Calcium in PDB 1ux6: Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
Protein crystallography data
The structure of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats, PDB code: 1ux6
was solved by
M.Kvansakul,
J.C.Adams,
E.Hohenester,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
20.00 /
1.90
|
|
Space group
|
H 3 2
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
162.340,
162.340,
85.140,
90.00,
90.00,
120.00
|
|
R / Rfree (%)
|
19.9 /
22.7
|
Calcium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
16;
Binding sites:
The binding sites of Calcium atom in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
(pdb code 1ux6). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 16 binding sites of Calcium where determined in the
Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats, PDB code: 1ux6:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 16 in 1ux6
Go back to
Calcium Binding Sites List in 1ux6
Calcium binding site 1 out
of 16 in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2001
b:18.1
occ:1.00
|
O
|
A:CYS928
|
2.2
|
19.4
|
1.0
|
|
OD2
|
A:ASP919
|
2.3
|
15.7
|
1.0
|
|
OD2
|
A:ASP917
|
2.3
|
15.2
|
1.0
|
|
O
|
A:ILE934
|
2.3
|
20.1
|
1.0
|
|
O
|
A:ASN931
|
2.4
|
18.6
|
1.0
|
|
OD2
|
A:ASP926
|
2.4
|
20.4
|
1.0
|
|
OD1
|
A:ASP926
|
2.7
|
20.6
|
1.0
|
|
CG
|
A:ASP926
|
2.9
|
19.1
|
1.0
|
|
C
|
A:CYS928
|
3.3
|
18.8
|
1.0
|
|
C
|
A:ASN931
|
3.3
|
20.1
|
1.0
|
|
CG
|
A:ASP917
|
3.4
|
19.0
|
1.0
|
|
CG
|
A:ASP919
|
3.4
|
18.1
|
1.0
|
|
C
|
A:ILE934
|
3.5
|
23.8
|
1.0
|
|
OD1
|
A:ASP917
|
3.7
|
19.1
|
1.0
|
|
OD1
|
A:ASP919
|
4.0
|
18.2
|
1.0
|
|
N
|
A:ASN931
|
4.0
|
19.1
|
1.0
|
|
CA
|
A:CA2002
|
4.0
|
17.6
|
1.0
|
|
CA
|
A:SER935
|
4.1
|
29.4
|
1.0
|
|
N
|
A:PRO929
|
4.2
|
20.3
|
1.0
|
|
N
|
A:VAL932
|
4.2
|
20.4
|
1.0
|
|
N
|
A:SER935
|
4.2
|
26.2
|
1.0
|
|
CA
|
A:ASN931
|
4.2
|
19.6
|
1.0
|
|
CB
|
A:CYS928
|
4.2
|
19.1
|
1.0
|
|
CA
|
A:CYS928
|
4.2
|
19.1
|
1.0
|
|
CA
|
A:VAL932
|
4.3
|
19.6
|
1.0
|
|
CB
|
A:SER935
|
4.3
|
31.4
|
1.0
|
|
CA
|
A:PRO929
|
4.4
|
19.0
|
1.0
|
|
CB
|
A:ASP926
|
4.4
|
19.4
|
1.0
|
|
N
|
A:ILE934
|
4.4
|
21.5
|
1.0
|
|
C
|
A:PRO929
|
4.5
|
17.9
|
1.0
|
|
CB
|
A:ASP919
|
4.5
|
16.9
|
1.0
|
|
N
|
