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Sodium in PDB 1jms: Crystal Structure of the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase

Enzymatic activity of Crystal Structure of the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase

All present enzymatic activity of Crystal Structure of the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase:
2.7.7.31;

Protein crystallography data

The structure of Crystal Structure of the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase, PDB code: 1jms was solved by M.Delarue, J.B.Boule, J.Lescar, N.Expert-Bezancon, N.Sukumar, N.Jourdan, F.Rougeon, C.Papanicolaou, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 18.00 / 2.36
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.100, 85.200, 111.700, 90.00, 90.00, 90.00
R / Rfree (%) 21.4 / 25.9

Other elements in 1jms:

The structure of Crystal Structure of the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase (pdb code 1jms). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase, PDB code: 1jms:

Sodium binding site 1 out of 1 in 1jms

Go back to Sodium Binding Sites List in 1jms
Sodium binding site 1 out of 1 in the Crystal Structure of the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase


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 the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na702

b:48.2
occ:1.00
 O A:THR253 2.5 35.0 1.0
O A:VAL255 2.8 30.6 1.0
O A:HOH802 2.8 39.1 1.0
O A:VAL258 3.1 30.9 1.0
C A:THR253 3.6 34.2 1.0
C A:VAL255 3.7 30.4 1.0
N A:VAL258 4.0 29.2 1.0
C A:VAL258 4.0 31.4 1.0
CA A:THR253 4.2 35.4 1.0
CA A:PHE256 4.2 30.8 1.0
N A:GLY257 4.3 30.9 1.0
N A:VAL255 4.3 33.2 1.0
N A:PHE256 4.3 30.3 1.0
CA A:VAL258 4.4 31.1 1.0
CG2 A:THR253 4.5 38.5 1.0
C A:SER254 4.6 33.6 1.0
C A:PHE256 4.6 31.4 1.0
CA A:VAL255 4.6 31.3 1.0
CB A:VAL258 4.6 31.7 1.0
N A:SER254 4.6 33.6 1.0
CB A:THR253 4.9 35.5 1.0
CA A:SER254 4.9 34.0 1.0
C A:GLY257 4.9 30.5 1.0

Reference:

M.Delarue, J.B.Boule, J.Lescar, N.Expert-Bezancon, N.Jourdan, N.Sukumar, F.Rougeon, C.Papanicolaou. Crystal Structures of A Template-Independent Dna Polymerase: Murine Terminal Deoxynucleotidyltransferase. Embo J. V. 21 427 2002.
ISSN: ISSN 0261-4189
PubMed: 11823435
DOI: 10.1093/EMBOJ/21.3.427
Page generated: Sun Aug 17 05:21:06 2025

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