Calcium in PDB 2bo2: Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium.

The structure of Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium., PDB code: 2bo2 was solved by R.J.M.Abbott, I.Spendlove, P.Roversi, P.Teriete, V.Knott, P.A.Handford, J.M.Mcdonnell, S.M.Lea, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.540 / 2.60
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	80.845, 61.377, 35.584, 90.00, 84.10, 90.00
R / Rfree (%)	23.8 / 26

The structure of Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium. also contains other interesting chemical elements:

Arsenic

(As)

1 atom

The binding sites of Calcium atom in the Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium. (pdb code 2bo2). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium., PDB code: 2bo2:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca155 b:22.5 occ:1.00 OD1 A:ASP95 2.3 35.4 1.0 OD1 A:ASN114 2.4 29.6 1.0 O A:THR115 2.4 34.3 1.0 O A:VAL96 2.4 25.6 1.0 O A:SER118 2.5 28.4 1.0 O A:HOH2018 2.6 15.0 1.0 OE2 A:GLU98 2.8 39.6 1.0 CG A:ASP95 3.2 35.0 1.0 OD2 A:ASP95 3.4 43.0 1.0 CG A:ASN114 3.4 35.3 1.0 C A:VAL96 3.6 25.8 1.0 CD A:GLU98 3.6 44.0 1.0 C A:THR115 3.6 34.5 1.0 OE1 A:GLU98 3.7 31.0 1.0 C A:SER118 3.7 29.0 1.0 ND2 A:ASN114 3.8 23.4 1.0 N A:SER118 3.9 26.6 1.0 N A:GLY117 4.0 27.9 1.0 N A:THR115 4.1 30.6 1.0 N A:VAL96 4.2 22.7 1.0 CA A:SER118 4.3 25.6 1.0 C A:GLY117 4.4 30.7 1.0 N A:ASP97 4.4 22.5 1.0 CA A:VAL96 4.5 22.0 1.0 CA A:ASP97 4.5 22.4 1.0 O A:GLY75 4.5 20.3 1.0 CA A:THR115 4.5 30.2 1.0 N A:VAL116 4.5 30.8 1.0 CA A:VAL116 4.6 30.1 1.0 CB A:ASP95 4.6 24.4 1.0 N A:GLU98 4.6 22.2 1.0 C A:VAL116 4.6 33.0 1.0 CA A:GLY117 4.7 27.2 1.0 CB A:ASN114 4.7 26.1 1.0 N A:TYR119 4.8 25.9 1.0 CB A:TYR119 4.9 26.5 1.0 C A:ASP95 4.9 26.2 1.0 C A:ASN114 5.0 33.6 1.0 CB A:VAL96 5.0 25.2 1.0 OG1 A:THR115 5.0 35.1 1.0

Calcium binding site 2 out of 4 in the Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca156 b:27.8 occ:1.00 O A:HOH2014 2.2 34.8 1.0 OD1 A:ASN63 2.3 26.6 1.0 O A:ILE44 2.3 23.4 1.0 OD1 A:ASP43 2.3 29.2 1.0 O A:SER67 2.4 25.2 1.0 O A:THR64 2.5 28.2 1.0 OE1 A:GLU46 2.7 19.3 1.0 CG A:ASP43 3.3 28.7 1.0 CG A:ASN63 3.3 34.6 1.0 C A:SER67 3.4 25.1 1.0 OD2 A:ASP43 3.5 33.2 1.0 N A:SER67 3.5 22.5 1.0 C A:ILE44 3.5 24.8 1.0 C A:THR64 3.6 28.4 1.0 CD A:GLU46 3.7 33.3 1.0 ND2 A:ASN63 3.7 25.7 1.0 N A:THR64 3.8 23.2 1.0 CA A:SER67 3.9 21.9 1.0 OE2 A:GLU46 4.0 21.6 1.0 N A:GLY66 4.0 23.9 1.0 CA A:ASN45 4.3 21.9 1.0 N A:ASN45 4.4 21.8 1.0 C A:GLY66 4.4 26.3 1.0 N A:GLU46 4.4 22.8 1.0 CA A:THR64 4.4 23.2 1.0 N A:ILE44 4.4 21.9 1.0 N A:TYR68 4.6 20.4 1.0 CB A:ASN63 4.6 18.9 1.0 CA A:ILE44 4.6 21.4 1.0 N A:GLU65 4.6 25.8 1.0 CB A:ASP43 4.7 22.9 1.0 CA A:GLY66 4.7 23.4 1.0 C A:ASN63 4.7 25.0 1.0 CA A:ASN63 4.8 20.1 1.0 CA A:GLU65 4.8 25.3 1.0 O A:GLY26 4.8 23.1 1.0 OG1 A:THR64 4.8 30.4 1.0 C A:GLU65 4.8 28.0 1.0 C A:ASP43 4.9 25.3 1.0 CB A:TYR68 4.9 20.2 1.0 C A:ASN45 4.9 26.1 1.0 CA A:TYR68 5.0 19.8 1.0 CG A:GLU46 5.0 28.7 1.0

