Atomistry » Magnesium » PDB 4la7-4lj9 » 4lfb
Atomistry »
  Magnesium »
    PDB 4la7-4lj9 »
      4lfb »

Magnesium in PDB 4lfb: Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus

Protein crystallography data

The structure of Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus, PDB code: 4lfb was solved by H.Demirci, R.Belardinelli, J.Carr, F.Murphy Iv, G.Jogl, A.E.Dahlberg, S.T.Gregory, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.54 / 3.01
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 402.765, 402.765, 177.085, 90.00, 90.00, 90.00
R / Rfree (%) 16.9 / 20.3

Other elements in 4lfb:

The structure of Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus also contains other interesting chemical elements:

Potassium (K) 24 atoms
Zinc (Zn) 2 atoms

Magnesium Binding Sites:

Magnesium binding site 1 out of 213 in 4lfb

Go back to Magnesium Binding Sites List in 4lfb
Magnesium binding site 1 out of 213 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1601

b:92.2
occ:1.00
O6 A:G259 3.8 99.2 1.0
O6 A:G258 3.9 99.6 1.0
N7 A:G258 4.1 1.0 1.0
OP2 A:G265 4.2 83.5 1.0
C6 A:G258 4.6 99.0 1.0
O6 A:G260 4.7 95.9 1.0
C5 A:G258 4.7 99.8 1.0
OP2 A:G266 4.7 66.6 1.0
OP1 A:G265 4.8 81.1 1.0
C6 A:G259 4.9 92.5 1.0
N4 A:C267 4.9 71.2 1.0
P A:G265 4.9 78.0 1.0

Magnesium binding site 2 out of 213 in 4lfb

Go back to Magnesium Binding Sites List in 4lfb
Magnesium binding site 2 out of 213 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1602

b:84.5
occ:1.00
OP1 A:C1527 3.7 68.3 1.0
OP2 A:G731 4.2 82.3 1.0
OP1 A:G730 4.4 56.8 1.0
N7 A:G731 4.5 64.2 1.0
C8 A:G731 4.9 61.6 1.0
P A:C1527 5.0 66.2 1.0

Magnesium binding site 3 out of 213 in 4lfb

Go back to Magnesium Binding Sites List in 4lfb
Magnesium binding site 3 out of 213 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1603

b:91.0
occ:1.00
O2 A:C519 2.4 92.6 1.0
O2' A:C519 3.2 89.6 1.0
O4' A:A520 3.4 92.2 1.0
C2 A:C519 3.6 85.8 1.0
C2' A:C519 3.9 82.8 1.0
C1' A:A520 4.1 83.7 1.0
C1' A:C519 4.2 82.8 1.0
O2' A:PSU516 4.2 83.0 1.0
C4' A:A520 4.4 87.6 1.0
N1 A:C519 4.4 86.2 1.0
N3 A:C519 4.5 80.3 1.0
O3' A:PSU516 4.5 0.9 1.0
OP1 A:G517 4.6 0.5 1.0
N9 A:A520 4.8 79.0 1.0
C5' A:G517 4.9 0.3 1.0
C5' A:A520 4.9 86.4 1.0

Magnesium binding site 4 out of 213 in 4lfb

Go back to Magnesium Binding Sites List in 4lfb
Magnesium binding site 4 out of 213 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1604

b:57.5
occ:1.00
O6 A:G799 4.2 72.4 1.0
O6 A:G798 4.3 73.3 1.0
O6 A:G800 4.4 94.6 1.0
N7 A:G799 4.4 80.2 1.0
N7 A:G798 4.5 64.7 1.0
OP2 A:A781 4.5 65.7 1.0
C6 A:G800 4.9 79.3 1.0
C6 A:G798 4.9 68.8 1.0

Magnesium binding site 5 out of 213 in 4lfb

Go back to Magnesium Binding Sites List in 4lfb
Magnesium binding site 5 out of 213 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1605

b:72.5
occ:1.00
N7 A:G21 4.2 73.8 1.0
OP2 A:G21 4.3 57.2 1.0
OP2 A:U20 4.4 60.5 1.0
O E:GLY124 4.5 92.0 1.0
OP2 A:U561 4.7 86.2 1.0
C8 A:G21 4.9 70.7 1.0

