Calcium in PDB 4um8: Crystal Structure of Alpha V Beta 6
Protein crystallography data
The structure of Crystal Structure of Alpha V Beta 6, PDB code: 4um8
was solved by
X.Dong,
T.A.Springer,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
48.656 /
2.85
|
|
Space group
|
C 1 2 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
184.450,
170.010,
102.390,
90.00,
98.68,
90.00
|
|
R / Rfree (%)
|
23.84 /
28.08
|
Other elements in 4um8:
The structure of Crystal Structure of Alpha V Beta 6 also contains other interesting chemical elements:
Calcium Binding Sites:
The binding sites of Calcium atom in the Crystal Structure of Alpha V Beta 6
(pdb code 4um8). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 10 binding sites of Calcium where determined in the
Crystal Structure of Alpha V Beta 6, PDB code: 4um8:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 10 in 4um8
Go back to
Calcium Binding Sites List in 4um8
Calcium binding site 1 out
of 10 in the Crystal Structure of Alpha V Beta 6
 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 Alpha V Beta 6 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2001
b:76.5
occ:1.00
|
O
|
A:ILE236
|
2.2
|
73.2
|
1.0
|
|
OD1
|
A:ASN232
|
2.3
|
65.0
|
1.0
|
|
OD1
|
A:ASP230
|
2.3
|
57.4
|
1.0
|
|
OD1
|
A:ASP238
|
2.4
|
78.3
|
1.0
|
|
O
|
A:HOH4027
|
2.4
|
49.2
|
1.0
|
|
OD1
|
A:ASP234
|
2.4
|
75.0
|
1.0
|
|
OD2
|
A:ASP238
|
2.4
|
90.2
|
1.0
|
|
CG
|
A:ASP238
|
2.6
|
72.0
|
1.0
|
|
C
|
A:ILE236
|
3.4
|
76.2
|
1.0
|
|
CG
|
A:ASN232
|
3.4
|
71.1
|
1.0
|
|
CG
|
A:ASP234
|
3.4
|
71.9
|
1.0
|
|
CG
|
A:ASP230
|
3.6
|
57.0
|
1.0
|
|
OD2
|
A:ASP234
|
3.8
|
87.5
|
1.0
|
|
ND2
|
A:ASN232
|
3.9
|
76.7
|
1.0
|
|
OD1
|
A:ASP257
|
3.9
|
0.2
|
1.0
|
|
N
|
A:PHE231
|
4.0
|
52.1
|
1.0
|
|
CB
|
A:ASP238
|
4.0
|
58.4
|
1.0
|
|
N
|
A:ASP238
|
4.1
|
51.2
|
1.0
|
|
CA
|
A:ASP230
|
4.1
|
57.5
|
1.0
|
|
CA
|
A:ILE236
|
4.1
|
66.3
|
1.0
|
|
N
|
A:ILE236
|
4.2
|
62.8
|
1.0
|
|
N
|
A:ASN232
|
4.2
|
57.0
|
1.0
|
|
CB
|
A:ILE236
|
4.2
|
62.3
|
1.0
|
|
C
|
A:ASP237
|
4.3
|
51.3
|
1.0
|
|
CB
|
A:ASP230
|
4.4
|
56.8
|
1.0
|
|
N
|
A:ASP237
|
4.4
|
69.6
|
1.0
|
|
