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Calcium in PDB 7zmk: Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody

Protein crystallography data

The structure of Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody, PDB code: 7zmk was solved by N.S.Laursen, G.R.Andersen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.85 / 3.40
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 317.32, 126.6, 187.55, 90, 98.86, 90
R / Rfree (%) 23.9 / 27.7

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody (pdb code 7zmk). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody, PDB code: 7zmk:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 7zmk

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Calcium binding site 1 out of 8 in the Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca501

b:82.8
occ:1.00
OD1 A:ASP172 2.3 102.0 1.0
O A:PHE174 2.3 92.2 1.0
OD2 A:ASP170 2.4 98.6 1.0
OD1 A:ASP170 2.4 100.4 1.0
O A:GLN176 2.5 113.6 1.0
O A:HOH502 2.7 84.3 1.0
CG A:ASP170 2.7 99.3 1.0
O A:HOH503 2.7 86.8 1.0
CG A:ASP172 3.4 99.1 1.0
HA A:ASN177 3.5 133.7 1.0
C A:PHE174 3.5 94.7 1.0
C A:GLN176 3.5 112.2 1.0
O A:VAL175 3.8 104.3 1.0
OD2 A:ASP172 3.8 101.6 1.0
O A:ASP172 3.8 90.2 1.0
H A:PHE174 3.9 128.2 1.0
C A:VAL175 3.9 103.9 1.0
HB3 A:PHE174 4.1 108.6 1.0
HA A:VAL175 4.2 121.3 1.0
CB A:ASP170 4.2 100.7 1.0
CA A:ASN177 4.3 111.2 1.0
N A:PHE174 4.3 106.7 1.0
N A:ASN177 4.3 112.0 1.0
N A:GLN176 4.3 107.2 1.0
H A:CYS178 4.4 145.0 1.0
CA A:PHE174 4.4 97.7 1.0
N A:VAL175 4.4 98.4 1.0
CA A:VAL175 4.4 100.9 1.0
H A:ASP172 4.5 122.2 1.0
C A:ASP172 4.5 94.6 1.0
HB3 A:ASP170 4.5 121.0 1.0
CA A:GLN176 4.5 110.9 1.0
HB2 A:ASP170 4.6 121.0 1.0
CB A:ASP172 4.7 96.8 1.0
HZ2 O:LYS163 4.7 118.9 1.0
N A:ASP172 4.8 101.7 1.0
CB A:PHE174 4.8 90.3 1.0
H A:GLN176 4.8 128.8 1.0
HA A:GLN176 4.9 133.3 1.0
CA A:ASP172 4.9 97.5 1.0
HB2 A:ASN177 4.9 133.2 1.0
O O:GLN171 5.0 104.4 1.0

Calcium binding site 2 out of 8 in 7zmk

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Calcium binding site 2 out of 8 in the Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca501

b:95.3
occ:1.00
OD1 D:ASP172 2.2 86.8 1.0
O D:PHE174 2.3 102.8 1.0
OD2 D:ASP170 2.4 121.5 1.0
OD1 D:ASP170 2.4 123.8 1.0
O D:GLN176 2.5 103.2 1.0
O D:HOH502 2.7 90.3 1.0
O D:HOH503 2.7 136.8 1.0
CG D:ASP170 2.7 121.1 1.0
CG D:ASP172 3.3 92.4 1.0
HA D:ASN177 3.5 131.0 1.0
C D:PHE174 3.5 103.0 1.0
C D:GLN176 3.6 105.6 1.0
O D:VAL175 3.7 117.3 1.0
OD2 D:ASP172 3.8 94.8 1.0
H D:PHE174 3.8 127.2 1.0
O D:ASP172 3.8 89.2 1.0
C D:VAL175 3.9 114.5 1.0
HB3 D:PHE174 4.0 111.1 1.0
HA D:VAL175 4.2 139.8 1.0
CB D:ASP170 4.2 117.0 1.0
N D:PHE174 4.3 105.9 1.0
CA D:ASN177 4.3 109.0 1.0
N D:ASN177 4.3 105.2 1.0
CA D:PHE174 4.4 101.0 1.0
N D:GLN176 4.4 112.2 1.0
H D:CYS178 4.4 137.4 1.0
N D:VAL175 4.4 112.0 1.0
C D:ASP172 4.4 89.0 1.0
CA D:VAL175 4.4 116.3 1.0
H D:ASP172 4.5 119.5 1.0
HB3 D:ASP170 4.5 140.6 1.0
CA D:GLN176 4.6 111.3 1.0
HB2 D:ASP170 4.6 140.6 1.0
CB D:ASP172 4.6 89.6 1.0
HZ2 U:LYS163 4.7 115.5 1.0
CB D:PHE174 4.7 92.5 1.0
N D:ASP172 4.7 99.4 1.0
H D:GLN176 4.8 134.8 1.0
CA D:ASP172 4.8 92.2 1.0
O U:GLN171 4.9 124.2 1.0
HA D:GLN176 4.9 133.8 1.0
HB2 D:ASN177 4.9 136.4 1.0

