Cobalt in PDB 4cl7: Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt

All present enzymatic activity of Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt:
2.7.10.1;

The structure of Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt, PDB code: 4cl7 was solved by J.-F.Gaucher, M.Reille-Seroussi, N.Gagey-Eilstein, S.Broussy, P.Coric, B.Seijo, M.-B.Lascombe, B.Gautier, W.-Q.Liu, F.Huguenot, N.Inguimbert, S.Bouaziz, M.Vidal, I.Broutin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.469 / 2.00
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	27.746, 41.711, 94.694, 87.05, 82.25, 73.03
R / Rfree (%)	16.75 / 23.32

The binding sites of Cobalt atom in the Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt (pdb code 4cl7). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 5 binding sites of Cobalt where determined in the Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt, PDB code: 4cl7:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5;

Cobalt binding site 1 out of 5 in the Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt within 5.0Å range: probe atom residue distance (Å) B Occ A:Co1226 b:14.6 occ:1.00 NE2 C:HIS223 2.2 17.8 1.0 NE2 C:HIS147 2.2 16.6 1.0 O A:HOH2010 2.2 26.4 1.0 O A:HOH2009 2.3 15.0 1.0 NE2 A:HIS147 2.3 14.4 1.0 NE2 A:HIS223 2.3 21.1 1.0 CD2 A:HIS223 3.0 21.5 1.0 CE1 C:HIS223 3.0 23.3 1.0 CD2 A:HIS147 3.1 16.1 1.0 CE1 C:HIS147 3.2 28.5 1.0 CD2 C:HIS147 3.2 10.5 1.0 CE1 A:HIS147 3.3 18.8 1.0 CD2 C:HIS223 3.3 18.2 1.0 CE1 A:HIS223 3.5 25.6 1.0 O A:HOH2076 3.6 29.3 1.0 ND1 C:HIS223 4.2 18.8 1.0 CG A:HIS223 4.3 16.5 1.0 ND1 C:HIS147 4.3 27.7 1.0 CG A:HIS147 4.3 13.8 1.0 ND1 A:HIS147 4.3 17.0 1.0 CG C:HIS147 4.3 19.4 1.0 CG C:HIS223 4.4 16.9 1.0 O C:ARG224 4.5 10.2 1.0 ND1 A:HIS223 4.5 16.9 1.0 CA A:GLN225 4.8 55.6 1.0 CG A:GLN225 4.9 59.9 1.0

Cobalt binding site 2 out of 5 in the Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt within 5.0Å range: probe atom residue distance (Å) B Occ A:Co1227 b:91.8 occ:1.00 NE2 A:HIS214 2.4 45.5 1.0 O A:HOH2068 2.5 63.4 1.0 O A:HOH2067 2.6 53.7 1.0 O A:HOH2077 2.8 38.0 1.0 O A:HOH2065 3.0 26.4 1.0 CD2 A:HIS214 3.3 38.1 1.0 CE1 A:HIS214 3.3 46.5 1.0 O A:HOH2001 4.0 45.6 1.0 ND1 A:HIS214 4.4 40.3 1.0 CG A:HIS214 4.4 34.0 1.0 O A:ASN212 4.9 18.3 1.0

Cobalt binding site 3 out of 5 in the Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt within 5.0Å range: probe atom residue distance (Å) B Occ B:Co1226 b:37.3 occ:1.00 NE2 D:HIS223 2.2 35.9 1.0 O B:HOH2062 2.3 40.6 1.0 NE2 B:HIS223 2.4 34.4 1.0 NE2 D:HIS147 2.5 46.1 1.0 NE2 B:HIS147 2.5 38.1 1.0 CE1 D:HIS223 2.6 35.4 1.0 CE1 B:HIS223 2.7 35.8 1.0 CD2 D:HIS147 3.3 37.8 1.0 CD2 B:HIS147 3.3 37.2 1.0 CE1 B:HIS147 3.5 42.8 1.0 CD2 D:HIS223 3.5 33.2 1.0 CE1 D:HIS147 3.5 47.9 1.0 CD2 B:HIS223 3.7 36.9 1.0 O D:HOH2068 3.7 54.5 1.0 ND1 D:HIS223 3.8 34.4 1.0 ND1 B:HIS223 4.0 33.9 1.0 CG D:HIS223 4.3 31.9 1.0 CG B:HIS223 4.5 36.4 1.0 CG D:HIS147 4.5 32.1 1.0 CG B:HIS147 4.5 33.1 1.0 ND1 B:HIS147 4.5 37.9 1.0 ND1 D:HIS147 4.6 42.2 1.0 O B:ARG224 4.8 35.0 1.0 O D:ARG224 4.8 44.2 1.0

Cobalt binding site 4 out of 5 in the Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt within 5.0Å range: probe atom residue distance (Å) B Occ B:Co1227 b:90.2 occ:1.00 O B:HOH2057 2.5 43.6 1.0 NE2 B:HIS214 2.6 39.0 1.0 CE1 B:HIS214 3.1 38.2 1.0 O B:HOH2056 3.1 48.0 1.0 O B:HOH2054 3.3 40.8 1.0 O B:HOH2065 3.6 54.6 1.0 CD2 B:HIS214 3.8 33.7 1.0 ND1 B:HIS214 4.4 38.2 1.0 CG B:HIS214 4.8 32.3 1.0

Cobalt binding site 5 out of 5 in the Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Crystal Structure of Vegfr-1 Domain 2 in Presence of Cobalt within 5.0Å range: probe atom residue distance (Å) B Occ C:Co1226 b:34.8 occ:1.00 NE2 C:HIS214 2.1 19.5 1.0 O C:HOH2062 2.2 42.7 1.0 O C:HOH2071 2.3 36.3 1.0 O C:HOH2070 2.5 35.4 1.0 O C:HOH2068 2.6 25.9 1.0 O C:HOH2061 2.8 28.9 1.0 CD2 C:HIS214 3.0 9.9 1.0 CE1 C:HIS214 3.2 19.3 1.0 O C:HOH2069 3.3 40.8 1.0 CG C:HIS214 4.2 16.1 1.0 ND1 C:HIS214 4.3 18.3 1.0

J.-F.Gaucher, M.Reille-Seroussi, N.Gagey-Eilstein, S.Broussy, P.Coric, B.Seijo, M.-B.Lascombe, B.Gautier, W.-Q.Liu, F.Huguenot, N.Inguimbert, S.Bouaziz, M.Vidal, I.Broutin. The Structural Basis of Metal-Induced VEGFR1 Domain 2 Dimerization: Implication on Angiogenic Switch To Be Published.