CA
|
A:ASP238
|
4.5
|
54.4
|
1.0
|
|
OD2
|
A:ASP230
|
4.5
|
59.2
|
1.0
|
|
C
|
A:ASP230
|
4.6
|
51.1
|
1.0
|
|
CA
|
A:ASP237
|
4.6
|
52.1
|
1.0
|
|
N
|
A:ASP234
|
4.6
|
66.0
|
1.0
|
|
CB
|
A:ASN232
|
4.7
|
61.3
|
1.0
|
|
O
|
A:ASP237
|
4.7
|
55.2
|
1.0
|
|
CB
|
A:ASP234
|
4.7
|
69.1
|
1.0
|
|
CA
|
A:ASN232
|
4.9
|
60.2
|
1.0
|
|
N
|
A:GLY233
|
4.9
|
61.7
|
1.0
|
|
O
|
A:GLY229
|
4.9
|
80.1
|
1.0
|
|
N
|
A:GLY235
|
4.9
|
66.0
|
1.0
|
|
CG2
|
A:ILE236
|
4.9
|
72.4
|
1.0
|
|
N
|
A:GLY258
|
5.0
|
54.8
|
1.0
|
|
C
|
A:GLY235
|
5.0
|
69.1
|
1.0
|
|
Calcium binding site 2 out
of 10 in 4um8
Go back to
Calcium Binding Sites List in 4um8
Calcium binding site 2 out
of 10 in the Crystal Structure of Alpha V Beta 6
 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 Alpha V Beta 6 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2002
b:0.7
occ:1.00
|
O
|
A:TYR290
|
2.3
|
66.8
|
1.0
|
|
OD1
|
A:ASN286
|
2.3
|
46.5
|
1.0
|
|
OD1
|
A:ASP284
|
2.4
|
47.1
|
1.0
|
|
OD1
|
A:ASP292
|
2.4
|
76.9
|
1.0
|
|
O
|
A:HOH4034
|
2.4
|
36.5
|
1.0
|
|
OD1
|
A:ASP288
|
2.4
|
93.8
|
1.0
|
|
OD2
|
A:ASP292
|
2.4
|
57.1
|
1.0
|
|
CG
|
A:ASP292
|
2.7
|
64.2
|
1.0
|
|
C
|
A:TYR290
|
3.2
|
74.8
|
1.0
|
|
CG
|
A:ASN286
|
3.3
|
47.1
|
1.0
|
|
CG
|
A:ASP288
|
3.4
|
70.0
|
1.0
|
|
CB
|
A:TYR290
|
3.5
|
51.3
|
1.0
|
|
ND2
|
A:ASN286
|
3.5
|
51.8
|
1.0
|
|
CG
|
A:ASP284
|
3.5
|
51.7
|
1.0
|
|
OD2
|
A:ASP288
|
3.6
|
81.2
|
1.0
|
|
CA
|
A:TYR290
|
3.7
|
50.7
|
1.0
|
|
N
|
A:TYR290
|
3.9
|
63.5
|
1.0
|
|
CB
|
A:ASP292
|
4.1
|
60.3
|
1.0
|
|
CA
|
A:ASP284
|
4.2
|
47.8
|
1.0
|
|
CB
|
A:ASP284
|
4.3
|
46.1
|
1.0
|
|
N
|
A:ILE285
|
4.4
|
42.0
|
1.0
|
|
N
|
A:ALA291
|
4.4
|
61.9
|
1.0
|
|
O
|
A:GLN320
|
4.4
|
50.1
|
1.0
|
|
N
|
A:ASP292
|
4.4
|
60.6
|
1.0
|
|
C
|
A:ALA291
|
4.4
|
51.0
|
1.0
|
|
OD2
|
A:ASP284
|
4.5
|
65.2
|
1.0
|
|
N
|
A:ASN286
|
4.5
|
70.0
|
1.0
|
|
CB
|
A:ASN286
|
4.6
|
46.7
|
1.0
|
|
N
|
A:GLN320
|
4.7
|
51.9
|
1.0
|
|
C
|
A:ASP284
|
4.7
|
48.5
|
1.0
|
|
O
|
A:ALA291
|
4.7
|
44.0
|
1.0
|
|
CA
|
A:ASP292
|
4.7
|
62.8
|
1.0
|
|
CB
|
A:ASP288
|
4.8
|
57.3
|
1.0
|
|
CA
|
A:ALA291
|
4.8
|
65.3
|
1.0
|
|
N
|
