Calcium in PDB 6vfw: Crystal Structure of Human Delta Protocadherin 10 EC1-EC4

The structure of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4, PDB code: 6vfw was solved by O.J.Harrison, J.Brasch, L.Shapiro, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.99 / 3.60
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	346.550, 73.193, 246.328, 90.00, 132.06, 90.00
R / Rfree (%)	27.7 / 29.5

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 45;

Binding sites:

The binding sites of Calcium atom in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 (pdb code 6vfw). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 45 binding sites of Calcium where determined in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4, PDB code: 6vfw:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 45 in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:0.0 occ:1.00 OD1 A:ASP63 2.3 0.5 1.0 OD2 A:ASP100 2.4 0.9 1.0 OE1 A:GLU9 2.5 0.8 1.0 OE1 A:GLU10 2.5 0.4 1.0 OE2 A:GLU65 2.5 0.9 1.0 O A:HOH603 2.6 0.4 1.0 CG A:ASP63 3.3 0.6 1.0 CG A:ASP100 3.3 0.6 1.0 CD A:GLU9 3.4 0.4 1.0 HA A:ASP63 3.5 0.6 1.0 OD1 A:ASP100 3.6 0.4 1.0 CD A:GLU10 3.6 0.1 1.0 CD A:GLU65 3.7 0.5 1.0 HD21 A:ASN101 3.8 0.2 1.0 OE2 A:GLU9 3.8 0.2 1.0 H A:GLU65 3.8 0.2 1.0 HG2 A:GLU10 3.8 0.1 1.0 OD2 A:ASP63 4.0 0.5 1.0 HG3 A:GLU10 4.0 0.1 1.0 HB2 A:GLU65 4.0 0.2 1.0 H A:ARG64 4.0 0.9 1.0 CA A:CA502 4.1 0.1 1.0 CG A:GLU10 4.1 0.9 1.0 CB A:ASP63 4.1 0.2 1.0 CA A:ASP63 4.2 0.9 1.0 HB2 A:ASP63 4.2 0.4 1.0 N A:ARG64 4.4 0.6 1.0 ND2 A:ASN101 4.5 0.5 1.0 OE1 A:GLU65 4.5 0.5 1.0 HD22 A:ASN101 4.6 0.2 1.0 C A:ASP63 4.6 0.0 1.0 CG A:GLU65 4.6 0.9 1.0 HB2 A:GLU9 4.6 0.6 1.0 HG2 A:GLU65 4.7 0.2 1.0 OE2 A:GLU10 4.7 0.3 1.0 CB A:ASP100 4.7 0.6 1.0 N A:GLU65 4.7 1.0 1.0 HD11 A:ILE98 4.7 0.9 1.0 CG A:GLU9 4.7 0.6 1.0 CB A:GLU65 4.7 0.8 1.0 HG3 A:GLU9 4.8 0.3 1.0 HB2 A:ASP100 4.8 0.3 1.0 HG12 A:ILE98 4.9 0.4 1.0 HB3 A:ASP100 5.0 0.3 1.0 HG13 A:ILE98 5.0 0.4 1.0

