Calcium in PDB 1uf3: Crystal Structure of TT1561 of Thermus Thermophilus HB8
Protein crystallography data
The structure of Crystal Structure of TT1561 of Thermus Thermophilus HB8, PDB code: 1uf3
was solved by
M.Kato-Murayama,
M.Shirouzu,
T.Terada,
K.Murayama,
S.Kuramitsu,
S.Yokoyama,
Riken Structural Genomics/Proteomics Initiative(Rsgi),
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
29.97 /
2.10
|
|
Space group
|
C 1 2 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
212.384,
77.342,
147.804,
90.00,
127.21,
90.00
|
|
R / Rfree (%)
|
19.5 /
24.5
|
Calcium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
14;
Binding sites:
The binding sites of Calcium atom in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
(pdb code 1uf3). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 14 binding sites of Calcium where determined in the
Crystal Structure of TT1561 of Thermus Thermophilus HB8, PDB code: 1uf3:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 14 in 1uf3
Go back to
Calcium Binding Sites List in 1uf3
Calcium binding site 1 out
of 14 in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
 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 TT1561 of Thermus Thermophilus HB8 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca901
b:29.9
occ:1.00
|
O
|
A:ALA47
|
2.3
|
25.2
|
1.0
|
|
O
|
A:ALA75
|
2.3
|
27.1
|
1.0
|
|
O
|
A:LYS45
|
2.4
|
30.8
|
1.0
|
|
O
|
A:HOH961
|
2.5
|
24.3
|
1.0
|
|
O
|
A:HOH988
|
2.5
|
22.1
|
1.0
|
|
O
|
A:HOH953
|
2.5
|
26.1
|
1.0
|
|
O
|
A:HOH987
|
2.8
|
31.7
|
1.0
|
|
C
|
A:ALA47
|
3.5
|
26.6
|
1.0
|
|
C
|
A:ALA75
|
3.5
|
26.6
|
1.0
|
|
C
|
A:LYS45
|
3.6
|
31.9
|
1.0
|
|
CD
|
A:PRO76
|
4.1
|
25.5
|
1.0
|
|
OE2
|
A:GLU79
|
4.1
|
34.2
|
1.0
|
|
N
|
A:ALA47
|
4.2
|
29.8
|
1.0
|
|
C
|
A:ALA46
|
4.2
|
30.4
|
1.0
|
|
N
|
A:PRO76
|
4.2
|
24.8
|
1.0
|
|
CA
|
A:LYS45
|
4.3
|
30.9
|
1.0
|
|
CA
|
A:ALA47
|
4.3
|
28.0
|
1.0
|
|
O
|
A:ALA46
|
4.4
|
29.9
|
1.0
|
|
N
|
A:ALA75
|
4.5
|
28.6
|
1.0
|
|
CD
|
A:LYS45
|
4.5
|
33.0
|
1.0
|
|
O
|
A:PRO44
|
4.5
|
27.3
|
1.0
|
|
N
|
A:LYS48
|
4.5
|
28.3
|
1.0
|
|
N
|
A:ALA46
|
4.6
|
30.9
|
1.0
|
|
CA
|
A:ALA75
|
4.6
|
26.8
|
1.0
|
|
O
|
A:HOH936
|
4.7
|
24.3
|
1.0
|
|
CA
