Zinc in PDB 9gaw: High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1
Zinc Binding Sites:
The binding sites of Zinc atom in the High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1
(pdb code 9gaw). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the
High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1, PDB code: 9gaw:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
Zinc binding site 1 out
of 6 in 9gaw
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Zinc Binding Sites List in 9gaw
Zinc binding site 1 out
of 6 in the High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
N:Zn901
b:105.0
occ:1.00
|
SG
|
N:CYS224
|
2.1
|
30.0
|
1.0
|
SG
|
N:CYS221
|
2.3
|
64.2
|
1.0
|
SG
|
N:CYS231
|
2.3
|
60.4
|
1.0
|
SG
|
N:CYS233
|
2.3
|
70.2
|
1.0
|
N
|
N:CYS224
|
3.1
|
69.5
|
1.0
|
CB
|
N:CYS224
|
3.1
|
30.0
|
1.0
|
CB
|
N:CYS231
|
3.4
|
65.5
|
1.0
|
CB
|
N:CYS233
|
3.4
|
74.1
|
1.0
|
CB
|
N:CYS221
|
3.4
|
67.4
|
1.0
|
CA
|
N:CYS224
|
3.7
|
68.6
|
1.0
|
NE2
|
N:GLN186
|
4.0
|
30.0
|
1.0
|
N
|
N:CYS233
|
4.0
|
76.0
|
1.0
|
CA
|
N:CYS231
|
4.1
|
68.0
|
1.0
|
C
|
N:GLY223
|
4.2
|
71.3
|
1.0
|
O
|
N:CYS224
|
4.2
|
64.2
|
1.0
|
CA
|
N:CYS233
|
4.3
|
76.1
|
1.0
|
CA
|
N:GLY223
|
4.4
|
68.9
|
1.0
|
N
|
N:GLY223
|
4.5
|
69.2
|
1.0
|
C
|
N:CYS224
|
4.5
|
69.2
|
1.0
|
N
|
N:TRP232
|
4.5
|
70.7
|
1.0
|
C
|
N:CYS231
|
4.6
|
69.1
|
1.0
|
CA
|
N:CYS221
|
4.8
|
68.9
|
1.0
|
|
Zinc binding site 2 out
of 6 in 9gaw
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Zinc Binding Sites List in 9gaw
Zinc binding site 2 out
of 6 in the High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
S:Zn501
b:186.3
occ:1.00
|
SG
|
S:CYS381
|
2.3
|
89.4
|
1.0
|
SG
|
S:CYS401
|
2.3
|
92.7
|
1.0
|
SG
|
S:CYS378
|
2.3
|
93.1
|
1.0
|
SG
|
S:CYS396
|
2.3
|
93.6
|
1.0
|
CB
|
S:CYS378
|
3.0
|
93.6
|
1.0
|
CB
|
S:CYS401
|
3.1
|
94.2
|
1.0
|
CB
|
S:CYS396
|
3.4
|
94.4
|
1.0
|
CB
|
S:CYS381
|
4.0
|
90.7
|
1.0
|
N
|
S:CYS381
|
4.2
|
92.5
|
1.0
|
CB
|
S:SER383
|
4.5
|
91.0
|
1.0
|
CA
|
S:CYS401
|
4.5
|
95.5
|
1.0
|
CB
|
S:PHE403
|
4.5
|
91.7
|
1.0
|
CA
|
S:CYS378
|
4.5
|
94.0
|
1.0
|
CB
|
S:ARG380
|
4.5
|
90.9
|
1.0
|
CA
|
S:CYS381
|
4.6
|
92.2
|
1.0
|
CG
|
S:ARG380
|
4.7
|
87.0
|
1.0
|
CA
|
S:CYS396
|
4.8
|
94.8
|
1.0
|
CB
|
S:ARG398
|
4.8
|
91.8
|
1.0
|
N
|
S:PHE403
|
4.9
|
93.6
|
1.0
|
OG
|
S:SER383
|
4.9
|
82.3
|
1.0
|
C
|
S:CYS401
|
