Calcium in PDB 7stz: Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11

The structure of Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11, PDB code: 7stz was solved by Seattle Structural Genomics Center For Infectious Disease, Seattlestructural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.54 / 2.95
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	85.34, 131.62, 201.76, 90, 100.86, 90
R / Rfree (%)	18.2 / 20.8

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Calcium atom in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 (pdb code 7stz). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 24 binding sites of Calcium where determined in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11, PDB code: 7stz:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 24 in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11


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 E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca614 b:43.4 occ:1.00 OD1 C:ASP100 2.3 38.6 1.0 OE2 C:GLU11 2.4 58.7 1.0 OD1 C:ASP103 2.4 57.2 1.0 O C:GLN101 2.5 43.0 1.0 OE2 C:GLU69 2.6 58.5 1.0 OD1 C:ASP136 2.7 55.2 1.0 OE1 C:GLU69 2.8 53.5 1.0 CD C:GLU69 3.0 56.3 1.0 CG C:ASP100 3.3 53.2 1.0 CD C:GLU11 3.4 51.1 1.0 CG C:ASP136 3.5 59.1 1.0 CG C:ASP103 3.5 48.7 1.0 C C:GLN101 3.6 53.6 1.0 N C:GLN101 3.7 43.6 1.0 OE1 C:GLU11 3.7 35.2 1.0 OD2 C:ASP100 3.8 51.3 1.0 ND2 C:ASN104 3.8 62.1 1.0 CB C:ASP136 4.0 46.5 1.0 OD2 C:ASP103 4.1 56.9 1.0 CA C:CA615 4.1 54.0 1.0 CA C:ASP136 4.1 47.5 1.0 CA C:GLN101 4.2 43.8 1.0 N C:ASP103 4.3 42.4 1.0 OD2 C:ASP136 4.4 69.4 1.0 NE C:ARG68 4.4 60.0 1.0 CG C:GLU69 4.4 45.3 1.0 CB C:ASP100 4.5 62.5 1.0 CA C:ASP100 4.6 50.1 1.0 C C:ASP100 4.6 47.4 1.0 CB C:ASP103 4.7 49.0 1.0 N C:ASN102 4.7 49.4 1.0 CG C:GLU11 4.8 36.6 1.0 CB C:ARG68 4.9 37.6 1.0 NH2 C:ARG68 4.9 57.8 1.0 CB C:GLN101 4.9 47.1 1.0 N C:ASP137 5.0 52.6 1.0 CA C:ASP103 5.0 46.1 1.0

Calcium binding site 2 out of 24 in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11


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 E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca615 b:54.0 occ:1.00 OD2 C:ASP103 2.4 56.9 1.0 OD1 C:ASP67 2.4 47.4 1.0 OE1 C:GLU69 2.4 53.5 1.0 OE1 C:GLU11 2.5 35.2 1.0 CG C:ASP103 3.3 48.7 1.0 CG C:ASP67 3.4 51.5 1.0 OD1 C:ASP103 3.6 57.2 1.0 CD C:GLU11 3.6 51.1 1.0 CD C:GLU69 3.6 56.3 1.0 OE2 C:GLU11 4.0 58.7 1.0 OD1 C:ASN12 4.0 55.4 1.0 OD2 C:ASP67 4.1 59.5 1.0 ND2 C:ASN12 4.1 49.2 1.0 CA C:CA614 4.1 43.4 1.0 CB C:GLU69 4.3 37.4 1.0 N C:GLU69 4.3 52.1 1.0 N C:ARG68 4.3 42.3 1.0 ND2 C:ASN104 4.3 62.1 1.0 CG C:GLU69 4.4 45.3 1.0 CB C:ASP67 4.4 55.4 1.0 CA C:ASP67 4.5 42.6 1.0 CG C:ASN12 4.5 49.7 1.0 OE2 C:GLU69 4.6 58.5 1.0 CB C:ASP103 4.7 49.0 1.0 C C:ASP67 4.7 51.1 1.0 O C:HOH709 4.7 46.0 1.0 CG C:GLU11 4.8 36.6 1.0 CA C:GLU69 4.9 52.0 1.0

