Calcium in PDB 3g84: Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
Protein crystallography data
The structure of Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose., PDB code: 3g84
was solved by
J.F.Head,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
49.42 /
2.30
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
55.605,
108.066,
55.595,
90.00,
91.47,
90.00
|
R / Rfree (%)
|
15.2 /
19.1
|
Calcium Binding Sites:
The binding sites of Calcium atom in the Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
(pdb code 3g84). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 9 binding sites of Calcium where determined in the
Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose., PDB code: 3g84:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Calcium binding site 1 out
of 9 in 3g84
Go back to
Calcium Binding Sites List in 3g84
Calcium binding site 1 out
of 9 in the Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
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 the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca401
b:33.8
occ:1.00
|
OD1
|
A:ASN341
|
2.6
|
30.4
|
1.0
|
OD1
|
A:ASP342
|
2.6
|
30.8
|
1.0
|
OD1
|
A:ASN323
|
2.7
|
33.4
|
1.0
|
OE1
|
A:GLU329
|
2.8
|
34.1
|
1.0
|
O3
|
A:MAN501
|
2.8
|
37.3
|
1.0
|
OE1
|
A:GLU321
|
2.9
|
33.0
|
1.0
|
O4
|
A:MAN501
|
3.0
|
36.4
|
1.0
|
O
|
A:ASP342
|
3.0
|
37.3
|
1.0
|
CG
|
A:ASP342
|
3.3
|
31.6
|
1.0
|
CG
|
A:ASN341
|
3.5
|
30.0
|
1.0
|
CG
|
A:ASN323
|
3.5
|
30.2
|
1.0
|
CD
|
A:GLU321
|
3.6
|
30.4
|
1.0
|
CD
|
A:GLU329
|
3.6
|
32.3
|
1.0
|
OD2
|
A:ASP342
|
3.7
|
32.4
|
1.0
|
N
|
A:ASP342
|
3.7
|
30.1
|
1.0
|
C3
|
A:MAN501
|
3.7
|
33.6
|
1.0
|
C4
|
A:MAN501
|
3.7
|
36.5
|
1.0
|
OE2
|
A:GLU321
|
3.7
|
29.3
|
1.0
|
OE2
|
A:GLU329
|
3.8
|
28.7
|
1.0
|
ND2
|
A:ASN341
|
3.8
|
28.1
|
1.0
|
C
|
A:ASP342
|
3.9
|
31.7
|
1.0
|
N
|
A:ASN323
|
4.0
|
29.2
|
1.0
|
ND2
|
A:ASN323
|
4.0
|
27.5
|
1.0
|
CA
|
A:ASP342
|
4.1
|
32.1
|
1.0
|
CB
|
A:ASP342
|
4.3
|
32.4
|
1.0
|
N
|
A:ASP324
|
4.5
|
32.1
|
1.0
|
N
|
A:ASP325
|
4.6
|
31.8
|
1.0
|
CB
|
A:ASN323
|
4.6
|
29.9
|
1.0
|
C
|
A:ASN341
|
4.6
|
31.5
|
1.0
|
CB
|
A:ASP325
|
4.7
|
31.0
|
1.0
|
CA
|
A:ASN323
|
4.7
|
29.7
|
1.0
|
CB
|
A:ASN341
|
4.7
|
30.7
|
1.0
|
CA
|
