Calcium in PDB 4urt: The Crystal Structure of A Fragment of Netrin-1 in Complex with FN5-FN6 of Dcc

The structure of The Crystal Structure of A Fragment of Netrin-1 in Complex with FN5-FN6 of Dcc, PDB code: 4urt was solved by L.I.Finci, N.Krueger, X.Sun, J.Zhang, M.Chegkazi, Y.Wu, G.Schenk, H.D.T.Mertens, D.I.Svergun, Y.Zhang, J.-H.Wang, R.Meijers, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	77.659 / 3.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	84.650, 87.410, 155.317, 90.00, 90.00, 90.00
R / Rfree (%)	22.97 / 26.49

The structure of The Crystal Structure of A Fragment of Netrin-1 in Complex with FN5-FN6 of Dcc also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Calcium atom in the The Crystal Structure of A Fragment of Netrin-1 in Complex with FN5-FN6 of Dcc (pdb code 4urt). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the The Crystal Structure of A Fragment of Netrin-1 in Complex with FN5-FN6 of Dcc, PDB code: 4urt:

Calcium binding site 1 out of 1 in the The Crystal Structure of A Fragment of Netrin-1 in Complex with FN5-FN6 of Dcc


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Crystal Structure of A Fragment of Netrin-1 in Complex with FN5-FN6 of Dcc within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1465 b:0.5 occ:1.00 OG1 A:THR118 2.3 0.6 1.0 OD1 A:ASP110 2.4 0.2 1.0 OD1 A:ASN112 2.4 0.7 1.0 O A:SER277 2.4 95.3 1.0 O A:THR118 2.5 1.0 1.0 O A:PHE107 2.5 0.8 1.0 CG A:ASN112 3.4 0.7 1.0 CG A:ASP110 3.5 0.8 1.0 C A:THR118 3.5 0.8 1.0 C A:PHE107 3.6 0.1 1.0 CB A:THR118 3.6 0.2 1.0 C A:SER277 3.7 93.0 1.0 OD2 A:ASP110 3.9 0.6 1.0 CA A:THR118 4.0 0.4 1.0 CB A:ASN112 4.0 97.9 1.0 O A:ASP110 4.1 0.5 1.0 N A:THR118 4.2 0.9 1.0 CA A:PHE107 4.3 0.9 1.0 CA A:ASN112 4.4 0.1 1.0 ND2 A:ASN112 4.4 0.2 1.0 CA A:ASP278 4.5 85.8 1.0 N A:ASP278 4.5 85.4 1.0 CB A:ASP278 4.5 79.4 1.0 N A:ASP110 4.6 0.6 1.0 N A:LEU108 4.6 97.9 1.0 CA A:SER277 4.6 87.4 1.0 O A:LEU108 4.6 94.7 1.0 OD1 A:ASP278 4.7 91.9 1.0 C A:ASP110 4.7 0.6 1.0 C A:LEU108 4.7 94.5 1.0 CB A:PHE107 4.7 0.2 1.0 N A:CYS119 4.7 0.3 1.0 CG2 A:THR118 4.7 0.1 1.0 CB A:ASP110 4.8 98.8 1.0 CA A:LEU108 4.8 89.8 1.0 N A:ASN112 4.9 0.3 1.0 O A:LEU111 4.9 0.9 1.0 CA A:ASP110 4.9 0.5 1.0 CG A:ASP278 4.9 86.8 1.0

L.I.Finci, N.Krueger, X.Sun, J.Zhang, M.Chegkazi, Y.Wu, G.Schenk, H.D.T.Mertens, D.I.Svergun, Y.Zhang, J.-H.Wang, R.Meijers. The Crystal Structure of Netrin-1 in Complex with Dcc Reveals the Bi-Functionality of Netrin-1 As A Guidance Cue Neuron V. 83 839 2014.
ISSN: ISSN 0896-6273
PubMed: 25123307
DOI: 10.1016/J.NEURON.2014.07.010