A:CYS928
|
4.5
|
17.8
|
1.0
|
|
CA
|
A:ILE934
|
4.5
|
21.9
|
1.0
|
|
CB
|
A:ASN931
|
4.6
|
21.2
|
1.0
|
|
CB
|
A:ASP917
|
4.6
|
17.5
|
1.0
|
|
C
|
A:VAL932
|
4.6
|
21.2
|
1.0
|
|
O
|
A:PRO929
|
4.7
|
16.5
|
1.0
|
|
O
|
A:HOH2268
|
4.9
|
41.2
|
1.0
|
|
N
|
A:GLU930
|
4.9
|
16.6
|
1.0
|
|
O
|
A:HOH2154
|
4.9
|
17.0
|
1.0
|
|
O
|
A:VAL932
|
5.0
|
19.4
|
1.0
|
|
Calcium binding site 2 out
of 16 in 1ux6
Go back to
Calcium Binding Sites List in 1ux6
Calcium binding site 2 out
of 16 in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2002
b:17.6
occ:1.00
|
OD1
|
A:ASP915
|
2.2
|
19.5
|
1.0
|
|
OD1
|
A:ASP917
|
2.3
|
19.1
|
1.0
|
|
OD2
|
A:ASP926
|
2.3
|
20.4
|
1.0
|
|
OD1
|
A:ASP919
|
2.4
|
18.2
|
1.0
|
|
O
|
A:VAL921
|
2.4
|
20.2
|
1.0
|
|
O
|
A:HOH2154
|
2.4
|
17.0
|
1.0
|
|
CG
|
A:ASP919
|
3.2
|
18.1
|
1.0
|
|
CG
|
A:ASP917
|
3.3
|
19.0
|
1.0
|
|
CG
|
A:ASP915
|
3.4
|
20.9
|
1.0
|
|
CG
|
A:ASP926
|
3.4
|
19.1
|
1.0
|
|
C
|
A:VAL921
|
3.5
|
20.7
|
1.0
|
|
OD2
|
A:ASP919
|
3.5
|
15.7
|
1.0
|
|
OD2
|
A:ASP917
|
3.6
|
15.2
|
1.0
|
|
CB
|
A:ASP926
|
3.8
|
19.4
|
1.0
|
|
N
|
A:VAL921
|
4.0
|
20.4
|
1.0
|
|
CA
|
A:CA2001
|
4.0
|
18.1
|
1.0
|
|
N
|
A:ASP919
|
4.1
|
19.1
|
1.0
|
|
OD2
|
A:ASP915
|
4.1
|
21.9
|
1.0
|
|
CA
|
A:VAL921
|
4.2
|
21.0
|
1.0
|
|
CB
|
A:VAL921
|
4.3
|
22.3
|
1.0
|
|
N
|
A:ASP917
|
4.3
|
16.9
|
1.0
|
|
CB
|
A:ASP915
|
4.4
|
20.8
|
1.0
|
|
CA
|
A:ASP915
|
4.4
|
19.9
|
1.0
|
|
CB
|
A:ASP919
|
4.4
|
16.9
|
1.0
|
|
OD1
|
A:ASP926
|
4.5
|
20.6
|
1.0
|
|
O
|
A:PRO929
|
4.5
|
16.5
|
1.0
|
|
N
|
A:HIS918
|
4.5
|
17.4
|
1.0
|
|
N
|
A:PRO922
|
4.5
|
21.3
|
1.0
|
|
C
|
A:PRO922
|
4.5
|
22.3
|
1.0
|
|
CB
|
A:ASP917
|
4.6
|
17.5
|
1.0
|
|
C
|
A:ASP915
|
4.6
|
18.7
|
1.0
|
|
OD1
|
A:ASP923
|
4.6
|
18.8
|
1.0
|
|
CA
|
A:ASP919
|
4.7
|
19.4
|
1.0
|
|
N
|
A:ASP923
|
4.7
|
21.7
|
1.0
|
|
O
|
A:PRO922
|
4.7
|
21.5
|
1.0
|
|
N
|
A:PHE916
|
4.8
|
19.0
|
1.0
|
|
N
|
A:SER920
|
4.8
|
19.1
|
1.0
|
|
CA
|
A:PRO922
|
4.8
|
21.6
|
1.0
|
|
CA
|
A:ASP917
|
4.8
|
17.2
|
1.0
|
|
C
|
A:ASP917
|
4.8
|
17.1
|
1.0
|
|
C
|
A:ASP919
|
4.8
|
20.2
|
1.0
|
|
CA
|
A:PRO929
|
4.9
|
19.0
|
1.0
|
|
Calcium binding site 3 out
of 16 in 1ux6
Go back to
Calcium Binding Sites List in 1ux6