A:ASN341
|
4.8
|
28.5
|
1.0
|
CG
|
A:GLU321
|
4.9
|
31.4
|
1.0
|
C
|
A:ASN323
|
4.9
|
32.7
|
1.0
|
CA
|
A:PRO322
|
4.9
|
29.5
|
1.0
|
C
|
A:PRO322
|
4.9
|
29.2
|
1.0
|
CG
|
A:GLU329
|
4.9
|
31.4
|
1.0
|
|
Calcium binding site 2 out
of 9 in 3g84
Go back to
Calcium Binding Sites List in 3g84
Calcium binding site 2 out
of 9 in the Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
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 the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca402
b:34.6
occ:1.00
|
O
|
A:GLU329
|
2.7
|
31.6
|
1.0
|
OE1
|
A:GLU301
|
2.7
|
41.2
|
1.0
|
OD2
|
A:ASP297
|
2.8
|
34.3
|
1.0
|
OD1
|
A:ASP324
|
2.8
|
35.2
|
1.0
|
OE2
|
A:GLU301
|
2.9
|
37.2
|
1.0
|
OD1
|
A:ASP297
|
2.9
|
35.1
|
1.0
|
CD
|
A:GLU301
|
3.2
|
34.9
|
1.0
|
CG
|
A:ASP297
|
3.2
|
36.2
|
1.0
|
OD1
|
A:ASP330
|
3.3
|
40.4
|
1.0
|
CG
|
A:ASP324
|
3.3
|
34.5
|
1.0
|
C
|
A:GLU329
|
3.4
|
32.9
|
1.0
|
CB
|
A:ASP324
|
3.9
|
33.9
|
1.0
|
OD2
|
A:ASP324
|
3.9
|
33.4
|
1.0
|
N
|
A:GLU329
|
4.0
|
42.4
|
1.0
|
CA
|
A:ASP330
|
4.0
|
36.9
|
1.0
|
CA
|
A:CA403
|
4.0
|
36.2
|
1.0
|
N
|
A:ASP330
|
4.0
|
35.2
|
1.0
|
CA
|
A:GLU329
|
4.3
|
34.4
|
1.0
|
CG
|
A:ASP330
|
4.3
|
40.2
|
1.0
|
CA
|
A:ASP324
|
4.5
|
32.1
|
1.0
|
CZ
|
A:PHE304
|
4.6
|
36.2
|
1.0
|
CB
|
A:ASP297
|
4.7
|
38.0
|
1.0
|
CG
|
A:GLU301
|
4.7
|
31.7
|
1.0
|
CB
|
A:ASP330
|
4.8
|
42.3
|
1.0
|
N
|
A:GLY302
|
4.8
|
38.5
|
1.0
|
OD2
|
A:ASP342
|
4.8
|
32.4
|
1.0
|
CB
|
A:GLU329
|
4.8
|
31.7
|
1.0
|
O
|
A:ASP297
|
4.9
|
39.9
|
1.0
|
O
|
A:HOH65
|
4.9
|
34.1
|
1.0
|
|
Calcium binding site 3 out
of 9 in 3g84
Go back to
Calcium Binding Sites List in 3g84
Calcium binding site 3 out
of 9 in the Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
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 the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca403
b:36.2
occ:1.00
|
O
|
A:HOH65
|
2.7
|
34.1
|
1.0
|
OE1
|
A:GLU301
|
2.9
|
41.2
|
1.0
|
OD1
|
A:ASP330
|
2.9
|
40.4
|
1.0
|
O
|
A:HOH75
|
2.9
|
37.5
|
1.0
|
CG
|
A:ASP330
|
3.6
|
40.2
|
1.0
|
CD
|
A:GLU301
|
3.7
|
34.9
|
1.0
|
OD2
|
A:ASP330
|
3.7
|
39.3
|
1.0
|
CA
|
A:CA402
|
4.0
|
34.6
|
1.0
|
CG
|
A:GLU301
|
4.3
|
31.7
|
1.0
|
CB
|
A:GLU301
|
4.3
|
36.8
|
1.0
|
OE2
|
A:GLU301
|
4.4
|
37.2
|