|
A:LYS48
|
4.7
|
31.5
|
1.0
|
|
O
|
A:GLN73
|
4.8
|
25.9
|
1.0
|
|
CA
|
A:ALA46
|
4.8
|
30.9
|
1.0
|
|
CE1
|
A:TYR52
|
4.8
|
26.0
|
1.0
|
|
CE
|
A:LYS45
|
4.8
|
32.0
|
1.0
|
|
CB
|
A:ALA47
|
4.9
|
26.0
|
1.0
|
|
OH
|
A:TYR52
|
4.9
|
24.2
|
1.0
|
|
CD
|
A:GLU79
|
4.9
|
33.3
|
1.0
|
|
Calcium binding site 2 out
of 14 in 1uf3
Go back to
Calcium Binding Sites List in 1uf3
Calcium binding site 2 out
of 14 in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
 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 TT1561 of Thermus Thermophilus HB8 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca909
b:45.2
occ:1.00
|
O
|
B:HOH980
|
2.0
|
31.0
|
1.0
|
|
O
|
B:HOH903
|
2.2
|
20.0
|
1.0
|
|
O
|
B:HOH961
|
2.3
|
25.6
|
1.0
|
|
O
|
A:HOH933
|
2.3
|
26.2
|
1.0
|
|
O
|
A:HOH1033
|
2.4
|
52.4
|
1.0
|
|
O
|
A:HOH911
|
2.4
|
27.2
|
1.0
|
|
OE1
|
A:GLU125
|
3.8
|
24.4
|
1.0
|
|
OE1
|
B:GLU125
|
3.8
|
26.5
|
1.0
|
|
OE1
|
B:GLU99
|
3.9
|
26.1
|
1.0
|
|
OE1
|
A:GLU99
|
4.0
|
28.1
|
1.0
|
|
OE2
|
B:GLU125
|
4.1
|
28.3
|
1.0
|
|
NH2
|
A:ARG139
|
4.1
|
23.9
|
1.0
|
|
OE2
|
A:GLU125
|
4.1
|
25.0
|
1.0
|
|
OE2
|
A:GLU99
|
4.3
|
31.8
|
1.0
|
|
OE2
|
B:GLU99
|
4.3
|
26.4
|
1.0
|
|
CD
|
B:GLU125
|
4.4
|
28.3
|
1.0
|
|
CD
|
A:GLU125
|
4.4
|
27.6
|
1.0
|
|
O
|
B:HOH936
|
4.4
|
31.0
|
1.0
|
|
CD
|
B:GLU99
|
4.6
|
26.1
|
1.0
|
|
CD
|
A:GLU99
|
4.6
|
27.5
|
1.0
|
|
CH2
|
A:TRP78
|
4.7
|
19.6
|
1.0
|
|
NH1
|
B:ARG139
|
4.8
|
26.2
|
1.0
|
|
CH2
|
B:TRP78
|
4.8
|
22.2
|
1.0
|
|
O
|
A:HOH972
|
4.8
|
27.4
|
1.0
|
|
Calcium binding site 3 out
of 14 in 1uf3
Go back to
Calcium Binding Sites List in 1uf3
Calcium binding site 3 out
of 14 in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
 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 TT1561 of Thermus Thermophilus HB8 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca902
b:32.8
occ:1.00
|
O
|
B:HOH954
|
2.2
|
46.6
|
1.0
|
|
O
|
B:ALA47
|
2.3
|
33.1
|
1.0
|
|
O
|
B:LYS45
|
2.4
|
33.3
|
1.0
|
|
O
|
B:ALA75
|
2.4
|
25.6
|
1.0
|
|
O
|
B:HOH904
|
2.5
|
24.2
|
1.0
|
|
O
|
B:HOH962
|
2.5
|
25.7
|
1.0
|
|
O
|
B:HOH964
|
2.6
|
39.0
|
1.0
|
|
C
|
B:ALA47
|
3.5
|
33.3
|
1.0
|
|
C
|
B:LYS45
|
3.6
|
32.6
|
1.0
|
|
C
|
B:ALA75