Calcium binding site 3 out
of 16 in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2003
b:23.4
occ:1.00
|
OD1
|
A:ASP902
|
2.3
|
19.8
|
1.0
|
|
OD1
|
A:ASP906
|
2.3
|
26.7
|
1.0
|
|
O
|
A:ARG908
|
2.3
|
21.8
|
1.0
|
|
O
|
A:HOH2150
|
2.4
|
28.7
|
1.0
|
|
OD1
|
A:ASP904
|
2.4
|
31.7
|
1.0
|
|
O
|
A:HOH2239
|
2.5
|
31.2
|
1.0
|
|
CG
|
A:ASP906
|
3.2
|
27.3
|
1.0
|
|
CG
|
A:ASP904
|
3.3
|
30.4
|
1.0
|
|
CG
|
A:ASP902
|
3.4
|
22.3
|
1.0
|
|
C
|
A:ARG908
|
3.4
|
22.5
|
1.0
|
|
OD2
|
A:ASP904
|
3.6
|
34.5
|
1.0
|
|
OD2
|
A:ASP906
|
3.6
|
26.0
|
1.0
|
|
N
|
A:ARG908
|
4.0
|
23.5
|
1.0
|
|
OD2
|
A:ASP902
|
4.0
|
22.0
|
1.0
|
|
CA
|
A:ARG908
|
4.1
|
24.4
|
1.0
|
|
CB
|
A:ARG908
|
4.1
|
26.1
|
1.0
|
|
N
|
A:ASP906
|
4.1
|
26.8
|
1.0
|
|
N
|
A:ASP904
|
4.4
|
25.4
|
1.0
|
|
CB
|
A:ASP906
|
4.4
|
26.2
|
1.0
|
|
CA
|
A:ASP902
|
4.4
|
21.9
|
1.0
|
|
CB
|
A:ASP902
|
4.4
|
20.5
|
1.0
|
|
OD1
|
A:ASP910
|
4.4
|
21.1
|
1.0
|
|
N
|
A:GLY909
|
4.5
|
20.5
|
1.0
|
|
N
|
A:GLY905
|
4.6
|
27.0
|
1.0
|
|
CB
|
A:ASP904
|
4.6
|
28.7
|
1.0
|
|
C
|
A:ASP902
|
4.6
|
21.8
|
1.0
|
|
C
|
A:GLY909
|
4.7
|
20.3
|
1.0
|
|
CA
|
A:ASP906
|
4.7
|
25.7
|
1.0
|
|
N
|
A:SER903
|
4.8
|
22.1
|
1.0
|
|
N
|
A:GLY907
|
4.8
|
23.5
|
1.0
|
|
CA
|
A:GLY909
|
4.8
|
20.5
|
1.0
|
|
O
|
A:GLY909
|
4.8
|
19.0
|
1.0
|
|
CA
|
A:ASP904
|
4.8
|
27.7
|
1.0
|
|
C
|
A:ASP904
|
4.8
|
27.9
|
1.0
|
|
N
|
A:ASP910
|
4.9
|
19.1
|
1.0
|
|
O
|
A:HOH2218
|
4.9
|
34.6
|
1.0
|
|
CG
|
A:ARG908
|
5.0
|
30.3
|
1.0
|
|
C
|
A:ASP906
|
5.0
|
25.8
|
1.0
|
|
Calcium binding site 4 out
of 16 in 1ux6
Go back to
Calcium Binding Sites List in 1ux6
Calcium binding site 4 out
of 16 in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2004
b:18.5
occ:1.00
|
O
|
A:ILE885
|
2.2
|
20.7
|
1.0
|
|
OD1
|
A:ASP879
|
2.2
|
20.5
|
1.0
|
|
OD1
|
A:ASP883
|
2.3
|
20.6
|
1.0
|
|
OD1
|
A:ASP881
|
2.3
|
15.3
|
1.0
|
|
OD2
|
A:ASP890
|
2.4
|
18.1
|
1.0
|
|
O
|
A:HOH2136
|
2.5
|
19.6
|
1.0
|
|
CG
|
A:ASP883
|
3.2
|
22.5
|
1.0
|
|
CG
|
A:ASP881
|
3.3
|
16.9
|
1.0
|
|
C
|
A:ILE885
|
3.3
|
22.9
|
1.0
|
|
CG
|
A:ASP879
|
3.4
|
19.6
|
1.0
|
|
CG
|
A:ASP890
|
3.4
|
19.4
|
1.0
|
|
OD2
|
A:ASP883
|
3.7
|
20.4
|
1.0
|
|
OD2
|
A:ASP881
|
3.7
|
18.1
|
1.0
|
|
CB
|
A:ASP890
|
3.9
|
19.8
|
1.0
|
|
N
|
A:ILE885
|
3.9
|
23.1
|
1.0
|
|
CA
|
A:ILE885
|
4.0
|
22.5
|
1.0
|
|
CA
|
A:CA2005
|
4.1
|
18.0
|
1.0
|
|
CB
|
A:ILE885
|
4.1
|
21.2
|
1.0
|
|
N
|
A:ASP883
|
4.1
|
20.3
|
1.0
|
|
OD2
|
A:ASP879
|
4.1
|
20.1
|
1.0
|
|
CA
|
A:ASP879
|
4.4
|
19.2
|
1.0
|
|
N
|
A:ASP881
|
4.4
|
16.5
|
1.0
|
|
N
|
A:PRO886
|
4.4
|
23.3
|
1.0
|
|
CB
|
A:ASP883
|
4.4
|
21.1
|
1.0
|
|
CB
|
A:ASP879
|
4.5
|
20.0
|
1.0
|
|
O
|
A:ARG893
|
4.5
|
17.8
|
1.0
|
|
C
|
A:PRO886
|
4.5
|
21.9
|
1.0
|
|
OD1
|
A:ASP890
|
4.5
|
20.6
|
1.0
|
|
OD1
|
A:ASP887
|
4.6
|
18.4
|
1.0
|
|
C
|
A:ASP879
|
4.6
|
18.7
|
1.0
|
|
N
|
A:ASN882
|
4.6
|
20.5
|
1.0
|
|
CB
|
A:ASP881
|
4.6
|
17.3
|
1.0
|
|
CA
|
A:ASP883
|
4.7
|
21.4
|
1.0
|
|
O
|
A:PRO886
|
4.7
|
24.0
|
1.0
|
|
N
|
A:ASP887
|
4.7
|
22.7
|
1.0
|
|
CA
|
A:PRO886
|
4.7
|
23.5
|
1.0
|
|
N
|
A:GLY884
|
4.7
|
22.7
|
1.0
|
|
N
|
A:ASP880
|
4.8
|
19.2
|
1.0
|
|
C
|
A:ASP883
|
4.8
|
21.4
|
1.0
|
|
CA
|
A:ASP881
|
4.9
|
17.5
|
1.0
|
|
C
|
A:ASP881
|
4.9
|
19.3
|
1.0
|
|
CG2
|
A:ILE885
|
5.0
|
20.8
|
1.0
|
|
Calcium binding site 5 out
of 16 in 1ux6
Go back to
Calcium Binding Sites List in 1ux6
Calcium binding site 5 out
of 16 in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2005
b:18.0
occ:1.00
|
OD2
|
A:ASP881
|
2.2
|
18.1
|
1.0
|
|
O
|
A:CYS892
|
2.2
|
17.7
|
1.0
|
|
OD2
|
A:ASP883
|
2.3
|
20.4
|
1.0
|
|
OD1
|
A:ASN897
|
2.4
|
16.2
|
1.0
|
|
OD2
|
A:ASP890
|
2.4
|
18.1
|
1.0
|
|
O
|
A:VAL895
|
2.4
|
19.1
|
1.0
|
|
OD1
|
A:ASP890
|
2.6
|
20.6
|
1.0
|
|
CG
|
A:ASP890
|
2.9
|
19.4
|
1.0
|
|
C
|
A:CYS892
|
3.3
|
17.4
|
1.0
|
|
CG
|
A:ASP881
|
3.3
|
16.9
|
1.0
|
|
CG
|
A:ASP883
|
3.4
|
22.5
|
1.0
|
|
C
|
A:VAL895
|
3.4
|
19.2
|
1.0
|
|
CG
|
A:ASN897
|
3.5
|
18.3
|
1.0
|
|
N
|
A:ASN897
|
3.6
|
18.5
|
1.0
|
|
OD1
|
A:ASP881
|
3.8
|
15.3
|
1.0
|
|
CB
|
A:CYS892
|
3.8
|
18.6
|
1.0
|
|
OD1
|
A:ASP883
|
3.9
|
20.6
|
1.0
|
|
CA
|
A:PRO896
|
3.9
|
19.6
|
1.0
|
|
CA
|
A:CA2004
|
4.1
|
18.5
|
1.0
|
|
CA
|
A:CYS892
|
4.1
|
19.0
|
1.0
|
|
N
|
A:PRO896
|
4.1
|
19.4
|
1.0
|
|
C
|
A:PRO896
|
4.1
|
18.7
|
1.0
|
|
N
|
A:VAL895
|
4.2
|
18.7
|
1.0
|
|
NE2
|
A:GLN900
|
4.3
|
18.2
|
1.0
|
|
N
|
A:ARG893
|
4.3
|
17.7
|
1.0
|
|
CB
|
A:ASP890
|
4.3
|
19.8
|
1.0
