Sodium in PDB 1det: Ribonuclease T1 Carboxymethylated at Glu 58 in Complex with 2'Gmp

All present enzymatic activity of Ribonuclease T1 Carboxymethylated at Glu 58 in Complex with 2'Gmp:
3.1.27.3;

The structure of Ribonuclease T1 Carboxymethylated at Glu 58 in Complex with 2'Gmp, PDB code: 1det was solved by K.Ishikawa, E.Suzuki, M.Tanokura, K.Takahashi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 1.80
Space group	I 2 3
Cell size a, b, c (Å), α, β, γ (°)	88.690, 88.690, 88.690, 90.00, 90.00, 90.00
R / Rfree (%)	19.4 / n/a

The binding sites of Sodium atom in the Ribonuclease T1 Carboxymethylated at Glu 58 in Complex with 2'Gmp (pdb code 1det). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Ribonuclease T1 Carboxymethylated at Glu 58 in Complex with 2'Gmp, PDB code: 1det:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Ribonuclease T1 Carboxymethylated at Glu 58 in Complex with 2'Gmp


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Ribonuclease T1 Carboxymethylated at Glu 58 in Complex with 2'Gmp within 5.0Å range: probe atom residue distance (Å) B Occ A:Na106 b:35.0 occ:1.00 O A:HOH236 2.1 32.3 1.0 O A:GLY30 2.4 23.8 1.0 C A:GLY30 3.6 22.8 1.0 O A:HOH256 3.8 28.5 1.0 O A:HOH242 4.1 40.0 1.0 CA A:GLU31 4.2 21.5 1.0 N A:GLU31 4.3 22.2 1.0 CG A:GLU31 4.7 19.9 1.0 CA A:GLY30 4.8 22.4 1.0

Sodium binding site 2 out of 2 in the Ribonuclease T1 Carboxymethylated at Glu 58 in Complex with 2'Gmp


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Ribonuclease T1 Carboxymethylated at Glu 58 in Complex with 2'Gmp within 5.0Å range: probe atom residue distance (Å) B Occ A:Na107 b:31.8 occ:1.00 O A:HOH268 2.5 45.6 1.0 N A:GLY97 4.3 30.1 1.0 CA A:GLY97 4.5 28.0 1.0 O A:GLY97 4.6 25.8 1.0

K.Ishikawa, E.Suzuki, M.Tanokura, K.Takahashi. Crystal Structure of Ribonuclease T1 Carboxymethylated at GLU58 in Complex with 2'-Gmp. Biochemistry V. 35 8329 1996.
ISSN: ISSN 0006-2960
PubMed: 8679590
DOI: 10.1021/BI960493D