|
3.6
|
25.1
|
1.0
|
|
N
|
B:ALA47
|
4.0
|
32.9
|
1.0
|
|
CD
|
B:PRO76
|
4.1
|
26.1
|
1.0
|
|
CD
|
B:LYS48
|
4.2
|
43.5
|
1.0
|
|
OE2
|
B:GLU79
|
4.2
|
29.3
|
1.0
|
|
C
|
B:ALA46
|
4.2
|
34.0
|
1.0
|
|
N
|
B:PRO76
|
4.2
|
25.2
|
1.0
|
|
CA
|
B:ALA47
|
4.3
|
32.6
|
1.0
|
|
CA
|
B:LYS45
|
4.3
|
31.5
|
1.0
|
|
CE
|
B:LYS48
|
4.4
|
44.3
|
1.0
|
|
N
|
B:LYS48
|
4.5
|
33.3
|
1.0
|
|
N
|
B:ALA46
|
4.5
|
33.1
|
1.0
|
|
O
|
B:PRO44
|
4.6
|
24.2
|
1.0
|
|
O
|
B:ALA46
|
4.6
|
34.9
|
1.0
|
|
CA
|
B:LYS48
|
4.6
|
34.5
|
1.0
|
|
O
|
B:HOH940
|
4.7
|
25.6
|
1.0
|
|
CA
|
B:ALA46
|
4.7
|
32.9
|
1.0
|
|
N
|
B:ALA75
|
4.7
|
27.7
|
1.0
|
|
CA
|
B:ALA75
|
4.8
|
26.1
|
1.0
|
|
CE1
|
B:TYR52
|
4.8
|
27.1
|
1.0
|
|
CB
|
B:ALA47
|
4.9
|
31.6
|
1.0
|
|
OH
|
B:TYR52
|
4.9
|
25.4
|
1.0
|
|
CG
|
B:LYS45
|
4.9
|
32.8
|
1.0
|
|
Calcium binding site 4 out
of 14 in 1uf3
Go back to
Calcium Binding Sites List in 1uf3
Calcium binding site 4 out
of 14 in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
 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 TT1561 of Thermus Thermophilus HB8 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca903
b:39.4
occ:1.00
|
O
|
C:ALA75
|
2.3
|
38.0
|
1.0
|
|
O
|
C:HOH963
|
2.4
|
42.1
|
1.0
|
|
O
|
C:HOH913
|
2.4
|
27.9
|
1.0
|
|
O
|
C:HOH914
|
2.4
|
35.2
|
1.0
|
|
O
|
C:ALA47
|
2.5
|
39.4
|
1.0
|
|
O
|
C:LYS45
|
2.6
|
40.1
|
1.0
|
|
O
|
C:HOH956
|
2.6
|
31.8
|
1.0
|
|
C
|
C:ALA75
|
3.5
|
36.3
|
1.0
|
|
C
|
C:ALA47
|
3.6
|
39.9
|
1.0
|
|
C
|
C:LYS45
|
3.7
|
40.7
|
1.0
|
|
CD
|
C:PRO76
|
4.0
|
35.4
|
1.0
|
|
N
|
C:ALA47
|
4.0
|
41.6
|
1.0
|
|
OE2
|
C:GLU79
|
4.1
|
38.4
|
1.0
|
|
N
|
C:PRO76
|
4.2
|
37.0
|
1.0
|
|
CA
|
C:ALA47
|
4.2
|
40.9
|
1.0
|
|
C
|
C:ALA46
|
4.2
|
41.7
|
1.0
|
|
N
|
C:ALA75
|
4.5
|
34.7
|
1.0
|
|
O
|
C:ALA46
|
4.5
|
41.5
|
1.0
|
|
O
|
C:HOH945
|
4.5
|
33.2
|
1.0
|
|
CA
|
C:LYS45
|
4.5
|
39.4
|
1.0
|
|
CB
|
C:ALA47
|
4.6
|
40.7
|
1.0
|
|
N
|
C:LYS48
|
4.6
|
40.6
|
1.0
|
|
CA
|
C:ALA75
|
4.6
|
35.8
|
1.0
|
|
O
|
C:PRO44
|
4.7
|
34.3
|
1.0
|
|
N
|
C:ALA46
|
4.7
|
40.4
|
1.0
|
|
OH
|
C:TYR52
|
4.7
|
34.6
|
1.0
|
|
CA
|
C:ALA46
|
4.8
|
41.3
|
1.0
|
|
CE1
|
C:TYR52
|
4.8
|
36.9
|
1.0
|
|
CE
|
C:LYS48
|
4.8
|
44.5
|
1.0
|
|
CD
