Calcium in PDB 6vfr: Crystal Structure of Human Protocadherin 18 EC1-EC4

The structure of Crystal Structure of Human Protocadherin 18 EC1-EC4, PDB code: 6vfr 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)	19.90 / 2.79
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	126.959, 176.942, 71.872, 90.00, 101.42, 90.00
R / Rfree (%)	23.6 / 27.2

The structure of Crystal Structure of Human Protocadherin 18 EC1-EC4 also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 18;

Binding sites:

The binding sites of Calcium atom in the Crystal Structure of Human Protocadherin 18 EC1-EC4 (pdb code 6vfr). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 18 binding sites of Calcium where determined in the Crystal Structure of Human Protocadherin 18 EC1-EC4, PDB code: 6vfr:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 18 in the Crystal Structure of Human Protocadherin 18 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 Protocadherin 18 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca510 b:87.5 occ:1.00 O A:ASN106 2.3 87.0 1.0 OD2 A:ASP136 2.3 93.8 1.0 O A:ASN142 2.4 85.9 1.0 OD2 A:ASP138 2.4 88.8 1.0 OD1 A:ASN104 2.4 0.5 1.0 OD2 A:ASP193 2.4 74.7 1.0 OD1 A:ASP136 2.5 93.3 1.0 CG A:ASP136 2.7 96.0 1.0 HB2 A:ASP138 2.9 0.2 1.0 CG A:ASP138 3.3 88.7 1.0 C A:ASN106 3.5 86.6 1.0 CG A:ASN104 3.5 95.9 1.0 CG A:ASP193 3.5 88.7 1.0 CB A:ASP138 3.5 84.4 1.0 C A:ASN142 3.5 87.4 1.0 HB3 A:ASP193 3.6 0.1 1.0 HB3 A:ASN142 3.6 0.3 1.0 HD21 A:ASN104 3.8 0.2 1.0 HA A:SER143 3.8 0.4 1.0 HA A:SER107 3.8 0.1 1.0 H A:ASN106 3.9 0.8 1.0 HD3 A:PRO108 3.9 0.4 1.0 HB3 A:ASP138 3.9 0.2 1.0 CB A:ASP193 4.0 85.1 1.0 HB2 A:ASP193 4.0 0.1 1.0 HD2 A:ARG199 4.0 0.4 1.0 ND2 A:ASN104 4.1 0.9 1.0 HB2 A:ASN106 4.1 0.7 1.0 H A:ASP138 4.2 0.7 1.0 HB2 A:ARG199 4.2 0.9 1.0 CB A:ASP136 4.3 86.0 1.0 HA A:ASN104 4.3 0.1 1.0 HA A:ASN142 4.3 0.9 1.0 CA A:ASN142 4.4 89.1 1.0 CB A:ASN142 4.4 90.3 1.0 N A:SER107 4.4 88.8 1.0 CA A:ASN106 4.4 0.8 1.0 CA A:SER107 4.5 88.4 1.0 OD1 A:ASP138 4.5 0.9 1.0 N A:SER143 4.5 93.0 1.0 CA A:SER143 4.5 97.8 1.0 N A:ASN106 4.5 0.7 1.0 CB A:ASN106 4.6 0.0 1.0 HB2 A:ASP136 4.6 0.2 1.0 HB3 A:ASN106 4.6 0.7 1.0 OD1 A:ASP193 4.6 81.6 1.0 HB3 A:ASP136 4.7 0.2 1.0 C A:SER107 4.7 85.2 1.0 CB A:ASN104 4.7 73.7 1.0 CD A:PRO108 4.8 84.5 1.0 CD A:ARG199 4.8 93.7 1.0 CA A:ASP138 4.8 87.0 1.0 HD3 A:ARG199 4.8 0.4 1.0 HB2 A:ASN142 4.8 0.3 1.0 N A:ASP138 4.8 91.4 1.0 N A:PRO108 4.9 80.8 1.0 CA A:ASN104 4.9 89.3 1.0 HG3 A:PRO108 4.9 98.9 1.0 HD22 A:ASN104 4.9 0.2 1.0 HA A:ASP136 4.9 0.6 1.0 C A:SER143 5.0 95.2 1.0