Calcium binding site 3 out of 8 in 7zmk

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Calcium binding site 3 out of 8 in the Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Ca501

b:129.5
occ:1.00
O I:PHE174 2.3 125.0 1.0
OD2 I:ASP170 2.3 136.9 1.0
OD1 I:ASP172 2.3 135.9 1.0
OD1 I:ASP170 2.4 136.6 1.0
O I:GLN176 2.5 156.0 1.0
CG I:ASP170 2.7 135.1 1.0
O I:HOH503 2.7 103.8 1.0
O I:HOH502 2.7 132.3 1.0
C I:PHE174 3.5 129.0 1.0
CG I:ASP172 3.5 134.4 1.0
C I:GLN176 3.6 154.9 1.0
HA I:ASN177 3.6 183.8 1.0
O I:VAL175 3.7 140.4 1.0
O I:ASP172 3.9 127.2 1.0
C I:VAL175 3.9 137.5 1.0
H I:PHE174 3.9 152.9 1.0
OD2 I:ASP172 4.0 135.5 1.0
HB3 I:PHE174 4.1 158.8 1.0
HA I:VAL175 4.1 159.3 1.0
CB I:ASP170 4.2 129.5 1.0
N I:PHE174 4.3 127.2 1.0
N I:GLN176 4.3 141.6 1.0
N I:VAL175 4.4 131.7 1.0
CA I:VAL175 4.4 132.7 1.0
HB3 I:ASP170 4.4 155.5 1.0
CA I:PHE174 4.4 129.2 1.0
N I:ASN177 4.4 152.2 1.0
CA I:ASN177 4.4 153.0 1.0
H I:CYS178 4.4 179.2 1.0
HB2 I:ASP170 4.5 155.5 1.0
C I:ASP172 4.5 124.4 1.0
H I:ASP172 4.5 143.2 1.0
CA I:GLN176 4.6 153.7 1.0
CB I:ASP172 4.8 129.3 1.0
CB I:PHE174 4.8 132.2 1.0
H I:GLN176 4.8 170.1 1.0
N I:ASP172 4.8 119.2 1.0
HA I:GLN176 4.9 184.6 1.0
CA I:ASP172 4.9 123.4 1.0

Calcium binding site 4 out of 8 in 7zmk

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Calcium binding site 4 out of 8 in the Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Ca501

b:83.6
occ:1.00
OD1 L:ASP172 2.2 84.8 1.0
O L:PHE174 2.2 99.5 1.0
OD1 L:ASP170 2.3 92.8 1.0
OD2 L:ASP170 2.3 91.5 1.0
O L:GLN176 2.6 107.6 1.0
CG L:ASP170 2.6 92.2 1.0
O L:HOH502 2.7 173.8 1.0
O L:HOH503 2.7 88.6 1.0
CG L:ASP172 3.3 87.5 1.0
C L:PHE174 3.4 102.5 1.0
HA L:ASN177 3.6 119.0 1.0
C L:GLN176 3.7 105.6 1.0
H L:PHE174 3.8 116.8 1.0
OD2 L:ASP172 3.8 85.2 1.0
O L:ASP172 3.9 80.6 1.0
O L:VAL175 4.0 108.1 1.0
HB3 L:PHE174 4.0 120.2 1.0
C L:VAL175 4.1 107.7 1.0
CB L:ASP170 4.2 91.5 1.0
N L:PHE174 4.2 97.2 1.0
HA L:VAL175 4.2 129.9 1.0
CA L:PHE174 4.3 100.7 1.0
H L:CYS178 4.3 124.7 1.0
N L:VAL175 4.4 106.7 1.0
HB3 L:ASP170 4.4 109.9 1.0
C L:ASP172 4.4 81.0 1.0
CA L:ASN177 4.4 99.0 1.0
N L:GLN176 4.4 109.8 1.0
H L:ASP172 4.5 96.5 1.0
N L:ASN177 4.5 104.8 1.0
CA L:VAL175 4.5 108.1 1.0
HB2 L:ASP170 4.6 109.9 1.0
CB L:ASP172 4.6 88.8 1.0
CB L:PHE174 4.7 100.0 1.0
CA L:GLN176 4.7 112.7 1.0
N L:ASP172 4.7 80.3 1.0
CA L:ASP172 4.8 82.0 1.0
H L:GLN176 4.9 132.0 1.0
HB2 L:ASP172 5.0 106.7 1.0