|
C:LYS45
|
4.9
|
46.8
|
1.0
|
|
O
|
C:GLN73
|
4.9
|
37.4
|
1.0
|
|
CA
|
C:LYS48
|
4.9
|
41.5
|
1.0
|
|
Calcium binding site 5 out
of 14 in 1uf3
Go back to
Calcium Binding Sites List in 1uf3
Calcium binding site 5 out
of 14 in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
 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 TT1561 of Thermus Thermophilus HB8 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca910
b:51.8
occ:1.00
|
O
|
C:HOH985
|
2.2
|
53.6
|
1.0
|
|
O
|
D:HOH914
|
2.3
|
31.0
|
1.0
|
|
O
|
C:HOH934
|
2.3
|
32.8
|
1.0
|
|
O
|
D:HOH986
|
2.4
|
35.1
|
1.0
|
|
O
|
C:HOH916
|
2.4
|
36.2
|
1.0
|
|
O
|
C:HOH982
|
3.0
|
45.2
|
1.0
|
|
OE2
|
D:GLU99
|
3.8
|
34.0
|
1.0
|
|
OE1
|
C:GLU99
|
3.8
|
33.0
|
1.0
|
|
OE2
|
C:GLU125
|
4.0
|
32.1
|
1.0
|
|
OE1
|
D:GLU125
|
4.1
|
33.3
|
1.0
|
|
NH2
|
C:ARG139
|
4.1
|
27.0
|
1.0
|
|
OE2
|
D:GLU125
|
4.1
|
30.0
|
1.0
|
|
NH2
|
D:ARG139
|
4.2
|
32.3
|
1.0
|
|
OE1
|
C:GLU125
|
4.2
|
35.0
|
1.0
|
|
OE1
|
D:GLU99
|
4.2
|
33.5
|
1.0
|
|
OE2
|
C:GLU99
|
4.3
|
32.1
|
1.0
|
|
CD
|
D:GLU99
|
4.5
|
33.2
|
1.0
|
|
CD
|
C:GLU99
|
4.5
|
31.3
|
1.0
|
|
CD
|
D:GLU125
|
4.5
|
33.8
|
1.0
|
|
CD
|
C:GLU125
|
4.5
|
33.2
|
1.0
|
|
O
|
C:HOH960
|
4.6
|
30.5
|
1.0
|
|
CH2
|
C:TRP78
|
4.7
|
33.1
|
1.0
|
|
O
|
D:HOH926
|
4.8
|
31.1
|
1.0
|
|
CH2
|
D:TRP78
|
4.8
|
23.5
|
1.0
|
|
CZ
|
C:ARG139
|
4.9
|
27.7
|
1.0
|
|
CZ
|
D:ARG139
|
5.0
|
31.6
|
1.0
|
|
Calcium binding site 6 out
of 14 in 1uf3
Go back to
Calcium Binding Sites List in 1uf3
Calcium binding site 6 out
of 14 in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
 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 TT1561 of Thermus Thermophilus HB8 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca904
b:35.6
occ:1.00
|
O
|
D:ALA75
|
2.3
|
32.1
|
1.0
|
|
O
|
D:ALA47
|
2.3
|
29.6
|
1.0
|
|
O
|
D:HOH955
|
2.4
|
29.9
|
1.0
|
|
O
|
D:LYS45
|
2.4
|
34.1
|
1.0
|
|
O
|
D:HOH923
|
2.5
|
38.6
|
1.0
|
|
O
|
D:HOH972
|
2.6
|
31.2
|
1.0
|
|
O
|
D:HOH958
|
2.9
|
33.6
|
1.0
|
|
C
|
D:ALA75
|
3.4
|
31.8
|
1.0
|
|
C
|
D:ALA47
|
3.5
|
31.0
|
1.0
|
|
C
|
D:LYS45
|
3.6
|
35.8
|
1.0
|
|
N
|
D:ALA47
|
3.9
|
34.4
|
1.0
|
|
CD
|
D:PRO76
|
3.9
|
31.0
|
1.0
|
|
C
|
D:ALA46
|
