Terbium in PDB 6y1r: NB22-Lbt
Protein crystallography data
The structure of NB22-Lbt, PDB code: 6y1r
was solved by
G.Pompidor,
S.Zimmermann,
C.Loew,
T.Schneider,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
80.13 /
1.85
|
Space group
|
P 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
45.469,
49.425,
81.349,
91.71,
99.18,
102.61
|
R / Rfree (%)
|
20.4 /
23.5
|
Terbium Binding Sites:
The binding sites of Terbium atom in the NB22-Lbt
(pdb code 6y1r). This binding sites where shown within
5.0 Angstroms radius around Terbium atom.
In total 9 binding sites of Terbium where determined in the
NB22-Lbt, PDB code: 6y1r:
Jump to Terbium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Terbium binding site 1 out
of 9 in 6y1r
Go back to
Terbium Binding Sites List in 6y1r
Terbium binding site 1 out
of 9 in the NB22-Lbt
Mono view
Stereo pair view
|
A full contact list of Terbium with other atoms in the Tb binding
site number 1 of NB22-Lbt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Tb201
b:28.4
occ:0.78
|
OE2
|
A:GLU42N
|
2.5
|
23.4
|
1.0
|
OD1
|
A:ASP42G
|
2.5
|
29.3
|
1.0
|
O
|
A:TRP42I
|
2.6
|
22.8
|
1.0
|
OE1
|
A:GLU42N
|
2.6
|
23.1
|
1.0
|
OD1
|
A:ASN42E
|
2.6
|
28.3
|
1.0
|
OD1
|
A:ASP42C
|
2.6
|
21.4
|
1.0
|
OE1
|
A:GLU42K
|
2.7
|
23.9
|
1.0
|
OE2
|
A:GLU42K
|
2.7
|
23.4
|
1.0
|
CD
|
A:GLU42N
|
2.9
|
25.1
|
1.0
|
OD2
|
A:ASP42G
|
3.0
|
31.2
|
1.0
|
CD
|
A:GLU42K
|
3.0
|
24.7
|
1.0
|
CG
|
A:ASP42G
|
3.0
|
31.8
|
1.0
|
HD1
|
A:TRP42I
|
3.5
|
32.9
|
1.0
|
CG
|
A:ASN42E
|
3.5
|
32.8
|
1.0
|
CG
|
A:ASP42C
|
3.6
|
23.8
|
1.0
|
H
|
A:ASP42G
|
3.6
|
37.7
|
1.0
|
HA
|
A:ASP42C
|
3.6
|
30.2
|
1.0
|
HA
|
A:ILE42J
|
3.7
|
30.2
|
1.0
|
HD21
|
A:ASN42E
|
3.7
|
40.9
|
1.0
|
H
|
A:TRP42I
|
3.7
|
24.2
|
1.0
|
C
|
A:TRP42I
|
3.7
|
26.6
|
1.0
|
H
|
A:ASN42E
|
3.7
|
38.4
|
1.0
|
H
|
A:GLU42K
|
3.9
|
30.1
|
1.0
|
ND2
|
A:ASN42E
|
4.0
|
34.0
|
1.0
|
OD2
|
A:ASP42C
|
4.2
|
21.9
|
1.0
|
CD1
|
A:TRP42I
|
4.3
|
27.4
|
1.0
|
CA
|
A:ASP42C
|
4.3
|
25.1
|
1.0
|
H
|
A:ASN42F
|
4.3
|
40.4
|
1.0
|
CG
|
A:GLU42N
|
4.3
|
28.2
|
1.0
|
CB
|
A:ASP42G
|
4.4
|
31.6
|
1.0
|
N
|
A:ASP42G
|
4.4
|
31.4
|
1.0
|
CA
|
A:ILE42J
|
4.4
|
25.1
|
1.0
|
N
|
A:GLU42K
|
4.4
|
25.1
|
1.0
|
CB
|
A:ASP42C
|
4.4
|
25.1
|
1.0
|
N
|
A:TRP42I
|
4.4
|
20.2
|
1.0
|
N
|
A:ILE42J
|
4.5
|
25.4
|
1.0
|
HD13
|
A:ILE42J
|
4.5
|
31.6
|
1.0
|
H
|
A:GLY42H
|
4.5
|
33.6
|
1.0
|
CG
|
A:GLU42K
|
4.5
|
26.5
|
1.0
|
N
|
A:ASN42E
|
4.6
|
32.0
|
1.0
|
HB2
|
A:ASP42C
|
4.6
|
30.1
|
1.0
|
H
|
A:THR42D
|
4.6
|
25.6
|
1.0
|
C
|
A:ASP42C
|
4.6
|