A:ASP288
|
4.8
|
53.3
|
1.0
|
|
CG
|
A:TYR290
|
4.9
|
67.6
|
1.0
|
|
Calcium binding site 3 out
of 10 in 4um8
Go back to
Calcium Binding Sites List in 4um8
Calcium binding site 3 out
of 10 in the Crystal Structure of Alpha V Beta 6
 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 Alpha V Beta 6 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2003
b:71.8
occ:1.00
|
O
|
A:PHE355
|
2.2
|
53.2
|
1.0
|
|
OD1
|
A:ASP351
|
2.3
|
48.0
|
1.0
|
|
OD1
|
A:ASP353
|
2.3
|
82.9
|
1.0
|
|
OD1
|
A:ASP357
|
2.4
|
85.2
|
1.0
|
|
OD2
|
A:ASP357
|
2.4
|
93.5
|
1.0
|
|
OD1
|
A:ASP349
|
2.4
|
74.0
|
1.0
|
|
CG
|
A:ASP357
|
2.7
|
69.2
|
1.0
|
|
CG
|
A:ASP353
|
3.4
|
64.0
|
1.0
|
|
C
|
A:PHE355
|
3.4
|
60.7
|
1.0
|
|
CG
|
A:ASP351
|
3.4
|
49.3
|
1.0
|
|
CG
|
A:ASP349
|
3.6
|
75.4
|
1.0
|
|
OD2
|
A:ASP353
|
3.9
|
76.0
|
1.0
|
|
OD2
|
A:ASP351
|
3.9
|
76.8
|
1.0
|
|
CB
|
A:ASP357
|
4.1
|
42.0
|
1.0
|
|
N
|
A:PHE355
|
4.2
|
63.6
|
1.0
|
|
N
|
A:LEU350
|
4.2
|
51.3
|
1.0
|
|
CA
|
A:ASP349
|
4.2
|
51.4
|
1.0
|
|
ND2
|
A:ASN377
|
4.2
|
45.7
|
1.0
|
|
N
|
A:ASP351
|
4.2
|
66.8
|
1.0
|
|
CA
|
A:PHE355
|
4.2
|
64.7
|
1.0
|
|
C
|
A:ASN356
|
4.3
|
47.1
|
1.0
|
|
N
|
A:ASP357
|
4.3
|
41.1
|
1.0
|
|
OD2
|
A:ASP349
|
4.4
|
79.4
|
1.0
|
|
N
|
A:ASN356
|
4.4
|
61.1
|
1.0
|
|
C
|
A:ASP349
|
4.4
|
52.5
|
1.0
|
|
N
|
A:ASP353
|
4.5
|
54.8
|
1.0
|
|
CB
|
A:PHE355
|
4.5
|
74.6
|
1.0
|
|
CB
|
A:ASP349
|
4.5
|
63.8
|
1.0
|
|
O
|
A:ASN356
|
4.5
|
72.7
|
1.0
|
|
CB
|
A:ASP353
|
4.5
|
54.0
|
1.0
|
|
CA
|
A:ASN356
|
4.6
|
55.9
|
1.0
|
|
N
|
A:GLN352
|
4.7
|
57.9
|
1.0
|
|
CB
|
A:ASP351
|
4.7
|
50.4
|
1.0
|
|
CA
|
A:ASP357
|
4.7
|
39.5
|
1.0
|
|
N
|
A:GLY378
|
4.7
|
41.2
|
1.0
|
|
O
|
A:GLY378
|
4.7
|
45.2
|
1.0
|
|
CA
|
A:ASP351
|
4.9
|
68.6
|
1.0
|
|
O
|
A:GLY348
|
4.9
|
62.2
|
1.0
|
|
N
|
A:GLY354
|
4.9
|
55.1
|
1.0
|
|
CB
|
A:ASN377
|
5.0
|
41.9
|
1.0
|
|
Calcium binding site 4 out
of 10 in 4um8
Go back to
Calcium Binding Sites List in 4um8
Calcium binding site 4 out
of 10 in the Crystal Structure of Alpha V Beta 6
 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 Alpha V Beta 6 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2004