4.0
|
35.4
|
1.0
|
|
N
|
D:PRO76
|
4.1
|
31.8
|
1.0
|
|
CA
|
D:ALA47
|
4.2
|
33.1
|
1.0
|
|
O
|
D:ALA46
|
4.3
|
34.3
|
1.0
|
|
OE2
|
D:GLU79
|
4.4
|
40.1
|
1.0
|
|
CA
|
D:LYS45
|
4.5
|
35.8
|
1.0
|
|
N
|
D:ALA46
|
4.5
|
36.3
|
1.0
|
|
O
|
D:PRO44
|
4.5
|
36.1
|
1.0
|
|
N
|
D:ALA75
|
4.5
|
32.2
|
1.0
|
|
CA
|
D:ALA46
|
4.5
|
36.2
|
1.0
|
|
N
|
D:LYS48
|
4.6
|
32.6
|
1.0
|
|
CA
|
D:ALA75
|
4.6
|
31.3
|
1.0
|
|
CB
|
D:ALA47
|
4.7
|
33.0
|
1.0
|
|
CD
|
D:LYS45
|
4.8
|
44.6
|
1.0
|
|
O
|
D:GLN73
|
4.8
|
33.1
|
1.0
|
|
O
|
D:HOH931
|
4.8
|
32.5
|
1.0
|
|
CA
|
D:LYS48
|
4.9
|
33.8
|
1.0
|
|
OH
|
D:TYR52
|
4.9
|
32.4
|
1.0
|
|
CE1
|
D:TYR52
|
5.0
|
30.5
|
1.0
|
|
Calcium binding site 7 out
of 14 in 1uf3
Go back to
Calcium Binding Sites List in 1uf3
Calcium binding site 7 out
of 14 in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
 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 TT1561 of Thermus Thermophilus HB8 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca913
b:30.9
occ:1.00
|
OD1
|
D:ASP34
|
2.1
|
20.9
|
1.0
|
|
O
|
D:GLY32
|
2.4
|
23.1
|
1.0
|
|
O
|
G:MSE1
|
2.4
|
37.3
|
1.0
|
|
O
|
G:HOH1010
|
2.5
|
32.3
|
1.0
|
|
O
|
D:HOH985
|
2.6
|
32.0
|
1.0
|
|
O
|
D:HOH992
|
2.6
|
35.9
|
1.0
|
|
N
|
G:MSE1
|
2.8
|
38.1
|
1.0
|
|
CG
|
D:ASP34
|
3.2
|
25.2
|
1.0
|
|
C
|
G:MSE1
|
3.3
|
37.8
|
1.0
|
|
C
|
D:GLY32
|
3.5
|
23.9
|
1.0
|
|
CA
|
G:MSE1
|
3.5
|
38.1
|
1.0
|
|
OD2
|
D:ASP34
|
3.8
|
25.3
|
1.0
|
|
CA
|
D:GLY32
|
4.1
|
22.9
|
1.0
|
|
CB
|
G:MSE1
|
4.3
|
40.0
|
1.0
|
|
O
|
D:HOH949
|
4.3
|
50.6
|
1.0
|
|
C
|
D:ALA33
|
4.3
|
22.9
|
1.0
|
|
N
|
D:ASP34
|
4.3
|
22.0
|
1.0
|
|
CB
|
D:ASP34
|
4.4
|
21.6
|
1.0
|
|
O
|
D:ALA33
|
4.4
|
23.3
|
1.0
|
|
CA
|
D:ASP34
|
4.5
|
21.6
|
1.0
|
|
N
|
G:ARG2
|
4.6
|
34.7
|
1.0
|
|
N
|
D:ALA33
|
4.6
|
21.7
|
1.0
|
|
O
|
D:HOH977
|
4.7
|
37.8
|
1.0
|
|
CA
|
D:ALA33
|
4.9
|
21.8
|
1.0
|
|
O
|
D:HOH989
|
4.9
|
49.1
|
1.0
|
|
Calcium binding site 8 out
of 14 in 1uf3
Go back to
Calcium Binding Sites List in 1uf3
Calcium binding site 8 out
of 14 in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
 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 TT1561 of Thermus Thermophilus HB8 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca905
