Calcium in PDB 7juh: C-Type Carbohydrate-Recognition Domain 4 of the Mannose Receptor Complexed with Man-ALPHA1-6MAN
Protein crystallography data
The structure of C-Type Carbohydrate-Recognition Domain 4 of the Mannose Receptor Complexed with Man-ALPHA1-6MAN, PDB code: 7juh
was solved by
W.I.Weis,
H.Feinberg,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
31.70 /
1.40
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
31.922,
59.04,
34.846,
90,
114.48,
90
|
R / Rfree (%)
|
15.2 /
18.6
|
Calcium Binding Sites:
The binding sites of Calcium atom in the C-Type Carbohydrate-Recognition Domain 4 of the Mannose Receptor Complexed with Man-ALPHA1-6MAN
(pdb code 7juh). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the
C-Type Carbohydrate-Recognition Domain 4 of the Mannose Receptor Complexed with Man-ALPHA1-6MAN, PDB code: 7juh:
Jump to Calcium binding site number:
1;
2;
Calcium binding site 1 out
of 2 in 7juh
Go back to
Calcium Binding Sites List in 7juh
Calcium binding site 1 out
of 2 in the C-Type Carbohydrate-Recognition Domain 4 of the Mannose Receptor Complexed with Man-ALPHA1-6MAN
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of C-Type Carbohydrate-Recognition Domain 4 of the Mannose Receptor Complexed with Man-ALPHA1-6MAN within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca801
b:13.2
occ:1.00
|
OD1
|
A:ASN727
|
2.4
|
14.5
|
1.0
|
OD1
|
A:ASP748
|
2.4
|
14.2
|
1.0
|
OD1
|
A:ASN747
|
2.4
|
14.9
|
1.0
|
O
|
A:ASP748
|
2.4
|
12.6
|
1.0
|
OE1
|
A:GLU733
|
2.5
|
13.9
|
1.0
|
O3
|
A:MAN803
|
2.5
|
14.9
|
0.2
|
OE1
|
A:GLU725
|
2.5
|
16.7
|
1.0
|
O4
|
A:MAN803
|
2.5
|
15.3
|
0.2
|
O3
|
A:MAN803
|
2.5
|
17.3
|
0.8
|
O4
|
A:MAN803
|
2.6
|
17.2
|
0.8
|
C3
|
A:MAN803
|
3.3
|
16.9
|
0.2
|
C4
|
A:MAN803
|
3.4
|
16.7
|
0.2
|
C4
|
A:MAN803
|
3.4
|
22.4
|
0.8
|
CG
|
A:ASP748
|
3.4
|
13.7
|
1.0
|
CD
|
A:GLU733
|
3.4
|
13.6
|
1.0
|
C3
|
A:MAN803
|
3.4
|
21.4
|
0.8
|
CD
|
A:GLU725
|
3.4
|
17.1
|
1.0
|
CG
|
A:ASN747
|
3.4
|
13.7
|
1.0
|
CG
|
A:ASN727
|
3.4
|
14.9
|
1.0
|
C
|
A:ASP748
|
3.5
|
11.2
|
1.0
|
OE2
|
A:GLU733
|
3.7
|
15.4
|
1.0
|
OE2
|
A:GLU725
|
3.7
|
20.8
|
1.0
|
N
|
A:ASP748
|
3.8
|
12.1
|
1.0
|
ND2
|
A:ASN747
|
3.8
|
16.8
|
1.0
|
CA
|
A:ASP748
|
4.0
|
11.9
|
1.0
|
ND2
|
A:ASN727
|
4.0
|
16.9
|
1.0
|
OD2
|
A:ASP748
|
4.2
|
15.6
|
1.0