b:58.0
occ:1.00
|
ND2
|
A:ASN417
|
2.3
|
91.7
|
1.0
|
|
O
|
A:TYR419
|
2.3
|
54.3
|
1.0
|
|
OD1
|
A:ASP415
|
2.3
|
59.8
|
1.0
|
|
OD2
|
A:ASP421
|
2.4
|
70.9
|
1.0
|
|
OD1
|
A:ASP421
|
2.4
|
65.4
|
1.0
|
|
OD1
|
A:ASN417
|
2.4
|
0.4
|
1.0
|
|
CG
|
A:ASN417
|
2.6
|
95.4
|
1.0
|
|
CG
|
A:ASP421
|
2.7
|
69.1
|
1.0
|
|
OD1
|
A:ASP413
|
3.0
|
59.2
|
1.0
|
|
CG
|
A:ASP415
|
3.2
|
61.6
|
1.0
|
|
OD2
|
A:ASP415
|
3.4
|
62.0
|
1.0
|
|
C
|
A:TYR419
|
3.4
|
53.7
|
1.0
|
|
CB
|
A:ASN417
|
4.1
|
85.7
|
1.0
|
|
CG
|
A:ASP413
|
4.1
|
75.4
|
1.0
|
|
CB
|
A:ASP421
|
4.1
|
55.0
|
1.0
|
|
N
|
A:ALA437
|
4.2
|
68.5
|
1.0
|
|
CA
|
A:TYR419
|
4.2
|
55.8
|
1.0
|
|
CB
|
A:TYR419
|
4.2
|
71.2
|
1.0
|
|
C
|
A:PRO420
|
4.3
|
63.5
|
1.0
|
|
O
|
A:ALA437
|
4.3
|
70.0
|
1.0
|
|
N
|
A:TYR419
|
4.3
|
63.3
|
1.0
|
|
N
|
A:ASP421
|
4.4
|
56.9
|
1.0
|
|
O
|
A:PRO420
|
4.4
|
61.5
|
1.0
|
|
CB
|
A:ALA437
|
4.4
|
50.8
|
1.0
|
|
N
|
A:PRO420
|
4.5
|
51.5
|
1.0
|
|
N
|
A:ASP415
|
4.5
|
61.0
|
1.0
|
|
CB
|
A:ASP415
|
4.6
|
63.6
|
1.0
|
|
N
|
A:ASN417
|
4.6
|
66.4
|
1.0
|
|
CA
|
A:ASP413
|
4.6
|
66.9
|
1.0
|
|
CA
|
A:ASP421
|
4.6
|
47.9
|
1.0
|
|
N
|
A:ILE414
|
4.7
|
56.0
|
1.0
|
|
CA
|
A:PRO420
|
4.7
|
63.2
|
1.0
|
|
CA
|
A:ALA437
|
4.7
|
51.7
|
1.0
|
|
CA
|
A:ASN417
|
4.9
|
70.4
|
1.0
|
|
CB
|
A:ASP413
|
4.9
|
71.2
|
1.0
|
|
C
|
A:ALA437
|
4.9
|
54.8
|
1.0
|
|
OD2
|
A:ASP413
|
4.9
|
72.9
|
1.0
|
|
Calcium binding site 5 out
of 10 in 4um8
Go back to
Calcium Binding Sites List in 4um8
Calcium binding site 5 out
of 10 in the Crystal Structure of Alpha V Beta 6
 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 Alpha V Beta 6 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca2003
b:64.2
occ:1.00
|
OD1
|
B:ASP130
|
2.4
|
0.1
|
1.0
|
|
OD1
|
B:ASP131
|
2.4
|
68.6
|
1.0
|
|
O
|
B:SER127
|
2.4
|
83.8
|
1.0
|
|
O
|
B:LYS338
|
2.5
|
93.3
|
1.0
|
|
OD2
|
B:ASP130
|
3.0
|
0.1
|
1.0
|
|
CG
|
B:ASP130
|
3.0
|
99.1
|
1.0
|
|
CG
|
B:ASP131
|
3.5
|
60.9
|
1.0
|
|
C
|
B:SER127
|
3.6
|
74.2
|
1.0
|
|
C
|
B:LYS338
|
3.6
|
86.3
|
1.0
|
|
OD2
|
B:ASP131
|
4.0
|
60.5
|
1.0
|
|
CA
|
B:MET128
|
4.1
|
60.8
|
1.0
