Atomistry » Magnesium » PDB 5l5v-5lcf » 5l8f
Atomistry »
  Magnesium »
    PDB 5l5v-5lcf »
      5l8f »

Magnesium in PDB 5l8f: Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.

Protein crystallography data

The structure of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A., PDB code: 5l8f was solved by D.He, S.Hughes, S.Vanden-Hehir, A.Georgiev, K.Altenbach, E.Tarrant, C.L.Mackay, K.J.Waldron, D.J.Clarke, J.Marles-Wright, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.41 / 2.25
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 92.096, 92.096, 217.105, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 24

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. (pdb code 5l8f). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 10 binding sites of Magnesium where determined in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A., PDB code: 5l8f:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 10 in 5l8f

Go back to Magnesium Binding Sites List in 5l8f
Magnesium binding site 1 out of 10 in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg201

b:57.1
occ:1.00
 O C:HOH302 1.9 45.4 1.0
OE1 B:GLU64 2.1 45.0 1.0
OE2 B:GLU61 2.3 55.6 1.0
OE1 C:GLU61 2.8 69.9 1.0
CD B:GLU64 3.0 50.7 1.0
CD B:GLU61 3.4 54.5 1.0
OE2 B:GLU64 3.5 61.5 1.0
HE1 C:HIS57 3.8 60.7 1.0
OE1 B:GLU61 3.9 63.4 1.0
HB3 B:GLU64 3.9 37.6 1.0
CD C:GLU61 4.0 61.3 1.0
HA B:GLU61 4.0 41.2 1.0
CG B:GLU64 4.2 43.1 1.0
HB3 B:GLU61 4.4 55.0 1.0
CB B:GLU64 4.4 31.3 1.0
HB2 B:GLU64 4.5 37.6 1.0
HG2 B:GLU64 4.5 51.7 1.0
OE2 C:GLU61 4.6 56.0 1.0
CG B:GLU61 4.6 46.7 1.0
CE1 C:HIS57 4.7 50.6 1.0
CB B:GLU61 4.8 45.8 1.0
HG3 C:GLU61 4.8 60.5 1.0
CA B:GLU61 4.8 34.4 1.0
HE1 A:HIS83 4.9 57.0 1.0
HG3 B:GLU64 5.0 51.7 1.0
HE2 C:HIS57 5.0 58.3 1.0
HG2 B:GLU61 5.0 56.1 1.0

Magnesium binding site 2 out of 10 in 5l8f

Go back to Magnesium Binding Sites List in 5l8f
Magnesium binding site 2 out of 10 in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg202

b:54.8
occ:1.00
 OE2 C:GLU61 2.5 56.0 1.0
OE1 C:GLU64 2.5 48.7 1.0
OE1 B:GLU61 2.6 63.4 1.0
CD C:GLU64 3.4 50.2 1.0
CD C:GLU61 3.5 61.3 1.0
HE2 B:HIS57 3.7 65.1 1.0
CD B:GLU61 3.7 54.5 1.0
OE2 C:GLU64 3.8 52.5 1.0
OE1 C:GLU61 3.9 69.9 1.0
OE2 B:GLU61 4.4 55.6 1.0
HB3 C:GLU64 4.4 49.3 1.0
HA C:GLU61 4.4 41.7 1.0
HG3 B:GLU61 4.5 56.1 1.0
NE2 B:HIS57 4.6 54.3 1.0
CG C:GLU64 4.7 46.7 1.0
CG B:GLU61 4.8 46.7 1.0
HB3 C:GLU61 4.9 55.7 1.0
CG C:GLU61 4.9 50.4 1.0
CB C:GLU64 4.9 41.1 1.0
HB2 C:GLU64 4.9 49.3 1.0
HG2 C:GLU64 4.9 56.1 1.0

Magnesium binding site 3 out of 10 in 5l8f

Go back to Magnesium Binding Sites List in 5l8f
Magnesium binding site 3 out of 10 in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg201

