Calcium in PDB 2z49: Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
Protein crystallography data
The structure of Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside, PDB code: 2z49
was solved by
T.Hatakeyama,
H.Unno,
S.Eto,
H.Hidemura,
T.Uchida,
Y.Kouzuma,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
58.12 /
1.95
|
|
Space group
|
P 1 21 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
53.287,
65.451,
126.993,
90.00,
97.07,
90.00
|
|
R / Rfree (%)
|
19.1 /
23.9
|
Other elements in 2z49:
The structure of Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside also contains other interesting chemical elements:
Calcium Binding Sites:
The binding sites of Calcium atom in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
(pdb code 2z49). 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside, PDB code: 2z49:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 10 in 2z49
Go back to
Calcium Binding Sites List in 2z49
Calcium binding site 1 out
of 10 in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1001
b:21.6
occ:1.00
|
OD1
|
A:ASP23
|
2.3
|
19.4
|
1.0
|
|
O
|
A:ILE24
|
2.4
|
22.2
|
1.0
|
|
O
|
A:GLY26
|
2.4
|
26.4
|
1.0
|
|
OD2
|
A:ASP43
|
2.4
|
20.3
|
1.0
|
|
O
|
A:HOH2127
|
2.5
|
24.7
|
1.0
|
|
O3
|
A:AMG1400
|
2.5
|
24.7
|
1.0
|
|
O4
|
A:AMG1400
|
2.5
|
21.5
|
1.0
|
|
CG
|
A:ASP23
|
3.2
|
22.0
|
1.0
|
|
C3
|
A:AMG1400
|
3.3
|
24.9
|
1.0
|
|
C4
|
A:AMG1400
|
3.4
|
24.4
|
1.0
|
|
CG
|
A:ASP43
|
3.4
|
20.6
|
1.0
|
|
OD2
|
A:ASP23
|
3.5
|
25.8
|
1.0
|
|
C
|
A:GLY26
|
3.6
|
26.6
|
1.0
|
|
C
|
A:ILE24
|
3.6
|
22.9
|
1.0
|
|
OD1
|
A:ASP43
|
3.7
|
20.3
|
1.0
|
|
C2
|
A:AMG1400
|
3.9
|
25.2
|
1.0
|
|
N
|
A:GLY26
|
4.0
|
24.9
|
1.0
|
|
O
|
A:HOH2009
|
4.2
|
28.1
|
1.0
|
|
C
|
A:VAL25
|
4.3
|
24.1
|
1.0
|
|
N
|
A:ILE24
|
4.3
|
21.7
|
1.0
|
|
NE2
|
A:GLN44
|
4.4
|
20.4
|
1.0
|
|
CA
|
A:GLY26
|
4.4
|
25.9
|
1.0
|
|
OD2
|
A:ASP39
|
4.5
|
28.0
|
1.0
|
|
CA
|
A:VAL25
|
4.5
|
24.3
|
1.0
|
|
N
|
A:VAL25
|
4.5
|
23.4
|
1.0
|
|
CA
|
A:ILE24
|
4.5
|
21.7
|
1.0
|
|
N
|
A:ASN27
|
4.6
|
27.2
|
1.0
|
|
CB
|
A:ASP23
|
4.6
|
22.3
|
1.0
|
|
O2
|
A:AMG1400
|
4.6
|
22.4
|
1.0
|
|
CG
|
A:GLN44
|
4.7
|
20.0
|
1.0
|
|
C5
|
A:AMG1400
|
4.7
|
24.3
|
1.0
|
|
CA
|
A:ASN27
|
4.7
|
28.6
|
1.0
|
|
O
|
A:VAL25
|
4.7
|
25.0
|
1.0
|
|
CB
|
A:ASP43
|
4.8
|
21.3
|
1.0
|
|
C
|
A:ASP23
|
4.9
|
22.2
|
1.0
|
|
CD
|
A:GLN44
|
5.0
|
20.1
|
1.0
|
|
CA
|
A:ASP23
|
5.0
|
21.6
|
1.0
|
|
O5
|
A:AMG1400
|
5.0
|
26.0
|
1.0
|
|
Calcium binding site 2 out
of 10 in 2z49
Go back to
Calcium Binding Sites List in 2z49
Calcium binding site 2 out
of 10 in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1002
b:25.1
occ:1.00
|
OD2
|
A:ASP141
|
2.3
|
20.2
|
1.0
|
|
O
|
A:GLY124
|
2.4
|
30.7
|
1.0
|
|
O
|
A:ILE122
|
2.4
|
25.5
|
1.0
|
|
OD1
|
A:ASP121
|
2.4
|
24.9
|
1.0
|
|
O3
|
A:AMG1401
|
2.5
|
31.8
|
1.0
|
|
O4
|
A:AMG1401
|
2.6
|
29.3
|
1.0
|
|
CG
|
A:ASP121
|
3.3
|
25.2
|
1.0
|
|
C3
|
A:AMG1401
|
3.4
|
32.1
|
1.0
|
|
CG
|
A:ASP141
|
3.4
|
21.8
|
1.0
|
|
C4
|
A:AMG1401
|
3.4
|
31.2
|
1.0
|
|
C
|
A:GLY124
|
3.5
|
30.8
|
1.0
|
|
OD2
|
A:ASP121
|
3.6
|
27.4
|
1.0
|
|
C
|
A:ILE122
|
3.6
|
25.3
|
1.0
|
|
OD1
|
A:ASP141
|
3.8
|
20.5
|
1.0
|
|
NE2
|
A:GLN137
|
3.9
|
44.8
|
1.0
|
|
C2
|
A:AMG1401
|
3.9
|
32.5
|
1.0
|
|
N
|
A:GLY124
|
3.9
|
29.4
|
1.0
|
|
O
|
A:HOH2394
|
4.1
|
43.5
|
1.0
|
|
O
|
A:HOH2012
|
4.2
|
22.2
|
1.0
|
|
C
|
A:GLU123
|
4.2
|
28.5
|
1.0
|
|
N
|
A:ILE122
|
4.3
|
23.6
|
1.0
|
|
CA
|
A:GLY124
|
4.3
|
30.1
|
1.0
|
|
N
|
A:GLU123
|
4.5
|
26.6
|
1.0
|
|
N
|
A:SER125
|
4.5
|
30.8
|
1.0
|
|
CA
|
A:GLU123
|
4.5
|
29.0
|
1.0
|
|
CA
|
A:ILE122
|
4.5
|
23.6
|
1.0
|
|
O2
|
A:AMG1401
|
4.6
|
31.5
|
1.0
|
|
O
|
A:GLU123
|
4.6
|
28.4
|
1.0
|
|
CB
|
A:ASP141
|
4.7
|
22.8
|
1.0
|
|
CA
|
A:SER125
|
4.7
|
31.1
|
1.0
|
|
CB
|
A:ASP121
|
4.7
|
23.9
|
1.0
|
|
C5
|
A:AMG1401
|
4.8
|
31.5
|
1.0
|
|
NE2
|
A:GLN142
|
4.8
|
24.1
|
1.0
|
|
CD
|
A:GLN137
|
4.9
|
40.6
|
1.0
|
|
Calcium binding site 3 out
of 10 in 2z49
Go back to
Calcium Binding Sites List in 2z49
Calcium binding site 3 out
of 10 in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1003
b:32.9
occ:1.00
|
O
|
A:HOH2406
|
2.3
|
34.0
|
1.0
|
|
OD2
|
A:ASP188
|
2.4
|
29.7
|
1.0
|
|
O
|
A:GLY171
|
2.4
|
33.1
|
1.0
|
|
O
|
A:VAL169
|
2.4
|
25.4
|
1.0
|
|
O3
|
A:AMG1402
|
2.6
|
31.9
|
1.0
|
|
O4
|
A:AMG1402
|
2.6
|
29.2
|
1.0
|
|
OD2
|
A:ASP168
|
2.7
|
28.0
|
1.0
|
|
CG
|
A:ASP168
|
3.4
|
26.1
|
1.0
|
|
CG
|
A:ASP188
|
3.4
|
28.4
|
1.0
|
|
OD1
|
A:ASP168
|
3.4
|
25.8
|
1.0
|
|
C3
|
A:AMG1402
|
3.5
|
33.1
|
1.0
|
|
C4
|
A:AMG1402
|
3.5
|
32.8
|
1.0
|
|
C
|
A:GLY171
|
3.6
|
33.2
|
1.0
|
|
C
|
A:VAL169
|
3.6
|
25.8
|
1.0
|
|
OD1
|
A:ASP188
|
3.8
|
30.4
|
1.0
|
|
C2
|
A:AMG1402
|
4.0
|
33.8
|
1.0
|
|
O
|
A:HOH2028
|
4.0
|
29.4
|
1.0
|
|
N
|
A:GLY171
|
4.2
|
31.2
|
1.0
|
|
N
|
A:VAL169
|
4.2
|
24.1
|
1.0
|
|
C
|
A:GLU170
|
4.3
|
29.8
|
1.0
|
|
OE1
|
A:GLU184
|
4.4
|
35.9
|
1.0
|
|
CA
|
A:SER172
|
4.4
|
35.3
|
1.0
|
|
N
|
A:SER172
|
4.5
|
34.0
|
1.0
|
|
CA
|
A:GLY171
|
4.5
|
32.7
|
1.0
|
|
CA
|
A:VAL169
|
4.5
|
24.9
|
1.0
|
|
N
|
A:GLU170
|
4.6
|
27.3
|
1.0
|
|
CA
|
A:GLU170
|
4.6
|
29.3
|
1.0
|
|
NE2
|
A:GLN189
|
4.7
|
24.5
|
1.0
|
|
CB
|
A:ASP188
|
4.7
|
27.8
|
1.0
|
|
O
|
A:GLU170
|
4.8
|
29.6
|
1.0
|
|
O2
|
A:AMG1402
|
4.8
|
30.8
|
1.0
|
|
CB
|
A:ASP168
|
4.8
|
23.3
|
1.0
|
|
C5
|
A:AMG1402
|
4.8
|
33.6
|
1.0
|
|
CB
|
A:SER172
|
4.9
|
35.8
|
1.0
|
|
O5
|
A:AMG1402
|
5.0
|
33.8
|
1.0
|
|
CG
|
A:GLN189
|
5.0
|
23.6
|
1.0
|
|
Calcium binding site 4 out
of 10 in 2z49
Go back to
Calcium Binding Sites List in 2z49
Calcium binding site 4 out
of 10 in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1004
b:19.8
occ:1.00
|
OD1
|
A:ASP209
|
2.3
|
20.8
|
1.0
|
|
O
|
A:VAL210
|
2.3
|
20.6
|
1.0
|
|
O
|
A:HOH2413
|
2.3
|
24.3
|
1.0
|
|
O4
|
A:AMG1403
|
2.4
|
23.1
|
1.0
|
|
OD2
|
A:ASP229
|
2.4
|
21.8
|
1.0
|
|
O
|
A:GLY212
|
2.4
|
24.2
|
1.0
|
|
O3
|
A:AMG1403
|
2.5
|
23.9
|
1.0
|
|
CG
|
A:ASP209
|
3.3
|
19.9
|
1.0
|
|
C3
|
A:AMG1403
|
3.4
|
23.6
|
1.0
|
|
C4
|
A:AMG1403
|
3.4
|
24.5
|
1.0
|
|
CG
|
A:ASP229
|
3.4
|
21.5
|
1.0
|
|
OD2
|
A:ASP209
|
3.6
|
20.1
|
1.0
|
|
C
|
A:VAL210
|
3.6
|
21.0
|
1.0
|
|
C
|
A:GLY212
|
3.6
|
24.6
|
1.0
|
|
OD1
|
A:ASP229
|
3.8
|
21.5
|
1.0
|
|
C2
|
A:AMG1403
|
3.8
|
26.2
|
1.0
|
|
O
|
A:HOH2303
|
3.8
|
29.3
|
1.0
|
|
O
|
A:HOH2004
|
3.9
|
20.3
|
1.0
|
|
N
|
A:GLY212
|
4.1
|
23.8
|
1.0
|
|
N
|
A:VAL210
|
4.2
|
19.5
|
1.0
|
|
C
|
A:GLU211
|
4.2
|
23.4
|
1.0
|
|
OD2
|
A:ASP225
|
4.4
|
26.8
|
1.0
|
|
CA
|
A:GLY212
|
4.5
|
23.9
|
1.0
|
|
CA
|
A:VAL210
|
4.5
|
20.7
|
1.0
|
|
N
|
A:GLU211
|
4.5
|
22.5
|
1.0
|
|
CA
|
A:GLU211
|
4.5
|
24.0
|
1.0
|
|
O2
|
A:AMG1403
|
4.5
|
24.6
|
1.0
|
|
O
|
A:GLU211
|
4.6
|
23.2
|
1.0
|
|
N
|
A:SER213
|
4.6
|
24.4
|
1.0
|
|
CB
|
A:ASP209
|
4.6
|
18.9
|
1.0
|
|
CA
|
A:SER213
|
4.7
|
24.4
|
1.0
|
|
C5
|
A:AMG1403
|
4.7
|
25.1
|
1.0
|
|
NE2
|
A:GLN230
|
4.7
|
18.4
|
1.0
|
|
CB
|
A:ASP229
|
4.8
|
20.4
|
1.0
|
|
O5
|
A:AMG1403
|
4.9
|
24.6
|
1.0
|
|
C
|
A:ASP209
|
5.0
|
19.0
|
1.0
|
|
Calcium binding site 5 out
of 10 in 2z49
Go back to
Calcium Binding Sites List in 2z49
Calcium binding site 5 out
of 10 in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1005
b:21.3
occ:1.00
|
O
|
A:HOH2171
|
2.3
|
28.2
|
1.0
|
|
OD1
|
A:ASP256
|
2.4
|
22.2
|
1.0
|
|
O
|
A:VAL257
|
2.4
|
24.2
|
1.0
|
|
O
|
A:GLY259
|
2.4
|
28.2
|
1.0
|
|
OD2
|
A:ASP276
|
2.4
|
21.4
|
1.0
|
|
O3
|
A:AMG1404
|
2.6
|
32.7
|
1.0
|
|
O4
|
A:AMG1404
|
2.6
|
29.2
|
1.0
|
|
CG
|
A:ASP256
|
3.3
|
21.4
|
1.0
|
|
CG
|
A:ASP276
|
3.4
|
19.8
|
1.0
|
|
C3
|
A:AMG1404
|
3.4
|
33.9
|
1.0
|
|
C4
|
A:AMG1404
|
3.5
|
33.5
|
1.0
|
|
OD2
|
A:ASP256
|
3.5
|
21.7
|
1.0
|
|
C
|
A:GLY259
|
3.6
|
28.5
|
1.0
|
|
C
|
A:VAL257
|
3.6
|
24.4
|
1.0
|
|
OD1
|
A:ASP276
|
3.8
|
20.4
|
1.0
|
|
C2
|
A:AMG1404
|
3.9
|
35.9
|
1.0
|
|
O
|
A:HOH2003
|
4.0
|
17.0
|
1.0
|
|
O
|
A:HOH2175
|
4.0
|
40.9
|
1.0
|
|
N
|
A:GLY259
|
4.0
|
27.7
|
1.0
|
|
N
|
A:VAL257
|
4.1
|
21.0
|
1.0
|
|
C
|
A:SER258
|
4.3
|
27.2
|
1.0
|
|
CA
|
A:GLY259
|
4.3
|
28.2
|
1.0
|
|
CA
|
A:VAL257
|
4.5
|
22.5
|
1.0
|
|
OD2
|
A:ASP272
|
4.5
|
27.0
|
1.0
|
|
NE2
|
A:GLN277
|
4.5
|
19.7
|
1.0
|
|
N
|
A:ASP260
|
4.6
|
28.6
|
1.0
|
|
N
|
A:SER258
|
4.6
|
25.5
|
1.0
|
|
CB
|
A:ASP256
|
4.7
|
20.1
|
1.0
|
|
CA
|
A:ASP260
|
4.7
|
29.2
|
1.0
|
|
O2
|
A:AMG1404
|
4.7
|
36.4
|
1.0
|
|
O
|
A:SER258
|
4.7
|
26.4
|
1.0
|
|
CA
|
A:SER258