1.0
|
OD1
|
A:ASP324
|
4.6
|
35.2
|
1.0
|
O
|
A:ASP297
|
4.6
|
39.9
|
1.0
|
OD2
|
A:ASP324
|
4.7
|
33.4
|
1.0
|
CA
|
A:GLU301
|
4.8
|
34.5
|
1.0
|
OD1
|
A:ASP297
|
4.8
|
35.1
|
1.0
|
|
Calcium binding site 4 out
of 9 in 3g84
Go back to
Calcium Binding Sites List in 3g84
Calcium binding site 4 out
of 9 in the Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
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 the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca401
b:25.4
occ:1.00
|
OD1
|
B:ASP342
|
2.5
|
29.6
|
1.0
|
OD1
|
B:ASN341
|
2.6
|
30.3
|
1.0
|
OE1
|
B:GLU329
|
2.6
|
27.3
|
1.0
|
O
|
B:ASP342
|
2.6
|
33.5
|
1.0
|
OE1
|
B:GLU321
|
2.7
|
25.2
|
1.0
|
OD1
|
B:ASN323
|
2.7
|
28.6
|
1.0
|
O3
|
B:MAN501
|
2.9
|
30.1
|
1.0
|
O4
|
B:MAN501
|
2.9
|
37.7
|
1.0
|
CD
|
B:GLU321
|
3.4
|
26.7
|
1.0
|
CG
|
B:ASN323
|
3.5
|
28.0
|
1.0
|
OE2
|
B:GLU321
|
3.5
|
30.2
|
1.0
|
CD
|
B:GLU329
|
3.5
|
28.8
|
1.0
|
CG
|
B:ASP342
|
3.6
|
29.4
|
1.0
|
CG
|
B:ASN341
|
3.7
|
28.5
|
1.0
|
C
|
B:ASP342
|
3.7
|
29.5
|
1.0
|
C4
|
B:MAN501
|
3.7
|
33.6
|
1.0
|
C3
|
B:MAN501
|
3.7
|
33.0
|
1.0
|
N
|
B:ASP342
|
3.8
|
26.4
|
1.0
|
ND2
|
B:ASN323
|
3.9
|
33.6
|
1.0
|
OE2
|
B:GLU329
|
3.9
|
29.2
|
1.0
|
N
|
B:ASN323
|
4.1
|
27.6
|
1.0
|
CA
|
B:ASP342
|
4.1
|
28.0
|
1.0
|
ND2
|
B:ASN341
|
4.2
|
27.9
|
1.0
|
OD2
|
B:ASP342
|
4.4
|
26.6
|
1.0
|
CB
|
B:ASP342
|
4.5
|
32.0
|
1.0
|
N
|
B:ASP324
|
4.5
|
24.8
|
1.0
|
C
|
B:ASN341
|
4.6
|
25.4
|
1.0
|
CB
|
B:ASN323
|
4.7
|
30.0
|
1.0
|
N
|
B:ASP325
|
4.7
|
30.6
|
1.0
|
CA
|
B:ASN323
|
4.8
|
28.2
|
1.0
|
CG
|
B:GLU329
|
4.8
|
32.0
|
1.0
|
CG
|
B:GLU321
|
4.8
|
27.2
|
1.0
|
CB
|
B:ASP325
|
4.8
|
33.3
|
1.0
|
N
|
B:VAL343
|
4.8
|
29.3
|
1.0
|
OD1
|
B:ASP325
|
4.9
|
41.7
|
1.0
|
CB
|
B:ASN341
|
4.9
|
29.9
|
1.0
|
CB
|
B:GLU329
|
4.9
|
31.2
|
1.0
|
CA
|
B:ASN341
|
4.9
|
27.7
|
1.0
|
CA
|
B:PRO322
|
5.0
|
26.1
|
1.0
|
C
|
B:ASN323
|
5.0
|
29.0
|
1.0
|
|
Calcium binding site 5 out
of 9 in 3g84
Go back to
Calcium Binding Sites List in 3g84
Calcium binding site 5 out
of 9 in the Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
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 the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca402
b:34.5
occ:1.00
|
OE2
|
B:GLU301
