Sodium in PDB 5mdu: Structure of the Rna Recognition Motif (Rrm) of SEB1 From S. Pombe.

The structure of Structure of the Rna Recognition Motif (Rrm) of SEB1 From S. Pombe., PDB code: 5mdu was solved by S.Wittmann, M.Renner, K.El Omari, O.Adams, L.Vasiljeva, J.Grimes, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.34 / 1.02
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	111.130, 47.170, 32.360, 90.00, 98.88, 90.00
R / Rfree (%)	13.5 / 15.2

The structure of Structure of the Rna Recognition Motif (Rrm) of SEB1 From S. Pombe. also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the Structure of the Rna Recognition Motif (Rrm) of SEB1 From S. Pombe. (pdb code 5mdu). 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 the Rna Recognition Motif (Rrm) of SEB1 From S. Pombe., PDB code: 5mdu:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of the Rna Recognition Motif (Rrm) of SEB1 From S. Pombe.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Rna Recognition Motif (Rrm) of SEB1 From S. Pombe. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na602 b:30.0 occ:1.00 O A:HOH916 2.9 44.5 1.0 O A:HOH814 3.4 38.3 1.0 NZ A:LYS474 3.8 20.5 1.0 NE A:ARG472 4.0 16.2 1.0 CE A:LYS474 4.3 23.4 1.0 CD A:ARG472 4.4 16.8 1.0 CZ A:ARG472 4.9 16.9 1.0

Sodium binding site 2 out of 2 in the Structure of the Rna Recognition Motif (Rrm) of SEB1 From S. Pombe.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of the Rna Recognition Motif (Rrm) of SEB1 From S. Pombe. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na603 b:33.2 occ:1.00 NE A:ARG442 2.6 20.1 1.0 O A:HOH874 2.8 22.9 0.5 NH2 A:ARG442 3.2 25.1 1.0 CZ A:ARG442 3.3 21.5 1.0 O A:HOH845 3.5 37.6 1.0 NH2 A:ARG472 3.6 16.5 1.0 CD A:ARG442 3.6 18.5 1.0 CB A:ARG442 3.9 9.5 1.0 O A:HOH702 3.9 19.5 0.6 CA A:GLY412 3.9 9.2 1.0 N A:GLY412 4.1 8.6 1.0 CG A:ARG442 4.4 13.6 1.0 O A:ARG442 4.5 8.7 1.0 O A:HOH801 4.6 11.3 1.0 NH1 A:ARG442 4.6 23.8 1.0 C A:GLY412 4.7 9.2 1.0 CZ A:ARG472 4.8 16.9 1.0

S.Wittmann, M.Renner, B.R.Watts, O.Adams, M.Huseyin, C.Baejen, K.El Omari, C.Kilchert, D.H.Heo, T.Kecman, P.Cramer, J.M.Grimes, L.Vasiljeva. The Conserved Protein SEB1 Drives Transcription Termination By Binding Rna Polymerase II and Nascent Rna. Nat Commun V. 8 14861 2017.
ISSN: ESSN 2041-1723
PubMed: 28367989
DOI: 10.1038/NCOMMS14861