Calcium binding site 2 out of 45 in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca502 b:0.1 occ:1.00 OE1 A:GLU65 2.3 0.5 1.0 OD1 A:ASP100 2.4 0.4 1.0 OD1 A:ASP133 2.4 0.0 1.0 OE2 A:GLU9 2.4 0.2 1.0 OD1 A:ASP97 2.5 0.2 1.0 OE2 A:GLU65 2.5 0.9 1.0 O A:ILE98 2.6 0.1 1.0 CD A:GLU65 2.7 0.5 1.0 HD22 A:ASN101 3.3 0.2 1.0 H A:ASP100 3.3 0.5 1.0 H A:ILE98 3.4 0.5 1.0 CD A:GLU9 3.5 0.4 1.0 CG A:ASP100 3.5 0.6 1.0 CG A:ASP133 3.6 0.7 1.0 HG13 A:ILE98 3.6 0.4 1.0 C A:ILE98 3.7 0.1 1.0 CG A:ASP97 3.7 0.4 1.0 OE1 A:GLU9 3.9 0.8 1.0 ND2 A:ASN101 4.0 0.5 1.0 HG12 A:ILE98 4.0 0.4 1.0 N A:ILE98 4.0 0.3 1.0 HD21 A:ASN101 4.0 0.2 1.0 HA A:ASP133 4.0 0.5 1.0 OD2 A:ASP100 4.0 0.9 1.0 HE A:ARG64 4.0 0.8 1.0 CA A:CA501 4.1 0.0 1.0 CG A:GLU65 4.1 0.9 1.0 N A:ASP100 4.2 0.7 1.0 HH21 A:ARG64 4.2 0.2 1.0 CG1 A:ILE98 4.3 0.5 1.0 HG2 A:GLU65 4.3 0.2 1.0 HB3 A:ARG64 4.3 0.3 1.0 OD2 A:ASP133 4.3 0.7 1.0 OD2 A:ASP97 4.3 0.1 1.0 HG3 A:GLU65 4.3 0.2 1.0 HA A:ASN99 4.4 0.8 1.0 HA A:ASP97 4.4 0.1 1.0 CA A:ILE98 4.4 0.7 1.0 HB3 A:ASP133 4.4 0.1 1.0 CB A:ASP133 4.5 0.3 1.0 H A:GLU65 4.6 0.2 1.0 N A:ASN99 4.7 0.8 1.0 CA A:ASP133 4.7 0.6 1.0 CB A:ASP100 4.7 0.6 1.0 CG A:GLU9 4.8 0.6 1.0 HG2 A:GLU9 4.8 0.3 1.0 CB A:ASP97 4.8 0.6 1.0 NE A:ARG64 4.8 0.8 1.0 C A:ASP97 4.9 0.8 1.0 CA A:ASP97 4.9 0.3 1.0 CA A:ASN99 4.9 0.4 1.0 CA A:ASP100 4.9 0.2 1.0 NH2 A:ARG64 5.0 0.9 1.0 H A:ASN101 5.0 0.7 1.0 HB2 A:ASN101 5.0 0.2 1.0

Calcium binding site 3 out of 45 in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca503 b:0.4 occ:1.00 OD1 A:ASN99 2.3 0.6 1.0 OD2 A:ASP131 2.3 0.2 1.0 OD1 A:ASP131 2.4 0.2 1.0 OD2 A:ASP133 2.4 0.7 1.0 OD2 A:ASP188 2.5 0.7 1.0 O A:ASN137 2.5 0.4 1.0 O A:ASN101 2.5 0.5 1.0 CG A:ASP131 2.7 0.9 1.0 HB2 A:ASP133 3.0 0.1 1.0 CG A:ASP133 3.4 0.7 1.0 CG A:ASN99 3.5 0.9 1.0 CG A:ASP188 3.5 0.4 1.0 HB3 A:ASP188 3.6 0.2 1.0 CB A:ASP133 3.6 0.3 1.0 C A:ASN101 3.7 0.5 1.0 C A:ASN137 3.7 0.8 1.0 HB3 A:ASN137 3.8 0.6 1.0 HB2 A:ASP188 3.8 0.2 1.0 HD3 A:PRO103 3.9 0.5 1.0 CB A:ASP188 3.9 0.5 1.0 HA A:PRO102 3.9 0.7 1.0 HD21 A:ASN99 3.9 0.4 1.0 H A:ASN101 3.9 0.7 1.0 H A:ASP133 4.0 0.1 1.0 HA A:SER138 4.1 0.5 1.0 HA A:ASN99 4.1 0.8 1.0 CB A:ASP131 4.1 1.0 1.0 ND2 A:ASN99 4.2 0.0 1.0 HB3 A:ASP133 4.2 0.1 1.0 HB2 A:ASN101 4.2 0.2 1.0 HB3 A:ASP131 4.4 0.6 1.0 HB2 A:ARG213 4.4 0.9 1.0 CA A:PRO102 4.5 0.9 1.0 HA A:ASN137 4.5 0.6 1.0 HG3 A:ARG213 4.5 0.5 1.0 OD1 A:ASP133 4.5 0.0 1.0 CA A:ASN137 4.5 0.0 1.0 HB2 A:ASP131 4.5 0.6 1.0 CB A:ASN137 4.5 0.5 1.0 N A:PRO102 4.6 0.8 1.0 C A:PRO102 4.6 0.7 1.0 CA A:ASN101 4.6 0.6 1.0 OD1 A:ASP188 4.6 0.8 1.0 N A:ASN101 4.6 0.6 1.0 CB A:ASN99 4.6 0.8 1.0 CD A:PRO103 4.6 0.3 1.0 HD2 A:PRO132 4.7 0.4 1.0 N A:SER138 4.7 0.4 1.0 N A:PRO103 4.7 1.0 1.0 N A:ASP133 4.7 0.4 1.0 CA A:ASN99 4.7 0.4 1.0 CA A:SER138 4.7 0.6 1.0 CA A:ASP133 4.8 0.6 1.0 CB A:ASN101 4.8 0.5 1.0 HD2 A:ARG213 4.9 0.8 1.0 HD3 A:ARG213 4.9 0.8 1.0 HB2 A:ASN99 4.9 0.9 1.0 HB2 A:ASN137 4.9 0.6 1.0

