Magnesium in PDB 6okh: Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197)

Protein crystallography data

The structure of Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197), PDB code: 6okh was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.84 / 1.85
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 74.880, 101.120, 108.660, 90.00, 90.00, 90.00
R / Rfree (%) 16.9 / 20

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197) (pdb code 6okh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197), PDB code: 6okh:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 6okh

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Magnesium binding site 1 out of 4 in the Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg200

b:13.9
occ:1.00
OD2 A:ASP79 2.1 14.9 1.0
O A:HOH323 2.1 17.4 1.0
O A:HOH312 2.1 15.5 1.0
O A:ILE106 2.1 16.1 1.0
O A:HOH318 2.1 15.5 1.0
NE2 A:HIS38 2.2 16.6 1.0
CG A:ASP79 3.0 18.7 1.0
CE1 A:HIS38 3.2 17.1 1.0
CD2 A:HIS38 3.2 19.7 1.0
C A:ILE106 3.3 15.6 1.0
OD1 A:ASP79 3.3 17.8 1.0
MG A:MG201 3.6 36.1 1.0
N A:ILE106 3.8 11.1 1.0
CA A:ILE106 3.9 11.6 1.0
CB A:ILE106 4.0 16.1 1.0
O A:HOH373 4.1 30.8 1.0
OD2 A:ASP115 4.2 16.6 1.0
OG A:SER108 4.2 17.1 0.6
O A:HOH313 4.2 17.8 1.0
O A:HOH303 4.3 40.3 1.0
ND1 A:HIS38 4.3 15.6 1.0
O A:HOH334 4.4 16.7 1.0
N A:LEU107 4.4 13.9 1.0
CG A:HIS38 4.4 18.3 1.0
CB A:ASP79 4.4 13.9 1.0
OE1 A:GLU105 4.4 14.8 1.0
O A:HOH439 4.6 39.4 1.0
CA A:LEU107 4.6 15.9 1.0
C A:LEU107 4.7 22.9 1.0
C A:GLU105 4.8 11.0 1.0
N A:SER108 4.8 18.0 1.0
CG2 A:ILE106 4.9 13.3 1.0
CG1 A:ILE106 5.0 21.4 1.0

Magnesium binding site 2 out of 4 in 6okh

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Magnesium binding site 2 out of 4 in the Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg201

b:36.1
occ:1.00
O A:HOH334 2.2 16.7 1.0
O A:HOH397 2.2 27.5 1.0
O A:HOH316 2.3 22.9 1.0
O A:HOH318 2.5 15.5 1.0
O A:HOH373 2.7 30.8 1.0
O A:HOH312 2.7 15.5 1.0
O A:HOH323 3.5 17.4 1.0
MG A:MG200 3.6 13.9 1.0
NZ A:LYS119 3.9 16.2 1.0
O A:HOH322 4.0 35.3 1.0
O A:HOH374 4.1 36.9 1.0
OE1 A:GLU105 4.1 14.8 1.0
OD1 A:ASP115 4.2 17.4 1.0
OD2 A:ASP115 4.3 16.6 1.0
OE1 A:GLU22 4.3 34.6 1.0
O A:HOH439 4.3 39.4 1.0
OD1 A:ASN111 4.4 40.7 1.0
CG2 A:VAL31 4.4 53.3 1.0
OD1 A:ASP79 4.4 17.8 1.0
OD2 A:ASP79 4.5 14.9 1.0
O A:GLN77 4.5 17.4 1.0
O A:HOH313 4.6 17.8 1.0
CG A:ASP115 4.7 17.4 1.0
CG A:ASP79 4.8 18.7 1.0
OE2 A:GLU22 4.8 21.7 1.0
CD A:GLU105 4.9 14.3 1.0
CD A:GLU22 4.9 28.7 1.0

Magnesium binding site 3 out of 4 in 6okh

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Magnesium binding site 3 out of 4 in the Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg200

b:18.1
occ:1.00
OD2 B:ASP79 2.1 16.6 1.0
O B:HOH338 2.1 18.1 1.0
O B:ILE106 2.2 17.7 1.0
O B:HOH313 2.2 17.2 1.0
NE2 B:HIS38 2.3 20.8 1.0
O B:HOH314 2.3 19.5 1.0
CG B:ASP79 3.0 19.2 1.0
CE1 B:HIS38 3.2 20.5 1.0
C B:ILE106 3.3 18.3 1.0
OD1 B:ASP79 3.3 19.1 1.0
CD2 B:HIS38 3.3 16.2 1.0
MG B:MG201 3.5 31.6 1.0
N B:ILE106 3.7 15.4 1.0
CA B:ILE106 3.9 16.0 1.0
O B:HOH399 4.0 28.7 1.0
O B:HOH303 4.0 30.1 1.0
CB B:ILE106 4.0 20.1 1.0
OD2 B:ASP115 4.2 18.9 1.0
O B:HOH335 4.3 18.0 1.0
O B:HOH333 4.3 19.5 1.0
ND1 B:HIS38 4.3 19.4 1.0
OG B:SER108 4.3 36.8 1.0
N B:LEU107 4.4 18.4 1.0
CB B:ASP79 4.4 14.3 1.0
OE1 B:GLU105 4.4 14.6 1.0
CG B:HIS38 4.4 15.8 1.0
C B:LEU107 4.7 26.2 1.0
CA B:LEU107 4.7 20.2 1.0
O B:HOH408 4.7 35.0 1.0
C B:GLU105 4.8 16.9 1.0
N B:SER108 4.9 19.9 1.0
CG2 B:ILE106 4.9 18.0 1.0
CG1 B:ILE106 5.0 27.3 1.0

Magnesium binding site 4 out of 4 in 6okh

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Magnesium binding site 4 out of 4 in the Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg201

b:31.6
occ:1.00
O B:HOH335 2.2 18.0 1.0
O B:HOH423 2.3 31.6 1.0
O B:HOH325 2.4 30.5 1.0
O B:HOH314 2.4 19.5 1.0
O B:HOH399 2.5 28.7 1.0
O B:HOH313 2.5 17.2 1.0
MG B:MG200 3.5 18.1 1.0
O B:HOH338 3.5 18.1 1.0
NZ B:LYS119 3.9 20.7 1.0
OE1 B:GLU105 4.1 14.6 1.0
OD1 B:ASP115 4.1 19.2 1.0
OD2 B:ASP115 4.1 18.9 1.0
O B:HOH341 4.2 39.9 1.0
O B:HOH329 4.3 40.8 1.0
OD1 B:ASP79 4.4 19.1 1.0
OD2 B:ASP79 4.4 16.6 1.0
O B:HOH408 4.5 35.0 1.0
O B:GLN77 4.5 21.3 1.0
CG2 B:VAL31 4.5 51.9 1.0
O B:HOH333 4.5 19.5 1.0
OD1 B:ASN111 4.5 49.9 1.0
CG B:ASP115 4.6 19.8 1.0
OE1 B:GLU22 4.7 37.2 1.0
CG B:ASP79 4.7 19.2 1.0
O B:HOH429 4.8 49.6 1.0
CD B:GLU105 4.8 17.4 1.0
OE2 B:GLU22 5.0 25.5 1.0

Reference:

J.Abendroth, P.S.Horanyi, D.D.Lorimer, T.E.Edwards. Structure of An Uncharacterized Protein From Leptospira Borgpetersenii Serovar Hardjo-Bovis (Strain JB197) To Be Published.
Page generated: Mon Dec 14 23:43:36 2020

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