Calcium binding site 5 out of 8 in 7zmk

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Calcium binding site 5 out of 8 in the Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Ca501

b:97.8
occ:1.00
O O:PHE174 2.2 108.8 1.0
OD1 O:ASP172 2.3 114.8 1.0
OD2 O:ASP170 2.4 119.6 1.0
OD1 O:ASP170 2.4 119.8 1.0
O O:GLN176 2.5 131.3 1.0
O O:HOH503 2.7 136.0 1.0
O O:HOH502 2.7 117.2 1.0
CG O:ASP170 2.7 120.0 1.0
CG O:ASP172 3.4 113.3 1.0
C O:PHE174 3.4 109.7 1.0
C O:GLN176 3.5 130.5 1.0
O O:VAL175 3.6 130.0 1.0
HA O:ASN177 3.6 147.8 1.0
C O:VAL175 3.8 128.3 1.0
O O:ASP172 3.9 98.6 1.0
OD2 O:ASP172 3.9 114.9 1.0
H O:PHE174 3.9 126.6 1.0
HB3 O:PHE174 4.0 121.7 1.0
HA O:VAL175 4.1 148.1 1.0
CB O:ASP170 4.2 119.7 1.0
N O:GLN176 4.3 132.3 1.0
N O:PHE174 4.3 105.3 1.0
CA O:VAL175 4.3 123.3 1.0
N O:ASN177 4.3 128.4 1.0
N O:VAL175 4.3 117.8 1.0
CA O:PHE174 4.3 107.2 1.0
CA O:ASN177 4.4 123.0 1.0
CA O:GLN176 4.5 134.0 1.0
HZ2 A:LYS163 4.5 101.9 1.0
C O:ASP172 4.5 100.3 1.0
HB3 O:ASP170 4.5 143.9 1.0
H O:ASP172 4.5 126.5 1.0
H O:CYS178 4.6 156.4 1.0
HB2 O:ASP170 4.6 143.9 1.0
CB O:PHE174 4.7 101.3 1.0
CB O:ASP172 4.7 108.7 1.0
H O:GLN176 4.8 159.0 1.0
HA O:GLN176 4.8 161.0 1.0
N O:ASP172 4.8 105.3 1.0
O A:GLN171 4.8 102.9 1.0
CA O:ASP172 4.9 104.5 1.0
HB2 O:ASN177 4.9 140.7 1.0
HE3 A:LYS163 5.0 98.1 1.0

Calcium binding site 6 out of 8 in 7zmk

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Calcium binding site 6 out of 8 in the Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Ca501

b:111.7
occ:1.00
O R:PHE174 2.3 133.2 1.0
OD1 R:ASP172 2.3 114.9 1.0
OD2 R:ASP170 2.3 122.5 1.0
OD1 R:ASP170 2.4 121.9 1.0
O R:GLN176 2.5 130.2 1.0
O R:HOH503 2.7 112.4 1.0
O R:HOH502 2.7 121.2 1.0
CG R:ASP170 2.7 120.3 1.0
CG R:ASP172 3.4 114.0 1.0
C R:PHE174 3.5 134.7 1.0
C R:GLN176 3.6 131.6 1.0
HA R:ASN177 3.6 151.0 1.0
O R:VAL175 3.7 159.2 1.0
O R:ASP172 3.9 116.9 1.0
H R:PHE174 3.9 155.2 1.0
C R:VAL175 3.9 151.6 1.0
OD2 R:ASP172 3.9 113.4 1.0
HB3 R:PHE174 4.1 151.5 1.0
HA R:VAL175 4.1 181.7 1.0
CB R:ASP170 4.2 115.1 1.0
N R:PHE174 4.3 129.2 1.0
N R:GLN176 4.3 144.1 1.0
N R:VAL175 4.4 141.8 1.0
CA R:PHE174 4.4 130.5 1.0
CA R:VAL175 4.4 151.2 1.0
N R:ASN177 4.4 127.8 1.0
CA R:ASN177 4.4 125.7 1.0
H R:CYS178 4.4 155.8 1.0
HB3 R:ASP170 4.5 138.3 1.0
C R:ASP172 4.5 115.7 1.0
H R:ASP172 4.5 134.4 1.0
HB2 R:ASP170 4.6 138.3 1.0
CA R:GLN176 4.6 138.6 1.0
CB R:ASP172 4.7 113.6 1.0
CB R:PHE174 4.8 126.1 1.0
N R:ASP172 4.8 111.8 1.0
H R:GLN176 4.8 173.0 1.0
HA R:GLN176 4.9 166.5 1.0
CA R:ASP172 4.9 113.7 1.0