|
4.7
|
27.4
|
1.0
|
|
CB
|
A:ASP276
|
4.8
|
20.6
|
1.0
|
|
O
|
A:HOH2372
|
4.8
|
36.2
|
1.0
|
|
CG
|
A:GLN277
|
4.8
|
19.7
|
1.0
|
|
C5
|
A:AMG1404
|
4.8
|
33.8
|
1.0
|
|
C
|
A:ASP256
|
5.0
|
20.2
|
1.0
|
|
Calcium binding site 6 out
of 10 in 2z49
Go back to
Calcium Binding Sites List in 2z49
Calcium binding site 6 out
of 10 in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1001
b:40.6
occ:1.00
|
O3
|
B:AMG1405
|
2.1
|
54.5
|
1.0
|
|
OD2
|
B:ASP43
|
2.3
|
35.1
|
1.0
|
|
O
|
B:HOH2275
|
2.3
|
35.0
|
1.0
|
|
O
|
B:ILE24
|
2.3
|
39.8
|
1.0
|
|
OD1
|
B:ASP23
|
2.4
|
38.4
|
1.0
|
|
O
|
B:GLY26
|
2.5
|
40.6
|
1.0
|
|
O4
|
B:AMG1405
|
2.6
|
55.4
|
1.0
|
|
C3
|
B:AMG1405
|
3.2
|
55.1
|
1.0
|
|
CG
|
B:ASP43
|
3.3
|
32.5
|
1.0
|
|
CG
|
B:ASP23
|
3.4
|
39.6
|
1.0
|
|
C4
|
B:AMG1405
|
3.4
|
55.2
|
1.0
|
|
C
|
B:ILE24
|
3.5
|
39.5
|
1.0
|
|
OD1
|
B:ASP43
|
3.6
|
34.3
|
1.0
|
|
OD2
|
B:ASP23
|
3.7
|
42.8
|
1.0
|
|
C
|
B:GLY26
|
3.7
|
41.2
|
1.0
|
|
C2
|
B:AMG1405
|
3.7
|
55.9
|
1.0
|
|
O
|
B:HOH2210
|
4.1
|
31.8
|
1.0
|
|
N
|
B:GLY26
|
4.2
|
40.7
|
1.0
|
|
N
|
B:ILE24
|
4.2
|
38.8
|
1.0
|
|
C
|
B:VAL25
|
4.2
|
40.5
|
1.0
|
|
OD2
|
B:ASP39
|
4.3
|
40.2
|
1.0
|
|
CA
|
B:ILE24
|
4.4
|
39.4
|
1.0
|
|
NE2
|
B:GLN44
|
4.5
|
28.8
|
1.0
|
|
N
|
B:VAL25
|
4.5
|
40.2
|
1.0
|
|
CA
|
B:VAL25
|
4.5
|
40.8
|
1.0
|
|
O2
|
B:AMG1405
|
4.5
|
56.2
|
1.0
|
|
CA
|
B:GLY26
|
4.6
|
41.0
|
1.0
|
|
O
|
B:VAL25
|
4.6
|
40.8
|
1.0
|
|
N
|
B:ASN27
|
4.6
|
41.2
|
1.0
|
|
CA
|
B:ASN27
|
4.6
|
41.5
|
1.0
|
|
CB
|
B:ASP43
|
4.6
|
32.1
|
1.0
|
|
CB
|
B:ASP23
|
4.7
|
37.6
|
1.0
|
|
CG
|
B:GLN44
|
4.7
|
28.8
|
1.0
|
|
C5
|
B:AMG1405
|
4.8
|
55.9
|
1.0
|
|
O5
|
B:AMG1405
|
4.9
|
55.6
|
1.0
|
|
C1
|
B:AMG1405
|
4.9
|
55.8
|
1.0
|
|
C
|
B:ASP23
|
4.9
|
38.4
|
1.0
|
|
CD
|
B:GLN44
|
5.0
|
30.0
|
1.0
|
|
Calcium binding site 7 out
of 10 in 2z49
Go back to
Calcium Binding Sites List in 2z49
Calcium binding site 7 out
of 10 in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1002
b:42.8
occ:1.00
|
O
|
B:GLY124
|
2.3
|
40.4
|
1.0
|
|
OD1
|
B:ASP121
|
2.4
|
35.9
|
1.0
|
|
O4
|
B:AMG1409
|
2.4
|
58.2
|
1.0
|
|
O
|
B:ILE122
|
2.5
|
37.5
|
1.0
|
|
OD2
|
B:ASP141
|
2.5
|
36.4
|
1.0
|
|
O3
|
B:AMG1409
|
2.7
|
58.1
|
1.0
|
|
CG
|
B:ASP121
|
3.4
|
36.0
|
1.0
|
|
NE2
|
B:GLN137
|
3.5
|
52.2
|
1.0
|
|
C4
|
B:AMG1409
|
3.5
|
59.3
|
1.0
|
|
C3
|
B:AMG1409
|
3.5
|
59.3
|
1.0
|
|
C
|
B:GLY124
|
3.5
|
40.3
|
1.0
|
|
CG
|
B:ASP141
|
3.5
|
34.5
|
1.0
|
|
OD2
|
B:ASP121
|
3.7
|
38.8
|
1.0
|
|
C
|
B:ILE122
|
3.7
|
37.9
|
1.0
|
|
OD1
|
B:ASP141
|
3.8
|
33.3
|
1.0
|
|
N
|
B:GLY124
|
3.9
|
40.2
|
1.0
|
|
C2
|
B:AMG1409
|
4.0
|
60.0
|
1.0
|
|
O
|
B:HOH2188
|
4.0
|
32.3
|
1.0
|
|
C
|
B:GLU123
|
4.2
|
40.2
|
1.0
|
|
CA
|
B:GLY124
|
4.3
|
40.5
|
1.0
|
|
N
|
B:ILE122
|
4.3
|
35.9
|
1.0
|
|
O
|
B:HOH2239
|
4.4
|
54.9
|
1.0
|
|
N
|
B:SER125
|
4.5
|
40.7
|
1.0
|
|
O
|
B:GLU123
|
4.6
|
40.0
|
1.0
|
|
CA
|
B:ILE122
|
4.6
|
36.8
|
1.0
|
|
N
|
B:GLU123
|
4.6
|
39.2
|
1.0
|
|
CA
|
B:GLU123
|
4.6
|
40.2
|
1.0
|
|
CA
|
B:SER125
|
4.7
|
40.7
|
1.0
|
|
O2
|
B:AMG1409
|
4.7
|
58.8
|
1.0
|
|
CD
|
B:GLN137
|
4.7
|
50.5
|
1.0
|
|
CB
|
B:ASP121
|
4.7
|
35.3
|
1.0
|
|
C5
|
B:AMG1409
|
4.7
|
59.4
|
1.0
|
|
CB
|
B:ASP141
|
4.9
|
32.3
|
1.0
|
|
Calcium binding site 8 out
of 10 in 2z49
Go back to
Calcium Binding Sites List in 2z49
Calcium binding site 8 out
of 10 in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1003
b:33.6
occ:1.00
|
O
|
B:GLY171
|
2.3
|
33.5
|
1.0
|
|
OD2
|
B:ASP188
|
2.3
|
29.2
|
1.0
|
|
O
|
B:VAL169
|
2.4
|
32.1
|
1.0
|
|
O
|
B:HOH2294
|
2.4
|
35.1
|
1.0
|
|
OD2
|
B:ASP168
|
2.5
|
30.5
|
1.0
|
|
O3
|
B:AMG1406
|
2.5
|
35.3
|
1.0
|
|
O4
|
B:AMG1406
|
2.6
|
35.4
|
1.0
|
|
CG
|
B:ASP168
|
3.3
|
31.5
|
1.0
|
|
C3
|
B:AMG1406
|
3.3
|
38.0
|
1.0
|
|
OD1
|
B:ASP168
|
3.3
|
32.1
|
1.0
|
|
CG
|
B:ASP188
|
3.4
|
29.4
|
1.0
|
|
C4
|
B:AMG1406
|
3.5
|
37.9
|
1.0
|
|
C
|
B:GLY171
|
3.5
|
33.5
|
1.0
|
|
C
|
B:VAL169
|
3.6
|
32.0
|
1.0
|
|
C2
|
B:AMG1406
|
3.7
|
39.9
|
1.0
|
|
OD1
|
B:ASP188
|
3.7
|
30.4
|
1.0
|
|
O
|
B:HOH2005
|
3.9
|
28.9
|
1.0
|
|
O
|
B:HOH2215
|
4.0
|
40.7
|
1.0
|
|
N
|
B:GLY171
|
4.1
|
33.5
|
1.0
|
|
N
|
B:VAL169
|
4.1
|
31.3
|
1.0
|
|
C
|
B:GLU170
|
4.3
|
33.4
|
1.0
|
|
CA
|
B:GLY171
|
4.4
|
33.5
|
1.0
|
|
O2
|
B:AMG1406
|
4.4
|
39.5
|
1.0
|
|
OE1
|
B:GLU184
|
4.4
|
39.1
|
1.0
|
|
CA
|
B:VAL169
|
4.4
|
31.4
|
1.0
|
|
N
|
B:SER172
|
4.5
|
33.5
|
1.0
|
|
CA
|
B:SER172
|
4.5
|
34.2
|
1.0
|
|
N
|
B:GLU170
|
4.6
|
32.8
|
1.0
|
|
CA
|
B:GLU170
|
4.7
|
33.8
|
1.0
|
|
CB
|
B:ASP168
|
4.7
|
30.9
|
1.0
|
|
CB
|
B:ASP188
|
4.7
|
29.3
|
1.0
|
|
O
|
B:GLU170
|
4.7
|
33.4
|
1.0
|
|
C5
|
B:AMG1406
|
4.8
|
38.9
|
1.0
|
|
NE2
|
B:GLN189
|
4.9
|
31.5
|
1.0
|
|
Calcium binding site 9 out
of 10 in 2z49
Go back to
Calcium Binding Sites List in 2z49
Calcium binding site 9 out
of 10 in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1004
b:35.5
occ:1.00
|
O
|
B:HOH2087
|
2.3
|
38.2
|
1.0
|
|
O
|
B:GLY212
|
2.3
|
38.0
|
1.0
|
|
OD1
|
B:ASP209
|
2.4
|
29.9
|
1.0
|
|
OD2
|
B:ASP229
|
2.4
|
32.6
|
1.0
|
|
O
|
B:VAL210
|
2.4
|
32.1
|
1.0
|
|
O4
|
B:AMG1407
|
2.6
|
40.3
|
1.0
|
|
O3
|
B:AMG1407
|
2.8
|
45.7
|
1.0
|
|
C
|
B:GLY212
|
3.4
|
38.1
|
1.0
|
|
CG
|
B:ASP209
|
3.4
|
29.8
|
1.0
|
|
CG
|
B:ASP229
|
3.5
|
29.4
|
1.0
|
|
C3
|
B:AMG1407
|
3.6
|
44.5
|
1.0
|
|
C4
|
B:AMG1407
|
3.6
|
43.5
|
1.0
|
|
C
|
B:VAL210
|
3.6
|
32.1
|
1.0
|
|
OD2
|
B:ASP209
|
3.8
|
32.7
|
1.0
|
|
OD1
|
B:ASP229
|
3.8
|
30.7
|
1.0
|
|
C2
|
B:AMG1407
|
3.9
|
45.3
|
1.0
|
|
O
|
B:HOH2258
|
4.0
|
29.2
|
1.0
|
|
N
|
B:GLY212
|
4.0
|
36.4
|
1.0
|
|
N
|
B:VAL210
|
4.2
|
29.6
|
1.0
|
|
CA
|
B:GLY212
|
4.3
|
37.6
|
1.0
|
|
C
|
B:GLU211
|
4.3
|
35.8
|
1.0
|
|
O
|
B:HOH2202
|
4.3
|
43.1
|
1.0
|
|
N
|
B:SER213
|
4.3
|
38.2
|
1.0
|
|
OD2
|
B:ASP225
|
4.5
|
32.5
|
1.0
|
|
CA
|
B:SER213
|
4.5
|
38.5
|
1.0
|
|
CA
|
B:VAL210
|
4.5
|
30.9
|
1.0
|
|
N
|
B:GLU211
|
4.6
|
34.0
|
1.0
|
|
CA
|
B:GLU211
|
4.7
|
35.9
|
1.0
|
|
CB
|
B:ASP209
|
4.8
|
28.3
|
1.0
|
|
CB
|
B:ASP229
|
4.8
|
29.2
|
1.0
|
|
O
|
B:GLU211
|
4.8
|
35.8
|
1.0
|
|
NE2
|
B:GLN230
|
4.8
|
26.3
|
1.0
|
|
O2
|
B:AMG1407
|
4.8
|
45.8
|
1.0
|
|
C5
|
B:AMG1407
|
4.9
|
43.1
|
1.0
|
|
O5
|
B:AMG1407
|
4.9
|
44.5
|
1.0
|
|
Calcium binding site 10 out
of 10 in 2z49
Go back to
Calcium Binding Sites List in 2z49
Calcium binding site 10 out
of 10 in the Crystal Structure of Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside
 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 Hemolytic Lectin Cel-III Complexed with Methyl- Alpha-D-Galactopylanoside within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1005
b:37.1
occ:1.00
|
O3
|
B:AMG1408
|
2.2
|
41.9
|
1.0
|
|
O
|
B:HOH2199
|
2.2
|
39.6
|
1.0
|
|
O
|
B:GLY259
|
2.3
|
39.6
|
1.0
|
|
OD1
|
B:ASP256
|
2.4
|
35.2
|
1.0
|
|
OD2
|
B:ASP276
|
2.4
|
31.5
|
1.0
|
|
O
|
B:VAL257
|
2.5
|
37.5
|
1.0
|
|
O4
|
B:AMG1408
|
2.5
|
43.2
|
1.0
|
|
C3
|
B:AMG1408
|
3.3
|
44.4
|
1.0
|
|
CG
|
B:ASP256
|
3.4
|
35.1
|
1.0
|
|
C4
|
B:AMG1408
|
3.4
|
44.1
|
1.0
|
|
C
|
B:GLY259
|
3.5
|
40.3
|
1.0
|
|
CG
|
B:ASP276
|
3.5
|
32.9
|
1.0
|
|
C
|
B:VAL257
|
3.7
|
37.7
|
1.0
|
|
OD2
|
B:ASP256
|
3.7
|
34.4
|
1.0
|
|
C2
|
B:AMG1408
|
3.8
|
45.1
|
1.0
|
|
N
|
B:GLY259
|
3.9
|
39.4
|
1.0
|
|
OD1
|
B:ASP276
|
4.0
|
30.2
|
1.0
|
|
O
|
B:HOH2195
|
4.0
|
34.8
|
1.0
|
|
C
|
B:SER258
|
4.2
|
38.9
|
1.0
|
|
N
|
B:VAL257
|
4.3
|
35.6
|
1.0
|
|
CA
|
B:GLY259
|
4.3
|
39.5
|
1.0
|
|
O2
|
B:AMG1408
|
4.5
|
44.1
|
1.0
|
|
CA
|
B:SER258
|
4.5
|
39.1
|
1.0
|
|
N
|
B:SER258
|
4.5
|
38.2
|
1.0
|
|
N
|
B:ASP260
|
4.5
|
40.5
|
1.0
|
|
NE2
|
B:GLN277
|
4.5
|
30.1
|
1.0
|
|
OD2
|
B:ASP272
|
4.6
|
39.2
|
1.0
|
|
CA
|
B:VAL257
|
4.6
|
36.6
|
1.0
|
|
CA
|
B:ASP260
|
4.7
|
41.6
|
1.0
|
|
O
|
B:SER258
|
4.7
|
38.7
|
1.0
|
|
CB
|
B:ASP256
|
4.7
|
33.7
|
1.0
|
|
C5
|
B:AMG1408
|
4.7
|
45.5
|
1.0
|
|
CB
|
B:ASP276
|
4.8
|
32.8
|
1.0
|
|
O
|
B:HOH2222
|
4.8
|
43.0
|
1.0
|
|
CG
|
B:GLN277
|
4.9
|
30.2
|
1.0
|
|
O5
|
B:AMG1408
|
4.9
|
46.9
|
1.0
|
|
Reference:
T.Hatakeyama,
H.Unno,
Y.Kouzuma,
T.Uchida,
S.Eto,
H.Hidemura,
N.Kato,
M.Yonekura,
M.Kusunoki.
C-Type Lectin-Like Carbohydrate-Recognition of the Hemolytic Lectin Cel-III Containing Ricin-Type Beta-Trefoil Folds J.Biol.Chem. V. 282 37826 2007.
ISSN: ISSN 0021-9258
PubMed: 17977832
DOI: 10.1074/JBC.M705604200
Page generated: Fri Jul 12 19:43:34 2024
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