20.4
|
1.0
|
HG3
|
A:GLU42N
|
4.6
|
33.9
|
1.0
|
HB3
|
A:ASP42G
|
4.6
|
37.9
|
1.0
|
N
|
A:ASN42F
|
4.7
|
33.6
|
1.0
|
CA
|
A:TRP42I
|
4.7
|
23.2
|
1.0
|
CB
|
A:ASN42E
|
4.7
|
30.3
|
1.0
|
C
|
A:ILE42J
|
4.8
|
25.6
|
1.0
|
HD22
|
A:ASN42E
|
4.8
|
40.9
|
1.0
|
N
|
A:THR42D
|
4.8
|
21.3
|
1.0
|
HG2
|
A:GLU42N
|
4.8
|
33.9
|
1.0
|
HE1
|
A:TRP42I
|
4.8
|
33.5
|
1.0
|
CA
|
A:ASP42G
|
4.9
|
31.1
|
1.0
|
O
|
A:HOH302
|
4.9
|
29.9
|
1.0
|
HB2
|
A:GLU42N
|
4.9
|
37.1
|
1.0
|
C
|
A:ASN42E
|
4.9
|
35.5
|
1.0
|
HG2
|
A:GLU42K
|
4.9
|
31.8
|
1.0
|
HG3
|
A:GLU42K
|
4.9
|
31.8
|
1.0
|
N
|
A:GLY42H
|
4.9
|
28.0
|
1.0
|
NE1
|
A:TRP42I
|
5.0
|
27.9
|
1.0
|
CA
|
A:ASN42E
|
5.0
|
32.4
|
1.0
|
|
Terbium binding site 2 out
of 9 in 6y1r
Go back to
Terbium Binding Sites List in 6y1r
Terbium binding site 2 out
of 9 in the NB22-Lbt
Mono view
Stereo pair view
|
A full contact list of Terbium with other atoms in the Tb binding
site number 2 of NB22-Lbt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Tb202
b:28.3
occ:0.73
|
OE2
|
D:GLU61
|
2.5
|
22.1
|
1.0
|
OD1
|
D:ASP62
|
2.6
|
27.8
|
1.0
|
OD1
|
A:ASP62
|
2.6
|
24.5
|
1.0
|
O
|
D:HOH352
|
2.6
|
29.9
|
1.0
|
O
|
D:HOH347
|
2.6
|
33.4
|
1.0
|
OE1
|
A:GLU61
|
2.7
|
29.0
|
1.0
|
OE2
|
A:GLU61
|
2.7
|
28.7
|
1.0
|
OE1
|
D:GLU61
|
2.7
|
38.6
|
1.0
|
O
|
D:HOH342
|
2.7
|
35.5
|
1.0
|
CD
|
D:GLU61
|
2.9
|
29.7
|
1.0
|
CD
|
A:GLU61
|
3.0
|
30.7
|
1.0
|
CG
|
D:ASP62
|
3.5
|
29.3
|
1.0
|
CG
|
A:ASP62
|
3.5
|
27.9
|
1.0
|
H
|
A:ASP62
|
3.7
|
27.1
|
1.0
|
H
|
D:ASP62
|
3.7
|
31.0
|
1.0
|
H
|
D:SER63
|
3.8
|
30.9
|
1.0
|
OD2
|
D:ASP62
|
3.8
|
24.7
|
1.0
|
H
|
A:SER63
|
3.8
|
32.9
|
1.0
|
OD2
|
A:ASP62
|
3.9
|
25.3
|
1.0
|
HB3
|
A:SER63
|
4.2
|
35.1
|
1.0
|
HB3
|
D:SER63
|
4.2
|
35.2
|
1.0
|
N
|
A:ASP62
|
4.3
|
22.6
|
1.0
|
N
|
D:ASP62
|
4.4
|
25.9
|
1.0
|
CG
|
D:GLU61
|
4.4
|
28.6
|
1.0
|
HG
|
A:SER63
|
4.5
|
37.3
|
1.0
|
CG
|
A:GLU61
|
4.5
|
28.7
|
1.0
|
N
|
A:SER63
|
4.5
|
27.4
|
1.0
|
N
|
D:SER63
|
4.6
|
25.7
|
1.0
|
HG
|
D:SER63
|
4.7
|
39.1
|
1.0
|
HG3
|
D:GLU61
|
4.7
|
34.3
|
1.0
|
CB
|
A:ASP62
|
4.8
|
26.5
|
1.0
|
CB
|
D:ASP62
|
4.8
|
28.2
|
1.0
|
O
|
D:HOH332
|
4.8
|
44.4
|
1.0
|
O
|
A:HOH339
|
4.8
|
37.4
|
1.0
|
HA
|
D:GLU61
|
4.9
|
26.0
|
1.0
|
HG2
|
D:GLU61
|
4.9
|
34.3
|
1.0
|
HG3
|
A:GLU61
|
4.9
|
34.5
|
1.0
|
HG2
|
A:GLU61
|
4.9
|
34.5
|
1.0
|
CA
|
A:ASP62
|
5.0
|
25.3
|
1.0
|
CB
|
A:SER63
|
5.0
|
29.2
|
1.0
|
|
Terbium binding site 3 out
of 9 in 6y1r
Go back to
Terbium Binding Sites List in 6y1r
Terbium binding site 3 out
of 9 in the NB22-Lbt
Mono view
Stereo pair view
|
A full contact list of Terbium with other atoms in the Tb binding
site number 3 of NB22-Lbt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Tb201
b:40.2
occ:0.68
|
OD1
|
B:ASP42C
|
2.6
|
31.9
|
1.0
|
OE1
|
B:GLU42N
|
2.6
|
32.6
|
1.0
|
O
|
B:TRP42I
|
2.7
|
36.7
|
1.0
|
OE2
|
B:GLU42N
|
2.7
|
39.8
|
1.0
|
OE2
|
B:GLU42K
|
2.7
|
36.4
|
1.0
|
OD1
|
B:ASP42G
|
2.7
|
47.5
|
1.0
|
OE1
|
B:GLU42K
|
2.7
|
37.2
|
1.0
|
OD1
|
B:ASN42E
|
2.7
|
50.9
|
1.0
|
HD21
|
B:ASN42E
|
2.8
|
65.7
|
1.0
|
CD
|
B:GLU42N
|
3.0
|
37.0
|
1.0
|
CD
|
B:GLU42K
|
3.0
|
37.0
|
1.0
|
CG
|
B:ASP42G
|
3.2
|
44.1
|
1.0
|
CG
|
B:ASN42E
|
3.2
|
51.7
|
1.0
|
ND2
|
B:ASN42E
|
3.3
|
54.8
|
1.0
|
OD2
|
B:ASP42G
|
3.3
|
43.2
|
1.0
|
H
|
B:ASP42G
|
3.3
|
58.5
|
1.0
|
C
|
B:TRP42I
|
3.6
|
38.8
|
1.0
|
HA
|
B:ASP42C
|
3.7
|
48.4
|
1.0
|
H
|
B:TRP42I
|
3.7
|
48.7
|
1.0
|
HA
|
B:ILE42J
|
3.7
|
39.6
|
1.0
|
CG
|
B:ASP42C
|
3.8
|
36.0
|
1.0
|
H
|
B:GLU42K
|
3.9
|
38.7
|
1.0
|
H
|
B:ASN42E
|
4.0
|
62.9
|
1.0
|
HD22
|
B:ASN42E
|
4.0
|
65.7
|
1.0
|
H
|
B:ASN42F
|
4.0
|
60.8
|
1.0
|
HB2
|
B:TRP42I
|
4.1
|
52.9
|
1.0
|
N
|
B:ASP42G
|
4.2
|
48.7
|
1.0
|
N
|
B:TRP42I
|
4.4
|
40.6
|
1.0
|
CB
|
B:ASP42G
|
4.4
|
44.2
|
1.0
|
N
|
B:ILE42J
|
4.4
|
35.8
|
1.0
|
CG
|
B:GLU42N
|
4.4
|
37.5
|
1.0
|
H
|
B:THR42D
|
4.4
|
53.6
|
1.0
|
N
|
B:ASN42F
|
4.4
|
50.7
|
1.0
|
CA
|
B:ILE42J
|
4.4
|
33.0
|
1.0
|
N
|
B:GLU42K
|
4.5
|
32.3
|
1.0
|
CA
|
B:ASP42C
|
4.5
|
40.4
|
1.0
|
CA
|
B:TRP42I
|
4.5
|
41.9
|
1.0
|
HB3
|
B:ASP42G
|
4.5
|
53.0
|
1.0
|
N
|
B:ASN42E
|
4.5
|
52.4
|
1.0
|
HD13
|
B:ILE42J
|
4.5
|
37.2
|
1.0
|
CG
|
B:GLU42K
|
4.5
|
39.3
|
1.0
|
CB
|
B:ASN42E
|
4.6
|
49.5
|
1.0
|
OD2
|
B:ASP42C
|
4.6
|
36.5
|
1.0
|
HG3
|
B:GLU42N
|
4.7
|
44.9
|
1.0
|
O
|
B:HOH332
|
4.7
|
46.8
|
1.0
|
N
|
B:THR42D
|
4.7
|
44.7
|
1.0
|
CB
|
B:ASP42C
|
4.7
|
38.1
|
1.0
|
C
|
B:ASP42C
|
4.7
|
43.6
|
1.0
|
H
|
B:GLY42H
|
4.7
|
54.3
|
1.0
|
CA
|
B:ASP42G
|
4.7
|
45.4
|
1.0
|
CB
|
B:TRP42I
|
4.8
|
44.1
|
1.0
|
C
|
B:ASN42E
|
4.8
|
50.8
|
1.0
|
C
|
B:ILE42J
|
4.9
|
31.7
|
1.0
|
CA
|
B:ASN42E
|
4.9
|
50.7
|
1.0
|
HB2
|
B:GLU42N
|
4.9
|
41.1
|
1.0
|
HG2
|
B:GLU42K
|
4.9
|
47.2
|
1.0
|
HG2
|
B:GLU42N
|
4.9
|
44.9
|
1.0
|
HB3
|
B:ASN42E
|
4.9
|
59.4
|
1.0
|
N
|
B:GLY42H
|
5.0
|
45.2
|
1.0
|
O
|
B:HOH329
|
5.0
|
45.5
|
1.0
|
|
Terbium binding site 4 out
of 9 in 6y1r
Go back to
Terbium Binding Sites List in 6y1r
Terbium binding site 4 out
of 9 in the NB22-Lbt
Mono view
Stereo pair view
|
A full contact list of Terbium with other atoms in the Tb binding