Calcium binding site 4 out of 45 in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca504 b:0.4 occ:1.00 OD1 A:ASP173 2.3 0.1 1.0 OD2 A:ASP228 2.3 0.2 1.0 OE2 A:GLU175 2.4 0.8 1.0 OE1 A:GLU116 2.4 0.2 1.0 O A:HOH604 2.5 0.3 1.0 O A:HOH601 2.5 0.4 1.0 HD21 A:ASN229 3.1 0.4 1.0 CG A:ASP228 3.1 0.6 1.0 CG A:ASP173 3.3 0.8 1.0 CD A:GLU116 3.4 0.6 1.0 OD1 A:ASP228 3.4 0.1 1.0 HA A:ASP173 3.4 0.9 1.0 HB2 A:GLU175 3.6 0.7 1.0 CD A:GLU175 3.6 0.9 1.0 H A:GLU175 3.6 0.8 1.0 ND2 A:ASN229 3.8 0.3 1.0 OE2 A:GLU116 3.9 0.3 1.0 HD22 A:ASN229 4.0 0.4 1.0 CA A:CA505 4.0 0.4 1.0 H A:ARG174 4.0 0.5 1.0 OD2 A:ASP173 4.0 0.7 1.0 CB A:ASP173 4.1 1.0 1.0 CA A:ASP173 4.1 0.2 1.0 HB2 A:ASP173 4.1 0.6 1.0 HG3 A:GLU116 4.2 0.0 1.0 CG A:GLU175 4.4 0.6 1.0 CB A:GLU175 4.4 0.4 1.0 N A:ARG174 4.4 0.2 1.0 HG2 A:GLU175 4.4 0.8 1.0 CG A:GLU116 4.4 0.7 1.0 HB2 A:ASP228 4.4 0.9 1.0 CB A:ASP228 4.4 0.7 1.0 OE1 A:GLU175 4.5 0.5 1.0 N A:GLU175 4.5 0.2 1.0 C A:ASP173 4.6 0.4 1.0 CG A:ASN229 4.8 0.5 1.0 HB2 A:GLU116 4.9 0.2 1.0 HB3 A:ASP228 5.0 0.9 1.0 HB3 A:ASP173 5.0 0.6 1.0