|
|
N
|
B:MET128
|
4.3
|
56.1
|
1.0
|
|
N
|
B:ASP131
|
4.4
|
61.1
|
1.0
|
|
CB
|
B:ASP130
|
4.5
|
71.7
|
1.0
|
|
N
|
B:ASP339
|
4.5
|
81.4
|
1.0
|
|
CA
|
B:LYS338
|
4.5
|
66.5
|
1.0
|
|
CA
|
B:ASP339
|
4.5
|
61.9
|
1.0
|
|
CB
|
B:ASP131
|
4.7
|
65.4
|
1.0
|
|
SD
|
B:MET128
|
4.7
|
62.3
|
1.0
|
|
CA
|
B:SER127
|
4.7
|
75.0
|
1.0
|
|
C
|
B:MET128
|
4.8
|
70.4
|
1.0
|
|
N
|
B:ASP130
|
4.9
|
76.8
|
1.0
|
|
CB
|
B:LYS338
|
4.9
|
78.1
|
1.0
|
|
OD2
|
B:ASP254
|
4.9
|
55.2
|
1.0
|
|
Calcium binding site 6 out
of 10 in 4um8
Go back to
Calcium Binding Sites List in 4um8
Calcium binding site 6 out
of 10 in the Crystal Structure of Alpha V Beta 6
 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 Alpha V Beta 6 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca2001
b:0.9
occ:1.00
|
ND2
|
C:ASN417
|
2.2
|
0.1
|
1.0
|
|
OD1
|
C:ASP415
|
2.3
|
0.0
|
1.0
|
|
O
|
C:HOH4029
|
2.4
|
56.4
|
1.0
|
|
OD1
|
C:ASP421
|
2.4
|
0.5
|
1.0
|
|
O
|
C:TYR419
|
2.4
|
0.3
|
1.0
|
|
OD1
|
C:ASN417
|
2.4
|
0.2
|
1.0
|
|
OD2
|
C:ASP415
|
2.4
|
0.3
|
1.0
|
|
CG
|
C:ASN417
|
2.6
|
0.9
|
1.0
|
|
CG
|
C:ASP415
|
2.7
|
0.8
|
1.0
|
|
CG
|
C:ASP421
|
3.0
|
0.4
|
1.0
|
|
OD2
|
C:ASP421
|
3.0
|
0.8
|
1.0
|
|
C
|
C:TYR419
|
3.5
|
0.9
|
1.0
|
|
O
|
C:ALA437
|
3.8
|
0.4
|
1.0
|
|
N
|
C:ALA437
|
3.8
|
0.5
|
1.0
|
|
OD1
|
C:ASP413
|
3.9
|
0.9
|
1.0
|
|
CB
|
C:ALA437
|
3.9
|
0.8
|
1.0
|
|
CB
|
C:ASN417
|
4.1
|
0.6
|
1.0
|
|
CB
|
C:ASP415
|
4.2
|
0.8
|
1.0
|
|
CB
|
C:TYR419
|
4.2
|
0.5
|
1.0
|
|
CA
|
C:TYR419
|
4.2
|
1.0
|
1.0
|
|
CA
|
C:ALA437
|
4.3
|
0.3
|
1.0
|
|
N
|
C:TYR419
|
4.4
|
1.0
|
1.0
|
|
C
|
C:ALA437
|
4.4
|
0.4
|
1.0
|
|
CB
|
C:ASP421
|
4.5
|
0.3
|
1.0
|
|
C
|
C:PRO420
|
4.5
|
0.4
|
1.0
|
|
N
|
C:PRO420
|
4.6
|
0.8
|
1.0
|
|
N
|
C:ASP421
|
4.6
|
0.3
|
1.0
|
|
O
|
C:PRO420
|
4.6
|
0.8
|
1.0
|
|
N
|
C:ASN417
|
4.7
|
0.1
|
1.0
|
|
N
|
C:ASP415
|
4.8
|
0.5
|
1.0
|
|
CA
|
C:PRO420
|
4.8
|
0.2
|
1.0
|
|
C
|
C:ARG436
|
4.9
|
0.5
|
1.0
|
|
CA
|
C:ASP421
|
4.9
|
99.7
|
1.0
|
|
CA
|
C:ASN417
|
4.9
|
0.4
|
1.0
|
|
CG
|
C:ASP413
|
5.0
|
0.1
|
1.0
|
|
Calcium binding site 7 out
of 10 in 4um8
Go back to