Calcium binding site 2 out of 18 in the Crystal Structure of Human Protocadherin 18 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 Protocadherin 18 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca511 b:1.0 occ:1.00 OD1 A:ASP105 2.2 91.2 1.0 OD1 A:ASP102 2.3 78.2 1.0 OE2 A:GLU68 2.3 79.9 1.0 O A:ILE103 2.4 67.8 1.0 OE1 A:GLU9 2.4 0.7 1.0 OE1 A:GLU68 2.4 73.5 1.0 OD1 A:ASP138 2.4 0.9 1.0 CD A:GLU68 2.6 93.2 1.0 H A:ASP105 3.1 89.7 1.0 CD A:GLU9 3.3 87.8 1.0 CG A:ASP102 3.4 94.0 1.0 CG A:ASP105 3.4 91.8 1.0 H A:ILE103 3.5 97.5 1.0 C A:ILE103 3.5 83.5 1.0 CG A:ASP138 3.6 88.7 1.0 OE2 A:GLU9 3.7 93.8 1.0 HA A:ASP138 3.9 0.4 1.0 HG13 A:ILE103 3.9 99.4 1.0 N A:ILE103 3.9 81.3 1.0 N A:ASP105 3.9 74.8 1.0 CA A:CA512 3.9 89.2 1.0 CG A:GLU68 4.0 87.2 1.0 OD2 A:ASP102 4.0 85.2 1.0 HG12 A:ILE103 4.0 99.4 1.0 OD2 A:ASP105 4.0 90.6 1.0 HA A:ASN104 4.1 0.1 1.0 HG2 A:GLU68 4.1 0.7 1.0 HH21 A:ARG67 4.1 0.1 1.0 HA A:ASP102 4.2 86.2 1.0 HG3 A:GLU68 4.3 0.7 1.0 CA A:ILE103 4.3 91.6 1.0 OD2 A:ASP138 4.3 88.8 1.0 OD1 A:ASN106 4.4 97.3 1.0 CG1 A:ILE103 4.4 82.9 1.0 NH2 A:ARG67 4.4 0.4 1.0 HB3 A:ASP138 4.4 0.2 1.0 CB A:ASP138 4.4 84.4 1.0 CB A:ASP102 4.5 0.6 1.0 HH22 A:ARG67 4.5 0.1 1.0 HB3 A:ARG67 4.5 99.3 1.0 N A:ASN104 4.5 93.1 1.0 CB A:ASP105 4.6 0.2 1.0 HB2 A:ASN106 4.6 0.7 1.0 HB2 A:ASP102 4.6 0.8 1.0 CA A:ASP138 4.6 87.0 1.0 CG A:GLU9 4.6 95.1 1.0 CA A:ASN104 4.6 89.3 1.0 C A:ASP102 4.6 77.5 1.0 CA A:ASP102 4.7 71.8 1.0 CA A:ASP105 4.7 89.3 1.0 HG2 A:GLU9 4.7 0.1 1.0 HD22 A:ASN142 4.8 0.6 1.0 C A:ASN104 4.8 70.6 1.0 HB3 A:ASP105 4.9 0.4 1.0 HG3 A:GLU9 4.9 0.1 1.0 C A:ASP105 4.9 91.4 1.0 H A:GLU68 4.9 0.3 1.0 H A:ASN106 5.0 0.8 1.0

Calcium binding site 3 out of 18 in the Crystal Structure of Human Protocadherin 18 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 Protocadherin 18 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca512 b:89.2 occ:1.00 OE1 A:GLU68 2.3 73.5 1.0 OD2 A:ASP105 2.3 90.6 1.0 OD1 A:ASP66 2.4 80.4 1.0 OE2 A:GLU9 2.4 93.8 1.0 OE2 A:GLU10 2.4 82.2 1.0 CG A:ASP66 3.1 90.4 1.0 CG A:ASP105 3.2 91.8 1.0 HG3 A:GLU10 3.3 95.9 1.0 OD1 A:ASP105 3.3 91.2 1.0 H A:GLU68 3.4 0.3 1.0 CD A:GLU10 3.4 94.6 1.0 CD A:GLU9 3.4 87.8 1.0 HA A:ASP66 3.4 0.2 1.0 CD A:GLU68 3.5 93.2 1.0 HB2 A:GLU68 3.5 0.7 1.0 OD2 A:ASP66 3.5 0.7 1.0 HG2 A:GLU10 3.5 95.9 1.0 CG A:GLU10 3.6 79.9 1.0 H A:ARG67 3.7 99.9 1.0 OE1 A:GLU9 3.9 0.7 1.0 CA A:CA511 3.9 1.0 1.0 CB A:ASP66 4.1 94.3 1.0 CA A:ASP66 4.1 89.3 1.0 N A:ARG67 4.1 83.3 1.0 N A:GLU68 4.2 96.9 1.0 OE2 A:GLU68 4.3 79.9 1.0 CB A:GLU68 4.3 90.6 1.0 HB2 A:ASP66 4.3 0.2 1.0 CG A:GLU68 4.3 87.2 1.0 OD1 A:ASN106 4.3 97.3 1.0 C A:ASP66 4.4 96.1 1.0 HG3 A:GLU9 4.4 0.1 1.0 CG A:GLU9 4.5 95.1 1.0 HG2 A:GLU68 4.5 0.7 1.0 OE1 A:GLU10 4.6 87.0 1.0 CB A:ASP105 4.6 0.2 1.0 HB2 A:GLU9 4.6 92.8 1.0 HB2 A:ASP105 4.8 0.4 1.0 HB3 A:ASP66 4.9 0.2 1.0 HB3 A:ARG67 4.9 99.3 1.0 CA A:GLU68 4.9 85.6 1.0 HG12 A:ILE103 4.9 99.4 1.0