Calcium binding site 5 out of 45 in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca505 b:0.4 occ:1.00 OD1 A:ASP228 2.3 0.1 1.0 OD1 A:ASP225 2.3 0.3 1.0 OE2 A:GLU116 2.4 0.3 1.0 OE1 A:GLU175 2.4 0.5 1.0 OD1 A:ASP261 2.4 0.5 1.0 OE2 A:GLU175 2.4 0.8 1.0 O A:SER226 2.5 0.5 1.0 CD A:GLU175 2.7 0.9 1.0 H A:SER226 3.0 0.5 1.0 HD22 A:ASN229 3.1 0.4 1.0 CD A:GLU116 3.3 0.6 1.0 H A:ASP228 3.4 0.0 1.0 CG A:ASP228 3.4 0.6 1.0 CG A:ASP225 3.4 0.2 1.0 CG A:ASP261 3.5 0.1 1.0 OE1 A:GLU116 3.5 0.2 1.0 HE A:ARG174 3.6 0.5 1.0 HA A:ASP261 3.6 0.8 1.0 C A:SER226 3.6 0.4 1.0 ND2 A:ASN229 3.7 0.3 1.0 HD21 A:ASN229 3.7 0.4 1.0 N A:SER226 3.8 0.9 1.0 OD2 A:ASP228 3.8 0.2 1.0 HH21 A:ARG174 4.0 0.1 1.0 CA A:CA504 4.0 0.4 1.0 OD2 A:ASP225 4.0 1.0 1.0 HA A:ASP225 4.0 0.8 1.0 HB3 A:ARG174 4.1 1.0 1.0 CG A:GLU175 4.1 0.6 1.0 HB3 A:ASP261 4.2 0.4 1.0 N A:ASP228 4.2 0.0 1.0 CB A:ASP261 4.2 0.7 1.0 HG2 A:GLU175 4.2 0.8 1.0 CA A:SER226 4.3 0.8 1.0 OD2 A:ASP261 4.3 0.6 1.0 CA A:ASP261 4.4 0.0 1.0 HA A:ASN227 4.4 0.4 1.0 NE A:ARG174 4.4 0.2 1.0 HG3 A:GLU175 4.4 0.8 1.0 OG A:SER226 4.5 0.4 1.0 CB A:ASP225 4.6 0.7 1.0 CA A:ASP225 4.6 1.0 1.0 H A:GLU175 4.6 0.8 1.0 CB A:ASP228 4.6 0.7 1.0 H A:GLU262 4.6 1.0 1.0 CG A:GLU116 4.7 0.7 1.0 C A:ASP225 4.7 0.8 1.0 HG2 A:GLU116 4.7 0.0 1.0 NH2 A:ARG174 4.7 0.1 1.0 N A:ASN227 4.7 0.2 1.0 H A:ASN229 4.7 0.9 1.0 HB2 A:ASN229 4.8 0.7 1.0 CA A:ASP228 4.9 0.9 1.0 HB3 A:ASP228 4.9 0.9 1.0 HB2 A:ASP225 4.9 0.5 1.0 CG A:ASN229 4.9 0.5 1.0 CA A:ASN227 5.0 0.0 1.0

Calcium binding site 6 out of 45 in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca506 b:0.4 occ:1.00 OD2 A:ASP259 2.3 0.6 1.0 O A:ASN265 2.3 0.1 1.0 O A:ASN229 2.4 0.5 1.0 OD2 A:ASP261 2.4 0.6 1.0 OD1 A:ASN227 2.4 0.3 1.0 OD2 A:ASP315 2.4 0.6 1.0 OD1 A:ASP259 2.5 0.3 1.0 CG A:ASP259 2.7 0.7 1.0 HB2 A:ASP261 3.2 0.4 1.0 CG A:ASP315 3.3 0.2 1.0 CG A:ASP261 3.4 0.1 1.0 C A:ASN229 3.5 0.3 1.0 H A:ASN229 3.5 0.9 1.0 C A:ASN265 3.5 0.2 1.0 HB3 A:ASP315 3.6 0.9 1.0 CG A:ASN227 3.6 0.4 1.0 HB2 A:ASN229 3.7 0.7 1.0 CB A:ASP261 3.8 0.7 1.0 HB3 A:ASN265 3.8 0.7 1.0 HA2 A:GLY266 3.8 0.4 1.0 CB A:ASP315 3.9 0.8 1.0 HB2 A:ASP315 3.9 0.9 1.0 HD3 A:PRO231 4.0 0.1 1.0 HD21 A:ASN227 4.0 0.2 1.0 HA A:ASN265 4.1 0.3 1.0 HA A:ASN227 4.1 0.4 1.0 N A:ASN229 4.2 0.9 1.0 CA A:ASN229 4.2 1.0 1.0 HB3 A:ASP261 4.2 0.4 1.0 HA A:VAL230 4.2 0.1 1.0 CB A:ASP259 4.2 0.4 1.0 OD1 A:ASP315 4.3 0.4 1.0 CB A:ASN229 4.3 0.9 1.0 CA A:ASN265 4.3 0.6 1.0 ND2 A:ASN227 4.3 0.8 1.0 H A:ASP261 4.4 0.7 1.0 HB3 A:ASN229 4.5 0.7 1.0 N A:GLY266 4.5 0.6 1.0 CB A:ASN265 4.5 0.9 1.0 OD1 A:ASP261 4.5 0.5 1.0 N A:VAL230 4.5 0.1 1.0 HB3 A:ASP259 4.5 0.2 1.0 CA A:GLY266 4.6 0.7 1.0 HB2 A:ASP259 4.6 0.2 1.0 CA A:ASN227 4.7 0.0 1.0 CB A:ASN227 4.8 0.5 1.0 CA A:VAL230 4.8 0.6 1.0 CD A:PRO231 4.9 0.7 1.0 C A:ASN227 4.9 0.4 1.0 HG3 A:PRO231 4.9 0.7 1.0 HB2 A:ASN265 5.0 0.7 1.0 HA A:ASP259 5.0 0.3 1.0

