Chlorine in PDB 6g2u: Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
Enzymatic activity of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
All present enzymatic activity of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2):
1.4.1.3;
Protein crystallography data
The structure of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2), PDB code: 6g2u
was solved by
V.F.Fadouloglou,
C.Dimovasili,
M.Providaki,
D.Kotsifaki,
I.Sarrou,
A.Plaitakis,
I.Zaganas,
M.Kokkinidis,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
47.65 /
2.93
|
Space group
|
C 2 2 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
121.795,
149.304,
433.315,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
19.3 /
24.9
|
Other elements in 6g2u:
The structure of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) also contains other interesting chemical elements:
Chlorine Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
19;
Binding sites:
The binding sites of Chlorine atom in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
(pdb code 6g2u). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 19 binding sites of Chlorine where determined in the
Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2), PDB code: 6g2u:
Jump to Chlorine binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Chlorine binding site 1 out
of 19 in 6g2u
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Chlorine Binding Sites List in 6g2u
Chlorine binding site 1 out
of 19 in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl607
b:59.4
occ:1.00
|
NH1
|
A:ARG247
|
3.5
|
64.3
|
1.0
|
O
|
E:HOH839
|
3.9
|
60.3
|
1.0
|
NH2
|
A:ARG247
|
4.2
|
73.0
|
1.0
|
CZ
|
A:ARG247
|
4.2
|
70.6
|
1.0
|
O
|
E:THR431
|
4.8
|
49.6
|
1.0
|
|
Chlorine binding site 2 out
of 19 in 6g2u
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Chlorine Binding Sites List in 6g2u
Chlorine binding site 2 out
of 19 in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl608
b:83.4
occ:1.00
|
O
|
A:HOH966
|
3.3
|
52.5
|
1.0
|
NH1
|
A:ARG70
|
3.8
|
71.7
|
1.0
|
CD
|
A:ARG70
|
3.9
|
73.4
|
1.0
|
CZ
|
A:ARG70
|
4.7
|
79.2
|
1.0
|
NE
|
A:ARG70
|
4.8
|
81.8
|
1.0
|
CG
|
A:ARG70
|
5.0
|
68.5
|
1.0
|
|
Chlorine binding site 3 out
of 19 in 6g2u
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Chlorine Binding Sites List in 6g2u
Chlorine binding site 3 out
of 19 in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl609
b:87.6
occ:1.00
|
O
|
A:HOH925
|
3.1
|
68.3
|
1.0
|
NH2
|
A:ARG46
|
3.4
|
63.0
|
1.0
|
O
|
A:GLU42
|
3.5
|
78.6
|
1.0
|
CB
|
A:GLU42
|
3.6
|
63.6
|
1.0
|
NE
|
A:ARG46
|
3.6
|
74.6
|
1.0
|
O
|
A:HOH843
|
3.8
|
72.0
|
1.0
|
CG1
|
A:VAL33