b:32.7
occ:1.00
|
O
|
E:HOH974
|
2.2
|
29.5
|
1.0
|
|
O
|
E:ALA75
|
2.3
|
30.3
|
1.0
|
|
O
|
E:HOH975
|
2.4
|
33.9
|
1.0
|
|
O
|
E:LYS45
|
2.4
|
37.0
|
1.0
|
|
O
|
E:HOH967
|
2.4
|
20.4
|
1.0
|
|
O
|
E:ALA47
|
2.5
|
35.7
|
1.0
|
|
O
|
E:HOH942
|
2.5
|
26.2
|
1.0
|
|
C
|
E:ALA75
|
3.5
|
29.4
|
1.0
|
|
C
|
E:LYS45
|
3.6
|
36.9
|
1.0
|
|
C
|
E:ALA47
|
3.6
|
34.7
|
1.0
|
|
CD
|
E:PRO76
|
3.9
|
29.3
|
1.0
|
|
N
|
E:ALA47
|
4.0
|
36.0
|
1.0
|
|
OE2
|
E:GLU79
|
4.1
|
32.7
|
1.0
|
|
N
|
E:PRO76
|
4.1
|
29.5
|
1.0
|
|
C
|
E:ALA46
|
4.2
|
36.4
|
1.0
|
|
CA
|
E:ALA47
|
4.4
|
34.9
|
1.0
|
|
CA
|
E:LYS45
|
4.5
|
36.4
|
1.0
|
|
N
|
E:ALA75
|
4.5
|
29.0
|
1.0
|
|
N
|
E:ALA46
|
4.5
|
37.6
|
1.0
|
|
O
|
E:ALA46
|
4.6
|
36.8
|
1.0
|
|
CA
|
E:ALA46
|
4.6
|
37.8
|
1.0
|
|
CA
|
E:ALA75
|
4.6
|
29.3
|
1.0
|
|
O
|
E:PRO44
|
4.6
|
34.1
|
1.0
|
|
N
|
E:LYS48
|
4.7
|
35.0
|
1.0
|
|
CG
|
E:LYS45
|
4.7
|
37.1
|
1.0
|
|
CD
|
E:LYS48
|
4.8
|
42.7
|
1.0
|
|
OH
|
E:TYR52
|
4.8
|
27.0
|
1.0
|
|
CA
|
E:LYS48
|
4.8
|
34.6
|
1.0
|
|
NZ
|
E:LYS48
|
4.9
|
46.0
|
1.0
|
|
O
|
E:GLN73
|
4.9
|
33.3
|
1.0
|
|
O
|
E:HOH930
|
4.9
|
26.3
|
1.0
|
|
CB
|
E:ALA47
|
4.9
|
34.1
|
1.0
|
|
CE
|
E:LYS48
|
5.0
|
46.2
|
1.0
|
|
CD
|
E:GLU79
|
5.0
|
32.5
|
1.0
|
|
Calcium binding site 9 out
of 14 in 1uf3
Go back to
Calcium Binding Sites List in 1uf3
Calcium binding site 9 out
of 14 in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
 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 TT1561 of Thermus Thermophilus HB8 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca911
b:45.4
occ:1.00
|
O
|
F:HOH923
|
2.0
|
41.4
|
1.0
|
|
O
|
F:HOH1004
|
2.2
|
22.3
|
1.0
|
|
O
|
F:HOH1026
|
2.2
|
32.8
|
1.0
|
|
O
|
E:HOH920
|
2.2
|
22.4
|
1.0
|
|
O
|
F:HOH932
|
2.3
|
23.6
|
1.0
|
|
O
|
E:HOH924
|
2.4
|
25.8
|
1.0
|
|
NH2
|
F:ARG139
|
3.9
|
21.0
|
1.0
|
|
OE1
|
E:GLU99
|
3.9
|
31.1
|
1.0
|
|
O
|
E:HOH980
|
3.9
|
29.9
|
1.0
|
|
OE1
|
E:GLU125
|
3.9
|
27.7
|
1.0
|
|
OE1
|
F:GLU125
|
3.9
|
21.8
|
1.0
|
|
OE1
|
F:GLU99
|
4.0
|
23.5
|
1.0
|
|
OE2
|
F:GLU125
|
4.0
|
22.8
|
1.0
|
|
NH2
|
E:ARG139
|
4.2
|
24.2
|
1.0
|
|
OE2
|
F:GLU99
|
4.3
|
22.5
|
1.0
|
|
OE2
|
E:GLU99
|
4.3
|
28.7
|