Magnesium binding site 6 out of 213 in 4lfb

Go back to Magnesium Binding Sites List in 4lfb
Magnesium binding site 6 out of 213 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1606

b:34.0
occ:1.00
N7 A:G758 2.2 74.7 1.0
N7 A:G581 2.3 69.7 1.0
C8 A:G758 3.2 82.0 1.0
C5 A:G758 3.3 68.6 1.0
C8 A:G581 3.3 74.3 1.0
C5 A:G581 3.4 64.0 1.0
O6 A:G758 3.5 77.0 1.0
O6 A:G581 3.6 77.2 1.0
C6 A:G758 3.8 67.1 1.0
C6 A:G581 3.8 69.3 1.0
OP2 A:G758 4.2 55.4 1.0
OP2 A:G581 4.4 80.7 1.0
N9 A:G758 4.4 71.3 1.0
C4 A:G758 4.5 67.2 1.0
N9 A:G581 4.5 71.2 1.0
C4 A:G581 4.5 60.4 1.0
OP2 A:U580 4.5 62.8 1.0
C5 A:U757 4.9 70.5 1.0

Magnesium binding site 7 out of 213 in 4lfb

Go back to Magnesium Binding Sites List in 4lfb
Magnesium binding site 7 out of 213 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1607

b:99.0
occ:1.00
O6 A:G660 3.1 95.7 1.0
O6 A:G661 3.4 94.5 1.0
N7 A:G660 3.8 0.9 1.0
C6 A:G660 3.9 91.7 1.0
N7 A:G661 4.1 89.8 1.0
C5 A:G660 4.2 95.8 1.0
C6 A:G661 4.3 92.0 1.0
O4 A:U659 4.3 97.4 1.0
C5 A:G661 4.5 91.1 1.0
C4 A:U659 4.7 95.5 1.0
C5 A:U659 4.7 97.2 1.0
N4 A:C745 5.0 90.3 1.0
C8 A:G660 5.0 0.3 1.0

Magnesium binding site 8 out of 213 in 4lfb

Go back to Magnesium Binding Sites List in 4lfb
Magnesium binding site 8 out of 213 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1608

b:0.1
occ:1.00
OP1 A:U1049 3.7 0.0 1.0
OP2 A:A1204 4.1 0.3 1.0
O N:ALA2 4.1 0.1 1.0
OP1 A:C1203 4.3 0.5 1.0
OP1 A:G1048 4.4 0.6 1.0
OP1 A:A1204 4.4 0.0 1.0
OP2 A:G1048 4.6 0.0 1.0
P A:U1049 4.7 1.0 1.0
OP2 A:U1049 4.7 0.6 1.0
P A:A1204 4.8 0.9 1.0
P A:G1048 4.9 0.1 1.0
C N:ALA2 5.0 0.3 1.0

Magnesium binding site 9 out of 213 in 4lfb

Go back to Magnesium Binding Sites List in 4lfb
Magnesium binding site 9 out of 213 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1609

b:84.0
occ:1.00
C5 A:G190F 4.1 83.9 1.0
C6 A:G190F 4.2 88.5 1.0
C4 A:G190F 4.2 80.3 1.0
N1 A:G190F 4.3 83.3 1.0
C2 A:G190F 4.4 81.3 1.0
N3 A:G190F 4.5 77.2 1.0
N7 A:G190F 4.6 87.2 1.0
O6 A:G190F 4.6 98.3 1.0
N9 A:G190F 4.8 83.6 1.0
C8 A:G190F 4.9 87.0 1.0

Magnesium binding site 10 out of 213 in 4lfb

Go back to Magnesium Binding Sites List in 4lfb
Magnesium binding site 10 out of 213 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1610

b:58.1
occ:1.00
O4 A:U12 2.7 63.9 1.0
O6 A:G22 2.8 69.9 1.0
O6 A:G21 3.1 90.5 1.0
O6 A:G11 3.5 53.9 1.0
C6 A:G21 3.6 68.5 1.0
N4 A:C23 3.6 60.9 1.0
C4 A:U12 3.7 58.5 1.0
C6 A:G22 3.8 56.9 1.0
MG A:MG1721 3.9 94.0 1.0
N3 A:U12 4.0 64.8 1.0
N1 A:G21 4.0 56.9 1.0
N7 A:G22 4.2 64.5 1.0
C5 A:G22 4.4 56.2 1.0
C5 A:G21 4.4 62.5 1.0
C6 A:G11 4.5 56.5 1.0
C4 A:C23 4.7 61.1 1.0
N7 A:G21 5.0 73.8 1.0

Reference:

H.Demirci, R.Belardinelli, J.Carr, F.Murphy Iv, G.Jogl, A.E.Dahlberg, S.T.Gregory. Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus To Be Published 2013.
Page generated: Mon Aug 11 19:20:55 2025

Last articles

Mg in 6KOQ
Mg in 6KNZ
Mg in 6KOP
Mg in 6KON
Mg in 6KOO
Mg in 6KO6
Mg in 6KO1
Mg in 6KMA
Mg in 6KO0
Mg in 6KMD
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy