Calcium in PDB 6v4p: Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex

The structure of Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Calcium atom in the Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex (pdb code 6v4p). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex, PDB code: 6v4p:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in the Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1001 b:37.0 occ:1.00 OE1 A:GLU252 2.3 39.3 1.0 O A:ASP247 2.4 55.0 1.0 O A:THR250 2.4 50.6 1.0 OE2 A:GLU243 2.4 46.2 1.0 OD1 A:ASP245 2.4 49.3 1.0 OG1 A:THR250 2.6 50.6 1.0 OE1 A:GLU243 2.8 46.2 1.0 CD A:GLU243 2.9 46.2 1.0 C A:THR250 3.1 50.6 1.0 CD A:GLU252 3.2 39.3 1.0 OE2 A:GLU252 3.3 39.3 1.0 CG A:ASP245 3.5 49.3 1.0 C A:ASP247 3.5 55.0 1.0 CB A:THR250 3.6 50.6 1.0 CA A:THR250 3.7 50.6 1.0 N A:THR250 3.7 50.6 1.0 OD2 A:ASP245 3.9 49.3 1.0 N A:THR251 4.0 50.5 1.0 CG A:GLU243 4.4 46.2 1.0 CA A:ASP247 4.4 55.0 1.0 CA A:THR251 4.4 50.5 1.0 N A:LEU248 4.5 48.4 1.0 N A:ASP247 4.5 55.0 1.0 CB A:ASP247 4.5 55.0 1.0 CA A:LEU248 4.5 48.4 1.0 CG A:GLU252 4.6 39.3 1.0 N A:GLU252 4.6 39.3 1.0 C A:THR251 4.6 50.5 1.0 N A:ASP245 4.7 49.3 1.0 CB A:ASP245 4.7 49.3 1.0 CA A:GLU243 4.8 46.2 1.0 C A:LEU248 4.8 48.4 1.0 CG2 A:THR250 4.8 50.6 1.0 N A:ASN249 4.8 55.3 1.0 N A:PHE244 5.0 39.9 1.0

Calcium binding site 2 out of 6 in the Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1002 b:25.3 occ:1.00 O A:ARG303 2.3 41.3 1.0 OD1 A:ASP305 2.3 27.5 1.0 OD2 A:ASP305 2.5 27.5 1.0 OD1 A:ASP301 2.5 42.5 1.0 CG A:ASP305 2.7 27.5 1.0 OD1 A:ASP297 2.7 33.3 1.0 OD1 A:ASN299 2.9 36.9 1.0 CG A:ASP301 3.3 42.5 1.0 OD2 A:ASP301 3.4 42.5 1.0 CG A:ASN299 3.5 36.9 1.0 C A:ARG303 3.5 41.3 1.0 ND2 A:ASN299 3.6 36.9 1.0 CG A:ASP297 3.8 33.3 1.0 CB A:ASP305 4.1 27.5 1.0 N A:ASP305 4.2 27.5 1.0 CA A:ARG303 4.2 41.3 1.0 N A:ARG303 4.2 41.3 1.0 CA A:ASP297 4.2 33.3 1.0 CB A:ARG303 4.3 41.3 1.0 C A:HIS304 4.3 36.1 1.0 N A:ASN299 4.4 36.9 1.0 CB A:ASP297 4.5 33.3 1.0 N A:HIS304 4.5 36.1 1.0 N A:VAL298 4.5 35.4 1.0 CA A:ASP305 4.6 27.5 1.0 CD2 A:LEU332 4.6 32.5 1.0 C A:ASP297 4.6 33.3 1.0 N A:GLN333 4.6 39.5 1.0 N A:ASP301 4.6 42.5 1.0 CB A:ASP301 4.7 42.5 1.0 O A:GLN333 4.7 39.5 1.0 CA A:HIS304 4.7 36.1 1.0 CB A:ASN299 4.7 36.9 1.0 OD2 A:ASP297 4.7 33.3 1.0 O A:HIS304 4.8 36.1 1.0 O A:THR296 4.9 25.3 1.0 CA A:ASN299 4.9 36.9 1.0

Calcium binding site 3 out of 6 in the Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1003 b:37.1 occ:1.00 OD1 A:ASP373 2.3 33.0 1.0 OD1 A:ASP369 2.3 49.5 1.0 O A:TYR371 2.4 41.2 1.0 OD1 A:ASP367 2.4 47.6 1.0 OD1 A:ASP365 2.6 45.0 1.0 OD2 A:ASP373 2.6 33.0 1.0 CG A:ASP373 2.8 33.0 1.0 CG A:ASP369 3.4 49.5 1.0 CG A:ASP367 3.5 47.6 1.0 C A:TYR371 3.6 41.2 1.0 CG A:ASP365 3.8 45.0 1.0 OD2 A:ASP369 3.9 49.5 1.0 OD2 A:ASP367 4.0 47.6 1.0 N A:LEU366 4.1 44.9 1.0 N A:ASP367 4.1 47.6 1.0 CA A:ASP365 4.2 45.0 1.0 CB A:ASP373 4.3 33.0 1.0 N A:TYR371 4.3 41.2 1.0 N A:ASP369 4.4 49.5 1.0 CA A:TYR371 4.4 41.2 1.0 C A:ASP365 4.4 45.0 1.0 C A:ASN372 4.5 37.9 1.0 N A:ASP373 4.5 33.0 1.0 N A:ARG368 4.6 52.1 1.0 CB A:ASP369 4.6 49.5 1.0 N A:ASN372 4.6 37.9 1.0 OD2 A:ASP365 4.6 45.0 1.0 CB A:TYR371 4.6 41.2 1.0 CB A:ASP365 4.6 45.0 1.0 CA A:ASN372 4.7 37.9 1.0 CD2 A:LEU393 4.7 38.7 1.0 N A:GLY394 4.7 43.2 1.0 CB A:ASP367 4.7 47.6 1.0 O A:ASN372 4.8 37.9 1.0 CA A:ASP367 4.8 47.6 1.0 CA A:ASP373 4.9 33.0 1.0 O A:GLY394 4.9 43.2 1.0 C A:ASP367 4.9 47.6 1.0 CB A:LEU393 4.9 38.7 1.0 CA A:ASP369 4.9 49.5 1.0 CA A:LEU366 5.0 44.9 1.0

Calcium binding site 4 out of 6 in the Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1004 b:40.1 occ:1.00 OD1 A:ASP434 2.3 36.3 1.0 OD1 A:ASN430 2.3 45.5 1.0 OD1 A:ASP426 2.3 46.2 1.0 OD1 A:ASP428 2.4 46.2 1.0 O A:TYR432 2.4 43.2 1.0 OD2 A:ASP434 2.5 36.3 1.0 CG A:ASP434 2.7 36.3 1.0 CG A:ASP426 3.3 46.2 1.0 CG A:ASP428 3.5 46.2 1.0 CG A:ASN430 3.5 45.5 1.0 C A:TYR432 3.6 43.2 1.0 OD2 A:ASP428 3.8 46.2 1.0 OD2 A:ASP426 4.0 46.2 1.0 CB A:ASP434 4.2 36.3 1.0 N A:TYR432 4.2 43.2 1.0 N A:ASN430 4.3 45.5 1.0 ND2 A:ASN430 4.3 45.5 1.0 CA A:TYR432 4.3 43.2 1.0 N A:ASP434 4.4 36.3 1.0 CA A:ASP426 4.4 46.2 1.0 CB A:ASP426 4.4 46.2 1.0 O A:ALA450 4.4 44.2 1.0 N A:ALA450 4.5 44.2 1.0 CB A:ASN430 4.5 45.5 1.0 C A:PRO433 4.5 41.2 1.0 CB A:TYR432 4.5 43.2 1.0 N A:ASP428 4.5 46.2 1.0 N A:PRO433 4.6 41.2 1.0 N A:ASP429 4.6 50.1 1.0 N A:ILE427 4.7 44.4 1.0 CA A:PRO433 4.7 41.2 1.0 CA A:ASP434 4.7 36.3 1.0 CB A:ASP428 4.7 46.2 1.0 C A:ASP426 4.8 46.2 1.0 CA A:ASN430 4.8 45.5 1.0 O A:PRO433 4.9 41.2 1.0 CD1 A:ILE427 5.0 44.4 1.0

Calcium binding site 5 out of 6 in the Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca702 b:15.7 occ:1.00 O B:SER123 2.3 10.2 1.0 O B:MET335 2.4 26.5 1.0 OD2 B:ASP126 2.4 14.3 1.0 OD1 B:ASP127 2.5 14.5 1.0 CG B:ASP126 3.2 14.3 1.0 CG B:ASP127 3.5 14.5 1.0 OD1 B:ASP126 3.5 14.3 1.0 C B:SER123 3.5 10.2 1.0 C B:MET335 3.5 26.5 1.0 OD2 B:ASP127 3.8 14.5 1.0 OD2 B:ASP251 4.0 16.6 1.0 CA B:MET124 4.0 12.2 1.0 N B:MET124 4.2 12.2 1.0 SD B:MET124 4.4 12.2 1.0 CA B:MET335 4.4 26.5 1.0 N B:ASP336 4.4 18.6 1.0 CA B:ASP336 4.4 18.6 1.0 OD1 D:ASN31 4.4 17.3 1.0 CB B:ASP126 4.5 14.3 1.0 N B:ASP127 4.6 14.5 1.0 CA B:SER123 4.7 10.2 1.0 ND2 D:ASN31 4.7 17.3 1.0 C B:MET124 4.8 12.2 1.0 CB B:ASP127 4.8 14.5 1.0 CB B:SER123 4.8 10.2 1.0 CB B:MET335 4.9 26.5 1.0 N B:ASP126 4.9 14.3 1.0 CB B:MET124 5.0 12.2 1.0 CG D:ASN31 5.0 17.3 1.0

Calcium binding site 6 out of 6 in the Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Structure of the Integrin ALPHAIIBBETA3-Abciximab Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca703 b:18.5 occ:1.00 ND2 B:ASN215 2.3 9.6 1.0 O B:PRO219 2.3 15.7 1.0 OD2 B:ASP158 2.3 14.9 1.0 OD1 B:ASP217 2.4 8.3 1.0 O B:ASP217 2.7 8.3 1.0 CG B:ASP217 3.0 8.3 1.0 C B:ASP217 3.4 8.3 1.0 CG B:ASP158 3.4 14.9 1.0 OD2 B:ASP217 3.4 8.3 1.0 CG B:ASN215 3.5 9.6 1.0 C B:PRO219 3.5 15.7 1.0 OE1 B:GLU220 3.8 10.7 1.0 N B:ASP217 3.9 8.3 1.0 CB B:ASP158 3.9 14.9 1.0 CA B:ASP217 3.9 8.3 1.0 CB B:ASN215 4.0 9.6 1.0 NE2 B:HIS255 4.0 6.7 1.0 CB B:ASP217 4.0 8.3 1.0 N B:PRO219 4.3 15.7 1.0 CD B:GLU220 4.3 10.7 1.0 N B:ALA218 4.3 12.4 1.0 C B:ALA218 4.3 12.4 1.0 CA B:GLU220 4.3 10.7 1.0 N B:GLU220 4.4 10.7 1.0 CB B:TYR164 4.5 7.8 1.0 CD2 B:HIS255 4.5 6.7 1.0 CA B:PRO219 4.5 15.7 1.0 OD1 B:ASP158 4.5 14.9 1.0 O B:ALA218 4.5 12.4 1.0 OD1 B:ASN215 4.5 9.6 1.0 CD1 B:TYR164 4.6 7.8 1.0 OE2 B:GLU220 4.6 10.7 1.0 CA B:ALA218 4.8 12.4 1.0 N B:ARG216 4.8 9.4 1.0 CG B:TYR164 4.9 7.8 1.0 CD B:PRO219 4.9 15.7 1.0 C B:ARG216 4.9 9.4 1.0 CA B:TYR164 5.0 7.8 1.0

D.Nesic, Y.Zhang, A.Spasic, J.Li, D.Provasi, M.Filizola, T.Walz, B.S.Coller. Cryo-Electron Microscopy Structure of the Alpha Iib Beta 3-Abciximab Complex. Arterioscler Thromb Vasc 13671 2020BIOL..
ISSN: ESSN 1524-4636
PubMed: 31969014
DOI: 10.1161/ATVBAHA.119.313671