 1.0 CB A:CYS107 1.9 51.0 1.0 O A:PHE109 2.5 43.9 1.0 CA A:CYS107 3.2 45.8 1.0 C A:CYS107 3.4 45.8 1.0 O A:CYS107 3.6 47.9 1.0 C A:PHE109 3.7 40.5 1.0 CG A:LEU111 3.9 41.5 1.0 CD2 A:LEU111 3.9 41.1 1.0 N A:THR108 4.1 43.5 1.0 N A:PHE109 4.1 41.3 1.0 N A:CYS107 4.3 43.2 1.0 CD1 A:LEU111 4.4 40.6 1.0 CA A:PHE109 4.5 40.1 1.0 H1 A:HOH802 4.6 43.1 1.0 N A:LEU111 4.6 40.7 1.0 C A:THR108 4.6 41.5 1.0 N A:SER110 4.6 38.6 1.0 CA A:SER110 4.7 39.2 1.0 CA A:THR108 4.7 41.2 1.0 CD1 A:PHE109 4.8 38.1 1.0 CG A:PHE109 4.9 38.2 1.0 CE1 A:PHE109 5.0 38.2 1.0

Mercury binding site 3 out of 11 in the Structure of MRB1590 Bound to Adp


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 3 of Structure of MRB1590 Bound to Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg706 b:61.2 occ:1.00 SG A:CYS126 2.4 38.3 1.0 CB A:CYS126 3.2 28.2 1.0 O A:HOH856 3.3 30.2 1.0 CG A:GLU241 3.6 23.5 1.0 NE2 A:HIS238 3.6 25.3 1.0 CG2 A:VAL601 3.6 31.9 1.0 CD2 A:HIS238 3.7 23.8 1.0 ND2 A:ASN124 3.9 31.4 1.0 OD1 A:ASN124 3.9 30.9 1.0 CB A:GLU241 4.1 21.3 1.0 CG A:ASN124 4.3 31.6 1.0 CA A:CYS126 4.6 26.1 1.0 CG1 A:VAL601 4.7 37.3 1.0 CB A:VAL601 4.7 33.6 1.0 CE1 A:HIS238 4.7 25.7 1.0 CG A:HIS238 4.8 23.1 1.0 CD A:GLU241 4.8 24.1 1.0 N A:CYS126 5.0 27.4 1.0

Mercury binding site 4 out of 11 in the Structure of MRB1590 Bound to Adp


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 4 of Structure of MRB1590 Bound to Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg707 b:55.5 occ:1.00 SG A:CYS413 2.7 26.1 1.0 CB A:CYS413 3.5 23.7 1.0 SD A:MET418 3.6 33.1 1.0 N A:GLU410 3.7 22.2 1.0 CA A:GLU410 3.7 24.6 1.0 CB A:LEU408 3.8 16.9 1.0 CG A:MET418 3.9 29.3 1.0 OE2 A:GLU410 3.9 34.4 1.0 C A:ASP409 3.9 21.6 1.0 N A:ASP409 4.2 18.7 1.0 O A:ASP409 4.2 21.3 1.0 CD2 A:LEU408 4.3 17.9 1.0 O A:VAL456 4.3 22.0 1.0 C A:LEU408 4.4 17.4 1.0 CB A:GLU410 4.5 26.1 1.0 CA A:ASP409 4.6 20.3 1.0 CG A:LEU408 4.7 15.9 1.0 CA A:LEU408 4.7 15.8 1.0 CB A:MET418 4.8 30.2 1.0 C A:GLU410 4.8 23.5 1.0 SD A:MET455 4.8 18.4 1.0 CD A:GLU410 4.9 33.9 1.0 CA A:CYS413 4.9 21.8 1.0 O A:LEU408 4.9 17.6 1.0 O A:GLU410 4.9 23.4 1.0 CG A:GLU410 5.0 30.2 1.0

Mercury binding site 5 out of 11 in the Structure of MRB1590 Bound to Adp


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 5 of Structure of MRB1590 Bound to Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg708 b:62.7 occ:1.00 O A:HOH903 2.3 30.3 1.0 O A:HOH909 2.4 29.1 1.0 SG A:CYS481 2.5 28.2 1.0 CB A:CYS481 3.5 26.8 1.0 OE2 A:GLU484 3.5 31.7 1.0 O A:ASP480 3.5 27.4 1.0 CA A:CYS481 3.6 26.3 1.0 CD A:GLU484 3.6 32.4 1.0 CG A:GLU484 3.9 32.4 1.0 C A:ASP480 4.0 24.8 1.0 N A:CYS481 4.1 25.1 1.0 OE1 A:GLU484 4.2 33.6 1.0 OG A:SER479 4.2 22.5 1.0 CB A:SER479 4.9 22.1 1.0 C A:CYS481 4.9 26.6 1.0 N A:ASP480 5.0 22.4 1.0

Mercury binding site 6 out of 11 in the Structure of MRB1590 Bound to Adp


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 6 of Structure of MRB1590 Bound to Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg709 b:61.6 occ:1.00 SG A:CYS514 0.3 20.0 1.0 CB A:CYS514 2.2 20.0 1.0 O A:PHE515 3.1 25.1 1.0 CG2 A:VAL664 3.6 27.9 1.0 CA A:CYS514 3.6 25.0 1.0 C A:CYS514 3.9 24.8 1.0 C A:PHE515 4.0 24.6 1.0 O A:CYS514 4.3 24.1 1.0 N A:PHE515 4.3 24.0 1.0 CA A:ASP516 4.6 24.3 1.0 N A:ASP516 4.7 23.2 1.0 N A:CYS514 4.8 23.6 1.0 CA A:PHE515 4.9 23.9 1.0 O A:THR665 5.0 28.5 1.0 CB A:VAL664 5.0 26.6 1.0