Calcium binding site 3 out of 24 in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11


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 E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca616 b:42.9 occ:1.00 O C:ASN104 2.4 47.7 1.0 O C:ASN143 2.4 51.0 1.0 OD2 C:ASP195 2.4 74.9 1.0 OD2 C:ASP136 2.4 69.4 1.0 OD2 C:ASP134 2.4 52.0 1.0 OD1 C:ASN102 2.5 49.2 1.0 OD1 C:ASP134 2.6 57.6 1.0 CG C:ASP134 2.8 50.9 1.0 CG C:ASP136 3.4 59.1 1.0 CG C:ASP195 3.5 63.3 1.0 C C:ASN104 3.6 64.7 1.0 C C:ASN143 3.6 54.9 1.0 CG C:ASN102 3.7 55.1 1.0 CB C:ASP195 3.9 62.6 1.0 CB C:ASP136 3.9 46.5 1.0 N C:ASN104 4.2 41.9 1.0 CA C:ASN104 4.3 46.3 1.0 CB C:ASP134 4.3 52.1 1.0 OD1 C:ASP136 4.4 55.2 1.0 CB C:ASN104 4.4 48.2 1.0 ND2 C:ASN102 4.4 63.7 1.0 CA C:ASN143 4.4 57.2 1.0 CB C:ASN143 4.5 61.1 1.0 OD1 C:ASP195 4.5 70.6 1.0 CD1 C:LEU201 4.5 56.9 1.0 N C:ALA144 4.6 60.6 1.0 N C:LYS105 4.6 52.8 1.0 CA C:ALA144 4.6 62.9 1.0 CD C:PRO106 4.8 60.5 1.0 CA C:LYS105 4.8 64.3 1.0 CA C:ASN102 4.8 45.0 1.0 C C:LYS105 4.8 62.0 1.0 N C:ASP136 4.9 44.8 1.0 CB C:ASN102 4.9 37.3 1.0 N C:PRO106 5.0 57.1 1.0

Calcium binding site 4 out of 24 in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11


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 E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca617 b:109.9 occ:1.00 OD1 C:ASN215 2.4 107.4 1.0 O C:ASN217 2.4 123.3 1.0 O C:ALA254 2.4 107.5 1.0 OD2 C:ASP246 2.5 127.8 1.0 OD2 C:ASP248 2.5 131.9 1.0 OD1 C:ASN304 2.6 142.0 1.0 OD1 C:ASP246 3.0 131.1 1.0 CG C:ASP246 3.1 125.9 1.0 CG C:ASN304 3.5 125.9 1.0 CG C:ASN215 3.5 116.6 1.0 C C:ASN217 3.6 128.2 1.0 C C:ALA254 3.6 118.9 1.0 CG C:ASP248 3.6 119.2 1.0 ND2 C:ASN304 4.0 121.7 1.0 CB C:ALA254 4.1 104.7 1.0 CB C:ASP248 4.2 120.7 1.0 CA C:ALA254 4.2 108.7 1.0 N C:ASN217 4.2 111.4 1.0 ND2 C:ASN215 4.3 120.7 1.0 CA C:ASN217 4.3 116.4 1.0 N C:PRO218 4.5 131.4 1.0 CA C:ASN215 4.5 109.7 1.0 CB C:ASN215 4.6 106.1 1.0 CB C:ASN217 4.6 106.6 1.0 OD1 C:ASP248 4.6 126.7 1.0 CB C:ASP246 4.6 136.6 1.0 CA C:PRO218 4.6 121.1 1.0 CB C:ASN304 4.6 121.7 1.0 N C:TRP255 4.7 131.0 1.0 CD C:PRO219 4.7 119.8 1.0 C C:ASN215 4.8 115.1 1.0 C C:PRO218 4.9 119.7 1.0 N C:PRO219 4.9 121.3 1.0 CA C:TRP255 5.0 117.5 1.0 CG C:PRO219 5.0 121.5 1.0