|
|
N
|
A:CYS892
|
4.4
|
18.6
|
1.0
|
|
CB
|
A:ASN897
|
4.4
|
19.1
|
1.0
|
|
ND2
|
A:ASN897
|
4.4
|
17.4
|
1.0
|
|
CA
|
A:VAL895
|
4.4
|
18.9
|
1.0
|
|
CB
|
A:ASP883
|
4.4
|
21.1
|
1.0
|
|
CA
|
A:ASN897
|
4.5
|
19.2
|
1.0
|
|
C
|
A:ARG893
|
4.5
|
18.7
|
1.0
|
|
CA
|
A:ARG893
|
4.5
|
18.8
|
1.0
|
|
O
|
A:ARG893
|
4.6
|
17.8
|
1.0
|
|
CB
|
A:ASP881
|
4.6
|
17.3
|
1.0
|
|
O
|
A:ASN897
|
4.7
|
19.1
|
1.0
|
|
C
|
A:ASN897
|
4.8
|
19.9
|
1.0
|
|
O
|
A:HOH2136
|
4.9
|
19.6
|
1.0
|
|
N
|
A:LEU894
|
4.9
|
17.0
|
1.0
|
|
Calcium binding site 6 out
of 16 in 1ux6
Go back to
Calcium Binding Sites List in 1ux6
Calcium binding site 6 out
of 16 in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2006
b:21.6
occ:1.00
|
OD2
|
A:ASP868
|
2.3
|
17.0
|
1.0
|
|
OD1
|
A:ASN882
|
2.3
|
24.2
|
1.0
|
|
OD2
|
A:ASP870
|
2.4
|
24.6
|
1.0
|
|
O
|
A:ASP879
|
2.4
|
19.6
|
1.0
|
|
O
|
A:HOH2294
|
2.4
|
24.1
|
1.0
|
|
OD2
|
A:ASP877
|
2.5
|
20.8
|
1.0
|
|
OD1
|
A:ASP877
|
2.6
|
23.4
|
1.0
|
|
CG
|
A:ASP877
|
2.9
|
20.7
|
1.0
|
|
CG
|
A:ASN882
|
3.2
|
25.1
|
1.0
|
|
CG
|
A:ASP868
|
3.4
|
18.7
|
1.0
|
|
C
|
A:ASP879
|
3.5
|
18.7
|
1.0
|
|
CG
|
A:ASP870
|
3.5
|
26.0
|
1.0
|
|
ND2
|
A:ASN882
|
3.6
|
25.7
|
1.0
|
|
OD1
|
A:ASP868
|
3.8
|
19.4
|
1.0
|
|
CA
|
A:CA2007
|
4.0
|
21.5
|
1.0
|
|
OD1
|
A:ASP870
|
4.1
|
25.0
|
1.0
|
|
N
|
A:ASN882
|
4.2
|
20.5
|
1.0
|
|
CB
|
A:ASP879
|
4.3
|
20.0
|
1.0
|
|
N
|
A:ASP880
|
4.3
|
19.2
|
1.0
|
|
CA
|
A:ASP879
|
4.3
|
19.2
|
1.0
|
|
CB
|
A:ASN882
|
4.3
|
21.9
|
1.0
|
|
CB
|
A:ASP877
|
4.4
|
22.3
|
1.0
|
|
CA
|
A:ASP880
|
4.4
|
18.4
|
1.0
|
|
CA
|
A:ASN882
|
4.4
|
21.7
|
1.0
|
|
N
|
A:ASP879
|
4.5
|
20.1
|
1.0
|
|
C
|
A:ASP880
|
4.5
|
18.0
|
1.0
|
|
CB
|
A:ASP870
|
4.6
|
25.3
|
1.0
|
|
CB
|
A:ASP868
|
4.7
|
20.0
|
1.0
|
|
O
|
A:HOH2118
|
4.8
|
17.8
|
1.0
|
|
O
|
A:ASP880
|
4.8
|
19.8
|
1.0
|
|
N
|
A:ASP881
|
4.9
|
16.5
|
1.0
|
|
O
|
A:HOH2333
|
4.9
|
46.0
|
1.0
|
|
CG
|
A:ASP879
|
4.9
|
19.6
|
1.0
|
|
O
|
A:HOH2299
|
5.0
|
26.0
|
1.0
|
|
Calcium binding site 7 out
of 16 in 1ux6
Go back to
Calcium Binding Sites List in 1ux6
Calcium binding site 7 out
of 16 in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2007
b:21.5
occ:1.00
|
O
|
A:LYS872
|
2.3
|
25.2
|