4.9
|
95.2
|
1.0
|
N
|
S:GLY402
|
5.0
|
94.2
|
1.0
|
|
Zinc binding site 3 out
of 6 in 9gaw
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Zinc Binding Sites List in 9gaw
Zinc binding site 3 out
of 6 in the High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
S:Zn502
b:208.6
occ:1.00
|
NE2
|
S:HIS414
|
2.3
|
59.5
|
1.0
|
SG
|
S:CYS406
|
2.3
|
87.7
|
1.0
|
SG
|
S:CYS409
|
2.4
|
30.0
|
1.0
|
CD2
|
S:HIS414
|
3.0
|
59.4
|
1.0
|
CB
|
S:CYS409
|
3.2
|
30.0
|
1.0
|
N
|
S:CYS409
|
3.2
|
90.4
|
1.0
|
CB
|
S:CYS406
|
3.2
|
90.3
|
1.0
|
CE1
|
S:HIS414
|
3.4
|
58.9
|
1.0
|
O
|
S:CYS406
|
3.5
|
89.8
|
1.0
|
CA
|
S:CYS409
|
3.7
|
89.3
|
1.0
|
SG
|
S:CYS411
|
3.7
|
30.0
|
1.0
|
CB
|
S:LYS408
|
3.7
|
30.0
|
1.0
|
C
|
S:LYS408
|
3.9
|
89.1
|
1.0
|
CA
|
S:LYS408
|
4.2
|
89.3
|
1.0
|
CG
|
S:HIS414
|
4.2
|
65.5
|
1.0
|
C
|
S:CYS406
|
4.2
|
91.2
|
1.0
|
CA
|
S:CYS406
|
4.3
|
91.8
|
1.0
|
ND1
|
S:HIS414
|
4.4
|
59.1
|
1.0
|
N
|
S:LYS408
|
4.4
|
90.2
|
1.0
|
C
|
S:CYS409
|
4.4
|
89.4
|
1.0
|
O
|
S:LYS408
|
4.8
|
86.4
|
1.0
|
N
|
S:LEU410
|
4.8
|
90.5
|
1.0
|
|
Zinc binding site 4 out
of 6 in 9gaw
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Zinc Binding Sites List in 9gaw
Zinc binding site 4 out
of 6 in the High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn101
b:191.4
occ:1.00
|
ND1
|
C:HIS56
|
2.1
|
82.1
|
1.0
|
SG
|
C:CYS26
|
2.3
|
81.4
|
1.0
|
SG
|
C:CYS59
|
2.3
|
83.1
|
1.0
|
SG
|
C:CYS23
|
2.3
|
84.1
|
1.0
|
CB
|
C:CYS23
|
2.7
|
86.0
|
1.0
|
CG
|
C:HIS56
|
2.9
|
88.0
|
1.0
|
CB
|
C:HIS56
|
3.0
|
88.4
|
1.0
|
CE1
|
C:HIS56
|
3.2
|
82.7
|
1.0
|
CB
|
C:CYS26
|
3.3
|
84.2
|
1.0
|
CB
|
C:CYS59
|
3.3
|
87.2
|
1.0
|
N
|
C:HIS56
|
3.9
|
88.7
|
1.0
|
N
|
C:CYS26
|
4.0
|
87.1
|
1.0
|
CA
|
C:HIS56
|
4.0
|
88.9
|
1.0
|
CD2
|
C:HIS56
|
4.1
|
81.9
|
1.0
|
NE2
|
C:HIS56
|
4.2
|
83.4
|
1.0
|
CA
|
C:CYS26
|
4.2
|
86.5
|
1.0
|
CA
|
C:CYS23
|
4.2
|
86.8
|
1.0
|
CA
|
C:CYS59
|
4.8
|
88.5
|
1.0
|
CB
|
C:CYS34
|
4.8
|
84.4
|
1.0
|
C
|
C:CYS23
|
4.9
|
86.6
|
1.0
|
C
|
C:HIS56
|
4.9
|
89.0
|
1.0
|
O
|
C:HIS56
|
5.0
|
87.6
|
1.0
|
CD
|
C:PRO35
|
5.0
|
85.1
|
1.0
|
C
|
C:CYS26
|
5.0
|
86.3
|
1.0
|
CB
|
C:ILE25
|
5.0
|
84.8
|
1.0
|
|
Zinc binding site 5 out
of 6 in 9gaw
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Zinc Binding Sites List in 9gaw
Zinc binding site 5 out
of 6 in the High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn102