Calcium binding site 5 out of 24 in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11


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 E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca618 b:118.7 occ:1.00 OD1 C:ASP360 2.4 141.4 1.0 OD1 C:ASP325 2.4 152.8 1.0 O C:VAL326 2.5 120.2 1.0 OE2 C:GLU291 2.5 121.6 1.0 OE1 C:GLU328 2.5 124.1 1.0 OE1 C:GLU232 2.5 149.1 1.0 CD C:GLU291 3.3 120.9 1.0 CD C:GLU232 3.3 143.1 1.0 OE1 C:GLU291 3.4 119.8 1.0 OE2 C:GLU232 3.4 146.0 1.0 CD C:GLU328 3.5 117.3 1.0 C C:VAL326 3.5 120.8 1.0 CG C:ASP360 3.6 129.9 1.0 CG C:ASP325 3.6 149.3 1.0 N C:VAL326 3.7 127.2 1.0 CG C:GLU328 4.1 122.5 1.0 CA C:VAL326 4.2 125.3 1.0 OD2 C:ASP325 4.3 140.6 1.0 OE2 C:GLU328 4.3 116.3 1.0 OD2 C:ASP360 4.4 128.2 1.0 CB C:ASP360 4.4 123.0 1.0 N C:ASN327 4.4 136.4 1.0 C C:ASP325 4.5 135.0 1.0 CA C:CA625 4.5 133.3 1.0 CA C:ASP360 4.5 122.4 1.0 CA C:ASP325 4.5 139.0 1.0 CB C:PHE290 4.6 121.6 1.0 N C:GLU328 4.6 128.3 1.0 CA C:ASN327 4.6 135.2 1.0 CB C:ASP325 4.7 142.7 1.0 CB C:GLU328 4.7 133.0 1.0 CG C:GLU291 4.7 123.5 1.0 CG C:GLU232 4.7 137.5 1.0 C C:ASN327 4.9 132.2 1.0 CB C:VAL326 5.0 123.0 1.0 CD2 C:PHE290 5.0 124.0 1.0

Calcium binding site 6 out of 24 in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11


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 E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca619 b:135.3 occ:1.00 OE2 C:GLU358 2.4 151.4 1.0 OD1 C:ASN327 2.4 147.2 1.0 OE1 C:GLN365 2.4 153.1 1.0 OD2 C:ASP415 2.4 138.9 1.0 CD C:GLU358 2.7 142.3 1.0 OE1 C:GLU358 2.9 127.2 1.0 CG C:ASP415 3.1 148.6 1.0 CB C:ASP415 3.2 140.2 1.0 CG C:ASN327 3.3 145.5 1.0 O C:GLU328 3.3 118.9 1.0 OD2 C:ASP360 3.4 128.2 1.0 CD C:GLN365 3.5 158.0 1.0 ND2 C:ASN327 3.6 142.9 1.0 O C:ASN416 3.8 159.2 1.0 CG C:GLU358 3.8 138.8 1.0 OD1 C:ASP415 4.3 145.4 1.0 CG C:GLN365 4.3 137.6 1.0 CG C:ASP360 4.4 129.9 1.0 NE2 C:GLN365 4.4 170.4 1.0 C C:GLU328 4.5 129.5 1.0 N C:ASN416 4.5 148.1 1.0 N C:GLU328 4.6 128.3 1.0 CB C:GLN365 4.6 135.6 1.0 CA C:ASP415 4.6 138.7 1.0 CB C:ASN327 4.7 141.5 1.0 CB C:ASP360 4.8 123.0 1.0 C C:ASN416 4.8 154.9 1.0 CD C:PRO330 5.0 118.4 1.0 CG C:PRO330 5.0 119.0 1.0

Calcium binding site 7 out of 24 in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11