1.0
|
|
OD1
|
A:ASP866
|
2.3
|
22.8
|
1.0
|
|
OD1
|
A:ASP868
|
2.3
|
19.4
|
1.0
|
|
OD2
|
A:ASP877
|
2.4
|
20.8
|
1.0
|
|
O
|
A:HOH2118
|
2.4
|
17.8
|
1.0
|
|
OD1
|
A:ASP870
|
2.4
|
25.0
|
1.0
|
|
CG
|
A:ASP870
|
3.2
|
26.0
|
1.0
|
|
CG
|
A:ASP868
|
3.2
|
18.7
|
1.0
|
|
CG
|
A:ASP866
|
3.4
|
22.9
|
1.0
|
|
C
|
A:LYS872
|
3.4
|
23.9
|
1.0
|
|
CG
|
A:ASP877
|
3.5
|
20.7
|
1.0
|
|
OD2
|
A:ASP870
|
3.5
|
24.6
|
1.0
|
|
OD2
|
A:ASP868
|
3.5
|
17.0
|
1.0
|
|
CB
|
A:ASP877
|
4.0
|
22.3
|
1.0
|
|
OD2
|
A:ASP866
|
4.0
|
22.5
|
1.0
|
|
CA
|
A:CA2006
|
4.0
|
21.6
|
1.0
|
|
N
|
A:LYS872
|
4.0
|
25.0
|
1.0
|
|
N
|
A:ASP870
|
4.0
|
25.6
|
1.0
|
|
CA
|
A:LYS872
|
4.2
|
25.6
|
1.0
|
|
CB
|
A:LYS872
|
4.3
|
26.9
|
1.0
|
|
CA
|
A:ASP866
|
4.3
|
21.7
|
1.0
|
|
N
|
A:ASP868
|
4.3
|
20.9
|
1.0
|
|
CB
|
A:ASP870
|
4.4
|
25.3
|
1.0
|
|
CB
|
A:ASP866
|
4.4
|
21.6
|
1.0
|
|
OD1
|
A:ASP874
|
4.4
|
17.3
|
1.0
|
|
N
|
A:GLY873
|
4.5
|
23.4
|
1.0
|
|
C
|
A:GLY873
|
4.5
|
22.1
|
1.0
|
|
O
|
A:ASP880
|
4.5
|
19.8
|
1.0
|
|
OD1
|
A:ASP877
|
4.5
|
23.4
|
1.0
|
|
N
|
A:LYS869
|
4.5
|
24.1
|
1.0
|
|
CB
|
A:ASP868
|
4.5
|
20.0
|
1.0
|
|
C
|
A:ASP866
|
4.6
|
21.8
|
1.0
|
|
CA
|
A:ASP870
|
4.6
|
25.6
|
1.0
|
|
CA
|
A:GLY873
|
4.7
|
22.9
|
1.0
|
|
N
|
A:ASP874
|
4.7
|
20.8
|
1.0
|
|
O
|
A:GLY873
|
4.7
|
21.3
|
1.0
|
|
N
|
A:GLY871
|
4.7
|
26.1
|
1.0
|
|
N
|
A:HIS867
|
4.8
|
20.6
|
1.0
|
|
CA
|
A:ASP868
|
4.8
|
21.4
|
1.0
|
|
C
|
A:ASP868
|
4.8
|
23.3
|
1.0
|
|
C
|
A:ASP870
|
4.9
|
26.3
|
1.0
|
|
CA
|
A:ASP880
|
5.0
|
18.4
|
1.0
|
|
Calcium binding site 8 out
of 16 in 1ux6
Go back to
Calcium Binding Sites List in 1ux6
Calcium binding site 8 out
of 16 in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2008
b:23.1
occ:1.00
|
O
|
A:HOH2142
|
2.2
|
28.7
|
1.0
|
|
O
|
A:ASP877
|
2.3
|
25.3
|
1.0
|
|
OD2
|
A:ASP887
|
2.3
|
21.6
|
1.0
|
|
OD1
|
A:ASP880
|
2.3
|
21.7
|
1.0
|
|
O
|
A:ASP874
|
2.3
|
20.9
|
1.0
|
|
O
|
A:HOH2280
|
2.5
|
27.8
|
1.0
|
|
OD2
|
A:ASP880
|
2.7
|
22.5
|
1.0
|
|
CG
|
A:ASP880
|
2.8
|
19.5
|
1.0
|
|
C
|
A:ASP877
|
3.4
|
24.2
|
1.0
|
|
C
|
A:ASP874
|
3.4
|
20.9
|
1.0
|
|
CG
|
A:ASP887
|
3.5
|
19.4
|
1.0
|
|
CA
|
A:ASP874
|
4.0
|
20.2
|
1.0
|
|
OD1
|
A:ASP887
|
4.1
|
18.4
|
1.0
|
|
N