b:60.9
occ:1.00
 OE1 E:GLU61 2.3 70.5 1.0
OE1 D:GLU64 2.5 48.5 1.0
OE2 D:GLU61 2.8 58.4 1.0
HE2 E:HIS57 3.0 54.0 1.0
CD D:GLU64 3.2 49.8 1.0
O E:HOH317 3.3 46.1 1.0
CD E:GLU61 3.5 62.0 1.0
OE2 D:GLU64 3.6 51.3 1.0
CD D:GLU61 3.7 59.4 1.0
NE2 E:HIS57 3.9 45.0 1.0
OE1 D:GLU61 4.0 68.5 1.0
HB3 D:GLU64 4.0 52.9 1.0
HG3 E:GLU61 4.1 60.8 1.0
CG D:GLU64 4.3 49.2 1.0
OE2 E:GLU61 4.3 56.8 1.0
HG2 D:GLU64 4.4 59.0 1.0
CG E:GLU61 4.5 50.7 1.0
HA D:GLU61 4.5 49.1 1.0
HE1 E:HIS57 4.5 48.1 1.0
CE1 E:HIS57 4.6 40.1 1.0
CB D:GLU64 4.6 44.0 1.0
HB3 D:GLU61 4.6 46.6 1.0
HB2 D:GLU64 4.8 52.9 1.0
CD2 E:HIS57 4.9 45.8 1.0

Magnesium binding site 4 out of 10 in 5l8f

Go back to Magnesium Binding Sites List in 5l8f
Magnesium binding site 4 out of 10 in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg202

b:53.3
occ:1.00
 OE1 E:GLU64 2.1 44.8 1.0
OE1 D:GLU61 2.7 68.5 1.0
CD E:GLU64 2.8 53.5 1.0
OE2 E:GLU64 3.1 46.4 1.0
OE2 E:GLU61 3.2 56.8 1.0
HE1 D:HIS57 3.3 61.1 1.0
CD D:GLU61 4.0 59.4 1.0
CE1 D:HIS57 4.1 50.9 1.0
CG E:GLU64 4.1 53.0 1.0
HB3 E:GLU64 4.2 53.8 1.0
CD E:GLU61 4.2 62.0 1.0
HE2 D:HIS57 4.3 60.3 1.0
HG2 E:GLU64 4.3 63.6 1.0
HG3 D:GLU61 4.4 71.8 1.0
OE1 E:GLU61 4.5 70.5 1.0
NE2 D:HIS57 4.6 50.3 1.0
CB E:GLU64 4.6 44.8 1.0
HH F:TYR87 4.7 57.8 1.0
HB2 E:GLU64 4.7 53.8 1.0
CG D:GLU61 4.8 59.9 1.0
HG3 E:GLU64 4.8 63.6 1.0
OE2 D:GLU61 4.8 58.4 1.0
HA E:GLU61 4.9 51.7 1.0

Magnesium binding site 5 out of 10 in 5l8f

Go back to Magnesium Binding Sites List in 5l8f
Magnesium binding site 5 out of 10 in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg201

b:48.0
occ:1.00
 O H:HOH301 2.3 43.9 1.0
OE1 F:GLU64 2.4 35.2 1.0
OE2 F:GLU61 2.5 47.1 1.0
OE1 H:GLU61 2.8 55.5 1.0
CD F:GLU64 3.2 33.6 1.0
CD F:GLU61 3.3 47.9 1.0
OE2 F:GLU64 3.4 37.4 1.0
OE1 F:GLU61 3.5 57.3 1.0
HE2 H:HIS57 3.8 44.0 1.0
CD H:GLU61 3.9 49.9 1.0
HB3 F:GLU64 4.3 39.6 1.0
HA F:GLU61 4.4 43.8 1.0
CG F:GLU64 4.4 37.3 1.0
HG3 H:GLU61 4.5 54.1 1.0
HG2 F:GLU64 4.6 44.8 1.0
NE2 H:HIS57 4.6 36.6 1.0
OE2 H:GLU61 4.6 49.4 1.0
HB3 F:GLU61 4.7 44.7 1.0
CG F:GLU61 4.8 39.0 1.0
CB F:GLU64 4.8 33.0 1.0
CG H:GLU61 4.9 45.1 1.0
MG F:MG202 4.9 47.9 1.0
HB2 F:GLU64 4.9 39.6 1.0