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 E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca620 b:73.7 occ:1.00 OD2 C:ASP517 2.3 82.4 1.0 OD1 C:ASN435 2.3 78.5 1.0 OD2 C:ASP462 2.4 81.9 1.0 O C:ASN437 2.4 71.4 1.0 OD2 C:ASP464 2.6 79.2 1.0 O C:ASN468 2.7 63.2 1.0 OD1 C:ASP462 3.0 71.3 1.0 CG C:ASP462 3.1 78.7 1.0 CG C:ASP517 3.4 82.3 1.0 CG C:ASN435 3.5 76.8 1.0 C C:ASN437 3.5 76.8 1.0 CG C:ASP464 3.6 85.6 1.0 CB C:ASP464 3.8 81.0 1.0 C C:ASN468 3.9 81.0 1.0 CB C:ASN468 4.1 77.1 1.0 OD1 C:ASP517 4.2 68.0 1.0 N C:ASN437 4.2 86.2 1.0 ND2 C:ASN435 4.2 96.5 1.0 CA C:ASN437 4.3 71.6 1.0 CB C:ASP517 4.3 74.1 1.0 CA C:ASN468 4.5 70.8 1.0 N C:ALA438 4.5 73.6 1.0 CB C:ASN437 4.5 71.5 1.0 CB C:ASP462 4.5 70.1 1.0 CA C:ASN435 4.6 74.5 1.0 CB C:ASN435 4.6 73.3 1.0 CA C:ALA438 4.7 66.0 1.0 OD1 C:ASP464 4.7 92.5 1.0 C C:ASN435 4.9 82.6 1.0 N C:ASP464 4.9 77.8 1.0 N C:THR469 4.9 97.0 1.0 CA C:ASP464 5.0 89.0 1.0 CG2 C:THR469 5.0 95.3 1.0

Calcium binding site 8 out of 24 in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11


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 E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca621 b:87.8 occ:1.00 OE2 C:GLU397 2.3 97.1 1.0 O C:VAL434 2.3 102.0 1.0 OD1 C:ASP436 2.4 99.8 1.0 OD1 C:ASP433 2.5 76.8 1.0 OD1 C:ASP464 2.5 92.5 1.0 OE1 C:GLU343 2.6 104.9 1.0 CD C:GLU397 3.1 102.3 1.0 OE1 C:GLU397 3.3 106.6 1.0 C C:VAL434 3.4 85.2 1.0 N C:VAL434 3.4 91.0 1.0 CD C:GLU343 3.4 114.0 1.0 OE2 C:GLU343 3.5 108.9 1.0 CG C:ASP464 3.5 85.6 1.0 CG C:ASP433 3.6 78.9 1.0 CG C:ASP436 3.6 106.0 1.0 CA C:VAL434 4.0 90.9 1.0 N C:ASP436 4.1 78.0 1.0 NH1 C:ARG396 4.1 85.0 1.0 CG2 C:VAL434 4.2 103.3 1.0 CA C:CA622 4.3 106.2 1.0 CA C:ASP433 4.3 94.8 1.0 C C:ASP433 4.3 87.4 1.0 OD2 C:ASP464 4.3 79.2 1.0 OD1 C:ASN437 4.3 99.4 1.0 CB C:ASP464 4.3 81.0 1.0 CG C:GLU397 4.4 92.2 1.0 OD2 C:ASP433 4.4 82.0 1.0 CB C:ASP436 4.4 89.1 1.0 CB C:ASP433 4.4 83.9 1.0 OD2 C:ASP436 4.5 131.1 1.0 N C:ASN435 4.5 86.2 1.0 CA C:ASP464 4.7 89.0 1.0 CA C:ASP436 4.7 79.8 1.0 CB C:VAL434 4.8 82.4 1.0 CA C:ASN435 4.9 74.5 1.0 CG C:GLU343 4.9 121.5 1.0 C C:ASN435 5.0 82.6 1.0 CB C:ARG396 5.0 94.8 1.0