Calcium binding site 4 out of 18 in the Crystal Structure of Human Protocadherin 18 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 Protocadherin 18 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca513 b:0.8 occ:1.00 OD1 A:ASP211 2.2 73.6 1.0 OD1 A:ASP214 2.2 75.2 1.0 OE1 A:GLU180 2.3 84.9 1.0 OE2 A:GLU180 2.4 0.2 1.0 OE2 A:GLU121 2.4 0.7 1.0 OD1 A:ASP247 2.4 0.7 1.0 O A:SER212 2.4 0.0 1.0 CD A:GLU180 2.6 95.3 1.0 H A:ASP214 3.3 0.2 1.0 CG A:ASP211 3.3 96.8 1.0 CD A:GLU121 3.4 89.4 1.0 H A:SER212 3.4 0.3 1.0 CG A:ASP247 3.4 76.3 1.0 CG A:ASP214 3.4 88.5 1.0 HA A:ASP247 3.5 0.9 1.0 C A:SER212 3.6 92.4 1.0 OE1 A:GLU121 3.6 85.6 1.0 OD2 A:ASP211 3.9 93.9 1.0 HD2 A:ARG179 3.9 0.6 1.0 N A:SER212 3.9 92.8 1.0 OD2 A:ASP214 4.0 93.3 1.0 HB3 A:ASP247 4.0 96.6 1.0 CG A:GLU180 4.0 85.8 1.0 HH11 A:ARG179 4.1 0.7 1.0 CA A:CA514 4.1 88.3 1.0 N A:ASP214 4.1 96.0 1.0 CB A:ASP247 4.1 80.5 1.0 HA A:ASP211 4.1 0.4 1.0 HB3 A:ARG179 4.2 97.5 1.0 OD2 A:ASP247 4.2 81.5 1.0 HA A:ASN213 4.2 0.9 1.0 CA A:ASP247 4.2 84.9 1.0 CB A:ASP211 4.4 0.2 1.0 CA A:SER212 4.4 95.0 1.0 OD1 A:ASN215 4.4 0.9 1.0 HD3 A:ARG179 4.5 0.6 1.0 HB2 A:ASP211 4.6 0.1 1.0 CA A:ASP211 4.6 0.7 1.0 CB A:ASP214 4.6 88.2 1.0 N A:ASN213 4.6 79.8 1.0 CD A:ARG179 4.7 88.9 1.0 HB2 A:ASN215 4.7 0.9 1.0 H A:GLU248 4.7 0.1 1.0 CG A:GLU121 4.7 0.6 1.0 H A:ASN215 4.7 0.6 1.0 C A:ASP211 4.7 86.8 1.0 OG A:SER212 4.8 0.7 1.0 CA A:ASN213 4.8 86.6 1.0 NH1 A:ARG179 4.8 99.7 1.0 CA A:ASP214 4.8 77.9 1.0 HG3 A:GLU121 4.9 0.1 1.0 HD22 A:ASN251 4.9 0.7 1.0 HG2 A:GLU121 4.9 0.1 1.0 HB3 A:ASP214 4.9 0.8 1.0 N A:ASP247 5.0 90.6 1.0