Calcium Binding Sites List in 4um8
Calcium binding site 7 out
of 10 in the Crystal Structure of Alpha V Beta 6
 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 Alpha V Beta 6 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca2002
b:0.6
occ:1.00
|
O
|
C:PHE355
|
2.2
|
95.7
|
1.0
|
|
OD1
|
C:ASP353
|
2.3
|
0.7
|
1.0
|
|
OD1
|
C:ASP351
|
2.3
|
97.3
|
1.0
|
|
OD2
|
C:ASP357
|
2.4
|
0.1
|
1.0
|
|
OD1
|
C:ASP357
|
2.4
|
0.5
|
1.0
|
|
OD1
|
C:ASP349
|
2.4
|
0.2
|
1.0
|
|
CG
|
C:ASP357
|
2.6
|
0.4
|
1.0
|
|
CG
|
C:ASP353
|
3.4
|
0.8
|
1.0
|
|
C
|
C:PHE355
|
3.4
|
95.9
|
1.0
|
|
CG
|
C:ASP351
|
3.5
|
0.9
|
1.0
|
|
CG
|
C:ASP349
|
3.6
|
0.1
|
1.0
|
|
OD2
|
C:ASP353
|
3.9
|
0.6
|
1.0
|
|
OD2
|
C:ASP351
|
4.0
|
1.0
|
1.0
|
|
CA
|
C:ASP349
|
4.0
|
99.2
|
1.0
|
|
N
|
C:LEU350
|
4.0
|
96.9
|
1.0
|
|
CB
|
C:ASP357
|
4.1
|
87.8
|
1.0
|
|
N
|
C:ASP351
|
4.1
|
99.8
|
1.0
|
|
N
|
C:PHE355
|
4.2
|
0.7
|
1.0
|
|
C
|
C:ASN356
|
4.2
|
91.6
|
1.0
|
|
N
|
C:ASP357
|
4.2
|
93.8
|
1.0
|
|
CA
|
C:PHE355
|
4.2
|
97.9
|
1.0
|
|
C
|
C:ASP349
|
4.3
|
99.8
|
1.0
|
|
N
|
C:ASN356
|
4.4
|
94.8
|
1.0
|
|
OD2
|
C:ASP349
|
4.4
|
0.7
|
1.0
|
|
CB
|
C:ASP349
|
4.4
|
0.7
|
1.0
|
|
N
|
C:ASP353
|
4.4
|
0.0
|
1.0
|
|
CA
|
C:ASN356
|
4.5
|
92.9
|
1.0
|
|
ND2
|
C:ASN377
|
4.5
|
0.2
|
1.0
|
|
O
|
C:ASN356
|
4.5
|
88.1
|
1.0
|
|
CB
|
C:PHE355
|
4.5
|
95.6
|
1.0
|
|
CB
|
C:ASP353
|
4.5
|
0.1
|
1.0
|
|
N
|
C:GLN352
|
4.6
|
1.0
|
1.0
|
|
CA
|
C:ASP357
|
4.6
|
86.0
|
1.0
|
|
N
|
C:GLY378
|
4.7
|
85.3
|
1.0
|
|
CB
|
C:ASP351
|
4.7
|
0.3
|
1.0
|
|
O
|
C:GLY348
|
4.7
|
92.6
|
1.0
|
|
O
|
C:GLY378
|
4.8
|
90.1
|
1.0
|
|
CA
|
C:ASP351
|
4.8
|
0.9
|
1.0
|
|
N
|
C:GLY354
|
4.9
|
0.1
|
1.0
|
|
CA
|
C:LEU350
|
5.0
|
97.2
|
1.0
|
|
Calcium binding site 8 out
of 10 in 4um8
Go back to
Calcium Binding Sites List in 4um8
Calcium binding site 8 out
of 10 in the Crystal Structure of Alpha V Beta 6
 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 Alpha V Beta 6 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca2003
b:0.1
occ:1.00
|
OD1
|
C:ASP230
|
2.4
|
0.7
|
1.0
|
|
OD1
|
C:ASP238
|
2.4
|
0.6
|
1.0
|
|
OD1
|
C:ASP234
|
2.4
|
0.1
|
1.0
|
|