|
2.7
|
39.6
|
1.0
|
OE1
|
B:GLU301
|
2.7
|
34.4
|
1.0
|
OD2
|
B:ASP297
|
2.8
|
37.8
|
1.0
|
O
|
B:GLU329
|
2.8
|
35.4
|
1.0
|
OD1
|
B:ASP330
|
2.9
|
37.8
|
1.0
|
OD1
|
B:ASP297
|
2.9
|
36.9
|
1.0
|
OD1
|
B:ASP324
|
3.0
|
32.4
|
1.0
|
CD
|
B:GLU301
|
3.1
|
37.6
|
1.0
|
CG
|
B:ASP297
|
3.2
|
34.4
|
1.0
|
CG
|
B:ASP324
|
3.3
|
31.8
|
1.0
|
C
|
B:GLU329
|
3.5
|
33.8
|
1.0
|
CA
|
B:ASP330
|
3.7
|
37.2
|
1.0
|
CB
|
B:ASP324
|
3.7
|
31.4
|
1.0
|
CG
|
B:ASP330
|
3.8
|
36.5
|
1.0
|
OD2
|
B:ASP324
|
3.9
|
35.5
|
1.0
|
N
|
B:ASP330
|
3.9
|
36.0
|
1.0
|
OD2
|
B:ASP342
|
4.1
|
26.6
|
1.0
|
CA
|
B:CA403
|
4.3
|
41.0
|
1.0
|
CB
|
B:ASP330
|
4.3
|
34.5
|
1.0
|
CZ
|
B:PHE304
|
4.3
|
29.6
|
1.0
|
CA
|
B:ASP324
|
4.4
|
27.0
|
1.0
|
CA
|
B:GLU329
|
4.5
|
32.5
|
1.0
|
CG
|
B:GLU301
|
4.6
|
35.5
|
1.0
|
N
|
B:GLY302
|
4.6
|
32.5
|
1.0
|
N
|
B:GLU329
|
4.6
|
37.6
|
1.0
|
CB
|
B:ASP297
|
4.7
|
28.9
|
1.0
|
OD2
|
B:ASP330
|
4.8
|
41.1
|
1.0
|
O
|
B:ASP297
|
4.8
|
33.6
|
1.0
|
C
|
B:ASP330
|
4.8
|
38.0
|
1.0
|
CE1
|
B:PHE304
|
4.8
|
27.9
|
1.0
|
|
Calcium binding site 6 out
of 9 in 3g84
Go back to
Calcium Binding Sites List in 3g84
Calcium binding site 6 out
of 9 in the Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
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 the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca403
b:41.0
occ:1.00
|
OD1
|
B:ASP330
|
2.7
|
37.8
|
1.0
|
OE1
|
B:GLU301
|
2.8
|
34.4
|
1.0
|
OD2
|
B:ASP330
|
3.0
|
41.1
|
1.0
|
CG
|
B:ASP330
|
3.2
|
36.5
|
1.0
|
CD
|
B:GLU301
|
3.7
|
37.6
|
1.0
|
CA
|
B:CA402
|
4.3
|
34.5
|
1.0
|
OD1
|
B:ASP324
|
4.4
|
32.4
|
1.0
|
CG
|
B:GLU301
|
4.4
|
35.5
|
1.0
|
OD2
|
B:ASP324
|
4.5
|
35.5
|
1.0
|
CB
|
B:GLU301
|
4.5
|
36.2
|
1.0
|
O
|
B:GLY327
|
4.5
|
40.8
|
1.0
|
OE2
|
B:GLU301
|
4.5
|
39.6
|
1.0
|
CB
|
B:ASP330
|
4.7
|
34.5
|
1.0
|
CG
|
B:ASP324
|
4.8
|
31.8
|
1.0
|
O
|
B:ASP297
|
4.8
|
33.6
|
1.0
|
|
Calcium binding site 7 out
of 9 in 3g84
Go back to
Calcium Binding Sites List in 3g84
Calcium binding site 7 out
of 9 in the Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
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 the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca401
b:28.4
occ:1.00
|
OD1
|
C:ASP342
|
2.5
|