Calcium binding site 9 out of 24 in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11


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 E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca622 b:106.2 occ:1.00 OE2 C:GLU343 2.3 108.9 1.0 OD2 C:ASP436 2.3 131.1 1.0 OE1 C:GLU397 2.4 106.6 1.0 OD1 C:ASP395 2.4 117.2 1.0 OD1 C:ASP436 2.8 99.8 1.0 CG C:ASP436 2.8 106.0 1.0 CD C:GLU343 3.4 114.0 1.0 CG C:ASP395 3.5 103.8 1.0 CD C:GLU397 3.6 102.3 1.0 OE1 C:GLU343 4.1 104.9 1.0 OD1 C:ASN437 4.2 99.4 1.0 OE2 C:GLU397 4.2 97.1 1.0 OD2 C:ASP395 4.2 115.5 1.0 CB C:ASP436 4.2 89.1 1.0 CA C:CA621 4.3 87.8 1.0 CG C:GLU343 4.3 121.5 1.0 CA C:ASP395 4.4 100.4 1.0 CB C:ASP395 4.4 88.3 1.0 N C:ARG396 4.5 103.1 1.0 CG C:GLU397 4.7 92.2 1.0 CB C:GLU397 4.8 93.7 1.0 N C:GLU397 4.8 83.7 1.0 C C:ASP395 4.9 103.5 1.0

Calcium binding site 10 out of 24 in the Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11


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 E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca623 b:114.0 occ:1.00 OD1 C:ASP216 2.4 120.2 1.0 OE2 C:GLU182 2.4 101.1 1.0 O C:THR214 2.4 125.5 1.0 OD1 C:ASP248 2.6 126.7 1.0 OE2 C:GLU119 2.6 161.7 1.0 OD1 C:ASP213 2.6 109.9 1.0 CD C:GLU182 3.1 111.0 1.0 OE1 C:GLU182 3.1 106.9 1.0 OE1 C:GLU119 3.2 152.6 1.0 CD C:GLU119 3.3 155.3 1.0 CG C:ASP248 3.5 119.2 1.0 NH1 C:ARG181 3.5 121.3 1.0 CG C:ASP216 3.6 129.6 1.0 C C:THR214 3.6 123.6 1.0 N C:THR214 3.7 122.4 1.0 CG C:ASP213 3.8 118.1 1.0 CA C:CA624 3.9 116.5 1.0 OD1 C:ASN217 4.0 138.3 1.0 OG1 C:THR214 4.1 122.5 1.0 OD2 C:ASP216 4.2 129.6 1.0 N C:ASP216 4.2 113.2 1.0 CA C:THR214 4.2 114.8 1.0 OD2 C:ASP248 4.3 131.9 1.0 CB C:ASP248 4.3 120.7 1.0 OD2 C:ASP213 4.5 110.1 1.0 CG C:GLU182 4.5 114.1 1.0 CA C:ASP248 4.6 124.5 1.0 C C:ASP213 4.6 116.8 1.0 CA C:ASP213 4.7 118.1 1.0 N C:ASN215 4.7 132.3 1.0 CB C:ASP216 4.7 132.1 1.0 CG C:GLU119 4.8 142.4 1.0 CB C:ASP213 4.8 121.9 1.0 CB C:THR214 4.8 122.2 1.0 CZ C:ARG181 4.8 113.9 1.0 CA C:ASP216 4.8 110.2 1.0 CB C:ARG181 4.9 103.0 1.0 C C:ASP216 5.0 115.8 1.0 CG C:ASN217 5.0 112.3 1.0 CA C:ASN215 5.0 109.7 1.0

M.J.Bolejack, J.Abendroth, A.Y.Maker, B.M.Gumbiner, D.D.Lorimer, P.S.Horanyi, T.E.Edwards. Crystal Structure of Human E-Cadherin EC1-5 Bound By Mouse Monoclonal Antibody Fab Mab-1_19A11 To Be Published.