Sodium in PDB 2vj3: Human Notch-1 Egfs 11-13

The structure of Human Notch-1 Egfs 11-13, PDB code: 2vj3 was solved by S.Johnson, J.Cordle, J.Z.Tay, P.Roversi, S.M.Lea, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	95.40 / 2.60
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	28.000, 28.000, 281.700, 90.00, 90.00, 120.00
R / Rfree (%)	23.9 / 24.4

The structure of Human Notch-1 Egfs 11-13 also contains other interesting chemical elements:

Chlorine	(Cl)	2 atoms
Calcium	(Ca)	4 atoms

The binding sites of Sodium atom in the Human Notch-1 Egfs 11-13 (pdb code 2vj3). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Human Notch-1 Egfs 11-13, PDB code: 2vj3:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Human Notch-1 Egfs 11-13


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Human Notch-1 Egfs 11-13 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1535 b:44.4 occ:1.00 CG A:GLN526 2.6 39.6 1.0 CL A:CL1537 2.8 65.1 1.0 OE1 A:GLN526 3.1 52.1 1.0 CD A:GLN526 3.2 55.9 1.0 N A:LEU524 3.2 32.8 1.0 CB A:LEU524 3.2 32.6 1.0 N A:GLN526 3.3 30.5 1.0 CA A:LEU524 3.5 32.1 1.0 CB A:GLN526 3.5 31.6 1.0 N A:CYS525 3.5 30.8 1.0 C A:LEU524 3.7 35.0 1.0 CA A:GLN526 4.0 30.1 1.0 CG A:LEU524 4.1 36.5 1.0 CD1 A:LEU524 4.1 36.8 1.0 O A:THR521 4.2 41.6 1.0 N A:GLY522 4.2 36.6 1.0 N A:HIS523 4.3 34.6 1.0 NE2 A:GLN526 4.3 45.5 1.0 C A:CYS525 4.3 34.6 1.0 C A:HIS523 4.3 36.9 1.0 CA A:CYS525 4.4 30.5 1.0 O A:LEU524 4.5 34.8 1.0 N A:VAL527 4.5 34.2 1.0 C A:THR521 4.7 40.6 1.0 C A:GLN526 4.7 35.6 1.0 CA A:HIS523 4.7 34.6 1.0 CG2 A:VAL527 5.0 37.2 1.0

Sodium binding site 2 out of 2 in the Human Notch-1 Egfs 11-13


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Human Notch-1 Egfs 11-13 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1536 b:32.2 occ:1.00 OE1 A:GLU483 2.8 37.7 1.0 CD A:GLU483 4.0 47.5 1.0 OE2 A:GLU483 4.5 38.3 1.0

J.Cordle, S.Johnson, J.Z.Tay, P.Roversi, M.B.Wilkin, B.H.De Madrid, H.Shimizu, S.Jensen, P.Whiteman, B.Jin, C.Redfield, M.Baron, S.M.Lea, P.A.Handford. A Conserved Face of the Jagged/Serrate Dsl Domain Is Involved in Notch Trans-Activation and Cis-Inhibition. Nat.Struct.Mol.Biol. V. 15 849 2008.
ISSN: ISSN 1545-9993
PubMed: 18660822
DOI: 10.1038/NSMB.1457