25.1
|
1.0
|
OE1
|
C:GLU329
|
2.5
|
25.4
|
1.0
|
OD1
|
C:ASN341
|
2.6
|
30.1
|
1.0
|
OE1
|
C:GLU321
|
2.6
|
26.5
|
1.0
|
O3
|
C:MAN501
|
2.7
|
32.5
|
1.0
|
O
|
C:ASP342
|
2.7
|
31.6
|
1.0
|
O4
|
C:MAN501
|
2.7
|
29.1
|
1.0
|
OD1
|
C:ASN323
|
2.8
|
31.0
|
1.0
|
CD
|
C:GLU321
|
3.4
|
27.3
|
1.0
|
CG
|
C:ASP342
|
3.4
|
27.2
|
1.0
|
C4
|
C:MAN501
|
3.4
|
32.8
|
1.0
|
C3
|
C:MAN501
|
3.5
|
34.5
|
1.0
|
CG
|
C:ASN323
|
3.5
|
28.1
|
1.0
|
OE2
|
C:GLU321
|
3.5
|
29.7
|
1.0
|
CD
|
C:GLU329
|
3.6
|
27.3
|
1.0
|
CG
|
C:ASN341
|
3.7
|
28.2
|
1.0
|
C
|
C:ASP342
|
3.7
|
28.4
|
1.0
|
ND2
|
C:ASN323
|
3.8
|
29.9
|
1.0
|
N
|
C:ASP342
|
4.0
|
24.6
|
1.0
|
OD2
|
C:ASP342
|
4.0
|
25.2
|
1.0
|
OE2
|
C:GLU329
|
4.1
|
29.1
|
1.0
|
N
|
C:ASN323
|
4.1
|
30.4
|
1.0
|
ND2
|
C:ASN341
|
4.2
|
27.4
|
1.0
|
CA
|
C:ASP342
|
4.2
|
26.1
|
1.0
|
CB
|
C:ASP325
|
4.2
|
34.7
|
1.0
|
CB
|
C:ASP342
|
4.4
|
24.6
|
1.0
|
N
|
C:ASP325
|
4.4
|
30.2
|
1.0
|
N
|
C:ASP324
|
4.6
|
30.7
|
1.0
|
C
|
C:ASN341
|
4.6
|
26.2
|
1.0
|
CB
|
C:ASN323
|
4.7
|
30.3
|
1.0
|
CA
|
C:ASN323
|
4.8
|
29.4
|
1.0
|
N
|
C:VAL343
|
4.8
|
26.9
|
1.0
|
CG
|
C:GLU321
|
4.8
|
24.4
|
1.0
|
CG
|
C:GLU329
|
4.8
|
26.3
|
1.0
|
CB
|
C:GLU329
|
4.8
|
24.3
|
1.0
|
C2
|
C:MAN501
|
4.9
|
36.5
|
1.0
|
C5
|
C:MAN501
|
4.9
|
33.3
|
1.0
|
C
|
C:ASN323
|
4.9
|
28.4
|
1.0
|
CB
|
C:ASN341
|
4.9
|
26.3
|
1.0
|
CA
|
C:ASN341
|
5.0
|
26.9
|
1.0
|
O2
|
C:MAN501
|
5.0
|
34.8
|
1.0
|
|
Calcium binding site 8 out
of 9 in 3g84
Go back to
Calcium Binding Sites List in 3g84
Calcium binding site 8 out
of 9 in the Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
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 the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca402
b:30.3
occ:1.00
|
O
|
C:GLU329
|
2.6
|
29.6
|
1.0
|
OE2
|
C:GLU301
|
2.6
|
36.0
|
1.0
|
OD1
|
C:ASP330
|
2.7
|
35.6
|
1.0
|
OE1
|
C:GLU301
|
2.7
|
36.6
|
1.0
|
OD1
|
C:ASP324
|
2.8
|
32.6
|
1.0
|
OD2
|
C:ASP297
|
3.0
|
37.3
|
1.0
|
CD
|
C:GLU301
|
3.0
|
35.6
|
1.0
|
OD1
|
C:ASP297
|
3.0
|
38.3
|
1.0
|
C
|
C:GLU329
|
3.4
|
31.0
|
1.0
|
CG
|
C:ASP324
|
3.4
|
30.7
|
1.0
|
CG
|
C:ASP297
|
3.4
|
38.0
|
1.0
|
CA
|
C:ASP330
|
3.7
|
34.8
|
1.0
|
CG
|
C:ASP330
|
3.7
|
35.4
|
1.0
|
CB
|
C:ASP324
|
3.7
|
30.5
|
1.0
|
N
