Calcium in PDB 8gce: The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State

The structure of The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Calcium atom in the The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State (pdb code 8gce). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State, PDB code: 8gce:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in the The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1101 b:65.5 occ:1.00 OE1 A:GLU243 2.3 27.4 1.0 OE2 A:GLU243 2.9 27.4 1.0 CD A:GLU243 2.9 27.4 1.0 O A:LEU248 4.0 30.9 1.0 CB A:LEU248 4.0 30.9 1.0 CA A:LEU248 4.1 30.9 1.0 C A:LEU248 4.3 30.9 1.0 CG A:GLU243 4.4 27.4 1.0 CD2 A:LEU248 4.8 30.9 1.0 CG A:LEU248 4.9 30.9 1.0

Calcium binding site 2 out of 6 in the The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1102 b:23.4 occ:1.00 OD1 A:ASN299 2.3 27.3 1.0 OD1 A:ASP305 2.3 27.4 1.0 O A:ARG303 2.3 25.2 1.0 OD2 A:ASP305 2.3 27.4 1.0 OD1 A:ASP301 2.4 16.4 1.0 ND2 A:ASN299 2.5 27.3 1.0 CG A:ASP305 2.6 27.4 1.0 CG A:ASN299 2.7 27.3 1.0 CG A:ASP301 2.8 16.4 1.0 OD2 A:ASP301 2.8 16.4 1.0 OD1 A:ASP297 2.9 17.5 1.0 C A:ARG303 3.4 25.2 1.0 CB A:ARG303 3.7 25.2 1.0 CA A:ARG303 3.9 25.2 1.0 N A:ARG303 3.9 25.2 1.0 CB A:ASP301 4.1 16.4 1.0 CG A:ASP297 4.1 17.5 1.0 CB A:ASP305 4.1 27.4 1.0 CB A:ASN299 4.2 27.3 1.0 N A:ASP301 4.4 16.4 1.0 N A:ASN299 4.4 27.3 1.0 N A:HIS304 4.5 30.1 1.0 N A:GLN333 4.5 27.7 1.0 N A:ASP305 4.6 27.4 1.0 C A:HIS304 4.6 30.1 1.0 CA A:ASP297 4.7 17.5 1.0 CB A:GLN333 4.7 27.7 1.0 CA A:ASN299 4.8 27.3 1.0 CA A:ASP301 4.8 16.4 1.0 CA A:ASP305 4.8 27.4 1.0 CB A:ASP297 4.8 17.5 1.0 N A:GLY300 4.8 23.3 1.0 CA A:HIS304 4.9 30.1 1.0 O A:HIS304 4.9 30.1 1.0 N A:VAL298 4.9 24.8 1.0 N A:GLY302 5.0 30.0 1.0 OD2 A:ASP297 5.0 17.5 1.0 O A:GLN333 5.0 27.7 1.0 C A:ASP297 5.0 17.5 1.0 CG A:ARG303 5.0 25.2 1.0 C A:ASN299 5.0 27.3 1.0

Calcium binding site 3 out of 6 in the The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1103 b:24.2 occ:1.00 OD1 A:ASP373 2.3 27.4 1.0 OD1 A:ASP369 2.3 28.1 1.0 OD1 A:ASP367 2.3 26.6 1.0 OD2 A:ASP367 2.7 26.6 1.0 CG A:ASP369 2.8 28.1 1.0 OD2 A:ASP373 2.8 27.4 1.0 CG A:ASP367 2.8 26.6 1.0 CG A:ASP373 2.9 27.4 1.0 O A:TYR371 3.1 26.3 1.0 OD2 A:ASP369 3.1 28.1 1.0 OD1 A:ASP365 3.8 26.0 1.0 CB A:ASP369 3.9 28.1 1.0 CB A:LEU393 4.1 26.1 1.0 C A:TYR371 4.2 26.3 1.0 CB A:ASP367 4.3 26.6 1.0 CD2 A:LEU393 4.3 26.1 1.0 CB A:ASP373 4.3 27.4 1.0 O A:GLY394 4.4 26.4 1.0 N A:ASP367 4.5 26.6 1.0 N A:GLY394 4.5 26.4 1.0 CG A:LEU393 4.6 26.1 1.0 CA A:LEU393 4.6 26.1 1.0 CB A:TYR371 4.6 26.3 1.0 N A:ASP369 4.6 28.1 1.0 CD1 A:LEU393 4.7 26.1 1.0 N A:TYR371 4.8 26.3 1.0 CA A:TYR371 4.8 26.3 1.0 CA A:ASP369 4.8 28.1 1.0 CA A:ASP367 4.9 26.6 1.0 C A:LEU393 4.9 26.1 1.0 C A:ASN372 5.0 24.5 1.0 O A:ASN372 5.0 24.5 1.0