OD1
|
C:ASN232
|
2.4
|
0.8
|
1.0
|
|
O
|
C:HOH4010
|
2.4
|
65.3
|
1.0
|
|
OD2
|
C:ASP238
|
2.4
|
0.1
|
1.0
|
|
O
|
C:ILE236
|
2.5
|
1.0
|
1.0
|
|
CG
|
C:ASP238
|
2.6
|
0.4
|
1.0
|
|
CG
|
C:ASP234
|
3.2
|
0.1
|
1.0
|
|
CG
|
C:ASN232
|
3.3
|
0.5
|
1.0
|
|
OD2
|
C:ASP234
|
3.5
|
0.6
|
1.0
|
|
ND2
|
C:ASN232
|
3.5
|
0.6
|
1.0
|
|
CG
|
C:ASP230
|
3.6
|
0.1
|
1.0
|
|
C
|
C:ILE236
|
3.6
|
0.7
|
1.0
|
|
OD1
|
C:ASP257
|
3.7
|
0.3
|
1.0
|
|
CB
|
C:ASP238
|
4.0
|
96.4
|
1.0
|
|
N
|
C:ASP238
|
4.3
|
0.5
|
1.0
|
|
N
|
C:PHE231
|
4.3
|
93.8
|
1.0
|
|
CA
|
C:ASP230
|
4.3
|
96.7
|
1.0
|
|
N
|
C:ASN232
|
4.4
|
97.0
|
1.0
|
|
CA
|
C:ILE236
|
4.4
|
0.5
|
1.0
|
|
N
|
C:ILE236
|
4.4
|
0.7
|
1.0
|
|
CB
|
C:ASP230
|
4.4
|
0.2
|
1.0
|
|
OD2
|
C:ASP230
|
4.4
|
0.4
|
1.0
|
|
CB
|
C:ILE236
|
4.4
|
0.8
|
1.0
|
|
C
|
C:ASP237
|
4.5
|
0.0
|
1.0
|
|
CA
|
C:ASP238
|
4.5
|
97.2
|
1.0
|
|
CB
|
C:ASP234
|
4.6
|
0.3
|
1.0
|
|
CB
|
C:ASN232
|
4.6
|
99.8
|
1.0
|
|
N
|
C:ASP237
|
4.7
|
0.2
|
1.0
|
|
N
|
C:ASP234
|
4.8
|
0.7
|
1.0
|
|
N
|
C:GLY258
|
4.8
|
0.4
|
1.0
|
|
C
|
C:ASP230
|
4.9
|
94.0
|
1.0
|
|
O
|
C:ASP237
|
4.9
|
97.6
|
1.0
|
|
CA
|
C:ASP237
|
4.9
|
0.0
|
1.0
|
|
CG
|
C:ASP257
|
4.9
|
0.1
|
1.0
|
|
CA
|
C:ASN232
|
5.0
|
99.4
|
1.0
|
|
Calcium binding site 9 out
of 10 in 4um8
Go back to
Calcium Binding Sites List in 4um8
Calcium binding site 9 out
of 10 in the Crystal Structure of Alpha V Beta 6
 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 Alpha V Beta 6 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca2004
b:0.1
occ:1.00
|
O
|
C:TYR290
|
2.2
|
0.4
|
1.0
|
|
OD1
|
C:ASN286
|
2.4
|
0.4
|
1.0
|
|
OD1
|
C:ASP292
|
2.4
|
0.0
|
1.0
|
|
OD2
|
C:ASP292
|
2.4
|
0.9
|
1.0
|
|
OD1
|
C:ASP284
|
2.4
|
0.7
|
1.0
|
|
OD1
|
C:ASP288
|
2.4
|
0.6
|
1.0
|
|
CG
|
C:ASP292
|
2.7
|
0.5
|
1.0
|
|
C
|
C:TYR290
|
3.2
|
0.6
|
1.0
|
|
CG
|
C:ASP288
|
3.3
|
0.2
|
1.0
|
|
CG
|
C:ASN286
|
3.3
|
1.0
|
1.0
|
|
CB
|
C:TYR290
|
3.5
|
96.7
|
1.0
|
|
CG
|
C:ASP284
|
3.6
|
0.2
|
1.0
|
|
OD2
|
C:ASP288
|
3.6
|
0.5
|
1.0
|
|
ND2
|
C:ASN286
|
3.7
|
95.4
|
1.0
|
|
CA
|
C:TYR290
|
3.7
|
0.5
|
1.0
|
|
N
|
C:TYR290
|
3.9
|
0.9
|
1.0