Magnesium binding site 6 out of 10 in 5l8f

Go back to Magnesium Binding Sites List in 5l8f
Magnesium binding site 6 out of 10 in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg202

b:47.9
occ:1.00
 OE2 H:GLU61 2.3 49.4 1.0
O H:HOH309 2.4 43.2 1.0
OE1 H:GLU64 2.5 33.0 1.0
O F:HOH303 2.8 45.3 1.0
OE1 F:GLU61 2.9 57.3 1.0
CD H:GLU61 3.2 49.9 1.0
CD H:GLU64 3.4 33.3 1.0
OE1 H:GLU61 3.5 55.5 1.0
OE2 H:GLU64 3.6 36.1 1.0
HE2 F:HIS57 4.1 51.5 1.0
CD F:GLU61 4.1 47.9 1.0
HA H:GLU61 4.3 40.6 1.0
HB3 H:GLU64 4.5 35.5 1.0
CG H:GLU61 4.6 45.1 1.0
CG H:GLU64 4.7 32.6 1.0
HB3 H:GLU61 4.7 38.2 1.0
HG3 F:GLU61 4.7 46.9 1.0
OE2 F:GLU61 4.8 47.1 1.0
NE2 F:HIS57 4.8 42.9 1.0
HE1 F:HIS57 4.9 72.6 1.0
MG F:MG201 4.9 48.0 1.0
HB2 H:GLU64 4.9 35.5 1.0
O G:HOH317 5.0 32.6 1.0
CB H:GLU64 5.0 29.6 1.0
HG2 H:GLU61 5.0 54.1 1.0

Magnesium binding site 7 out of 10 in 5l8f

Go back to Magnesium Binding Sites List in 5l8f
Magnesium binding site 7 out of 10 in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg201

b:56.7
occ:1.00
 O G:HOH303 2.2 55.0 1.0
HE1 I:HIS57 2.2 54.3 1.0
OE1 I:GLU61 2.3 59.5 1.0
O I:HOH326 2.3 54.7 1.0
OE1 G:GLU64 2.8 42.7 1.0
O G:HOH328 2.9 41.9 1.0
CE1 I:HIS57 3.0 45.3 1.0
OE2 G:GLU61 3.2 54.9 1.0
CD G:GLU64 3.3 42.7 1.0
CD I:GLU61 3.5 47.8 1.0
NE2 I:HIS57 3.5 48.3 1.0
OE2 G:GLU64 3.7 39.3 1.0
HG3 I:GLU61 3.7 50.8 1.0
CD G:GLU61 4.0 53.3 1.0
OE1 G:GLU61 4.1 59.9 1.0
CG I:GLU61 4.2 42.3 1.0
HB3 G:GLU64 4.2 49.0 1.0
ND1 I:HIS57 4.2 39.1 1.0
HG2 G:GLU64 4.4 44.1 1.0
CG G:GLU64 4.4 36.8 1.0
OE2 I:GLU61 4.5 47.0 1.0
O G:HOH316 4.5 47.0 1.0
HD1 I:HIS57 4.5 47.0 1.0
HG2 I:GLU61 4.7 50.8 1.0
CB G:GLU64 4.8 40.8 1.0
HH H:TYR87 4.8 50.0 1.0
O G:HOH338 4.8 41.6 1.0
CD2 I:HIS57 4.9 39.5 1.0
HB3 G:GLU61 4.9 54.9 1.0

Magnesium binding site 8 out of 10 in 5l8f

Go back to Magnesium Binding Sites List in 5l8f
Magnesium binding site 8 out of 10 in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg202

b:37.8
occ:1.00
 HE1 G:TRP80 2.0 39.9 1.0
HD2 G:ARG22 2.5 32.5 1.0
NE1 G:TRP80 2.7 33.2 1.0
HD1 G:TRP80 2.7 35.1 1.0
OD2 G:ASP77 2.8 34.1 1.0
HE2 H:LYS63 2.9 29.2 1.0
HD11 G:ILE26 3.0 37.9 1.0
CD1 G:TRP80 3.0 29.2 1.0
O H:HOH305 3.0 29.0 1.0
HE G:ARG22 3.1 37.6 1.0
HD22 G:LEU73 3.2 35.4 1.0
CD G:ARG22 3.4 27.1 1.0
HB3 G:ARG22 3.4 35.7 1.0
HG11 H:VAL36 3.5 32.0 1.0
NE G:ARG22 3.6 31.3 1.0
HG12 H:VAL36 3.6 32.0 1.0
O H:HOH304 3.6 37.5 1.0
CE H:LYS63 3.8 24.3 1.0
CG G:ASP77 3.8 33.9 1.0
HZ1 H:LYS63 3.8 41.0 1.0
HB2 G:ASP77 3.9 37.6 1.0
CD1 G:ILE26 3.9 31.6 1.0
CG1 H:VAL36 3.9 26.6 1.0
CD2 G:LEU73 3.9 29.5 1.0
HD21 G:LEU73 4.0 35.4 1.0
CE2 G:TRP80 4.0 24.7 1.0
HZ3 H:LYS63 4.0 41.0 1.0
HD3 G:ARG22 4.0 32.5 1.0
HG13 H:VAL36 4.1 32.0 1.0
NZ H:LYS63 4.1 34.2 1.0
HD12 G:ILE26 4.1 37.9 1.0
HD23 G:LEU73 4.1 35.4 1.0
CB G:ARG22 4.2 29.8 1.0
HE3 H:LYS63 4.2 29.2 1.0
CG G:ARG22 4.3 28.2 1.0
CB G:ASP77 4.3 31.3 1.0
CG G:TRP80 4.4 25.6 1.0
HD13 G:ILE26 4.5 37.9 1.0
HB3 G:ASP77 4.5 37.6 1.0
OD2 H:ASP40 4.5 32.4 1.0
HG2 G:ARG22 4.5 33.8 1.0
HG13 G:ILE26 4.5 33.5 1.0
HB2 G:ARG22 4.5 35.7 1.0
HD3 H:LYS63 4.5 34.4 1.0
HZ2 G:TRP80 4.6 35.2 1.0
CG1 G:ILE26 4.7 27.9 1.0
CD H:LYS63 4.7 28.7 1.0
CZ2 G:TRP80 4.8 29.4 1.0
HG2 H:LYS63 4.8 41.0 1.0
OD1 G:ASP77 4.8 37.9 1.0
CZ G:ARG22 4.8 39.2 1.0
CD2 G:TRP80 4.8 30.5 1.0
HG12 G:ILE26 4.8 33.5 1.0
HZ2 H:LYS63 5.0 41.0 1.0
HD13 G:LEU73 5.0 29.2 1.0