Calcium binding site 3 out of 4 in the Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium. within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca155 b:54.5 occ:1.00 O B:VAL96 2.4 56.2 1.0 OD2 B:ASP95 2.4 76.4 1.0 OD1 B:ASN114 2.5 62.5 1.0 O B:SER118 2.6 55.0 1.0 O B:THR115 2.6 50.8 1.0 OE2 B:GLU98 2.7 69.8 1.0 OD1 B:ASP95 2.7 71.5 1.0 CG B:ASP95 2.9 70.6 1.0 CG B:ASN114 3.4 68.5 1.0 C B:VAL96 3.5 57.0 1.0 CD B:GLU98 3.6 74.3 1.0 C B:SER118 3.7 55.6 1.0 ND2 B:ASN114 3.7 60.4 1.0 OE1 B:GLU98 3.8 60.1 1.0 C B:THR115 3.8 51.3 1.0 N B:VAL96 3.9 55.1 1.0 N B:SER118 4.0 50.9 1.0 N B:THR115 4.1 47.6 1.0 N B:GLY117 4.1 49.5 1.0 CA B:SER118 4.2 50.9 1.0 CA B:VAL96 4.2 54.3 1.0 C B:GLY117 4.2 53.8 1.0 CB B:ASP95 4.3 58.8 1.0 N B:ASP97 4.4 52.7 1.0 O B:GLY75 4.5 50.2 1.0 C B:ASP95 4.5 59.5 1.0 CA B:ASP97 4.6 52.1 1.0 CA B:THR115 4.6 47.3 1.0 O B:GLY117 4.6 53.3 1.0 N B:GLU98 4.7 50.9 1.0 CA B:GLY117 4.7 49.5 1.0 CB B:ASN114 4.8 47.2 1.0 N B:TYR119 4.8 53.0 1.0 N B:VAL116 4.8 48.3 1.0 CA B:ASP95 4.8 56.7 1.0 OG1 B:THR115 4.8 51.0 1.0 CB B:VAL96 4.9 58.0 1.0 CA B:VAL116 4.9 48.1 1.0 CB B:TYR119 5.0 54.6 1.0

Calcium binding site 4 out of 4 in the Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Egf Domains 1,2,5 of Human EMR2, A 7-Tm Immune System Molecule, in Complex with Calcium. within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca156 b:64.2 occ:1.00 O B:HOH2002 2.1 62.6 1.0 OD1 B:ASN63 2.2 56.2 1.0 O B:ILE44 2.2 54.5 1.0 OD1 B:ASP43 2.4 58.5 1.0 O B:SER67 2.5 53.4 1.0 O B:THR64 2.7 56.3 1.0 OE1 B:GLU46 3.0 59.0 1.0 CG B:ASN63 3.1 65.0 1.0 CG B:ASP43 3.3 59.1 1.0 C B:SER67 3.4 53.7 1.0 ND2 B:ASN63 3.4 56.0 1.0 C B:ILE44 3.5 54.6 1.0 OD2 B:ASP43 3.5 64.1 1.0 N B:SER67 3.6 50.6 1.0 C B:THR64 3.8 56.8 1.0 CA B:SER67 3.9 50.2 1.0 N B:THR64 3.9 52.0 1.0 CD B:GLU46 3.9 71.0 1.0 OE2 B:GLU46 4.2 58.9 1.0 N B:GLY66 4.2 51.1 1.0 CA B:ASN45 4.2 50.6 1.0 N B:ASN45 4.3 50.9 1.0 N B:ILE44 4.3 50.1 1.0 CB B:ASN63 4.4 49.7 1.0 C B:GLY66 4.5 54.1 1.0 N B:TYR68 4.5 49.9 1.0 CA B:ILE44 4.5 49.8 1.0 CA B:THR64 4.5 52.3 1.0 N B:GLU46 4.5 51.2 1.0 CA B:ASN63 4.7 49.9 1.0 CB B:ASP43 4.7 51.8 1.0 C B:ASN63 4.7 54.4 1.0 O B:GLY26 4.8 56.6 1.0 CB B:TYR68 4.8 49.7 1.0 CA B:GLY66 4.8 50.6 1.0 N B:GLU65 4.8 53.5 1.0 OG1 B:THR64 4.9 60.1 1.0 C B:ASP43 4.9 53.9 1.0 CA B:TYR68 4.9 49.5 1.0 C B:ASN45 5.0 54.2 1.0 CB B:ILE44 5.0 52.5 1.0

R.J.M.Abbott, I.Spendlove, P.Roversi, H.Fitzgibbon, V.Knott, P.Teriete, J.M.Mcdonnell, P.A.Handford, S.M.Lea. Structural and Functional Characterization of A Novel T Cell Receptor Co-Regulatory Protein Complex, CD97-CD55. J.Biol.Chem. V. 282 22023 2007.
ISSN: ISSN 0021-9258
PubMed: 17449467
DOI: 10.1074/JBC.M702588200