Calcium binding site 7 out of 45 in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca507 b:0.4 occ:1.00 OD2 A:ASP336 2.3 0.1 1.0 OD1 A:ASP300 2.3 0.6 1.0 OE1 A:GLU302 2.3 0.1 1.0 O A:HOH602 2.3 0.6 1.0 OE1 A:GLU244 2.4 0.9 1.0 O A:HOH605 2.5 0.7 1.0 HA A:ASP300 3.1 0.9 1.0 CG A:ASP336 3.3 0.5 1.0 CG A:ASP300 3.3 0.8 1.0 CD A:GLU244 3.4 0.2 1.0 CD A:GLU302 3.5 1.0 1.0 OD1 A:ASP336 3.6 0.1 1.0 HD21 A:ASN337 3.7 0.3 1.0 H A:GLU302 3.8 0.4 1.0 H A:TYR301 3.8 0.2 1.0 CA A:ASP300 3.8 0.7 1.0 OE2 A:GLU244 3.8 0.7 1.0 HD21 A:ASN245 3.9 0.8 1.0 CB A:ASP300 3.9 0.5 1.0 HB2 A:ASP300 4.0 0.8 1.0 HB2 A:GLU302 4.1 0.8 1.0 OD2 A:ASP300 4.2 0.4 1.0 OE2 A:GLU302 4.2 1.0 1.0 N A:TYR301 4.2 0.0 1.0 OD1 A:ASN245 4.2 0.3 1.0 HB2 A:GLU244 4.3 1.0 1.0 ND2 A:ASN337 4.4 0.1 1.0 C A:ASP300 4.4 0.1 1.0 ND2 A:ASN245 4.5 0.8 1.0 HD22 A:ASN337 4.5 0.3 1.0 CA A:CA508 4.5 0.4 1.0 CG A:GLU244 4.5 0.3 1.0 CB A:ASP336 4.6 0.9 1.0 HG3 A:GLU244 4.6 1.0 1.0 N A:GLU302 4.6 1.0 1.0 CG A:GLU302 4.6 0.3 1.0 HB2 A:ASP336 4.7 0.7 1.0 CG A:ASN245 4.7 0.6 1.0 HB3 A:TYR301 4.7 0.3 1.0 O A:LEU299 4.8 0.2 1.0 CB A:GLU302 4.8 0.1 1.0 HG2 A:GLU302 4.8 0.9 1.0 HB3 A:ASP300 4.9 0.8 1.0 CB A:GLU244 4.9 0.5 1.0 HB3 A:ASP336 5.0 0.7 1.0