1.0
|
|
OE2
|
E:GLU125
|
4.3
|
28.7
|
1.0
|
|
O
|
F:HOH1006
|
4.4
|
29.4
|
1.0
|
|
CD
|
F:GLU125
|
4.4
|
23.2
|
1.0
|
|
CD
|
E:GLU99
|
4.5
|
28.4
|
1.0
|
|
CD
|
E:GLU125
|
4.5
|
27.9
|
1.0
|
|
CH2
|
E:TRP78
|
4.5
|
18.5
|
1.0
|
|
CD
|
F:GLU99
|
4.6
|
23.4
|
1.0
|
|
O
|
E:HOH943
|
4.6
|
23.6
|
1.0
|
|
CZ
|
F:ARG139
|
4.8
|
25.9
|
1.0
|
|
CH2
|
F:TRP78
|
4.9
|
24.7
|
1.0
|
|
CZ2
|
E:TRP78
|
5.0
|
22.4
|
1.0
|
|
Calcium binding site 10 out
of 14 in 1uf3
Go back to
Calcium Binding Sites List in 1uf3
Calcium binding site 10 out
of 14 in the Crystal Structure of TT1561 of Thermus Thermophilus HB8
 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 TT1561 of Thermus Thermophilus HB8 within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Ca906
b:26.3
occ:1.00
|
O
|
F:ALA75
|
2.3
|
25.3
|
1.0
|
|
O
|
F:HOH1005
|
2.3
|
32.8
|
1.0
|
|
O
|
F:LYS45
|
2.4
|
27.2
|
1.0
|
|
O
|
F:ALA47
|
2.4
|
23.6
|
1.0
|
|
O
|
F:HOH1003
|
2.4
|
14.4
|
1.0
|
|
O
|
F:HOH963
|
2.5
|
35.6
|
1.0
|
|
O
|
F:HOH955
|
2.8
|
25.4
|
1.0
|
|
C
|
F:ALA75
|
3.4
|
24.6
|
1.0
|
|
C
|
F:LYS45
|
3.5
|
25.6
|
1.0
|
|
C
|
F:ALA47
|
3.6
|
24.5
|
1.0
|
|
OE2
|
F:GLU79
|
3.9
|
33.9
|
1.0
|
|
CD
|
F:PRO76
|
3.9
|
26.3
|
1.0
|
|
N
|
F:ALA47
|
4.0
|
26.1
|
1.0
|
|
N
|
F:PRO76
|
4.1
|
23.7
|
1.0
|
|
C
|
F:ALA46
|
4.2
|
27.0
|
1.0
|
|
CA
|
F:LYS45
|
4.3
|
24.2
|
1.0
|
|
CA
|
F:ALA47
|
4.4
|
25.3
|
1.0
|
|
N
|
F:ALA75
|
4.4
|
24.0
|
1.0
|
|
N
|
F:ALA46
|
4.5
|
26.3
|
1.0
|
|
O
|
F:PRO44
|
4.5
|
25.7
|
1.0
|
|
CA
|
F:ALA75
|
4.5
|
23.7
|
1.0
|
|
O
|
F:ALA46
|
4.5
|
24.1
|
1.0
|
|
N
|
F:LYS48
|
4.6
|
26.4
|
1.0
|
|
CA
|
F:ALA46
|
4.6
|
25.4
|
1.0
|
|
O
|
F:HOH920
|
4.7
|
24.5
|
1.0
|
|
OH
|
F:TYR52
|
4.7
|
19.1
|
1.0
|
|
CA
|
F:LYS48
|
4.7
|
28.8
|
1.0
|
|
O
|
F:GLN73
|
4.8
|
22.0
|
1.0
|
|
CE1
|
F:TYR52
|
4.8
|
18.7
|
1.0
|
|
CD
|
F:GLU79
|
4.8
|
34.6
|
1.0
|
|
O
|
F:HOH1000
|
4.9
|
43.4
|
1.0
|
|
CB
|
F:ALA47
|
4.9
|
26.9
|
1.0
|
|
CD
|
F:LYS48
|
4.9
|
40.3
|
1.0
|
|
CG
|
F:LYS45
|
5.0
|
28.4
|
1.0
|
|
Reference:
M.Kato-Murayama,
M.Shirouzu,
T.Terada,
K.Murayama,
S.Kuramitsu,
S.Yokoyama.
Crystal Structure of TT1561 of Thermus Thermophilus HB8 To Be Published.
Page generated: Tue Jul 8 02:32:09 2025
|