|
N
|
A:ASN727
|
4.2
|
13.6
|
1.0
|
CB
|
A:ASP748
|
4.3
|
13.4
|
1.0
|
CB
|
A:ASN727
|
4.6
|
15.1
|
1.0
|
N
|
A:ILE749
|
4.6
|
11.4
|
1.0
|
C
|
A:ASN747
|
4.6
|
12.2
|
1.0
|
CG
|
A:GLU725
|
4.7
|
15.8
|
1.0
|
N
|
A:ASN728
|
4.7
|
12.8
|
1.0
|
CG
|
A:GLU733
|
4.7
|
13.6
|
1.0
|
CB
|
A:ASN747
|
4.7
|
13.2
|
1.0
|
C2
|
A:MAN803
|
4.8
|
19.6
|
0.2
|
N
|
A:TYR729
|
4.8
|
14.0
|
1.0
|
CB
|
A:TYR729
|
4.8
|
17.4
|
1.0
|
C5
|
A:MAN803
|
4.8
|
19.2
|
0.2
|
C5
|
A:MAN803
|
4.8
|
29.0
|
0.8
|
C2
|
A:MAN803
|
4.8
|
27.1
|
0.8
|
CA
|
A:ASN727
|
4.8
|
13.1
|
1.0
|
CB
|
A:GLU733
|
4.9
|
13.4
|
1.0
|
CA
|
A:ASN747
|
4.9
|
12.0
|
1.0
|
O2
|
A:MAN803
|
5.0
|
28.7
|
0.8
|
O2
|
A:MAN803
|
5.0
|
18.4
|
0.2
|
|
Calcium binding site 2 out
of 2 in 7juh
Go back to
Calcium Binding Sites List in 7juh
Calcium binding site 2 out
of 2 in the C-Type Carbohydrate-Recognition Domain 4 of the Mannose Receptor Complexed with Man-ALPHA1-6MAN
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of C-Type Carbohydrate-Recognition Domain 4 of the Mannose Receptor Complexed with Man-ALPHA1-6MAN within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca802
b:24.4
occ:0.75
|
OD1
|
A:ASN673
|
2.3
|
26.0
|
1.0
|
O
|
A:HOH909
|
2.3
|
28.0
|
1.0
|
O
|
A:HOH980
|
2.3
|
36.1
|
1.0
|
OE1
|
A:GLU677
|
2.4
|
25.3
|
1.0
|
OE2
|
A:GLU677
|
2.5
|
27.6
|
1.0
|
O
|
A:SER671
|
2.5
|
20.6
|
1.0
|
OG
|
A:SER671
|
2.5
|
21.9
|
1.0
|
CD
|
A:GLU677
|
2.8
|
26.0
|
1.0
|
C
|
A:SER671
|
3.3
|
17.4
|
1.0
|
CG
|
A:ASN673
|
3.4
|
24.4
|
1.0
|
CB
|
A:SER671
|
3.6
|
18.5
|
1.0
|
CA
|
A:SER671
|
4.0
|
15.8
|
1.0
|
N
|
A:ASN673
|
4.1
|
21.6
|
1.0
|
CB
|
A:ASN673
|
4.2
|
24.8
|
1.0
|
N
|
A:ILE672
|
4.2
|
17.4
|
1.0
|
OE1
|
A:GLN760
|
4.2
|
21.8
|
1.0
|
CG
|
A:GLU677
|
4.3
|
26.6
|
1.0
|
N
|
A:SER671
|
4.4
|
17.6
|
1.0
|
ND2
|
A:ASN673
|
4.5
|
25.6
|
1.0
|
CA
|
A:ILE672
|
4.5
|
18.9
|
1.0
|
OD2
|
A:ASP712
|
4.6
|
25.9
|
1.0
|
CZ
|
A:PHE642
|
4.7
|
20.8
|
1.0
|
C
|
A:ILE672
|
4.8
|
20.0
|
1.0
|
CA
|
A:ASN673
|
4.8
|
23.6
|
1.0
|
OG
|
A:SER714
|
4.9
|
26.2
|
1.0
|
|
Reference:
H.Feinberg,
S.A.F.Jegouzo,
Y.Lasanajak,
D.F.Smith,
K.Drickamer,
M.E.Taylor,
W.I.Weis.
Structural Analysis of Carbohydrate Binding By the Macrophage Mannose Receptor CD206 J.Biol.Chem. 2021.
ISSN: ESSN 1083-351X
Page generated: Sat Apr 17 14:15:53 2021
|