Calcium binding site 5 out of 18 in the Crystal Structure of Human Protocadherin 18 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 Protocadherin 18 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca514 b:88.3 occ:1.00 OD2 A:ASP214 2.3 93.3 1.0 OD1 A:ASP178 2.3 97.2 1.0 OE1 A:GLU180 2.3 84.9 1.0 O A:HOH605 2.4 82.7 1.0 OE1 A:GLU121 2.4 85.6 1.0 O A:HOH603 2.5 81.7 1.0 CG A:ASP178 3.0 96.0 1.0 HA A:ASP178 3.1 0.7 1.0 CG A:ASP214 3.2 88.5 1.0 CD A:GLU180 3.5 95.3 1.0 OD1 A:ASP214 3.5 75.2 1.0 CD A:GLU121 3.5 89.4 1.0 H A:ARG179 3.6 96.2 1.0 OD2 A:ASP178 3.6 0.2 1.0 CA A:ASP178 3.8 89.8 1.0 CB A:ASP178 3.8 95.0 1.0 N A:ARG179 4.0 80.2 1.0 OE2 A:GLU121 4.0 0.7 1.0 N A:GLU180 4.0 99.6 1.0 CB A:GLU180 4.0 0.2 1.0 HB2 A:ASP178 4.1 0.9 1.0 CA A:CA513 4.1 0.8 1.0 CG A:GLU180 4.1 85.8 1.0 C A:ASP178 4.2 83.9 1.0 OD1 A:ASN215 4.2 0.9 1.0 HB2 A:GLU121 4.3 0.8 1.0 OE2 A:GLU180 4.4 0.2 1.0 HB3 A:ARG179 4.6 97.5 1.0 CB A:ASP214 4.6 88.2 1.0 HB2 A:ASP214 4.7 0.8 1.0 O A:HOH606 4.7 71.5 1.0 CA A:GLU180 4.7 93.1 1.0 CG A:GLU121 4.7 0.6 1.0 HB3 A:ASP178 4.7 0.9 1.0 CB A:GLU121 4.9 92.4 1.0 HB3 A:GLU121 4.9 0.8 1.0 CA A:ARG179 4.9 87.6 1.0 O A:LEU177 5.0 87.2 1.0 C A:ARG179 5.0 87.3 1.0 HB3 A:ASP214 5.0 0.8 1.0

Calcium binding site 6 out of 18 in the Crystal Structure of Human Protocadherin 18 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 Protocadherin 18 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca515 b:96.0 occ:1.00 O A:ASN215 2.2 73.9 1.0 O A:ASN251 2.2 89.0 1.0 OD2 A:ASP245 2.3 0.3 1.0 OD2 A:ASP247 2.4 81.5 1.0 OD2 A:ASP301 2.4 89.9 1.0 OD1 A:ASN213 2.4 99.6 1.0 OD1 A:ASP245 2.4 89.2 1.0 CG A:ASP245 2.7 95.0 1.0 HB2 A:ASP247 2.9 96.6 1.0 CG A:ASP247 3.3 76.3 1.0 C A:ASN251 3.3 97.0 1.0 H11 A:EDO523 3.3 0.3 1.0 CG A:ASP301 3.4 99.4 1.0 C A:ASN215 3.4 82.4 1.0 HA2 A:GLY252 3.4 1.0 1.0 HA A:SER216 3.4 0.7 1.0 CB A:ASP247 3.5 80.5 1.0 CG A:ASN213 3.6 97.1 1.0 HB3 A:ASP301 3.6 0.7 1.0 HB3 A:ASN251 3.7 0.6 1.0 H A:ASN215 3.8 0.6 1.0 HB2 A:ASP301 3.9 0.7 1.0 CB A:ASP301 3.9 85.6 1.0 HD21 A:ASN213 3.9 0.7 1.0 HB3 A:ASP247 4.0 96.6 1.0 H A:ASP247 4.0 0.7 1.0 CB A:ASP245 4.1 0.1 1.0 HB2 A:ASN215 4.1 0.9 1.0 HO1 A:EDO523 4.1 0.0 1.0 N A:GLY252 4.1 0.2 1.0 HA A:ASN251 4.2 0.4 1.0 HA A:ASN213 4.2 0.9 1.0 CA A:SER216 4.2 0.4 1.0 CA A:ASN251 4.2 96.2 1.0 ND2 A:ASN213 4.2 93.1 1.0 CA A:GLY252 4.2 0.8 1.0 N A:SER216 4.2 0.2 1.0 C1 A:EDO523 4.2 92.8 1.0 HD3 A:PRO217 4.2 0.7 1.0 HB3 A:ASP245 4.3 0.1 1.0 H12 A:EDO523 4.3 0.3 1.0 CA A:ASN215 4.4 88.7 1.0 OD1 A:ASP301 4.4 94.7 1.0 OD1 A:ASP247 4.4 0.7 1.0 CB A:ASN251 4.4 1.0 1.0 N A:ASN215 4.4 95.5 1.0 HB2 A:ASP245 4.5 0.1 1.0 CB A:ASN215 4.6 86.6 1.0 O1 A:EDO523 4.6 0.0 1.0 HB3 A:ASN215 4.7 0.9 1.0 HA3 A:GLY252 4.7 1.0 1.0 N A:ASP247 4.7 90.6 1.0 CA A:ASP247 4.8 84.9 1.0 CB A:ASN213 4.8 96.9 1.0 C A:SER216 4.8 71.1 1.0 CA A:ASN213 4.8 86.6 1.0 HD2 A:PRO246 4.8 0.8 1.0 HB2 A:ASN251 4.8 0.6 1.0 H A:GLY252 5.0 0.3 1.0

Calcium binding site 7 out of 18 in the Crystal Structure of Human Protocadherin 18 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 Protocadherin 18 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca516 b:91.3 occ:1.00 OE2 A:GLU230 2.3 0.2 1.0 OE2 A:GLU288 2.4 91.1 1.0 OD1 A:ASP322 2.4 98.0 1.0 OD1 A:ASP319 2.4 91.2 1.0 OD1 A:ASP361 2.4 91.4 1.0 OE1 A:GLU288 2.5 95.1 1.0 O A:VAL320 2.7 87.5 1.0 CD A:GLU288 2.7 0.7 1.0 HD22 A:ASN323 3.1 0.6 1.0 CD A:GLU230 3.3 1.0 1.0 H A:VAL320 3.4 0.7 1.0 H A:ASP322 3.5 0.1 1.0 CG A:ASP361 3.5 99.1 1.0 CG A:ASP322 3.6 0.6 1.0 CG A:ASP319 3.6 0.9 1.0 HA A:ASP361 3.6 0.8 1.0 OE1 A:GLU230 3.6 0.0 1.0 HB3 A:TYR287 3.8 0.8 1.0 CA A:CA517 3.8 0.8 1.0 ND2 A:ASN323 3.9 0.5 1.0 C A:VAL320 3.9 0.2 1.0 HD21 A:ASN323 4.0 0.6 1.0 HB3 A:ASP361 4.0 0.6 1.0 N A:VAL320 4.0 0.6 1.0 HG22 A:VAL320 4.1 0.7 1.0 HA A:ASP319 4.1 0.5 1.0 OD2 A:ASP322 4.1 0.6 1.0 CB A:ASP361 4.2 91.3 1.0 CG A:GLU288 4.2 0.9 1.0 OD2 A:ASP319 4.2 0.0 1.0 CA A:ASP361 4.3 87.4 1.0 N A:ASP322 4.3 0.4 1.0 HD1 A:TYR287 4.4 0.7 1.0 HG2 A:GLU288 4.4 0.3 1.0 HG23 A:VAL320 4.4 0.7 1.0 OD2 A:ASP361 4.5 0.4 1.0 HG3 A:GLU288 4.5 0.3 1.0 CA A:VAL320 4.6 0.0 1.0 HA A:ASN321 4.6 0.4 1.0 HB2 A:ASN323 4.6 0.1 1.0 CB A:ASP319 4.6 0.0 1.0 CG A:GLU230 4.7 0.4 1.0 CG2 A:VAL320 4.7 0.8 1.0 CA A:ASP319 4.7 96.2 1.0 CB A:TYR287 4.7 97.4 1.0 CB A:ASP322 4.7 0.2 1.0 H A:GLU288 4.7 0.1 1.0 HG2 A:GLU230 4.8 0.2 1.0 H A:ASN323 4.8 0.2 1.0 C A:ASP319 4.8 95.8 1.0 HB2 A:ASP319 4.9 0.5 1.0 HB3 A:ASP322 4.9 0.1 1.0 N A:ASN321 4.9 0.7 1.0 CA A:ASP322 4.9 0.2 1.0 HG3 A:GLU230 5.0 0.2 1.0