|
3.9
|
61.9
|
1.0
|
CG
|
A:GLU42
|
4.0
|
68.7
|
1.0
|
CZ
|
A:ARG46
|
4.0
|
63.5
|
1.0
|
C
|
A:GLU42
|
4.0
|
73.0
|
1.0
|
CA
|
A:GLU42
|
4.3
|
70.7
|
1.0
|
O
|
A:HOH871
|
4.5
|
63.4
|
1.0
|
O
|
A:HOH988
|
4.6
|
57.3
|
1.0
|
O
|
A:HOH951
|
4.8
|
63.5
|
1.0
|
CD
|
A:ARG46
|
4.8
|
76.6
|
1.0
|
N
|
A:GLU43
|
4.9
|
71.1
|
1.0
|
O
|
A:HOH711
|
4.9
|
65.7
|
1.0
|
CB
|
A:ARG46
|
5.0
|
72.9
|
1.0
|
|
Chlorine binding site 4 out
of 19 in 6g2u
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Chlorine Binding Sites List in 6g2u
Chlorine binding site 4 out
of 19 in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl606
b:73.8
occ:1.00
|
O
|
A:HOH713
|
3.5
|
31.2
|
1.0
|
ND2
|
B:ASN197
|
3.6
|
47.3
|
1.0
|
ND2
|
A:ASN197
|
3.8
|
33.8
|
1.0
|
ND2
|
D:ASN197
|
3.9
|
39.8
|
1.0
|
OD1
|
B:ASN197
|
4.3
|
44.8
|
1.0
|
CG
|
B:ASN197
|
4.4
|
45.0
|
1.0
|
OD1
|
A:ASN197
|
4.5
|
43.2
|
1.0
|
CG
|
A:ASN197
|
4.6
|
36.0
|
1.0
|
O
|
D:HOH1006
|
4.7
|
66.0
|
1.0
|
OD1
|
D:ASN197
|
4.8
|
47.1
|
1.0
|
CG
|
D:ASN197
|
4.8
|
37.8
|
1.0
|
CG2
|
B:ILE196
|
4.9
|
32.8
|
1.0
|
NA
|
D:NA613
|
5.0
|
34.5
|
1.0
|
|
Chlorine binding site 5 out
of 19 in 6g2u
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Chlorine Binding Sites List in 6g2u
Chlorine binding site 5 out
of 19 in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 5 of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl607
b:89.8
occ:1.00
|
OD1
|
B:ASN47
|
3.8
|
69.0
|
1.0
|
CB
|
B:ARG50
|
3.9
|
56.6
|
1.0
|
NH2
|
B:ARG54
|
4.0
|
59.0
|
1.0
|
CD
|
B:ARG50
|
4.1
|
57.3
|
1.0
|
CG
|
B:ARG50
|
4.2
|
61.2
|
1.0
|
NH1
|
B:ARG54
|
4.6
|
68.1
|
1.0
|
CA
|
B:ASN47
|
4.8
|
59.3
|
1.0
|
CZ
|
B:ARG54
|
4.8
|
68.9
|
1.0
|
CG
|
B:ASN47
|
4.8
|
69.5
|
1.0
|
O
|
B:ARG46
|
4.9
|
61.2
|
1.0
|
|
Chlorine binding site 6 out
of 19 in 6g2u
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Chlorine Binding Sites List in 6g2u
Chlorine binding site 6 out
of 19 in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 6 of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl608
b:60.3
occ:1.00
|
O
|
C:HOH909
|
3.0
|
64.9
|
1.0
|
O
|
C:HOH718
|
3.5
|
67.5
|
1.0
|
O
|
C:HOH925
|
3.5
|
57.2
|
1.0
|
CD2
|
C:HIS213
|
3.6
|
48.5
|
1.0
|
O
|
C:HOH927
|
3.6
|
73.5
|
1.0
|
N
|
C:GLY214
|
3.8
|
47.9
|
1.0
|
CE
|
C:LYS450
|
3.8
|
68.6
|
1.0
|
CB
|
C:HIS213
|
4.1
|
47.5
|
1.0
|
CG
|
C:HIS213
|
4.1
|
51.9
|
1.0
|
CA
|
C:HIS213
|
4.2
|
41.0
|
1.0
|
O
|
C:HOH716
|
4.2
|
55.9
|
1.0
|
O
|
C:HOH853
|
4.4
|
58.6
|
1.0
|
NZ
|
C:LYS450
|
4.4
|
64.6
|
1.0
|
C
|
C:HIS213
|
4.5
|
46.0
|
1.0
|
CD
|
C:LYS450
|
4.6
|
65.4
|
1.0
|
CA
|
C:GLY214
|
4.7
|
51.7
|
1.0
|
CD1
|
C:ILE216
|
4.7
|
57.0
|
1.0
|
NE2
|
C:HIS213
|
4.7
|
49.9
|
1.0
|
CB
|
C:LYS450
|
4.9
|
49.6
|
1.0
|
O
|
C:HOH862
|
4.9
|
71.3
|
1.0
|
|
Chlorine binding site 7 out
of 19 in 6g2u
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Chlorine Binding Sites List in 6g2u
Chlorine binding site 7 out
of 19 in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 7 of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl609
b:74.6
occ:1.00
|
O
|
F:HOH737
|
3.4
|
49.7
|
1.0
|
NH1
|
F:ARG423
|
4.4
|
55.2
|
1.0
|
O
|
F:HOH738
|
4.8
|
46.1
|
1.0
|
N
|
C:ALA438
|
4.9
|
59.8
|
1.0
|
O
|
C:PRO436
|
5.0
|
44.9
|
1.0
|
CZ
|
F:ARG423
|
5.0
|
59.0
|
1.0
|
|
Chlorine binding site 8 out
of 19 in 6g2u
Go back to
Chlorine Binding Sites List in 6g2u
Chlorine binding site 8 out
of 19 in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 8 of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl614
b:70.1
occ:1.00
|
O
|
D:HIS268
|
3.9
|
49.9
|
1.0
|
O
|
D:ARG269
|
4.0
|
52.2
|
1.0
|
C
|
D:ARG269
|
4.7
|
43.3
|
1.0
|
CA
|
D:ARG269
|
4.9
|
47.2
|
1.0
|
CE1
|
D:HIS268
|
4.9
|
56.3
|
1.0
|
NE2
|
D:HIS268
|
5.0
|
56.5
|
1.0
|
|
Chlorine binding site 9 out
of 19 in 6g2u
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Chlorine Binding Sites List in 6g2u
Chlorine binding site 9 out
of 19 in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 9 of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl615
b:74.8
occ:1.00
|
O
|
D:HOH944
|
3.3
|
47.5
|
1.0
|
O
|
D:HOH1039
|
3.5
|
53.9
|
1.0
|
O
|
D:HOH809
|
3.7
|
59.1
|
1.0
|
O
|
F:HOH839
|
3.7
|
49.5
|
1.0
|
O
|
F:HOH846
|
3.9
|
56.7
|
1.0
|
OD1
|
D:ASN286
|
4.6
|
50.8
|
1.0
|
O
|
D:HOH782
|
4.6
|
60.0
|
1.0
|
OD2
|
D:ASP288
|
4.9
|
76.3
|
1.0
|
|
Chlorine binding site 10 out
of 19 in 6g2u
Go back to
Chlorine Binding Sites List in 6g2u
Chlorine binding site 10 out
of 19 in the Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2)
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 10 of Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl616
b:74.9
occ:1.00
|
O
|
D:HOH954
|
3.2
|
51.6
|
1.0
|
CB
|
D:SER64
|
3.7
|
41.3
|
1.0
|
O
|
D:SER64
|
3.8
|
44.8
|
1.0
|
C
|
D:SER64
|
4.0
|
41.7
|
1.0
|
O
|
D:LEU65
|
4.3
|
41.0
|
1.0
|
N
|
D:LEU65
|
4.4
|
41.0
|
1.0
|
C
|
D:LEU65
|
4.4
|
35.5
|
1.0
|
CA
|
D:SER64
|
4.5
|
38.2
|
1.0
|
CB
|
D:SER66
|
4.6
|
33.0
|
1.0
|
CA
|
D:LEU65
|
4.8
|
33.0
|
1.0
|
OG
|
D:SER64
|
4.9
|
39.9
|
1.0
|
N
|
D:SER66
|
4.9
|
39.9
|
1.0
|
|
Reference:
V.F.Fadouloglou,
C.Dimovasili,
M.Providaki,
D.Kotsifaki,
I.Sarrou,
A.Plaitakis,
I.Zaganas,
M.Kokkinidis.
Crystal Structure of the Human Glutamate Dehydrogenase 2 (HGDH2) To Be Published.
Page generated: Sat Jul 27 23:40:38 2024
|