|
C:ASP330
|
3.9
|
33.6
|
1.0
|
CZ
|
C:PHE304
|
4.0
|
28.6
|
1.0
|
CB
|
C:ASP330
|
4.1
|
35.2
|
1.0
|
OD2
|
C:ASP342
|
4.2
|
25.2
|
1.0
|
CA
|
C:ASP324
|
4.2
|
29.3
|
1.0
|
OD2
|
C:ASP324
|
4.2
|
34.7
|
1.0
|
N
|
C:GLU329
|
4.4
|
30.1
|
1.0
|
CA
|
C:GLU329
|
4.4
|
28.9
|
1.0
|
CA
|
C:CA403
|
4.5
|
41.1
|
1.0
|
CE1
|
C:PHE304
|
4.5
|
35.9
|
1.0
|
CG
|
C:GLU301
|
4.5
|
34.0
|
1.0
|
N
|
C:GLY302
|
4.7
|
41.9
|
1.0
|
OD2
|
C:ASP330
|
4.7
|
37.1
|
1.0
|
CE2
|
C:PHE304
|
4.9
|
31.0
|
1.0
|
C
|
C:ASP330
|
4.9
|
29.9
|
1.0
|
CB
|
C:ASP297
|
4.9
|
37.4
|
1.0
|
N
|
C:ASP324
|
4.9
|
30.7
|
1.0
|
CB
|
C:GLU329
|
5.0
|
24.3
|
1.0
|
O
|
C:ASP297
|
5.0
|
40.9
|
1.0
|
|
Calcium binding site 9 out
of 9 in 3g84
Go back to
Calcium Binding Sites List in 3g84
Calcium binding site 9 out
of 9 in the Crystal Structure of the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose.
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 the Trimeric Neck and Carbohydrate Recognition Domain of R343V Mutant of Human Surfactant Protein D in Complex with Alpha 1,2 Dimannose. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca403
b:41.1
occ:1.00
|
O
|
C:HOH66
|
2.8
|
29.1
|
1.0
|
O
|
C:HOH53
|
2.8
|
28.7
|
1.0
|
OD2
|
C:ASP330
|
2.8
|
37.1
|
1.0
|
OD1
|
C:ASP330
|
2.8
|
35.6
|
1.0
|
OE1
|
C:GLU301
|
3.0
|
36.6
|
1.0
|
CG
|
C:ASP330
|
3.2
|
35.4
|
1.0
|
CD
|
C:GLU301
|
3.7
|
35.6
|
1.0
|
O
|
C:GLY327
|
4.2
|
38.4
|
1.0
|
OD1
|
C:ASP324
|
4.2
|
32.6
|
1.0
|
CB
|
C:GLU301
|
4.3
|
37.0
|
1.0
|
CG
|
C:GLU301
|
4.3
|
34.0
|
1.0
|
OE2
|
C:GLU301
|
4.4
|
36.0
|
1.0
|
OD2
|
C:ASP324
|
4.5
|
34.7
|
1.0
|
CA
|
C:CA402
|
4.5
|
30.3
|
1.0
|
O
|
C:HOH61
|
4.6
|
29.6
|
1.0
|
CB
|
C:ASP330
|
4.6
|
35.2
|
1.0
|
CG
|
C:ASP324
|
4.7
|
30.7
|
1.0
|
CA
|
C:SER328
|
4.9
|
31.0
|
1.0
|
CA
|
C:GLU301
|
4.9
|
40.4
|
1.0
|
O
|
C:HOH108
|
5.0
|
35.7
|
1.0
|
|
Reference:
E.Crouch,
K.Hartshorn,
T.Horlacher,
B.Mcdonald,
K.Smith,
T.Cafarella,
B.Seaton,
P.H.Seeberger,
J.Head.
Recognition of Mannosylated Ligands and Influenza A Virus By Human Surfactant Protein D: Contributions of An Extended Site and Residue 343. Biochemistry V. 48 3335 2009.
ISSN: ISSN 0006-2960
PubMed: 19249874
DOI: 10.1021/BI8022703
Page generated: Sat Jul 13 10:31:11 2024
|