Calcium binding site 8 out of 45 in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca508 b:0.4 occ:1.00 O A:ALA334 2.1 0.6 1.0 OD1 A:ASP369 2.3 0.4 1.0 OE2 A:GLU302 2.3 1.0 1.0 OE2 A:GLU244 2.3 0.7 1.0 OD1 A:ASP336 2.4 0.1 1.0 OD1 A:ASP333 2.4 0.1 1.0 H A:ASP336 3.0 0.9 1.0 CD A:GLU302 3.2 1.0 1.0 HD22 A:ASN337 3.3 0.3 1.0 CG A:ASP369 3.3 0.1 1.0 C A:ALA334 3.3 0.4 1.0 H A:ALA334 3.3 0.3 1.0 CD A:GLU244 3.4 0.2 1.0 CG A:ASP336 3.5 0.5 1.0 OE1 A:GLU302 3.5 0.1 1.0 CG A:ASP333 3.5 0.5 1.0 HA A:ASP369 3.7 0.7 1.0 HB3 A:ASP369 3.8 0.3 1.0 HA A:ASN335 3.8 0.1 1.0 N A:ALA334 3.8 0.9 1.0 N A:ASP336 3.8 0.1 1.0 OE1 A:GLU244 3.8 0.9 1.0 ND2 A:ASN337 4.0 0.1 1.0 OD2 A:ASP333 4.0 0.3 1.0 CB A:ASP369 4.0 0.1 1.0 OD2 A:ASP336 4.1 0.1 1.0 HD21 A:ASN337 4.1 0.3 1.0 OD2 A:ASP369 4.1 0.9 1.0 HB3 A:TYR301 4.1 0.3 1.0 CA A:ALA334 4.2 0.1 1.0 N A:ASN335 4.3 0.7 1.0 CA A:ASP369 4.3 0.6 1.0 CA A:ASN335 4.4 0.1 1.0 CG A:GLU302 4.4 0.3 1.0 HA A:ASP333 4.4 0.7 1.0 HB3 A:ALA334 4.4 0.2 1.0 CA A:CA507 4.5 0.4 1.0 HG3 A:GLU302 4.5 0.9 1.0 HD22 A:ASN373 4.5 0.6 1.0 CB A:ASP336 4.6 0.9 1.0 H A:ASN337 4.6 0.7 1.0 HG2 A:GLU302 4.6 0.9 1.0 C A:ASN335 4.7 0.4 1.0 CA A:ASP336 4.7 0.5 1.0 HG2 A:GLU244 4.7 1.0 1.0 C A:ASP333 4.7 0.9 1.0 CG A:GLU244 4.7 0.3 1.0 CB A:ASP333 4.7 0.2 1.0 H A:SER370 4.7 0.5 1.0 HB3 A:ASP336 4.8 0.7 1.0 HB2 A:ASN337 4.8 0.9 1.0 HD1 A:TYR301 4.8 0.2 1.0 CA A:ASP333 4.9 0.9 1.0 HB3 A:ASN373 4.9 0.1 1.0 CB A:ALA334 4.9 0.5 1.0 HB2 A:ASP369 4.9 0.3 1.0 HA A:ALA334 4.9 0.8 1.0 N A:ASN337 4.9 0.1 1.0

Calcium binding site 9 out of 45 in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca509 b:0.4 occ:1.00 O A:ASN373 2.3 0.9 1.0 O A:ASN337 2.3 0.1 1.0 OD2 A:ASP369 2.4 0.9 1.0 OD2 A:ASP367 2.4 0.5 1.0 OD2 A:ASP420 2.4 0.9 1.0 OD1 A:ASP367 2.5 0.9 1.0 OD1 A:ASN335 2.5 0.2 1.0 CG A:ASP367 2.8 0.7 1.0 HB2 A:ASP369 3.0 0.3 1.0 CG A:ASP420 3.3 0.8 1.0 CG A:ASP369 3.4 0.1 1.0 C A:ASN373 3.5 0.9 1.0 HB3 A:ASP420 3.5 0.0 1.0 HB2 A:ASP420 3.5 0.0 1.0 C A:ASN337 3.5 0.1 1.0 HB3 A:ASN373 3.6 0.1 1.0 HD12 A:LEU426 3.7 0.5 1.0 CB A:ASP420 3.7 0.8 1.0 CB A:ASP369 3.7 0.1 1.0 CG A:ASN335 3.7 0.1 1.0 H A:ASN337 3.7 0.7 1.0 HA2 A:GLY374 3.8 0.6 1.0 HB2 A:ASN337 4.0 0.9 1.0 HA A:ALA338 4.1 0.0 1.0 HD21 A:ASN335 4.1 0.4 1.0 HA A:ASN373 4.1 0.4 1.0 H A:ASP369 4.1 0.2 1.0 HB3 A:ASP369 4.2 0.3 1.0 HB2 A:LEU426 4.2 0.8 1.0 CA A:ASN373 4.2 0.2 1.0 HD3 A:PRO339 4.3 0.6 1.0 CB A:ASP367 4.3 0.1 1.0 OD1 A:ASP420 4.3 0.0 1.0 CB A:ASN373 4.3 0.0 1.0 HA A:ASN335 4.3 0.1 1.0 ND2 A:ASN335 4.3 0.6 1.0 CA A:ASN337 4.4 0.3 1.0 N A:ASN337 4.4 0.1 1.0 N A:GLY374 4.4 0.1 1.0 N A:ALA338 4.5 0.7 1.0 OD1 A:ASP369 4.5 0.4 1.0 HB3 A:ASP367 4.6 0.5 1.0 CA A:GLY374 4.6 0.1 1.0 CB A:ASN337 4.6 0.4 1.0 CD1 A:LEU426 4.6 0.4 1.0 HB2 A:ASP367 4.6 0.5 1.0 CA A:ALA338 4.6 0.7 1.0 HB2 A:ASN373 4.8 0.1 1.0 HB3 A:ASN337 4.8 0.9 1.0 N A:ASP369 4.8 1.0 1.0 CA A:ASP369 4.9 0.6 1.0 CB A:ASN335 4.9 0.6 1.0 C A:ALA338 4.9 0.5 1.0 HD13 A:LEU426 5.0 0.5 1.0 CA A:ASN335 5.0 0.1 1.0