Calcium binding site 4 out of 6 in the The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1104 b:20.7 occ:1.00 OD1 A:ASP434 2.2 27.4 1.0 OD1 A:ASP428 2.3 27.4 1.0 OD2 A:ASP434 2.3 27.4 1.0 OD1 A:ASN430 2.3 27.4 1.0 CG A:ASP434 2.5 27.4 1.0 CG A:ASN430 2.6 27.4 1.0 OD1 A:ASP426 2.8 27.4 1.0 ND2 A:ASN430 2.9 27.4 1.0 CG A:ASP428 3.1 27.4 1.0 OD2 A:ASP428 3.3 27.4 1.0 CB A:ASN430 3.6 27.4 1.0 O A:TYR432 3.7 27.4 1.0 CG A:ASP426 3.8 27.4 1.0 CB A:ASP434 4.1 27.4 1.0 O A:ALA450 4.1 29.1 1.0 OD2 A:ASP426 4.2 27.4 1.0 N A:ASP428 4.5 27.4 1.0 CB A:ASP428 4.5 27.4 1.0 N A:ASN430 4.6 27.4 1.0 N A:ILE427 4.6 27.4 1.0 N A:ALA450 4.6 29.1 1.0 CA A:ASN430 4.6 27.4 1.0 C A:TYR432 4.7 27.4 1.0 CG A:ARG449 4.7 27.4 1.0 N A:ASP434 4.7 27.4 1.0 CA A:ASP434 4.8 27.4 1.0 CG2 A:ILE427 4.8 27.4 1.0 CB A:TYR432 4.9 27.4 1.0 CB A:ARG449 4.9 27.4 1.0 N A:TYR432 5.0 27.4 1.0 CA A:ASP428 5.0 27.4 1.0 CA A:ARG449 5.0 27.4 1.0

Calcium binding site 5 out of 6 in the The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca2002 b:28.3 occ:1.00 O B:SER123 2.3 11.8 1.0 OD2 B:ASP251 2.4 12.4 1.0 OD1 B:ASP127 3.4 21.6 1.0 CG B:ASP251 3.4 12.4 1.0 C B:SER123 3.5 11.8 1.0 OD1 B:ASP126 3.8 18.9 1.0 CB B:ASP251 4.0 12.4 1.0 CG B:ASP127 4.2 21.6 1.0 OD2 B:ASP126 4.2 18.9 1.0 CB B:SER123 4.2 11.8 1.0 OD2 B:ASP127 4.4 21.6 1.0 N B:MET124 4.4 12.2 1.0 CA B:MET124 4.4 12.2 1.0 OD1 B:ASP251 4.4 12.4 1.0 CG B:ASP126 4.4 18.9 1.0 CA B:SER123 4.4 11.8 1.0 O B:MET335 4.4 27.1 1.0 OG B:SER123 4.5 11.8 1.0 CE B:MET124 4.7 12.2 1.0 SD B:MET124 4.7 12.2 1.0 SD B:MET335 4.9 27.1 1.0

Calcium binding site 6 out of 6 in the The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of The Extracellular Domain of Integrin ALPHAIIBBETA3 in Intermediate State within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca2003 b:19.4 occ:1.00 OD1 B:ASP217 2.2 34.6 1.0 ND2 B:ASN215 2.3 7.6 1.0 O B:PRO219 2.5 34.6 1.0 OD2 B:ASP158 2.5 8.7 1.0 CG B:ASP217 2.9 34.6 1.0 OD2 B:ASP217 3.2 34.6 1.0 O B:ASP217 3.3 34.6 1.0 CG B:ASP158 3.4 8.7 1.0 CG B:ASN215 3.5 7.6 1.0 NE2 B:HIS255 3.5 8.9 1.0 C B:PRO219 3.7 34.6 1.0 OE1 B:GLU220 3.8 7.7 1.0 CB B:ASP158 3.8 8.7 1.0 CD2 B:HIS255 3.9 8.9 1.0 CB B:ASN215 4.0 7.6 1.0 C B:ASP217 4.0 34.6 1.0 CB B:ASP217 4.2 34.6 1.0 N B:ASP217 4.3 34.6 1.0 CA B:GLU220 4.3 7.7 1.0 CA B:ASP217 4.4 34.6 1.0 N B:GLU220 4.5 7.7 1.0 OD1 B:ASP158 4.5 8.7 1.0 OD1 B:ASN215 4.5 7.6 1.0 CD B:GLU220 4.5 7.7 1.0 CD1 B:TYR164 4.6 10.6 1.0 CB B:TYR164 4.6 10.6 1.0 O B:TYR164 4.7 10.6 1.0 CE1 B:HIS255 4.7 8.9 1.0 N B:PRO219 4.8 34.6 1.0 CA B:PRO219 4.8 34.6 1.0 C B:ALA218 4.9 34.6 1.0

T.Huo, H.Wu, Z.Moussa, M.Sen, V.Daltion, Z.Wang. Full-Length ALPHAIIBBETA3 Cryoem Structure Reveals Intact Integrin Initiate-Activation Intrinsic Architecture To Be Published.