|
A:ASP877
|
4.1
|
24.2
|
1.0
|
|
CA
|
A:ASP877
|
4.2
|
24.3
|
1.0
|
|
CB
|
A:ASP877
|
4.2
|
22.3
|
1.0
|
|
CB
|
A:ASP880
|
4.3
|
19.7
|
1.0
|
|
N
|
A:HIS878
|
4.4
|
24.5
|
1.0
|
|
CB
|
A:ASP874
|
4.5
|
17.4
|
1.0
|
|
O
|
A:HOH2353
|
4.5
|
49.9
|
1.0
|
|
CA
|
A:HIS878
|
4.6
|
25.4
|
1.0
|
|
N
|
A:ALA875
|
4.6
|
21.2
|
1.0
|
|
CB
|
A:ASP887
|
4.6
|
21.7
|
1.0
|
|
N
|
A:ASP880
|
4.7
|
19.2
|
1.0
|
|
O
|
A:HOH2348
|
4.7
|
45.1
|
1.0
|
|
C
|
A:HIS878
|
4.8
|
22.4
|
1.0
|
|
CA
|
A:ASP880
|
4.9
|
18.4
|
1.0
|
|
CA
|
A:ALA875
|
4.9
|
22.6
|
1.0
|
|
N
|
A:ASP879
|
5.0
|
20.1
|
1.0
|
|
C
|
A:ALA875
|
5.0
|
22.3
|
1.0
|
|
Calcium binding site 9 out
of 16 in 1ux6
Go back to
Calcium Binding Sites List in 1ux6
Calcium binding site 9 out
of 16 in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 9 of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2009
b:20.6
occ:1.00
|
OD2
|
A:ASP847
|
2.2
|
19.7
|
1.0
|
|
OD1
|
A:ASN861
|
2.3
|
19.3
|
1.0
|
|
OD2
|
A:ASP845
|
2.3
|
23.4
|
1.0
|
|
O
|
A:CYS856
|
2.3
|
22.0
|
1.0
|
|
O
|
A:VAL859
|
2.4
|
21.9
|
1.0
|
|
OD2
|
A:ASP854
|
2.5
|
25.5
|
1.0
|
|
OD1
|
A:ASP854
|
2.7
|
26.0
|
1.0
|
|
CG
|
A:ASP854
|
3.0
|
25.6
|
1.0
|
|
CG
|
A:ASP847
|
3.3
|
21.5
|
1.0
|
|
C
|
A:CYS856
|
3.4
|
22.5
|
1.0
|
|
CG
|
A:ASP845
|
3.4
|
22.5
|
1.0
|
|
C
|
A:VAL859
|
3.4
|
23.3
|
1.0
|
|
CG
|
A:ASN861
|
3.5
|
20.0
|
1.0
|
|
N
|
A:ASN861
|
3.6
|
21.4
|
1.0
|
|
OD1
|
A:ASP845
|
3.8
|
22.2
|
1.0
|
|
OD1
|
A:ASP847
|
3.8
|
20.1
|
1.0
|
|
CB
|
A:CYS856
|
3.9
|
22.8
|
1.0
|
|
CA
|
A:PRO860
|
4.0
|
23.6
|
1.0
|
|
CA
|
A:CA2010
|
4.0
|
22.9
|
1.0
|
|
N
|
A:PRO860
|
4.1
|
23.2
|
1.0
|
|
C
|
A:PRO860
|
4.1
|
22.2
|
1.0
|
|
CA
|
A:CYS856
|
4.2
|
23.9
|
1.0
|
|
NE2
|
A:GLN864
|
4.2
|
21.6
|
1.0
|
|
N
|
A:VAL859
|
4.2
|
24.7
|
1.0
|
|
N
|
A:PRO857
|
4.3
|
23.9
|
1.0
|
|
CB
|
A:ASN861
|
4.4
|
20.0
|
1.0
|
|
ND2
|
A:ASN861
|
4.4
|
21.2
|
1.0
|
|
C
|
A:PRO857
|
4.4
|
24.6
|
1.0
|
|
CA
|
A:ASN861
|
4.4
|
20.6
|
1.0
|
|
CA
|
A:VAL859
|
4.4
|
22.8
|
1.0
|
|
CB
|
A:ASP847
|
4.4
|
20.2
|
1.0
|
|
CB
|
A:ASP854
|
4.4
|
26.4
|
1.0
|
|
N
|
A:CYS856
|
4.5
|
23.6
|
1.0
|
|
CA
|
A:PRO857
|
4.5
|
24.2
|
1.0
|
|
O
|
A:PRO857
|
4.5
|
25.0
|
1.0
|
|
O
|
A:ASN861
|
4.6
|
19.2
|
1.0
|