Mercury binding site 7 out of 11 in the Structure of MRB1590 Bound to Adp


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 7 of Structure of MRB1590 Bound to Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg710 b:39.4 occ:1.00 SG A:CYS621 2.4 74.1 1.0 CB A:CYS621 2.6 39.4 1.0 O A:CYS621 3.1 30.4 1.0 O A:HOH907 3.1 27.8 1.0 O A:HOH838 3.3 22.1 1.0 O A:THR646 3.5 17.5 1.0 C A:CYS621 3.7 30.5 1.0 CA A:CYS621 3.7 29.6 1.0 CD1 A:ILE651 4.3 20.6 1.0 CG A:PRO596 4.5 30.8 1.0 C A:THR646 4.6 16.4 1.0 CB A:HIS625 4.7 28.8 1.0 N A:HIS648 4.8 14.4 1.0 N A:SER622 4.8 29.8 1.0 C A:ARG647 4.8 15.2 1.0 N A:CYS621 5.0 26.9 1.0 O A:PRO596 5.0 29.5 1.0

Mercury binding site 8 out of 11 in the Structure of MRB1590 Bound to Adp


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 8 of Structure of MRB1590 Bound to Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg711 b:33.5 occ:1.00 SG A:CYS636 2.3 22.3 1.0 O A:HOH904 2.6 22.0 1.0 OE1 A:GLN569 3.3 21.9 1.0 O A:LEU631 3.3 26.0 1.0 CB A:CYS636 3.5 25.3 1.0 O A:LEU638 3.8 22.7 1.0 C A:LEU631 3.9 25.6 1.0 CB A:LEU638 4.0 21.3 1.0 CD A:GLN569 4.1 21.1 1.0 O A:HOH898 4.1 27.6 1.0 N A:LEU638 4.2 23.4 1.0 CG A:GLN569 4.3 19.8 1.0 N A:ARG632 4.4 26.8 1.0 CA A:ARG632 4.4 28.3 1.0 N A:LEU631 4.4 24.2 1.0 CA A:LEU638 4.5 22.1 1.0 C A:LEU638 4.5 22.2 1.0 C A:CYS636 4.5 25.6 1.0 O A:CYS636 4.5 25.9 1.0 CA A:CYS636 4.6 25.1 1.0 CA A:LEU631 4.8 24.5 1.0 CD2 A:LEU638 4.9 17.9 1.0 N A:TYR637 4.9 24.3 1.0 CG A:LEU638 5.0 18.8 1.0

Mercury binding site 9 out of 11 in the Structure of MRB1590 Bound to Adp


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 9 of Structure of MRB1590 Bound to Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg712 b:99.9 occ:1.00 SG A:CYS221 0.6 20.0 1.0 CB A:CYS221 2.1 20.0 1.0 CA A:CYS221 3.4 33.8 1.0 CA A:GLY142 3.8 32.9 1.0 O A:SER138 4.0 26.7 1.0 N A:GLY142 4.1 30.9 1.0 CD1 A:ILE147 4.2 37.3 1.0 ND2 A:ASN145 4.2 36.5 1.0 N A:CYS221 4.3 33.1 1.0 CG1 A:ILE147 4.5 36.2 1.0 C A:ALA141 4.7 31.4 1.0 C A:CYS221 4.7 30.9 1.0 O A:CYS221 4.8 30.3 1.0 C A:SER138 4.9 23.2 1.0 CB A:ALA141 5.0 27.5 1.0

Mercury binding site 10 out of 11 in the Structure of MRB1590 Bound to Adp


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 10 of Structure of MRB1590 Bound to Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg713 b:63.9 occ:1.00 SG A:CYS105 2.8 84.5 1.0 CB A:CYS105 3.1 44.2 1.0 O A:ILE186 3.2 35.5 1.0 N A:CYS105 3.4 38.0 1.0 CD2 A:LEU218 3.6 30.4 1.0 CA A:CYS105 3.8 40.4 1.0 CG1 A:VAL222 3.8 32.7 1.0 CG2 A:ILE186 3.8 33.3 1.0 CD1 A:ILE188 3.9 26.3 1.0 CB A:ILE186 4.0 36.4 1.0 C A:ILE186 4.0 34.2 1.0 C A:VAL104 4.1 37.5 1.0 CG1 A:ILE188 4.2 28.2 1.0 C A:CYS105 4.5 40.0 1.0 CA A:VAL104 4.5 35.0 1.0 O A:CYS105 4.5 39.0 1.0 CA A:ILE186 4.6 35.7 1.0 O A:LEU103 4.6 31.2 1.0 CG A:LEU218 4.6 31.5 1.0 CB A:VAL222 4.7 32.5 1.0 CB A:LEU218 4.7 32.8 1.0 N A:GLU187 4.8 32.0 1.0 O A:VAL104 4.9 37.7 1.0 N A:VAL104 4.9 33.6 1.0 C A:LEU103 4.9 31.5 1.0 CD1 A:LEU218 5.0 30.3 1.0

P.L.Shaw, N.M.Mcadams, M.A.Hast, M.L.Ammerman, L.K.Read, M.A.Schumacher. Structures of the T. Brucei Krna Editing Factor MRB1590 Reveal Unique Rna-Binding Pore Motif Contained Within An Abc-Atpase Fold. Nucleic Acids Res. V. 43 7096 2015.
ISSN: ESSN 1362-4962
PubMed: 26117548
DOI: 10.1093/NAR/GKV647