b:212.3
occ:1.00
|
SG
|
C:CYS44
|
2.2
|
82.9
|
1.0
|
ND1
|
C:HIS58
|
2.3
|
78.9
|
1.0
|
SG
|
C:CYS37
|
2.3
|
77.9
|
1.0
|
SG
|
C:CYS34
|
2.4
|
80.4
|
1.0
|
CE1
|
C:HIS58
|
2.7
|
80.4
|
1.0
|
CB
|
C:CYS44
|
3.0
|
85.1
|
1.0
|
CB
|
C:CYS37
|
3.1
|
81.5
|
1.0
|
CB
|
C:CYS34
|
3.3
|
84.4
|
1.0
|
CG
|
C:HIS58
|
3.5
|
87.4
|
1.0
|
CA
|
C:CYS44
|
3.7
|
86.3
|
1.0
|
NE2
|
C:HIS58
|
3.9
|
81.6
|
1.0
|
N
|
C:CYS34
|
4.0
|
86.0
|
1.0
|
CA
|
C:CYS34
|
4.2
|
86.0
|
1.0
|
CB
|
C:HIS58
|
4.2
|
88.3
|
1.0
|
CD2
|
C:HIS58
|
4.3
|
79.7
|
1.0
|
CA
|
C:CYS37
|
4.3
|
83.3
|
1.0
|
N
|
C:CYS37
|
4.3
|
84.5
|
1.0
|
O
|
C:ASP43
|
4.5
|
81.8
|
1.0
|
N
|
C:CYS44
|
4.7
|
85.8
|
1.0
|
O
|
C:CYS34
|
4.8
|
84.5
|
1.0
|
C
|
C:CYS34
|
4.8
|
86.4
|
1.0
|
C
|
C:CYS44
|
4.8
|
86.6
|
1.0
|
|
Zinc binding site 6 out
of 6 in 9gaw
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Zinc Binding Sites List in 9gaw
Zinc binding site 6 out
of 6 in the High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of High-Resolution Structure of the Anaphase-Promoting Complex/Cyclosome (Apc/C) Bound to Co-Activator CDH1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn103
b:205.4
occ:1.00
|
SG
|
C:CYS73
|
2.3
|
82.2
|
1.0
|
SG
|
C:CYS76
|
2.3
|
78.8
|
1.0
|
ND1
|
C:HIS53
|
2.3
|
77.9
|
1.0
|
SG
|
C:CYS51
|
2.4
|
78.2
|
1.0
|
CE1
|
C:HIS53
|
2.9
|
79.0
|
1.0
|
CG
|
C:HIS53
|
3.0
|
86.1
|
1.0
|
CB
|
C:CYS73
|
3.0
|
85.6
|
1.0
|
CB
|
C:HIS53
|
3.6
|
86.4
|
1.0
|
N
|
C:CYS76
|
3.6
|
86.2
|
1.0
|
CB
|
C:CYS51
|
3.6
|
83.4
|
1.0
|
NE2
|
C:HIS53
|
3.7
|
79.9
|
1.0
|
NE2
|
C:GLN78
|
3.7
|
66.0
|
1.0
|
CB
|
C:CYS76
|
3.8
|
82.8
|
1.0
|
CD2
|
C:HIS53
|
3.8
|
78.5
|
1.0
|
CB
|
C:MET75
|
3.9
|
30.0
|
1.0
|
CG
|
C:GLN78
|
3.9
|
78.3
|
1.0
|
CA
|
C:CYS76
|
4.2
|
85.4
|
1.0
|
CD
|
C:GLN78
|
4.4
|
75.3
|
1.0
|
CA
|
C:CYS73
|
4.5
|
86.8
|
1.0
|
C
|
C:MET75
|
4.5
|
85.3
|
1.0
|
CA
|
C:MET75
|
4.6
|
85.2
|
1.0
|
N
|
C:MET75
|
4.6
|
85.8
|
1.0
|
O
|
C:CYS51
|
4.6
|
80.9
|
1.0
|
C
|
C:CYS76
|
4.7
|
85.3
|
1.0
|
C
|
C:CYS73
|
4.9
|
87.0
|
1.0
|
N
|
C:ARG77
|
4.9
|
84.6
|
1.0
|
CA
|
C:CYS51
|
4.9
|
85.6
|
1.0
|
CA
|
C:HIS53
|
5.0
|
86.8
|
1.0
|
|
Reference:
A.Hoefler,
J.Yu,
L.Chang,
Z.Zhang,
J.Yang,
A.Boland,
D.Barford.
High-Resolution Structure of the Anaphase-Promoting Complex (Apc/C) Bound to Co-Activator CDH1 To Be Published.
Page generated: Thu Oct 31 15:38:43 2024
|