Calcium binding site 10 out of 45 in the Crystal Structure of Human Delta Protocadherin 10 EC1-EC4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Crystal Structure of Human Delta Protocadherin 10 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca501 b:0.6 occ:1.01 OD1 B:ASP63 2.4 0.9 1.0 OD2 B:ASP100 2.4 0.6 1.0 OE1 B:GLU9 2.4 0.8 1.0 OE1 B:GLU10 2.5 0.1 1.0 OE2 B:GLU65 2.5 0.5 1.0 O B:HOH604 3.1 0.4 1.0 HA B:ASP63 3.2 0.0 1.0 CG B:ASP100 3.3 0.4 1.0 CG B:ASP63 3.4 0.5 1.0 CD B:GLU9 3.4 0.0 1.0 CD B:GLU10 3.5 0.1 1.0 OD1 B:ASP100 3.6 0.7 1.0 H B:GLU65 3.6 0.5 1.0 H B:ARG64 3.7 0.8 1.0 HG2 B:GLU10 3.7 0.3 1.0 HD21 B:ASN101 3.7 0.8 1.0 CD B:GLU65 3.7 0.1 1.0 OE2 B:GLU9 3.8 0.6 1.0 HG3 B:GLU10 3.8 0.3 1.0 CA B:ASP63 3.9 0.3 1.0 CG B:GLU10 3.9 0.6 1.0 CA B:CA502 3.9 0.0 1.0 HB2 B:GLU65 4.0 0.9 1.0 CB B:ASP63 4.1 0.9 1.0 N B:ARG64 4.1 0.5 1.0 HB2 B:ASP63 4.2 0.3 1.0 OD2 B:ASP63 4.2 0.2 1.0 C B:ASP63 4.3 0.2 1.0 OE1 B:GLU65 4.4 0.8 1.0 ND2 B:ASN101 4.4 0.6 1.0 HB2 B:GLU9 4.5 0.4 1.0 N B:GLU65 4.5 0.8 1.0 CG B:GLU9 4.6 0.1 1.0 OE2 B:GLU10 4.6 0.7 1.0 CG B:GLU65 4.6 0.7 1.0 HD22 B:ASN101 4.6 0.8 1.0 HG3 B:GLU9 4.7 0.9 1.0 CB B:ASP100 4.7 0.5 1.0 CB B:GLU65 4.7 0.9 1.0 HG2 B:GLU65 4.7 0.5 1.0 HB2 B:ASP100 4.8 0.6 1.0 HD11 B:ILE98 4.9 0.1 1.0 HG12 B:ILE98 4.9 0.4 1.0 O B:ILE62 5.0 0.2 1.0 HB3 B:ARG64 5.0 0.8 1.0 HB3 B:ASP63 5.0 0.3 1.0

O.J.Harrison, J.Brasch, P.S.Katsamba, G.Ahlsen, A.J.Noble, H.Dan, R.V.Sampogna, C.S.Potter, B.Carragher, B.Honig, L.Shapiro. Family-Wide Structural and Biophysical Analysis of Binding Interactions Among Non-Clustered Delta-Protocadherins. Cell Rep V. 30 2655 2020.
ISSN: ESSN 2211-1247
PubMed: 32101743
DOI: 10.1016/J.CELREP.2020.02.003