Calcium binding site 8 out of 18 in the Crystal Structure of Human Protocadherin 18 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 Protocadherin 18 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca517 b:0.8 occ:1.00 OD2 A:ASP322 2.3 0.6 1.0 OD1 A:ASP286 2.3 0.0 1.0 OE1 A:GLU230 2.4 0.0 1.0 OE1 A:GLU288 2.5 95.1 1.0 CG A:ASP322 3.1 0.6 1.0 OD1 A:ASP322 3.2 98.0 1.0 CD A:GLU230 3.3 1.0 1.0 HD21 A:ASN323 3.3 0.6 1.0 CG A:ASP286 3.3 0.7 1.0 OE2 A:GLU230 3.7 0.2 1.0 CD A:GLU288 3.7 0.7 1.0 HA A:ASP286 3.7 0.3 1.0 CA A:CA516 3.8 91.3 1.0 H A:GLU288 3.9 0.1 1.0 HB2 A:GLU288 3.9 0.4 1.0 HD22 A:ASN323 3.9 0.6 1.0 ND2 A:ASN323 3.9 0.5 1.0 OD2 A:ASP286 4.0 0.4 1.0 H A:TYR287 4.1 0.2 1.0 CB A:ASP286 4.3 0.0 1.0 HB2 A:GLU230 4.3 0.7 1.0 CA A:ASP286 4.4 0.1 1.0 HG3 A:GLU230 4.4 0.2 1.0 CG A:GLU230 4.4 0.4 1.0 HB2 A:ASP286 4.4 0.1 1.0 CB A:ASP322 4.5 0.2 1.0 N A:TYR287 4.5 96.0 1.0 HG2 A:GLU288 4.5 0.3 1.0 CG A:GLU288 4.5 0.9 1.0 OE2 A:GLU288 4.6 91.1 1.0 HB2 A:ASP322 4.6 0.1 1.0 CB A:GLU288 4.6 95.3 1.0 N A:GLU288 4.7 99.3 1.0 C A:ASP286 4.7 93.3 1.0 HB3 A:TYR287 4.8 0.8 1.0 HG22 A:VAL320 4.8 0.7 1.0 HB3 A:ASP322 4.9 0.1 1.0 CB A:GLU230 4.9 0.9 1.0

Calcium binding site 9 out of 18 in the Crystal Structure of Human Protocadherin 18 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 Protocadherin 18 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca518 b:96.9 occ:1.00 OD1 A:ASN321 2.4 0.1 1.0 OD2 A:ASP412 2.4 0.2 1.0 O A:ASN365 2.4 83.9 1.0 OD1 A:ASP359 2.4 0.1 1.0 OD2 A:ASP359 2.4 0.1 1.0 O A:ASN323 2.4 0.6 1.0 OD2 A:ASP361 2.4 0.4 1.0 CG A:ASP359 2.7 0.4 1.0 HB2 A:ASP361 3.4 0.6 1.0 CG A:ASP412 3.4 0.2 1.0 CG A:ASP361 3.5 99.1 1.0 CG A:ASN321 3.5 0.4 1.0 C A:ASN365 3.6 93.6 1.0 C A:ASN323 3.7 0.6 1.0 HB3 A:ASP412 3.7 0.1 1.0 HB3 A:ASN365 3.7 1.0 1.0 HB2 A:ASP412 3.8 0.1 1.0 HD3 A:PRO325 3.8 0.3 1.0 H A:ASN323 3.9 0.2 1.0 CB A:ASP412 3.9 0.7 1.0 HD21 A:ASN321 3.9 0.2 1.0 HA2 A:GLY366 3.9 0.9 1.0 CB A:ASP361 4.0 91.3 1.0 HA A:LYS324 4.1 0.6 1.0 HA A:ASN321 4.1 0.4 1.0 HD12 A:LEU418 4.2 0.6 1.0 ND2 A:ASN321 4.2 0.1 1.0 HA A:ASN365 4.2 0.4 1.0 H A:ASP361 4.2 0.7 1.0 HB2 A:ASN323 4.2 0.1 1.0 CB A:ASP359 4.2 0.8 1.0 HB2 A:LEU418 4.3 0.7 1.0 CA A:ASN365 4.3 88.7 1.0 CB A:ASN365 4.5 0.3 1.0 HB3 A:ASP361 4.5 0.6 1.0 OD1 A:ASP412 4.5 0.3 1.0 HB3 A:ASP359 4.5 0.1 1.0 CA A:ASN323 4.5 0.3 1.0 N A:ASN323 4.6 1.0 1.0 HB2 A:ASP359 4.6 0.1 1.0 N A:GLY366 4.6 0.2 1.0 N A:LYS324 4.6 0.5 1.0 OD1 A:ASP361 4.6 91.4 1.0 CA A:LYS324 4.7 0.8 1.0 CD A:PRO325 4.7 0.6 1.0 CA A:GLY366 4.7 0.4 1.0 CB A:ASN323 4.7 0.6 1.0 CB A:ASN321 4.7 0.2 1.0 HD13 A:LEU418 4.8 0.6 1.0 N A:PRO325 4.8 0.2 1.0 C A:LYS324 4.8 1.0 1.0 CA A:ASN321 4.8 0.3 1.0 HB3 A:ASN323 4.8 0.1 1.0 CD1 A:LEU418 4.9 0.1 1.0 HB2 A:ASN365 4.9 1.0 1.0 N A:ASP361 4.9 88.9 1.0