site number 4 of NB22-Lbt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Tb201
b:40.2
occ:0.63
|
OD1
|
C:ASP42G
|
2.6
|
46.5
|
1.0
|
OD1
|
C:ASP42C
|
2.6
|
38.4
|
1.0
|
OE1
|
C:GLU42N
|
2.7
|
48.2
|
1.0
|
O
|
C:TRP42I
|
2.7
|
40.4
|
1.0
|
OE2
|
C:GLU42N
|
2.7
|
43.7
|
1.0
|
OE1
|
C:GLU42K
|
2.7
|
33.7
|
1.0
|
OE2
|
C:GLU42K
|
2.7
|
40.4
|
1.0
|
OD1
|
C:ASN42E
|
2.7
|
43.1
|
1.0
|
CD
|
C:GLU42N
|
3.0
|
47.8
|
1.0
|
CD
|
C:GLU42K
|
3.1
|
37.3
|
1.0
|
CG
|
C:ASP42G
|
3.4
|
48.1
|
1.0
|
C
|
C:TRP42I
|
3.4
|
42.7
|
1.0
|
HA
|
C:ASP42C
|
3.5
|
53.0
|
1.0
|
OD2
|
C:ASP42G
|
3.5
|
46.4
|
1.0
|
HA
|
C:ILE42J
|
3.6
|
51.1
|
1.0
|
H
|
C:TRP42I
|
3.6
|
50.2
|
1.0
|
HB2
|
C:TRP42I
|
3.6
|
57.2
|
1.0
|
CG
|
C:ASP42C
|
3.7
|
42.0
|
1.0
|
H
|
C:ASP42G
|
3.7
|
57.4
|
1.0
|
CG
|
C:ASN42E
|
3.8
|
45.9
|
1.0
|
H
|
C:GLU42K
|
3.9
|
55.2
|
1.0
|
H
|
C:ASN42E
|
3.9
|
56.9
|
1.0
|
HD21
|
C:ASN42E
|
3.9
|
57.5
|
1.0
|
HD13
|
C:ILE42J
|
4.1
|
53.7
|
1.0
|
H
|
C:THR42D
|
4.1
|
53.5
|
1.0
|
N
|
C:TRP42I
|
4.2
|
41.8
|
1.0
|
N
|
C:ILE42J
|
4.2
|
40.1
|
1.0
|
ND2
|
C:ASN42E
|
4.2
|
48.0
|
1.0
|
CA
|
C:TRP42I
|
4.2
|
43.7
|
1.0
|
CA
|
C:ASP42C
|
4.2
|
44.2
|
1.0
|
CA
|
C:ILE42J
|
4.3
|
42.6
|
1.0
|
H
|
C:ASN42F
|
4.4
|
59.5
|
1.0
|
CB
|
C:TRP42I
|
4.4
|
47.7
|
1.0
|
N
|
C:GLU42K
|
4.4
|
46.0
|
1.0
|
OD2
|
C:ASP42C
|
4.4
|
46.3
|
1.0
|
N
|
C:THR42D
|
4.5
|
44.5
|
1.0
|
CG
|
C:GLU42N
|
4.5
|
51.5
|
1.0
|
CB
|
C:ASP42C
|
4.5
|
43.8
|
1.0
|
N
|
C:ASP42G
|
4.5
|
47.8
|
1.0
|
C
|
C:ASP42C
|
4.5
|
41.6
|
1.0
|
N
|
C:ASN42E
|
4.6
|
47.4
|
1.0
|
CG
|
C:GLU42K
|
4.6
|
41.2
|
1.0
|
CB
|
C:ASP42G
|
4.7
|
48.0
|
1.0
|
O
|
C:GLU42K
|
4.7
|
46.8
|
1.0
|
HB3
|
C:TRP42I
|
4.8
|
57.2
|
1.0
|
C
|
C:ILE42J
|
4.8
|
44.8
|
1.0
|
HB2
|
C:ASP42C
|
4.8
|
52.5
|
1.0
|
HB2
|
C:GLU42N
|
4.8
|
65.7
|
1.0
|
HG3
|
C:GLU42N
|
4.8
|
61.8
|
1.0
|
N
|
C:ASN42F
|
4.8
|
49.6
|
1.0
|
H
|
C:GLY42H
|
4.9
|
55.4
|
1.0
|
H
|
C:ILE42J
|
5.0
|
48.1
|
1.0
|
HG2
|
C:GLU42K
|
5.0
|
49.5
|
1.0
|
CD1
|
C:ILE42J
|
5.0
|
44.7
|
1.0
|
|
Terbium binding site 5 out
of 9 in 6y1r
Go back to
Terbium Binding Sites List in 6y1r
Terbium binding site 5 out
of 9 in the NB22-Lbt
Mono view
Stereo pair view
|
A full contact list of Terbium with other atoms in the Tb binding
site number 5 of NB22-Lbt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Tb202
b:40.4
occ:0.39
|
H
|
C:ASP42M
|
2.3
|
73.3
|
1.0
|
HG3
|
C:GLU42N
|
2.6
|
61.8
|
1.0
|
O
|
C:GLU42K
|
2.7
|
46.8
|
1.0
|
HA3
|
C:GLY42L
|
2.7
|
67.0
|
1.0
|
O
|
C:HOH306
|
2.7
|
46.9
|
1.0
|
O
|
C:HOH357
|
2.7
|
56.9
|
1.0
|
H
|
C:GLU42N
|
2.8
|
72.5
|
1.0
|
N
|
C:ASP42M
|
2.8
|
61.1
|
1.0
|
O
|
C:HOH359
|
3.0
|
29.9
|
1.0
|
HB2
|
C:ASP42M
|
3.2
|
76.4
|
1.0
|
OE2
|
C:GLU42K
|
3.4
|
40.4
|
1.0
|
CA
|
C:GLY42L
|
3.4
|
55.8
|
1.0
|
C
|
C:GLY42L
|
3.4
|
56.6
|
1.0
|
N
|
C:GLU42N
|
3.4
|
60.4
|
1.0
|
CG
|
C:GLU42N
|
3.5
|
51.5
|
1.0
|
C
|
C:GLU42K
|
3.6
|
49.6
|
1.0
|
OE2
|
C:GLU42N
|
3.6
|
43.7
|
1.0
|
CD
|
C:GLU42N
|
3.7
|
47.8
|
1.0
|
CA
|
C:ASP42M
|
3.7
|
62.6
|
1.0
|
HG2
|
C:GLU42K
|
3.8
|
49.5
|
1.0
|
CB
|
C:ASP42M
|
3.9
|
63.7
|
1.0
|
HB2
|
C:GLU42N
|
4.0
|
65.7
|
1.0
|
C
|
C:ASP42M
|
4.0
|
61.4
|
1.0
|
N
|
C:GLY42L
|
4.0
|
54.0
|
1.0
|
CB
|
C:GLU42N
|
4.1
|
54.8
|
1.0
|
HG2
|
C:GLU42N
|
4.2
|
61.8
|
1.0
|
HA2
|
C:GLY42L
|
4.2
|
67.0
|
1.0
|
CD
|
C:GLU42K
|
4.2
|
37.3
|
1.0
|
CA
|
C:GLU42N
|
4.4
|
59.6
|
1.0
|
HB
|
C:THR42D
|
4.4
|
57.7
|
1.0
|
OE1
|
C:GLU42N
|
4.5
|
48.2
|
1.0
|
O
|
C:GLY42L
|
4.5
|
52.4
|
1.0
|
H
|
C:GLU42K
|
4.5
|
55.2
|
1.0
|
CG
|
C:GLU42K
|
4.5
|
41.2
|
1.0
|
HB3
|
C:ASP42M
|
4.6
|
76.4
|
1.0
|
HA
|
C:ASP42M
|
4.6
|
75.1
|
1.0
|
OD1
|
C:ASP42M
|
4.7
|
64.5
|
1.0
|
H
|
C:GLY42L
|
4.8
|
64.8
|
1.0
|
CG
|
C:ASP42M
|
4.9
|
64.4
|
1.0
|
CA
|
C:GLU42K
|
4.9
|
46.7
|
1.0
|
HA
|
C:GLU42N
|
4.9
|
71.5
|
1.0
|
|
Terbium binding site 6 out
of 9 in 6y1r
Go back to
Terbium Binding Sites List in 6y1r
Terbium binding site 6 out
of 9 in the NB22-Lbt
Mono view
Stereo pair view
|
A full contact list of Terbium with other atoms in the Tb binding
site number 6 of NB22-Lbt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Tb205
b:33.8
occ:0.82
|
OD1
|
E:ASP62
|
2.5
|
24.4
|
1.0
|
OD1
|
C:ASP62
|
2.6
|
23.9
|
1.0
|
OE2
|
C:GLU61
|
2.6
|
30.7
|
1.0
|
O
|
E:HOH357
|
2.7
|
34.5
|
1.0
|
O
|
E:HOH327
|
2.7
|
37.6
|
1.0
|
OE2
|
E:GLU61
|
2.7
|
32.2
|
1.0
|
OE1
|
C:GLU61
|
2.7
|
34.5
|
1.0
|
O
|
E:HOH349
|
2.7
|
37.2
|
1.0
|
OE1
|
E:GLU61
|
2.8
|
39.8
|
1.0
|
CD
|
C:GLU61
|
3.0
|
33.0
|
1.0
|
CD
|
E:GLU61
|
3.1
|
35.9
|
1.0
|
CG
|
E:ASP62
|
3.4
|
28.0
|
1.0
|
CG
|
C:ASP62
|
3.5
|
28.0
|
1.0
|
OD2
|
E:ASP62
|
3.7
|
27.3
|
1.0
|
H
|
C:ASP62
|
3.7
|
28.0
|
1.0
|
OD2
|
C:ASP62
|
3.7
|
26.4
|
1.0
|
H
|
E:ASP62
|
3.8
|
33.2
|
1.0
|
H
|
C:SER63
|
3.8
|
27.6
|
1.0
|
H
|
E:SER63
|
3.9
|
34.6
|
1.0
|
HB3
|
E:SER63
|
4.1
|
37.2
|
1.0
|
HB3
|
C:SER63
|
4.2
|
32.2
|
1.0
|
N
|
C:ASP62
|
4.4
|
23.3
|
1.0
|
N
|
E:ASP62
|
4.5
|
27.7
|
1.0
|
HG
|
E:SER63
|
4.5
|
37.5
|
1.0
|
CG
|
C:GLU61
|
4.5
|
33.3
|
1.0
|
N
|
C:SER63
|
4.5
|
23.0
|
1.0
|
N
|
E:SER63
|
4.6
|
28.8
|
1.0
|
CG
|
E:GLU61
|
4.6
|
34.7
|
1.0
|
OE2
|
E:GLU46
|
4.7
|
50.4
|
1.0
|
HG
|
C:SER63
|
4.7
|
37.9
|
1.0
|
CB
|
E:ASP62
|
4.7
|
27.9
|
1.0
|
CB
|
C:ASP62
|
4.7
|
28.1
|
1.0
|
O
|
E:HOH358
|
4.8
|
43.2
|
1.0
|
O
|
C:HOH307
|
4.8
|
45.0
|
1.0
|
HG3
|
C:GLU61
|
4.9
|
40.0
|
1.0
|
CB
|
E:SER63
|
4.9
|
31.0
|
1.0
|
HG3
|
E:GLU61
|
4.9
|
41.6
|
1.0
|
OE2
|
C:GLU46
|
4.9
|
60.4
|
1.0
|
HG2
|
C:GLU61
|
4.9
|
40.0
|
1.0
|
HA
|
C:GLU61
|
4.9
|
28.9
|
1.0
|
CA
|
C:ASP62
|
5.0
|
23.2
|
1.0
|
OG
|
E:SER63
|
5.0
|
31.3
|
1.0
|
|
Terbium binding site 7 out
of 9 in 6y1r
Go back to
Terbium Binding Sites List in 6y1r
Terbium binding site 7 out
of 9 in the NB22-Lbt
Mono view
Stereo pair view
|
A full contact list of Terbium with other atoms in the Tb binding
site number 7 of NB22-Lbt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Tb201
b:32.0
occ:0.82
|
OD1
|
D:ASP42C
|
2.5
|
24.2
|
1.0
|
OE2
|
D:GLU42N
|
2.6
|
27.2
|
1.0
|
O
|
D:TRP42I
|
2.6
|
27.9
|
1.0
|
OD1
|
D:ASN42E
|
2.6
|
30.4
|
1.0
|
OE1
|
D:GLU42N
|
2.6
|
27.1
|
1.0
|
OD1
|
D:ASP42G
|
2.6
|
23.7
|
1.0
|
OE1
|
D:GLU42K
|
2.6
|
28.4
|
1.0
|
OE2
|
D:GLU42K
|
2.7
|
26.1
|
1.0
|
CD
|
D:GLU42N
|
2.9
|
27.4
|
1.0
|
CD
|
D:GLU42K
|
3.0
|
28.6
|
1.0
|
HD21
|
D:ASN42E
|
3.2
|
44.5
|
1.0
|
CG
|
D:ASP42G
|
3.2
|
28.2
|
1.0
|
OD2
|
D:ASP42G
|
3.3
|
29.9
|
1.0
|
CG
|
D:ASN42E
|
3.3
|
33.9
|
1.0
|
H
|
D:ASP42G
|
3.5
|
39.0
|
1.0
|
C
|
D:TRP42I
|
3.6
|
26.7
|
1.0
|
ND2
|
D:ASN42E
|
3.6
|
37.1
|
1.0
|
H
|
D:ASN42E
|
3.7
|
39.9
|
1.0
|
CG
|
D:ASP42C
|
3.7
|
26.6
|
1.0
|
HA
|
D:ILE42J
|
3.7
|
33.6
|
1.0
|
HA
|
D:ASP42C
|
3.7
|
24.7
|
1.0
|
HB2
|
D:TRP42I
|
3.9
|
29.6
|
1.0
|
H
|
D:GLU42K
|
3.9
|
28.7
|
1.0
|
H
|
D:TRP42I
|
3.9
|
26.2
|
1.0
|
H
|
D:ASN42F
|
4.3
|
42.0
|
1.0
|
N
|
D:TRP42I
|
4.3
|
21.8
|
1.0
|
N
|
D:ASP42G
|
4.3
|
32.5
|
1.0
|
HD22
|
D:ASN42E
|
4.3
|
44.5
|
1.0
|
CG
|
D:GLU42N
|
4.4
|
27.9
|
1.0
|
CA
|
D:TRP42I
|
4.4
|
23.8
|
1.0
|
N
|
D:ILE42J
|
4.4
|
26.4
|
1.0
|
OD2
|
D:ASP42C
|
4.4
|
32.2
|
1.0
|
CA
|
D:ASP42C
|
4.4
|
20.6
|
1.0
|
N
|
D:GLU42K
|
4.4
|
23.9
|
1.0
|
CA
|
D:ILE42J
|
4.4
|
28.0
|
1.0
|
N
|
D:ASN42E
|
4.4
|
33.3
|
1.0
|
HD13
|
D:ILE42J
|
4.5
|
27.6
|
1.0
|
CG
|
D:GLU42K
|
4.5
|
32.0
|
1.0
|
H
|
D:GLY42H
|
4.5
|
32.7
|
1.0
|
CB
|
D:ASP42G
|
4.5
|
29.2
|
1.0
|
H
|
D:THR42D
|
4.5
|
31.4
|
1.0
|
CB
|
D:TRP42I
|
4.5
|
24.6
|
1.0
|
CB
|
D:ASP42C
|
4.5
|
25.1
|
1.0
|
CB
|
D:ASN42E
|
4.6
|
34.2
|
1.0
|
N
|
D:ASN42F
|
4.6
|
35.0
|
1.0
|
C
|
D:ASP42C
|
4.6
|
22.7
|
1.0
|
HG3
|
D:GLU42N
|
4.6
|
33.5
|
1.0
|
N
|
D:THR42D
|
4.7
|
26.1
|
1.0
|
C
|
D:ASN42E
|
4.7
|
33.8
|
1.0
|
HB3
|
D:TRP42I
|
4.8
|
29.6
|
1.0
|
HB2
|
D:ASP42C
|
4.8
|
30.1
|
1.0
|
C
|
D:ILE42J
|
4.8
|
26.9
|
1.0
|
HB3
|
D:ASP42G
|
4.8
|
35.0
|
1.0
|
CA
|
D:ASN42E
|
4.8
|
35.0
|
1.0
|
HG2
|
D:GLU42N
|
4.8
|
33.5
|
1.0
|
N
|
D:GLY42H
|
4.8
|
27.2
|
1.0
|
CA
|
D:ASP42G
|
4.9
|
31.6
|
1.0
|
HG2
|
D:GLU42K
|
4.9
|
38.4
|
1.0
|
HB2
|
D:GLU42N
|
4.9
|
36.4
|
1.0
|
O
|
D:HOH340
|
4.9
|
38.8
|
1.0
|
HG3
|
D:GLU42K
|
4.9
|
38.4
|
1.0
|
HB3
|
D:ASN42E
|
4.9
|
41.1
|
1.0
|
|
Terbium binding site 8 out
of 9 in 6y1r
Go back to
Terbium Binding Sites List in 6y1r
Terbium binding site 8 out
of 9 in the NB22-Lbt
Mono view
Stereo pair view
|
A full contact list of Terbium with other atoms in the Tb binding
site number 8 of NB22-Lbt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Tb201
b:36.5
occ:0.55
|
OD1
|
E:ASP42C
|
2.2
|
42.0
|
1.0
|
OD1
|
E:ASN42E
|
2.2
|
63.8
|
1.0
|
O
|
E:TRP42I
|
2.3
|
38.8
|
1.0
|
HD21
|
E:ASN42E
|
2.3
|
80.2
|
1.0
|
OE1
|
E:GLU42K
|
2.4
|
40.6
|
1.0
|
OE1
|
E:GLU42N
|
2.5
|
42.1
|
1.0
|
OE2
|
E:GLU42K
|
2.5
|
38.4
|
1.0
|
OE2
|
E:GLU42N
|
2.6
|
38.0
|
1.0
|
CG
|
E:ASN42E
|
2.6
|
63.6
|
1.0
|
ND2
|
E:ASN42E
|
2.6
|
66.8
|
1.0
|
OD1
|
E:ASP42G
|
2.7
|
49.2
|
1.0
|
CD
|
E:GLU42K
|
2.8
|
42.2
|
1.0
|
CD
|
E:GLU42N
|
2.8
|
41.5
|
1.0
|
CG
|
E:ASP42G
|
3.2
|
50.6
|
1.0
|
OD2
|
E:ASP42G
|
3.3
|
51.1
|
1.0
|
HD22
|
E:ASN42E
|
3.3
|
80.2
|
1.0
|
CG
|
E:ASP42C
|
3.4
|
37.0
|
1.0
|
C
|
E:TRP42I
|
3.5
|
40.9
|
1.0
|
HA
|
E:ASP42C
|
3.7
|
44.7
|
1.0
|
HA
|
E:ILE42J
|
3.7
|
48.1
|
1.0
|
H
|
E:GLU42K
|
3.7
|
47.3
|
1.0
|
H
|
E:TRP42I
|
3.8
|
54.4
|
1.0
|
CB
|
E:ASN42E
|
3.9
|
60.0
|
1.0
|
HB3
|
E:ASN42E
|
3.9
|
72.0
|
1.0
|
H
|
E:ASP42G
|
3.9
|
55.3
|
1.0
|
O
|
E:HOH310
|
4.1
|
40.4
|
1.0
|
HB2
|
E:TRP42I
|
4.1
|
57.1
|
1.0
|
OD2
|
E:ASP42C
|
4.2
|
30.6
|
1.0
|
CG
|
E:GLU42K
|
4.3
|
46.7
|
1.0
|
CA
|
E:ASP42C
|
4.3
|
37.3
|
1.0
|
N
|
E:GLU42K
|
4.3
|
39.4
|
1.0
|
CG
|
E:GLU42N
|
4.3
|
42.4
|
1.0
|
N
|
E:ILE42J
|
4.3
|
40.8
|
1.0
|
N
|
E:TRP42I
|
4.4
|
45.3
|
1.0
|
CA
|
E:TRP42I
|
4.4
|
45.8
|
1.0
|
CB
|
E:ASP42C
|
4.4
|
39.1
|
1.0
|
CA
|
E:ILE42J
|
4.4
|
40.1
|
1.0
|
H
|
E:ASN42F
|
4.4
|
57.9
|
1.0
|
C
|
E:ASP42C
|
4.6
|
36.4
|
1.0
|
HB2
|
E:ASN42E
|
4.6
|
72.0
|
1.0
|
CB
|
E:ASP42G
|
4.6
|
49.0
|
1.0
|
N
|
E:ASN42E
|
4.6
|
55.2
|
1.0
|
HG3
|
E:GLU42N
|
4.6
|
50.8
|
1.0
|
HG2
|
E:GLU42K
|
4.6
|
56.0
|
1.0
|
CA
|
E:ASN42E
|
4.7
|
55.6
|
1.0
|
N
|
E:ASP42G
|
4.7
|
46.0
|
1.0
|
H
|
E:ASN42E
|
4.7
|
66.2
|
1.0
|
HD13
|
E:ILE42J
|
4.7
|
56.3
|
1.0
|
CB
|
E:TRP42I
|
4.7
|
47.6
|
1.0
|
HG3
|
E:GLU42K
|
4.7
|
56.0
|
1.0
|
HB3
|
E:ASP42G
|
4.7
|
58.8
|
1.0
|
HB2
|
E:ASP42C
|
4.7
|
46.9
|
1.0
|
N
|
E:ASN42F
|
4.8
|
48.2
|
1.0
|
HG2
|
E:GLU42N
|
4.8
|
50.8
|
1.0
|
N
|
E:THR42D
|
4.8
|
41.9
|
1.0
|
C
|
E:ILE42J
|
4.8
|
39.4
|
1.0
|
H
|
E:THR42D
|
4.8
|
50.2
|
1.0
|
O
|
E:GLU42K
|
4.9
|
45.1
|
1.0
|
HB3
|
E:TRP42I
|
4.9
|
57.1
|
1.0
|
C
|
E:THR42D
|
4.9
|
56.1
|
1.0
|
C
|
E:ASN42E
|
5.0
|
52.6
|
1.0
|
HB3
|
E:GLU42K
|
5.0
|
56.7
|
1.0
|
|
Terbium binding site 9 out
of 9 in 6y1r
Go back to
Terbium Binding Sites List in 6y1r
Terbium binding site 9 out
of 9 in the NB22-Lbt
Mono view
Stereo pair view
|
A full contact list of Terbium with other atoms in the Tb binding
site number 9 of NB22-Lbt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Tb202
b:34.6
occ:0.39
|
HA2
|
E:GLY42H
|
1.5
|
56.1
|
1.0
|
CA
|
E:GLY42H
|
1.6
|
46.7
|
1.0
|
N
|
E:GLY42H
|
1.7
|
50.8
|
1.0
|
C
|
E:GLY42H
|
2.3
|
42.0
|
1.0
|
OD2
|
E:ASP42C
|
2.3
|
30.6
|
1.0
|
HA3
|
E:GLY42H
|
2.5
|
56.1
|
1.0
|
O
|
E:HOH348
|
2.6
|
29.9
|
1.0
|
O
|
E:HOH345
|
2.7
|
41.5
|
1.0
|
O
|
E:HOH310
|
2.8
|
40.4
|
1.0
|
HB
|
C:ILE42J
|
2.8
|
53.5
|
1.0
|
N
|
E:TRP42I
|
2.9
|
45.3
|
1.0
|
H
|
E:TRP42I
|
2.9
|
54.4
|
1.0
|
C
|
E:ASP42G
|
3.0
|
49.8
|
1.0
|
O
|
E:GLY42H
|
3.0
|
42.6
|
1.0
|
H
|
E:ASP42G
|
3.2
|
55.3
|
1.0
|
CG
|
E:ASP42C
|
3.2
|
37.0
|
1.0
|
HG13
|
C:ILE42J
|
3.3
|
54.5
|
1.0
|
N
|
E:ASP42G
|
3.5
|
46.0
|
1.0
|
HG12
|
C:ILE42J
|
3.6
|
54.5
|
1.0
|
CB
|
C:ILE42J
|
3.6
|
44.6
|
1.0
|
CG1
|
C:ILE42J
|
3.7
|
45.4
|
1.0
|
OD1
|
E:ASP42G
|
3.8
|
49.2
|
1.0
|
OD1
|
E:ASP42C
|
3.8
|
42.0
|
1.0
|
O
|
E:ASP42G
|
3.8
|
49.5
|
1.0
|
CA
|
E:ASP42G
|
3.9
|
47.6
|
1.0
|
HA
|
E:ASN42F
|
3.9
|
55.0
|
1.0
|
HB2
|
E:ASP42C
|
4.2
|
46.9
|
1.0
|
CB
|
E:ASP42C
|
4.2
|
39.1
|
1.0
|
H
|
C:ILE42J
|
4.2
|
48.1
|
1.0
|
CA
|
E:TRP42I
|
4.3
|
45.8
|
1.0
|
C
|
E:ASN42F
|
4.3
|
46.4
|
1.0
|
HG21
|
C:ILE42J
|
4.3
|
53.3
|
1.0
|
HB3
|
E:ASP42C
|
4.3
|
46.9
|
1.0
|
O
|
E:TRP42I
|
4.4
|
38.8
|
1.0
|
CG2
|
C:ILE42J
|
4.4
|
44.4
|
1.0
|
HA
|
E:ASP42G
|
4.5
|
57.2
|
1.0
|
HG22
|
C:ILE42J
|
4.6
|
53.3
|
1.0
|
HA
|
E:TRP42I
|
4.6
|
54.9
|
1.0
|
CA
|
E:ASN42F
|
4.6
|
45.8
|
1.0
|
N
|
C:ILE42J
|
4.7
|
40.1
|
1.0
|
OD1
|
E:ASN42F
|
4.7
|
39.6
|
1.0
|
C
|
E:TRP42I
|
4.7
|
40.9
|
1.0
|
CA
|
C:ILE42J
|
4.7
|
42.6
|
1.0
|
CG
|
E:ASP42G
|
4.8
|
50.6
|
1.0
|
CB
|
E:ASP42G
|
4.9
|
49.0
|
1.0
|
|
Reference:
G.Pompidor,
S.Zimmermann,
C.Loew,
T.Schneider.
Engineered Nanobodies with A Lanthanide Binding Motif For Crystallographic Phasing To Be Published.
Page generated: Fri Oct 11 08:49:09 2024
|