Calcium in PDB 5ftt: Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr)

The structure of Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr), PDB code: 5ftt was solved by V.A.Jackson, S.Mehmood, M.Chavent, P.Roversi, M.Carrasquero, D.Del Toro, G.Seyit-Bremer, F.M.Ranaivoson, D.Comoletti, M.S.P.Sansom, C.V.Robinson, R.Klein, E.Seiradake, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	133.83 / 3.40
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	231.961, 141.486, 151.491, 90.00, 117.94, 90.00
R / Rfree (%)	22.52 / 24.46

The structure of Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr) also contains other interesting chemical elements:

Sodium

(Na)

4 atoms

The binding sites of Calcium atom in the Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr) (pdb code 5ftt). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr), PDB code: 5ftt:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr) within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca1467 b:1.0 occ:1.00 O C:VAL435 2.2 0.1 1.0 O C:ALA381 2.6 0.1 1.0 OD1 C:ASN380 2.7 0.9 1.0 OD2 C:ASP332 2.8 0.5 1.0 OD1 C:ASP332 2.9 1.0 1.0 CG C:ASP332 3.2 0.1 1.0 C C:VAL435 3.4 0.7 1.0 OD1 C:ASP436 3.4 0.5 1.0 C C:ALA381 3.8 0.6 1.0 CG C:ASN380 4.0 0.2 1.0 NA C:NA1466 4.0 0.8 1.0 N C:VAL435 4.1 0.7 1.0 CG C:ASP436 4.2 0.2 1.0 N C:ASP436 4.2 0.9 1.0 CA C:VAL435 4.3 0.7 1.0 N C:ALA381 4.3 0.0 1.0 CA C:ASP436 4.3 0.7 1.0 O C:LEU333 4.6 0.6 1.0 CA C:ALA381 4.7 0.5 1.0 CB C:ASP332 4.7 0.0 1.0 N C:PHE382 4.7 0.7 1.0 ND2 C:ASN380 4.8 0.6 1.0 CB C:VAL435 4.8 0.4 1.0 CA C:PHE382 4.8 0.7 1.0 OD2 C:ASP436 4.8 0.7 1.0 CB C:ASP436 4.9 0.4 1.0 OH C:TYR323 4.9 0.2 1.0 CB C:PHE382 4.9 0.7 1.0 CB C:ASN380 5.0 0.7 1.0

Calcium binding site 2 out of 4 in the Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr) within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca1466 b:0.8 occ:1.00 OD2 D:ASP332 2.3 0.3 1.0 O D:VAL435 2.6 0.8 1.0 O D:ALA381 2.6 0.8 1.0 CG D:ASP332 2.9 0.1 1.0 OD1 D:ASP332 3.0 0.8 1.0 OD1 D:ASN380 3.0 0.8 1.0 C D:VAL435 3.6 0.5 1.0 C D:ALA381 3.7 0.5 1.0 N D:ALA381 3.9 0.9 1.0 OD1 D:ASP436 4.0 0.3 1.0 N D:VAL435 4.0 0.1 1.0 CG D:ASN380 4.1 0.7 1.0 CA D:VAL435 4.3 0.6 1.0 CB D:ASP332 4.3 0.6 1.0 OH D:TYR323 4.4 0.2 1.0 CA D:ALA381 4.4 0.1 1.0 CB D:ASN380 4.6 0.6 1.0 N D:ASP436 4.6 0.2 1.0 CG D:ASP436 4.6 0.9 1.0 CB D:VAL435 4.8 0.2 1.0 N D:PHE382 4.8 0.8 1.0 CA D:ASP436 4.9 0.8 1.0 O D:LEU333 4.9 0.9 1.0 C D:ASN380 5.0 0.1 1.0 CZ D:TYR323 5.0 0.5 1.0

Calcium binding site 3 out of 4 in the Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr) within 5.0Å range: probe atom residue distance (Å) B Occ G:Ca1467 b:0.9 occ:1.00 OD2 G:ASP332 2.4 0.5 1.0 O G:VAL435 2.4 0.4 1.0 O G:ALA381 2.5 0.5 1.0 OD1 G:ASN380 2.6 0.2 1.0 CG G:ASP332 3.1 0.6 1.0 OD1 G:ASP332 3.1 0.0 1.0 C G:VAL435 3.5 0.9 1.0 OD1 G:ASP436 3.5 0.2 1.0 CG G:ASN380 3.8 0.5 1.0 C G:ALA381 3.8 0.6 1.0 N G:VAL435 4.1 0.3 1.0 CG G:ASP436 4.2 0.6 1.0 N G:ALA381 4.2 0.2 1.0 CA G:VAL435 4.3 0.5 1.0 N G:ASP436 4.4 0.0 1.0 NA G:NA1466 4.4 1.0 1.0 ND2 G:ASN380 4.4 0.5 1.0 CA G:ASP436 4.5 0.8 1.0 CB G:ASP332 4.6 0.0 1.0 CA G:ALA381 4.6 0.5 1.0 O G:LEU333 4.7 0.3 1.0 N G:PHE382 4.7 0.8 1.0 OH G:TYR323 4.7 0.2 1.0 CA G:PHE382 4.8 0.2 1.0 OD2 G:ASP436 4.9 0.4 1.0 CB G:VAL435 4.9 0.6 1.0 CB G:ASN380 4.9 0.4 1.0 CB G:ASP436 5.0 0.4 1.0 CB G:PHE382 5.0 0.6 1.0

Calcium binding site 4 out of 4 in the Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Octameric Complex of Latrophilin 3 (Lec, Olf) , UNC5D (Ig, IG2, TSP1) and FLRT2 (Lrr) within 5.0Å range: probe atom residue distance (Å) B Occ H:Ca1464 b:0.8 occ:1.00 O H:VAL435 2.5 0.9 1.0 OD2 H:ASP332 2.6 0.2 1.0 OD1 H:ASP332 2.7 0.6 1.0 O H:ALA381 2.8 0.7 1.0 OD1 H:ASN380 2.8 0.2 1.0 CG H:ASP332 3.0 0.3 1.0 C H:VAL435 3.5 0.1 1.0 OD1 H:ASP436 3.5 0.2 1.0 C H:ALA381 3.9 0.1 1.0 N H:VAL435 4.0 0.3 1.0 CG H:ASN380 4.0 0.5 1.0 CG H:ASP436 4.2 0.3 1.0 CA H:VAL435 4.3 0.2 1.0 N H:ALA381 4.3 0.0 1.0 N H:ASP436 4.4 0.4 1.0 CB H:ASP332 4.4 0.8 1.0 OH H:TYR323 4.5 0.1 1.0 CA H:ASP436 4.6 0.2 1.0 O H:LEU333 4.7 0.7 1.0 CA H:ALA381 4.7 0.1 1.0 OD2 H:ASP436 4.8 0.3 1.0 ND2 H:ASN380 4.8 0.0 1.0 CB H:VAL435 4.9 0.1 1.0 N H:PHE382 4.9 0.1 1.0 CB H:ASN380 5.0 0.4 1.0

V.A.Jackson, S.Mehmood, M.Chavent, P.Roversi, M.Carrasquero, D.Del Toro, G.Seyit-Bremer, F.M.Ranaivoson, D.Comoletti, M.S.P.Sansom, C.V.Robinson, R.Klein, E.Seiradake. Super-Complexes of Adhesion Gpcrs and Neural Guidance Receptors Nat.Commun. V. 7 11184 2016.
ISSN: ISSN 2041-1723
PubMed: 27091502
DOI: 10.1038/NCOMMS11184