Sodium in PDB 4f8d: Crystal Structure of An R46A Mutant of the Restriction-Modification Controller Protein C.ESP1396I (Monoclinic Form)

The structure of Crystal Structure of An R46A Mutant of the Restriction-Modification Controller Protein C.ESP1396I (Monoclinic Form), PDB code: 4f8d was solved by R.N.A.Martin, J.E.Mcgeehan, G.G.Kneale, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.70 / 1.50
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	46.400, 51.000, 74.600, 90.00, 96.60, 90.00
R / Rfree (%)	17.7 / 20

The binding sites of Sodium atom in the Crystal Structure of An R46A Mutant of the Restriction-Modification Controller Protein C.ESP1396I (Monoclinic Form) (pdb code 4f8d). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of An R46A Mutant of the Restriction-Modification Controller Protein C.ESP1396I (Monoclinic Form), PDB code: 4f8d:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of An R46A Mutant of the Restriction-Modification Controller Protein C.ESP1396I (Monoclinic Form)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of An R46A Mutant of the Restriction-Modification Controller Protein C.ESP1396I (Monoclinic Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na102 b:41.5 occ:1.00 O A:HOH217 2.0 35.0 1.0 O B:HOH219 2.8 25.1 1.0 OG A:SER39 2.8 12.6 0.2 NE2 A:GLN24 3.1 13.9 1.0 OE1 B:GLU25 3.1 19.4 0.5 NH2 A:ARG43 3.4 22.3 0.5 O A:HOH207 3.5 22.2 1.0 OE1 A:GLN24 3.6 14.6 1.0 OE2 B:GLU25 3.7 16.1 0.5 CB A:SER39 3.7 8.2 0.2 CB A:SER39 3.7 11.5 0.2 O B:HOH203 3.8 25.5 1.0 CD A:GLN24 3.8 13.2 1.0 CD B:GLU25 3.9 18.8 0.5 OG A:SER39 3.9 19.1 0.5 OE2 B:GLU25 4.0 22.1 0.5 CZ A:ARG43 4.1 20.1 0.5 CA A:SER39 4.1 12.8 0.5 CB A:SER39 4.1 13.2 0.5 CD B:GLU25 4.1 17.5 0.5 OE1 B:GLU25 4.2 21.1 0.5 CA A:SER39 4.3 9.6 0.2 NE A:ARG43 4.3 21.2 0.5 CA A:SER39 4.3 11.6 0.2 O A:SER39 4.5 14.6 0.5 O4 A:SO4101 4.5 32.9 0.8 O A:SER39 4.6 13.1 0.5 C A:SER39 4.8 11.9 0.5 C A:SER39 4.8 10.7 0.5 OG A:SER39 4.8 6.0 0.2 NH1 A:ARG43 4.8 33.7 0.5 CG A:ARG43 4.9 23.8 0.5 NH1 A:ARG43 5.0 22.9 0.5

Sodium binding site 2 out of 2 in the Crystal Structure of An R46A Mutant of the Restriction-Modification Controller Protein C.ESP1396I (Monoclinic Form)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of An R46A Mutant of the Restriction-Modification Controller Protein C.ESP1396I (Monoclinic Form) within 5.0Å range: probe atom residue distance (Å) B Occ B:Na104 b:31.7 occ:1.00 O B:HOH260 1.9 30.5 1.0 OH B:TYR37 2.0 26.8 1.0 OG B:SER52 2.8 14.7 1.0 O B:HOH244 2.9 41.8 1.0 OG1 B:THR49 3.1 13.8 1.0 N B:THR49 3.1 11.8 1.0 CZ B:TYR37 3.2 22.6 1.0 CB B:SER52 3.3 12.2 1.0 CG2 B:THR49 3.5 15.1 1.0 O B:ASN47 3.6 15.1 1.0 CB B:THR49 3.8 12.9 1.0 CA B:LEU48 3.9 11.3 1.0 C B:LEU48 3.9 13.5 1.0 CE1 B:TYR37 3.9 26.0 1.0 CA B:THR49 4.0 11.5 1.0 CE2 B:TYR37 4.1 20.0 1.0 O B:HOH216 4.3 26.4 1.0 CD1 B:LEU48 4.5 15.5 1.0 O B:HOH240 4.5 34.2 1.0 C B:ASN47 4.5 13.9 1.0 CA B:SER52 4.7 11.4 1.0 N B:LEU48 4.7 12.4 1.0 O B:THR49 4.8 12.2 1.0 O B:HOH212 4.9 27.7 1.0 C B:THR49 4.9 12.1 1.0 N B:SER52 4.9 11.6 1.0 CB B:LEU48 5.0 12.6 1.0

R.N.Martin, J.E.Mcgeehan, G.Kneale. Structural and Mutagenic Analysis of the Rm Controller Protein C.ESP1396I. Plos One V. 9 98365 2014.
ISSN: ESSN 1932-6203
PubMed: 24887147
DOI: 10.1371/JOURNAL.PONE.0098365