|
CB
|
A:ASP845
|
4.6
|
23.0
|
1.0
|
|
C
|
A:ASN861
|
4.7
|
20.4
|
1.0
|
|
N
|
A:TYR858
|
4.8
|
24.4
|
1.0
|
|
O
|
A:HOH2122
|
4.9
|
22.3
|
1.0
|
|
Calcium binding site 10 out
of 16 in 1ux6
Go back to
Calcium Binding Sites List in 1ux6
Calcium binding site 10 out
of 16 in the Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 10 of Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca2010
b:22.9
occ:1.00
|
OD1
|
A:ASP845
|
2.2
|
22.2
|
1.0
|
|
OD1
|
A:ASP843
|
2.3
|
23.0
|
1.0
|
|
O
|
A:HIS849
|
2.3
|
20.2
|
1.0
|
|
OD2
|
A:ASP854
|
2.3
|
25.5
|
1.0
|
|
OD1
|
A:ASP847
|
2.4
|
20.1
|
1.0
|
|
O
|
A:HOH2122
|
2.5
|
22.3
|
1.0
|
|
CG
|
A:ASP845
|
3.2
|
22.5
|
1.0
|
|
CG
|
A:ASP847
|
3.3
|
21.5
|
1.0
|
|
CG
|
A:ASP843
|
3.4
|
23.1
|
1.0
|
|
C
|
A:HIS849
|
3.4
|
22.7
|
1.0
|
|
CG
|
A:ASP854
|
3.5
|
25.6
|
1.0
|
|
OD2
|
A:ASP845
|
3.6
|
23.4
|
1.0
|
|
OD2
|
A:ASP847
|
3.6
|
19.7
|
1.0
|
|
N
|
A:HIS849
|
3.9
|
23.7
|
1.0
|
|
CA
|
A:CA2009
|
4.0
|
20.6
|
1.0
|
|
CB
|
A:ASP854
|
4.0
|
26.4
|
1.0
|
|
CA
|
A:HIS849
|
4.1
|
23.0
|
1.0
|
|
N
|
A:ASP847
|
4.1
|
20.9
|
1.0
|
|
OD2
|
A:ASP843
|
4.2
|
21.7
|
1.0
|
|
CB
|
A:HIS849
|
4.2
|
21.9
|
1.0
|
|
CA
|
A:ASP843
|
4.4
|
26.6
|
1.0
|
|
CB
|
A:ASP843
|
4.4
|
24.4
|
1.0
|
|
N
|
A:ASP845
|
4.4
|
23.9
|
1.0
|
|
O
|
A:PRO857
|
4.4
|
25.0
|
1.0
|
|
CB
|
A:ASP847
|
4.5
|
20.2
|
1.0
|
|
N
|
A:GLN850
|
4.5
|
23.9
|
1.0
|
|
OD1
|
A:ASP854
|
4.5
|
26.0
|
1.0
|
|
CB
|
A:ASP845
|
4.6
|
23.0
|
1.0
|
|
C
|
A:GLN850
|
4.6
|
24.6
|
1.0
|
|
N
|
A:GLU846
|
4.6
|
21.6
|
1.0
|
|
C
|
A:ASP843
|
4.7
|
27.1
|
1.0
|
|
CA
|
A:ASP847
|
4.7
|
21.1
|
1.0
|
|
N
|
A:ASN851
|
4.7
|
24.6
|
1.0
|
|
CA
|
A:GLN850
|
4.7
|
25.3
|
1.0
|
|
N
|
A:GLY848
|
4.7
|
22.7
|
1.0
|
|
OD1
|
A:ASN851
|
4.8
|
25.8
|
1.0
|
|
CA
|
A:ASP845
|
4.8
|
22.7
|
1.0
|
|
C
|
A:ASP845
|
4.8
|
23.3
|
1.0
|
|
N
|
A:ILE844
|
4.9
|
28.1
|
1.0
|
|
O
|
A:GLN850
|
4.9
|
23.8
|
1.0
|
|
C
|
A:ASP847
|
4.9
|
21.7
|
1.0
|
|
Reference:
M.Kvansakul,
J.C.Adams,
E.Hohenester.
Structure of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core in the Type 3 Repeats Embo J. V. 23 1223 2004.
ISSN: ISSN 0261-4189
PubMed: 15014436
DOI: 10.1038/SJ.EMBOJ.7600166
Page generated: Sat Dec 12 03:23:45 2020
|
