Chlorine in PDB 4plm: Crystal Structure of Chicken Netrin-1 (Ln-LE3)

The structure of Crystal Structure of Chicken Netrin-1 (Ln-LE3), PDB code: 4plm was solved by K.Xu, D.B.Nikolov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.64 / 2.80
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	62.627, 62.627, 269.788, 90.00, 90.00, 120.00
R / Rfree (%)	19.2 / 25.7

The structure of Crystal Structure of Chicken Netrin-1 (Ln-LE3) also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Calcium	(Ca)	1 atom

The binding sites of Chlorine atom in the Crystal Structure of Chicken Netrin-1 (Ln-LE3) (pdb code 4plm). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Crystal Structure of Chicken Netrin-1 (Ln-LE3), PDB code: 4plm:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Crystal Structure of Chicken Netrin-1 (Ln-LE3)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Chicken Netrin-1 (Ln-LE3) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl505 b:82.1 occ:1.00 NH1 A:ARG157 3.6 75.6 1.0 NH2 A:ARG157 3.7 82.7 1.0 ND1 A:HIS209 3.7 85.6 1.0 CA A:HIS209 4.1 81.6 1.0 N A:HIS209 4.1 84.5 1.0 CZ A:ARG157 4.1 75.8 1.0 CE1 A:HIS209 4.1 84.4 1.0 CG A:HIS209 4.2 83.9 1.0 CB A:HIS209 4.6 75.9 1.0 NE2 A:HIS209 4.7 86.4 1.0 CD2 A:HIS209 4.7 84.7 1.0

Chlorine binding site 2 out of 2 in the Crystal Structure of Chicken Netrin-1 (Ln-LE3)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Chicken Netrin-1 (Ln-LE3) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl506 b:0.5 occ:1.00 NE2 A:HIS105 2.7 91.5 1.0 MG A:MG507 2.9 66.8 1.0 CD2 A:HIS105 3.2 93.8 1.0 CB A:CYS121 3.5 51.3 1.0 CE1 A:HIS105 3.6 93.6 1.0 SG A:CYS121 3.8 81.9 1.0 CG A:HIS105 4.3 94.9 1.0 ND1 A:HIS105 4.5 93.9 1.0 CA A:CYS121 4.5 71.4 1.0 N A:CYS121 4.5 69.5 1.0 O A:CYS121 4.6 76.8 1.0 OE1 A:GLN123 4.7 68.8 1.0 C A:CYS121 4.9 76.5 1.0 OH A:TYR79 5.0 85.0 1.0

K.Xu, Z.Wu, N.Renier, A.Antipenko, D.Tzvetkova-Robev, Y.Xu, M.Minchenko, V.Nardi-Dei, K.R.Rajashankar, J.Himanen, M.Tessier-Lavigne, D.B.Nikolov. Neural Migration. Structures of Netrin-1 Bound to Two Receptors Provide Insight Into Its Axon Guidance Mechanism. Science V. 344 1275 2014.
ISSN: ESSN 1095-9203
PubMed: 24876346
DOI: 10.1126/SCIENCE.1255149