Calcium binding site 10 out of 18 in the Crystal Structure of Human Protocadherin 18 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 Protocadherin 18 EC1-EC4 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca509 b:94.8 occ:1.00 OE2 B:GLU9 2.3 1.0 1.0 OD1 B:ASP105 2.3 0.3 1.0 OE2 B:GLU68 2.4 0.5 1.0 OD1 B:ASP102 2.4 89.4 1.0 OE1 B:GLU68 2.4 98.0 1.0 OD1 B:ASP138 2.5 0.9 1.0 CD B:GLU68 2.6 0.1 1.0 O B:ILE103 2.6 91.2 1.0 CD B:GLU9 3.2 0.1 1.0 H B:ASP105 3.3 0.1 1.0 CG B:ASP105 3.5 0.8 1.0 H B:ILE103 3.5 0.8 1.0 OE1 B:GLU9 3.5 0.2 1.0 CG B:ASP102 3.5 0.3 1.0 CG B:ASP138 3.7 0.4 1.0 HA B:ASP138 3.8 0.1 1.0 C B:ILE103 3.8 0.2 1.0 CA B:CA510 3.9 0.1 1.0 HG13 B:ILE103 4.0 0.7 1.0 OD2 B:ASP105 4.0 0.7 1.0 N B:ILE103 4.0 0.5 1.0 HG12 B:ILE103 4.0 0.7 1.0 CG B:GLU68 4.0 0.3 1.0 HA B:ASP102 4.1 0.4 1.0 HG2 B:GLU68 4.2 0.8 1.0 N B:ASP105 4.2 0.5 1.0 OD1 B:ASN106 4.2 0.0 1.0 HH22 B:ARG67 4.3 0.4 1.0 OD2 B:ASP102 4.3 98.8 1.0 HG3 B:GLU68 4.4 0.8 1.0 NH2 B:ARG67 4.4 0.6 1.0 HB3 B:ARG67 4.4 0.8 1.0 HA B:ASN104 4.4 0.6 1.0 CG1 B:ILE103 4.5 98.9 1.0 HH21 B:ARG67 4.5 0.4 1.0 CA B:ILE103 4.5 0.8 1.0 CB B:ASP102 4.5 0.4 1.0 CB B:ASP138 4.5 0.6 1.0 HB2 B:ASN106 4.5 0.9 1.0 CA B:ASP138 4.6 0.4 1.0 CG B:GLU9 4.6 0.7 1.0 HB3 B:ASP138 4.6 0.1 1.0 OD2 B:ASP138 4.6 1.0 1.0 HB2 B:ASP102 4.6 0.9 1.0 HG2 B:GLU9 4.6 0.5 1.0 CA B:ASP102 4.6 99.5 1.0 CB B:ASP105 4.7 1.0 1.0 C B:ASP102 4.7 99.5 1.0 N B:ASN104 4.8 0.9 1.0 CA B:ASP105 4.9 0.3 1.0 CZ B:ARG67 4.9 0.0 1.0 H B:GLU68 4.9 0.8 1.0 HG3 B:GLU9 4.9 0.5 1.0 HD22 B:ASN142 5.0 0.8 1.0 CA B:ASN104 5.0 0.5 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