Magnesium binding site 9 out of 10 in 5l8f

Go back to Magnesium Binding Sites List in 5l8f
Magnesium binding site 9 out of 10 in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg204

b:46.5
occ:1.00
 OE1 I:GLU64 2.2 32.2 1.0
OE2 I:GLU61 2.4 47.0 1.0
OE1 G:GLU61 2.7 59.9 1.0
CD I:GLU64 3.2 37.7 1.0
CD I:GLU61 3.4 47.8 1.0
HE1 G:HIS57 3.5 58.1 1.0
OE1 I:GLU61 3.6 59.5 1.0
OE2 I:GLU64 3.8 37.0 1.0
CD G:GLU61 3.9 53.3 1.0
HG3 G:GLU61 4.1 59.5 1.0
HB3 I:GLU64 4.1 51.8 1.0
HA I:GLU61 4.2 40.6 1.0
CE1 G:HIS57 4.3 48.4 1.0
CG I:GLU64 4.4 38.5 1.0
O G:HOH303 4.5 55.0 1.0
HB3 I:GLU61 4.5 44.4 1.0
CG G:GLU61 4.6 49.6 1.0
CB I:GLU64 4.6 43.1 1.0
HB2 I:GLU64 4.6 51.8 1.0
HG2 I:GLU64 4.7 46.2 1.0
CG I:GLU61 4.7 42.3 1.0
OE2 G:GLU61 4.8 54.9 1.0
O J:HOH319 4.9 31.4 1.0
NE2 G:HIS57 4.9 56.2 1.0
CB I:GLU61 5.0 37.0 1.0

Magnesium binding site 10 out of 10 in 5l8f

Go back to Magnesium Binding Sites List in 5l8f
Magnesium binding site 10 out of 10 in the Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg201

b:47.3
occ:1.00
 O J:ALA96 2.4 55.9 1.0
O J:HOH339 2.5 40.5 1.0
O J:HOH327 3.0 45.5 1.0
HG23 J:THR86 3.2 35.9 1.0
C J:ALA96 3.6 57.3 1.0
HG22 J:THR86 3.8 35.9 1.0
CG2 J:THR86 3.8 29.9 1.0
HG21 J:THR86 3.9 35.9 1.0
HE1 J:TYR87 4.5 41.1 1.0
HA J:ALA96 4.7 68.2 1.0
CE1 J:TYR87 4.7 34.2 1.0
O J:THR86 4.8 41.7 1.0
CA J:ALA96 4.8 56.8 1.0

Reference:

D.He, S.Hughes, S.Vanden-Hehir, A.Georgiev, K.Altenbach, E.Tarrant, C.L.Mackay, K.J.Waldron, D.J.Clarke, J.Marles-Wright. Crystal Structure of Rhodospirillum Rubrum RRU_A0973 Mutant E32A, E62A, H65A. To Be Published.
Page generated: Sun Sep 29 19:45:18 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy