Zinc in PDB 8pbt: Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate
Enzymatic activity of Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate
All present enzymatic activity of Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate:
2.1.3.2;
3.5.2.3;
6.3.5.5;
Protein crystallography data
The structure of Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate, PDB code: 8pbt
was solved by
F.Del Cano-Ochoa,
S.Ramon-Maiques,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
79.36 /
1.43
|
|
Space group
|
C 2 2 21
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
82.067,
158.72,
61.115,
90,
90,
90
|
|
R / Rfree (%)
|
14.8 /
17.1
|
Zinc Binding Sites:
The binding sites of Zinc atom in the Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate
(pdb code 8pbt). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the
Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate, PDB code: 8pbt:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
Zinc binding site 1 out
of 7 in 8pbt
Go back to
Zinc Binding Sites List in 8pbt
Zinc binding site 1 out
of 7 in the Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1903
b:22.8
occ:0.90
|
NE2
|
A:HIS1481
|
1.9
|
28.3
|
1.0
|
|
OE1
|
A:GLU1694
|
2.0
|
29.2
|
1.0
|
|
ND1
|
A:HIS1690
|
2.0
|
21.1
|
1.0
|
|
O1
|
A:FMT1917
|
2.2
|
42.1
|
1.0
|
|
C
|
A:FMT1917
|
2.5
|
42.6
|
1.0
|
|
CD
|
A:GLU1694
|
2.7
|
27.8
|
1.0
|
|
OE2
|
A:GLU1694
|
2.8
|
28.8
|
1.0
|
|
CE1
|
A:HIS1690
|
2.9
|
20.8
|
1.0
|
|
CE1
|
A:HIS1481
|
2.9
|
29.5
|
1.0
|
|
O2
|
A:FMT1917
|
2.9
|
43.8
|
1.0
|
|
CD2
|
A:HIS1481
|
2.9
|
29.0
|
1.0
|
|
HE1
|
A:HIS1690
|
2.9
|
25.0
|
1.0
|
|
H
|
A:FMT1917
|
3.1
|
51.2
|
1.0
|
|
HD2
|
A:HIS1481
|
3.1
|
34.8
|
1.0
|
|
HE1
|
A:HIS1481
|
3.1
|
35.4
|
1.0
|
|
CG
|
A:HIS1690
|
3.2
|
21.9
|
1.0
|
|
HG3
|
A:PRO1701
|
3.2
|
28.9
|
1.0
|
|
HB3
|
A:HIS1690
|
3.3
|
26.4
|
1.0
|
|
HA
|
A:HIS1690
|
3.5
|
25.1
|
1.0
|
|
CB
|
A:HIS1690
|
3.7
|
22.0
|
1.0
|
|
CG
|
A:PRO1701
|
3.9
|
24.1
|
1.0
|
|
HG2
|
A:PRO1701
|
3.9
|
28.9
|
1.0
|
|
ND1
|
A:HIS1481
|
4.0
|
29.7
|
1.0
|
|
CG
|
A:HIS1481
|
4.0
|
29.1
|
1.0
|
|
NE2
|
A:HIS1690
|
4.0
|
21.5
|
1.0
|
|
CA
|
A:HIS1690
|
4.1
|
20.9
|
1.0
|
|
CG
|
A:GLU1694
|
4.1
|
26.0
|
1.0
|
|
HB2
|
A:PRO1701
|
4.2
|
28.9
|
1.0
|
|
CD2
|
A:HIS1690
|
4.2
|
21.2
|
1.0
|
|
O
|
A:PRO1689
|
4.3
|
22.2
|
1.0
|
|
HB3
|
A:GLU1694
|
4.3
|
31.3
|
1.0
|
|
O
|
A:HOH2193
|
4.4
|
43.2
|
1.0
|
|
HB3
|
A:PRO1701
|
4.4
|
28.9
|
1.0
|
|
CB
|
A:PRO1701
|
4.4
|
24.1
|
1.0
|
|
HG2
|
A:GLU1694
|
4.5
|
31.2
|
1.0
|
|
HB2
|
A:HIS1690
|
4.6
|
26.4
|
1.0
|
|
HB2
|
A:GLU1694
|
4.6
|
31.3
|
1.0
|
|
CB
|
A:GLU1694
|
4.6
|
26.1
|
1.0
|
|
HG3
|
A:GLU1694
|
4.8
|
31.2
|
1.0
|
|
H
|
A:THR1691
|
4.8
|
28.6
|
1.0
|
|
HD1
|
A:HIS1481
|
4.8
|
35.7
|
1.0
|
|
HE2
|
A:HIS1690
|
4.8
|
25.8
|
1.0
|
|
HE
|
A:ARG1475
|
4.9
|
26.1
|
1.0
|
|
HH21
|
A:ARG1475
|
4.9
|
25.2
|
1.0
|
|
N
|
A:HIS1690
|
5.0
|
20.9
|
1.0
|
|
Zinc binding site 2 out
of 7 in 8pbt
Go back to
Zinc Binding Sites List in 8pbt
Zinc binding site 2 out
of 7 in the Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1904
b:17.7
occ:0.96
|
OQ1
|
A:KCX1556
|
1.9
|
16.6
|
1.0
|
|
O
|
A:HOH2104
|
2.0
|
18.0
|
1.0
|
|
NE2
|
A:HIS1614
|
2.0
|
15.9
|
1.0
|
|
ND1
|
A:HIS1590
|
2.1
|
18.2
|
1.0
|
|
O4
|
A:DOR1902
|
2.9
|
23.6
|
1.0
|
|
CE1
|
A:HIS1590
|
2.9
|
18.0
|
1.0
|
|
CX
|
A:KCX1556
|
2.9
|
17.3
|
1.0
|
|
CE1
|
A:HIS1614
|
3.0
|
16.5
|
1.0
|
|
HE1
|
A:HIS1590
|
3.0
|
21.6
|
1.0
|
|
HB2
|
A:HIS1590
|
3.0
|
18.3
|
1.0
|
|
CD2
|
A:HIS1614
|
3.1
|
15.8
|
1.0
|
|
CG
|
A:HIS1590
|
3.1
|
16.7
|
1.0
|
|
HE1
|
A:HIS1614
|
3.2
|
19.8
|
1.0
|
|
HE1
|
A:HIS1471
|
3.2
|
21.1
|
1.0
|
|
HD2
|
A:HIS1614
|
3.3
|
18.9
|
1.0
|
|
OQ2
|
A:KCX1556
|
3.3
|
17.3
|
1.0
|
|
ZN
|
A:ZN1907
|
3.4
|
17.8
|
1.0
|
|
C4
|
A:DOR1902
|
3.6
|
22.7
|
1.0
|
|
CB
|
A:HIS1590
|
3.6
|
15.3
|
1.0
|
|
HE1
|
A:TYR1558
|
3.8
|
22.1
|
1.0
|
|
H51
|
A:DOR1902
|
3.9
|
28.6
|
1.0
|
|
CE1
|
A:HIS1471
|
3.9
|
17.6
|
1.0
|
|
NE2
|
A:HIS1590
|
4.0
|
18.1
|
1.0
|
|
NE2
|
A:HIS1471
|
4.1
|
16.6
|
1.0
|
|
ND1
|
A:HIS1614
|
4.1
|
16.9
|
1.0
|
|
NZ
|
A:KCX1556
|
4.1
|
17.2
|
1.0
|
|
HN3
|
A:DOR1902
|
4.2
|
27.0
|
1.0
|
|
CD2
|
A:HIS1590
|
4.2
|
18.2
|
1.0
|
|
OD2
|
A:ASP1686
|
4.2
|
18.6
|
1.0
|
|
CG
|
A:HIS1614
|
4.2
|
15.7
|
1.0
|
|
N3
|
A:DOR1902
|
4.3
|
22.5
|
1.0
|
|
HD3
|
A:PRO1662
|
4.3
|
22.8
|
1.0
|
|
HB3
|
A:HIS1590
|
4.3
|
18.3
|
1.0
|
|
HA
|
A:HIS1590
|
4.3
|
17.2
|
1.0
|
|
C5
|
A:DOR1902
|
4.3
|
23.8
|
1.0
|
|
HE2
|
A:KCX1556
|
4.4
|
22.0
|
1.0
|
|
O
|
A:ARG1661
|
4.4
|
20.5
|
1.0
|
|
HB2
|
A:CYS1613
|
4.5
|
22.9
|
1.0
|
|
CE1
|
A:TYR1558
|
4.5
|
18.4
|
1.0
|
|
HE3
|
A:KCX1556
|
4.6
|
22.0
|
1.0
|
|
HD1
|
A:TYR1558
|
4.6
|
22.1
|
1.0
|
|
CA
|
A:HIS1590
|
4.6
|
14.4
|
1.0
|
|
CE
|
A:KCX1556
|
4.6
|
18.3
|
1.0
|
|
OD1
|
A:ASP1686
|
4.7
|
18.6
|
1.0
|
|
HB3
|
A:CYS1613
|
4.7
|
22.9
|
1.0
|
|
CG
|
A:ASP1686
|
4.7
|
17.8
|
1.0
|
|
HE2
|
A:HIS1590
|
4.8
|
21.7
|
1.0
|
|
HZ
|
A:KCX1556
|
4.8
|
20.6
|
1.0
|
|
HD1
|
A:HIS1614
|
4.9
|
20.2
|
1.0
|
|
H52
|
A:DOR1902
|
4.9
|
28.6
|
1.0
|
|
CD1
|
A:TYR1558
|
4.9
|
18.4
|
1.0
|
|
O
|
A:HOH2090
|
5.0
|
39.7
|
1.0
|
|
Zinc binding site 3 out
of 7 in 8pbt
Go back to
Zinc Binding Sites List in 8pbt
Zinc binding site 3 out
of 7 in the Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1905
b:27.5
occ:0.14
|
O
|
A:HOH2124
|
2.1
|
22.0
|
1.0
|
|
ND1
|
A:HIS1471
|
2.1
|
17.8
|
1.0
|
|
OE2
|
A:GLU1637
|
2.2
|
20.1
|
1.0
|
|
SG
|
A:CYS1613
|
2.5
|
21.6
|
1.0
|
|
HB3
|
A:CYS1613
|
2.5
|
22.9
|
1.0
|
|
OE1
|
A:GLU1637
|
2.8
|
19.4
|
1.0
|
|
CD
|
A:GLU1637
|
2.8
|
19.7
|
1.0
|
|
HB2
|
A:HIS1471
|
2.8
|
18.0
|
1.0
|
|
CB
|
A:CYS1613
|
2.9
|
19.1
|
1.0
|
|
CE1
|
A:HIS1471
|
3.0
|
17.6
|
1.0
|
|
CG
|
A:HIS1471
|
3.0
|
16.4
|
1.0
|
|
HE3
|
A:MET1503
|
3.0
|
22.3
|
1.0
|
|
HA
|
A:CYS1613
|
3.2
|
20.9
|
1.0
|
|
HE1
|
A:HIS1471
|
3.2
|
21.1
|
1.0
|
|
CB
|
A:HIS1471
|
3.4
|
15.0
|
1.0
|
|
HE1
|
A:MET1503
|
3.5
|
22.3
|
1.0
|
|
CE
|
A:MET1503
|
3.6
|
18.6
|
1.0
|
|
CA
|
A:CYS1613
|
3.6
|
17.4
|
1.0
|
|
HE2
|
A:MET1503
|
3.8
|
22.3
|
1.0
|
|
HB2
|
A:CYS1613
|
3.8
|
22.9
|
1.0
|
|
H
|
A:HIS1614
|
4.0
|
20.8
|
1.0
|
|
HB3
|
A:HIS1471
|
4.0
|
18.0
|
1.0
|
|
NE2
|
A:HIS1471
|
4.0
|
16.6
|
1.0
|
|
CD2
|
A:HIS1471
|
4.1
|
16.8
|
1.0
|
|
HD2
|
A:HIS1611
|
4.1
|
19.0
|
1.0
|
|
HG23
|
A:VAL1470
|
4.2
|
20.4
|
1.0
|
|
CG
|
A:GLU1637
|
4.2
|
18.3
|
1.0
|
|
HE2
|
A:HIS1611
|
4.3
|
20.0
|
1.0
|
|
HG2
|
A:GLU1637
|
4.3
|
21.9
|
1.0
|
|
HB
|
A:VAL1588
|
4.4
|
22.2
|
1.0
|
|
HA
|
A:HIS1471
|
4.5
|
17.6
|
1.0
|
|
O
|
A:VAL1470
|
4.5
|
15.6
|
1.0
|
|
CA
|
A:HIS1471
|
4.5
|
14.7
|
1.0
|
|
HG3
|
A:GLU1637
|
4.6
|
21.9
|
1.0
|
|
N
|
A:HIS1614
|
4.6
|
17.3
|
1.0
|
|
N
|
A:CYS1613
|
4.6
|
15.2
|
1.0
|
|
C
|
A:CYS1613
|
4.7
|
17.7
|
1.0
|
|
O
|
A:HOH2143
|
4.7
|
24.8
|
1.0
|
|
HE2
|
A:KCX1556
|
4.7
|
22.0
|
1.0
|
|
CD2
|
A:HIS1611
|
4.8
|
15.8
|
1.0
|
|
HG21
|
A:VAL1588
|
4.8
|
26.3
|
1.0
|
|
NE2
|
A:HIS1611
|
4.8
|
16.6
|
1.0
|
|
H
|
A:CYS1613
|
4.8
|
18.2
|
1.0
|
|
HB3
|
A:ALA1684
|
4.8
|
23.3
|
1.0
|
|
HD2
|
A:HIS1471
|
4.9
|
20.2
|
1.0
|
|
HG11
|
A:VAL1588
|
4.9
|
22.9
|
1.0
|
|
Zinc binding site 4 out
of 7 in 8pbt
Go back to
Zinc Binding Sites List in 8pbt
Zinc binding site 4 out
of 7 in the Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1906
b:18.4
occ:0.91
|
O1
|
A:FMT1915
|
1.9
|
21.4
|
1.0
|
|
O2
|
A:FMT1914
|
2.0
|
26.5
|
1.0
|
|
ND1
|
A:HIS1741
|
2.0
|
22.7
|
1.0
|
|
O1
|
A:FMT1914
|
2.6
|
29.9
|
1.0
|
|
C
|
A:FMT1914
|
2.6
|
28.0
|
1.0
|
|
C
|
A:FMT1915
|
2.8
|
23.9
|
1.0
|
|
CE1
|
A:HIS1741
|
3.0
|
23.1
|
1.0
|
|
HA
|
A:HIS1741
|
3.0
|
19.2
|
1.0
|
|
CG
|
A:HIS1741
|
3.1
|
20.5
|
1.0
|
|
O2
|
A:FMT1915
|
3.1
|
24.9
|
1.0
|
|
HB3
|
A:HIS1741
|
3.1
|
21.2
|
1.0
|
|
HE1
|
A:HIS1741
|
3.2
|
27.8
|
1.0
|
|
CB
|
A:HIS1741
|
3.4
|
17.7
|
1.0
|
|
CA
|
A:HIS1741
|
3.7
|
16.0
|
1.0
|
|
H
|
A:FMT1914
|
3.7
|
33.6
|
1.0
|
|
H
|
A:FMT1915
|
3.8
|
28.6
|
1.0
|
|
NE2
|
A:HIS1741
|
4.1
|
22.7
|
1.0
|
|
CD2
|
A:HIS1741
|
4.2
|
21.8
|
1.0
|
|
HD3
|
A:PRO1818
|
4.3
|
31.3
|
1.0
|
|
HD2
|
A:PRO1818
|
4.3
|
31.3
|
1.0
|
|
HA
|
A:ARG1738
|
4.3
|
16.5
|
1.0
|
|
HB2
|
A:HIS1741
|
4.3
|
21.2
|
1.0
|
|
HG2
|
A:PRO1818
|
4.4
|
33.1
|
1.0
|
|
O
|
A:HOH2172
|
4.5
|
28.8
|
1.0
|
|
C
|
A:HIS1741
|
4.6
|
16.6
|
1.0
|
|
H
|
A:HIS1741
|
4.6
|
19.4
|
1.0
|
|
CD
|
A:PRO1818
|
4.6
|
26.1
|
1.0
|
|
O
|
A:ARG1737
|
4.6
|
16.7
|
1.0
|
|
N
|
A:HIS1741
|
4.7
|
16.1
|
1.0
|
|
O
|
A:HOH2283
|
4.8
|
35.5
|
1.0
|
|
HE2
|
A:HIS1741
|
4.9
|
27.2
|
1.0
|
|
CG
|
A:PRO1818
|
4.9
|
27.6
|
1.0
|
|
O
|
A:HOH2066
|
5.0
|
25.1
|
1.0
|
|
Zinc binding site 5 out
of 7 in 8pbt
Go back to
Zinc Binding Sites List in 8pbt
Zinc binding site 5 out
of 7 in the Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1907
b:17.8
occ:1.00
|
O
|
A:HOH2104
|
1.9
|
18.0
|
1.0
|
|
NE2
|
A:HIS1473
|
2.0
|
15.6
|
1.0
|
|
NE2
|
A:HIS1471
|
2.0
|
16.6
|
1.0
|
|
OD1
|
A:ASP1686
|
2.1
|
18.6
|
1.0
|
|
OQ2
|
A:KCX1556
|
2.2
|
17.3
|
1.0
|
|
CE1
|
A:HIS1473
|
2.9
|
16.2
|
1.0
|
|
CE1
|
A:HIS1471
|
3.0
|
17.6
|
1.0
|
|
CD2
|
A:HIS1471
|
3.0
|
16.8
|
1.0
|
|
CG
|
A:ASP1686
|
3.0
|
17.8
|
1.0
|
|
H51
|
A:DOR1902
|
3.1
|
28.6
|
1.0
|
|
CD2
|
A:HIS1473
|
3.1
|
15.3
|
1.0
|
|
HE1
|
A:HIS1473
|
3.1
|
19.5
|
1.0
|
|
CX
|
A:KCX1556
|
3.1
|
17.3
|
1.0
|
|
HD2
|
A:HIS1471
|
3.2
|
20.2
|
1.0
|
|
HE1
|
A:HIS1471
|
3.2
|
21.1
|
1.0
|
|
HD2
|
A:HIS1473
|
3.3
|
18.4
|
1.0
|
|
ZN
|
A:ZN1904
|
3.4
|
17.7
|
1.0
|
|
HG3
|
A:MET1503
|
3.4
|
21.4
|
1.0
|
|
OD2
|
A:ASP1686
|
3.4
|
18.6
|
1.0
|
|
OQ1
|
A:KCX1556
|
3.5
|
16.6
|
1.0
|
|
H6
|
A:DOR1902
|
3.5
|
26.6
|
1.0
|
|
HD2
|
A:HIS1614
|
3.8
|
18.9
|
1.0
|
|
C5
|
A:DOR1902
|
3.9
|
23.8
|
1.0
|
|
HH
|
A:TYR1558
|
4.0
|
23.9
|
1.0
|
|
ND1
|
A:HIS1473
|
4.1
|
17.0
|
1.0
|
|
ND1
|
A:HIS1471
|
4.1
|
17.8
|
1.0
|
|
HA
|
A:ASP1686
|
4.1
|
20.0
|
1.0
|
|
CG
|
A:HIS1471
|
4.1
|
16.4
|
1.0
|
|
CG
|
A:HIS1473
|
4.2
|
16.5
|
1.0
|
|
NZ
|
A:KCX1556
|
4.2
|
17.2
|
1.0
|
|
C4
|
A:DOR1902
|
4.2
|
22.7
|
1.0
|
|
CB
|
A:ASP1686
|
4.3
|
17.1
|
1.0
|
|
C6
|
A:DOR1902
|
4.3
|
22.2
|
1.0
|
|
CG
|
A:MET1503
|
4.4
|
17.9
|
1.0
|
|
HE1
|
A:TYR1558
|
4.4
|
22.1
|
1.0
|
|
HZ
|
A:KCX1556
|
4.4
|
20.6
|
1.0
|
|
NE2
|
A:HIS1614
|
4.4
|
15.9
|
1.0
|
|
CD2
|
A:HIS1614
|
4.4
|
15.8
|
1.0
|
|
O4
|
A:DOR1902
|
4.4
|
23.6
|
1.0
|
|
HB2
|
A:ASP1686
|
4.5
|
20.6
|
1.0
|
|
HE3
|
A:MET1503
|
4.6
|
22.3
|
1.0
|
|
H52
|
A:DOR1902
|
4.7
|
28.6
|
1.0
|
|
CA
|
A:ASP1686
|
4.7
|
16.7
|
1.0
|
|
HG2
|
A:MET1503
|
4.8
|
21.4
|
1.0
|
|
OH
|
A:TYR1558
|
4.8
|
19.9
|
1.0
|
|
HB2
|
A:MET1503
|
4.8
|
19.4
|
1.0
|
|
HD1
|
A:HIS1473
|
4.8
|
20.4
|
1.0
|
|
HB2
|
A:ALA1688
|
4.9
|
22.1
|
1.0
|
|
N3
|
A:DOR1902
|
4.9
|
22.5
|
1.0
|
|
HB3
|
A:MET1503
|
4.9
|
19.4
|
1.0
|
|
Zinc binding site 6 out
of 7 in 8pbt
Go back to
Zinc Binding Sites List in 8pbt
Zinc binding site 6 out
of 7 in the Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1908
b:32.9
occ:0.53
|
OD2
|
A:ASP1753
|
1.9
|
31.8
|
1.0
|
|
O
|
A:HOH2253
|
2.1
|
46.4
|
1.0
|
|
O
|
A:HOH2247
|
2.4
|
42.8
|
1.0
|
|
HE1
|
A:HIS1756
|
2.4
|
59.6
|
1.0
|
|
ND1
|
A:HIS1756
|
2.7
|
48.9
|
1.0
|
|
CE1
|
A:HIS1756
|
2.8
|
49.7
|
1.0
|
|
CG
|
A:ASP1753
|
2.8
|
30.8
|
1.0
|
|
OD1
|
A:ASP1753
|
3.1
|
30.8
|
1.0
|
|
HH11
|
A:ARG1784
|
3.5
|
36.3
|
1.0
|
|
HH12
|
A:ARG1784
|
3.6
|
36.3
|
1.0
|
|
NH1
|
A:ARG1784
|
3.8
|
30.2
|
1.0
|
|
CG
|
A:HIS1756
|
4.0
|
47.6
|
1.0
|
|
NE2
|
A:HIS1756
|
4.1
|
49.7
|
1.0
|
|
CB
|
A:ASP1753
|
4.2
|
28.8
|
1.0
|
|
HB2
|
A:ASP1753
|
4.3
|
34.5
|
1.0
|
|
HB2
|
A:HIS1756
|
4.5
|
53.6
|
1.0
|
|
HB3
|
A:ASP1753
|
4.5
|
34.5
|
1.0
|
|
HE2
|
A:HIS1756
|
4.6
|
59.6
|
1.0
|
|
CD2
|
A:HIS1756
|
4.7
|
48.7
|
1.0
|
|
HD3
|
A:ARG1784
|
4.7
|
33.2
|
1.0
|
|
CB
|
A:GLU1755
|
4.7
|
38.5
|
1.0
|
|
HD21
|
A:LEU1461
|
4.8
|
44.2
|
1.0
|
|
H
|
A:GLU1755
|
4.9
|
43.2
|
1.0
|
|
CB
|
A:HIS1756
|
4.9
|
44.6
|
1.0
|
|
CZ
|
A:ARG1784
|
5.0
|
30.2
|
1.0
|
|
Zinc binding site 7 out
of 7 in 8pbt
Go back to
Zinc Binding Sites List in 8pbt
Zinc binding site 7 out
of 7 in the Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of Mutant K1482M of the Dihydroorotase Domain of Human Cad Protein Bound to the Substrate Dihydroorotate within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1909
b:53.2
occ:1.00
|
O
|
A:ALA1816
|
2.2
|
19.9
|
1.0
|
|
O2
|
A:FMT1915
|
2.2
|
24.9
|
1.0
|
|
O
|
A:HOH2097
|
2.2
|
33.3
|
1.0
|
|
O
|
A:HOH2172
|
2.3
|
28.8
|
1.0
|
|
O
|
A:GLN1814
|
2.5
|
23.8
|
1.0
|
|
C
|
A:FMT1915
|
3.2
|
23.9
|
1.0
|
|
HD3
|
A:PRO1818
|
3.2
|
31.3
|
1.0
|
|
C
|
A:GLN1814
|
3.3
|
23.7
|
1.0
|
|
C
|
A:ALA1816
|
3.4
|
20.4
|
1.0
|
|
H
|
A:FMT1915
|
3.4
|
28.6
|
1.0
|
|
H
|
A:ALA1816
|
3.6
|
25.1
|
1.0
|
|
N
|
A:ALA1816
|
3.6
|
20.9
|
1.0
|
|
HA
|
A:GLN1814
|
3.8
|
31.4
|
1.0
|
|
HG3
|
A:PRO1818
|
3.8
|
33.1
|
1.0
|
|
HA2
|
A:GLY1815
|
3.8
|
24.7
|
1.0
|
|
O
|
A:HOH2190
|
3.9
|
40.0
|
1.0
|
|
C
|
A:GLY1815
|
3.9
|
20.6
|
1.0
|
|
N
|
A:GLY1815
|
4.0
|
22.8
|
1.0
|
|
HA
|
A:VAL1817
|
4.1
|
26.6
|
1.0
|
|
CA
|
A:ALA1816
|
4.1
|
21.8
|
1.0
|
|
O
|
A:HOH2282
|
4.1
|
42.0
|
1.0
|
|
CA
|
A:GLY1815
|
4.1
|
20.6
|
1.0
|
|
CD
|
A:PRO1818
|
4.1
|
26.1
|
1.0
|
|
CA
|
A:GLN1814
|
4.2
|
26.2
|
0.6
|
|
CA
|
A:GLN1814
|
4.2
|
25.2
|
0.4
|
|
HB3
|
A:ALA1816
|
4.2
|
28.8
|
1.0
|
|
HB3
|
A:HIS1741
|
4.3
|
21.2
|
1.0
|
|
O1
|
A:FMT1915
|
4.3
|
21.4
|
1.0
|
|
O2
|
A:FMT1914
|
4.4
|
26.5
|
1.0
|
|
N
|
A:VAL1817
|
4.4
|
21.1
|
1.0
|
|
CG
|
A:PRO1818
|
4.4
|
27.6
|
1.0
|
|
O
|
A:PRO1813
|
4.6
|
29.8
|
1.0
|
|
CA
|
A:VAL1817
|
4.6
|
22.2
|
1.0
|
|
O
|
A:GLY1815
|
4.6
|
21.1
|
1.0
|
|
H
|
A:GLY1815
|
4.7
|
27.4
|
1.0
|
|
CB
|
A:ALA1816
|
4.7
|
24.0
|
1.0
|
|
N
|
A:PRO1818
|
4.8
|
23.8
|
1.0
|
|
HD2
|
A:PRO1818
|
4.8
|
31.3
|
1.0
|
|
HB3
|
A:GLN1814
|
4.8
|
34.8
|
0.6
|
|
HG2
|
A:PRO1818
|
4.9
|
33.1
|
1.0
|
|
HB2
|
A:GLN1814
|
4.9
|
30.9
|
0.4
|
|
HA
|
A:ALA1816
|
4.9
|
26.2
|
1.0
|
|
O
|
A:HIS1741
|
4.9
|
18.5
|
1.0
|
|
C
|
A:VAL1817
|
5.0
|
22.6
|
1.0
|
|
Reference:
F.Del Cano-Ochoa,
B.G.Ng,
A.Rubio-Del-Campo,
S.Mahajan,
M.P.Wilson,
M.Vilar,
D.Rymen,
P.Sanchez-Pintos,
J.Kenny,
M.Ley Martos,
T.Campos,
S.B.Wortmann,
H.H.Freeze,
S.Ramon-Maiques.
Beyond Genetics: Deciphering the Impact of Missense Variants in Cad Deficiency. J Inherit Metab Dis 2023.
ISSN: ISSN 1573-2665
PubMed: 37540500
DOI: 10.1002/JIMD.12667
Page generated: Thu Dec 28 13:34:38 2023
|
