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Sodium in PDB 3l0o: Structure of Rna-Free Rho Transcription Termination Factor From Thermotoga Maritima

Protein crystallography data

The structure of Structure of Rna-Free Rho Transcription Termination Factor From Thermotoga Maritima, PDB code: 3l0o was solved by A.Canals, I.Uson, M.Coll, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.55 / 2.35
Space group P 43 2 2
Cell size a, b, c (Å), α, β, γ (°) 139.000, 139.000, 150.000, 90.00, 90.00, 90.00
R / Rfree (%) 26.8 / 29.7

Other elements in 3l0o:

The structure of Structure of Rna-Free Rho Transcription Termination Factor From Thermotoga Maritima also contains other interesting chemical elements:

Uranium (U) 7 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Rna-Free Rho Transcription Termination Factor From Thermotoga Maritima (pdb code 3l0o). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of Rna-Free Rho Transcription Termination Factor From Thermotoga Maritima, PDB code: 3l0o:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3l0o

Go back to Sodium Binding Sites List in 3l0o
Sodium binding site 1 out of 2 in the Structure of Rna-Free Rho Transcription Termination Factor From Thermotoga Maritima


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Rna-Free Rho Transcription Termination Factor From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na436

b:49.2
occ:1.00
O2 B:SO4432 2.1 0.8 1.0
N B:LYS185 2.7 35.9 1.0
CA B:LYS185 3.3 38.0 1.0
O B:HOH451 3.5 72.2 1.0
S B:SO4432 3.5 0.8 1.0
C B:PRO184 3.8 34.1 1.0
CG B:LYS185 4.0 41.6 1.0
NH2 A:ARG370 4.0 50.9 1.0
CA B:PRO184 4.1 33.0 1.0
O3 B:SO4432 4.1 0.6 1.0
O1 B:SO4432 4.2 0.8 1.0
CB B:LYS185 4.3 38.6 1.0
O4 B:SO4432 4.4 84.1 1.0
O A:HOH499 4.5 73.9 1.0
C B:LYS185 4.6 37.7 1.0
N B:ALA186 4.7 38.0 1.0
CE B:LYS188 4.8 36.3 1.0
O B:PRO184 4.9 33.6 1.0
CB B:PRO184 4.9 32.6 1.0
O B:PRO183 4.9 31.7 1.0

Sodium binding site 2 out of 2 in 3l0o

Go back to Sodium Binding Sites List in 3l0o
Sodium binding site 2 out of 2 in the Structure of Rna-Free Rho Transcription Termination Factor From Thermotoga Maritima


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of Rna-Free Rho Transcription Termination Factor From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na437

b:66.9
occ:1.00
OE2 B:GLU333 2.9 75.4 1.0
O B:GLY328 3.2 65.3 1.0
C B:GLY328 3.7 65.0 1.0
CD B:GLU333 3.9 74.4 1.0
CA B:GLY328 4.1 64.1 1.0
OE1 B:GLU333 4.2 76.6 1.0
N B:SER329 4.5 65.8 1.0
N B:LYS330 4.6 68.3 1.0
CE B:LYS330 4.7 76.1 1.0
C B:SER329 4.7 67.4 1.0
CG B:LYS330 4.9 71.3 1.0
CA B:SER329 5.0 66.6 1.0

Reference:

A.Canals, I.Uson, M.Coll. The Structure of Rna-Free Rho Termination Factor Indicates A Dynamic Mechanism of Transcript Capture J.Mol.Biol. V. 400 16 2010.
ISSN: ISSN 0022-2836
PubMed: 20452362
DOI: 10.1016/J.JMB.2010.05.004
Page generated: Tue Dec 15 06:16:27 2020

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