Calcium binding site 7 out of 8 in 7zmk

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Calcium binding site 7 out of 8 in the Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody within 5.0Å range:
probe atom residue distance (Å) B Occ
U:Ca501

b:97.0
occ:1.00
OD2 U:ASP170 2.3 165.3 1.0
OD1 U:ASP172 2.3 116.5 1.0
O U:PHE174 2.4 124.3 1.0
OD1 U:ASP170 2.4 165.7 1.0
O U:GLN176 2.4 126.8 1.0
CG U:ASP170 2.6 162.7 1.0
O U:HOH503 2.6 156.7 1.0
O U:HOH502 2.7 81.9 1.0
CG U:ASP172 3.4 116.7 1.0
HA U:ASN177 3.4 146.8 1.0
C U:GLN176 3.5 126.5 1.0
C U:PHE174 3.6 124.4 1.0
OD2 U:ASP172 3.8 116.1 1.0
O U:VAL175 3.8 126.2 1.0
O U:ASP172 3.9 114.0 1.0
H U:PHE174 4.0 145.3 1.0
C U:VAL175 4.0 124.9 1.0
CB U:ASP170 4.1 155.4 1.0
HB3 U:PHE174 4.1 154.4 1.0
CA U:ASN177 4.2 122.2 1.0
N U:ASN177 4.2 124.2 1.0
HA U:VAL175 4.3 149.2 1.0
HB3 U:ASP170 4.3 186.7 1.0
H U:CYS178 4.4 156.3 1.0
N U:PHE174 4.4 120.9 1.0
N U:GLN176 4.4 125.8 1.0
HB2 U:ASP170 4.4 186.7 1.0
CA U:PHE174 4.5 125.0 1.0
N U:VAL175 4.5 125.2 1.0
CA U:VAL175 4.5 124.2 1.0
CA U:GLN176 4.5 128.8 1.0
H U:ASP172 4.5 143.4 1.0
HZ2 D:LYS163 4.5 128.1 1.0
C U:ASP172 4.6 116.5 1.0
O D:GLN171 4.7 107.1 1.0
CB U:ASP172 4.7 117.2 1.0
HB2 U:ASN177 4.8 137.5 1.0
CB U:PHE174 4.8 128.5 1.0
HA U:GLN176 4.8 154.8 1.0
N U:ASP172 4.8 119.4 1.0
H U:GLN176 4.9 151.2 1.0
HE3 D:LYS163 4.9 122.8 1.0
CA U:ASP172 4.9 117.2 1.0

Calcium binding site 8 out of 8 in 7zmk

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Calcium binding site 8 out of 8 in the Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Structure of Human MFAP4 in Complex with the Fab Fragment of the AS0326 Monoclonal Antibody within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Ca501

b:84.3
occ:1.00
O X:PHE174 2.3 91.2 1.0
OD1 X:ASP172 2.3 88.2 1.0
OD2 X:ASP170 2.3 98.7 1.0
OD1 X:ASP170 2.4 100.4 1.0
O X:GLN176 2.5 94.5 1.0
CG X:ASP170 2.7 98.2 1.0
O X:HOH503 2.7 109.8 1.0
O X:HOH502 2.7 158.7 1.0
C X:PHE174 3.4 96.3 1.0
CG X:ASP172 3.4 89.2 1.0
HA X:ASN177 3.5 116.9 1.0
C X:GLN176 3.6 97.1 1.0
H X:PHE174 3.8 111.3 1.0
O X:VAL175 3.8 90.8 1.0
OD2 X:ASP172 3.9 87.2 1.0
HB3 X:PHE174 3.9 112.3 1.0
C X:VAL175 3.9 106.4 1.0
O X:ASP172 4.0 94.8 1.0
CB X:ASP170 4.2 93.6 1.0
HA X:VAL175 4.2 128.8 1.0
N X:PHE174 4.2 92.6 1.0
CA X:PHE174 4.3 94.5 1.0
N X:ASN177 4.3 98.0 1.0
N X:GLN176 4.3 107.3 1.0
CA X:ASN177 4.3 97.2 1.0
H X:CYS178 4.3 123.5 1.0
N X:VAL175 4.4 101.5 1.0
HB3 X:ASP170 4.4 112.5 1.0
CA X:VAL175 4.4 107.2 1.0
CA X:GLN176 4.5 105.9 1.0
H X:ASP172 4.6 100.5 1.0
HB2 X:ASP170 4.6 112.5 1.0
C X:ASP172 4.6 91.1 1.0
CB X:PHE174 4.6 93.4 1.0
CB X:ASP172 4.7 91.4 1.0
H X:GLN176 4.8 128.9 1.0
N X:ASP172 4.9 83.6 1.0
HA X:GLN176 4.9 127.2 1.0
HB2 X:ASN177 5.0 118.3 1.0
CA X:ASP172 5.0 88.0 1.0

Reference:

B.Pilecki, N.S.Laursen, G.R.Andersen. N/A N/A.
Page generated: Fri Jul 19 06:33:46 2024

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