|
|
CB
|
C:ASP292
|
4.1
|
80.7
|
1.0
|
|
CA
|
C:ASP284
|
4.1
|
97.6
|
1.0
|
|
CB
|
C:ASP284
|
4.3
|
0.7
|
1.0
|
|
N
|
C:ILE285
|
4.3
|
93.6
|
1.0
|
|
O
|
C:GLN320
|
4.4
|
89.5
|
1.0
|
|
N
|
C:ALA291
|
4.4
|
0.3
|
1.0
|
|
N
|
C:ASP292
|
4.4
|
91.8
|
1.0
|
|
N
|
C:ASN286
|
4.4
|
94.4
|
1.0
|
|
C
|
C:ALA291
|
4.5
|
0.2
|
1.0
|
|
N
|
C:GLN320
|
4.5
|
92.4
|
1.0
|
|
OD2
|
C:ASP284
|
4.5
|
97.7
|
1.0
|
|
C
|
C:ASP284
|
4.6
|
95.3
|
1.0
|
|
CA
|
C:ASP292
|
4.7
|
80.9
|
1.0
|
|
CB
|
C:ASN286
|
4.7
|
89.5
|
1.0
|
|
CB
|
C:ASP288
|
4.7
|
0.9
|
1.0
|
|
O
|
C:ALA291
|
4.8
|
0.6
|
1.0
|
|
N
|
C:ASP288
|
4.8
|
0.1
|
1.0
|
|
CA
|
C:ALA291
|
4.8
|
0.8
|
1.0
|
|
CG
|
C:TYR290
|
4.9
|
0.2
|
1.0
|
|
CB
|
C:GLN320
|
5.0
|
0.0
|
1.0
|
|
Calcium binding site 10 out
of 10 in 4um8
Go back to
Calcium Binding Sites List in 4um8
Calcium binding site 10 out
of 10 in the Crystal Structure of Alpha V Beta 6
 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 Alpha V Beta 6 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca2003
b:91.0
occ:1.00
|
OD1
|
D:ASP130
|
2.4
|
0.1
|
1.0
|
|
OD2
|
D:ASP130
|
2.4
|
0.8
|
1.0
|
|
O
|
D:SER127
|
2.4
|
91.8
|
1.0
|
|
O
|
D:LYS338
|
2.5
|
98.9
|
1.0
|
|
CG
|
D:ASP130
|
2.7
|
0.7
|
1.0
|
|
OD1
|
D:ASP131
|
3.0
|
1.0
|
1.0
|
|
C
|
D:LYS338
|
3.6
|
97.7
|
1.0
|
|
C
|
D:SER127
|
3.6
|
81.5
|
1.0
|
|
CG
|
D:ASP131
|
4.1
|
0.9
|
1.0
|
|
CB
|
D:ASP130
|
4.2
|
0.7
|
1.0
|
|
CA
|
D:LYS338
|
4.3
|
89.5
|
1.0
|
|
CA
|
D:MET128
|
4.5
|
86.7
|
1.0
|
|
N
|
D:MET128
|
4.5
|
80.4
|
1.0
|
|
CB
|
D:LYS338
|
4.6
|
92.8
|
1.0
|
|
CA
|
D:SER127
|
4.6
|
74.8
|
1.0
|
|
OD2
|
D:ASP131
|
4.7
|
0.5
|
1.0
|
|
N
|
D:ASP339
|
4.7
|
0.7
|
1.0
|
|
N
|
D:ASP131
|
4.7
|
0.3
|
1.0
|
|
CB
|
D:SER127
|
4.8
|
79.6
|
1.0
|
|
N
|
D:ASP130
|
4.9
|
84.1
|
1.0
|
|
CA
|
D:ASP339
|
4.9
|
79.8
|
1.0
|
|
Reference:
X.Dong,
N.E.Hudson,
C.Lu,
T.A.Springer.
Structural Determinants of Integrin Beta-Subunit Specificity For Latent Tgf-Beta Nat.Struct.Mol.Biol. 2014.
ISSN: ESSN 1545-9985
PubMed: 25383667
DOI: 10.1038/NSMB.2905
Page generated: Sun Jul 14 13:45:54 2024
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