Chlorine in PDB 5v86: Structure of DCN1 Bound to Nacm-Opt
Enzymatic activity of Structure of DCN1 Bound to Nacm-Opt
All present enzymatic activity of Structure of DCN1 Bound to Nacm-Opt:
3.2.1.17;
Protein crystallography data
The structure of Structure of DCN1 Bound to Nacm-Opt, PDB code: 5v86
was solved by
R.K.Guy,
B.A.Schulman,
D.C.Scott,
J.T.Hammill,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
25.18 /
1.37
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
35.045,
96.849,
59.302,
90.00,
105.83,
90.00
|
R / Rfree (%)
|
15.5 /
19.5
|
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Structure of DCN1 Bound to Nacm-Opt
(pdb code 5v86). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the
Structure of DCN1 Bound to Nacm-Opt, PDB code: 5v86:
Jump to Chlorine binding site number:
1;
2;
Chlorine binding site 1 out
of 2 in 5v86
Go back to
Chlorine Binding Sites List in 5v86
Chlorine binding site 1 out
of 2 in the Structure of DCN1 Bound to Nacm-Opt
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Structure of DCN1 Bound to Nacm-Opt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl2001
b:29.5
occ:1.00
|
CL2
|
A:8ZA2001
|
0.0
|
29.5
|
1.0
|
C22
|
A:8ZA2001
|
1.7
|
20.2
|
1.0
|
C21
|
A:8ZA2001
|
2.7
|
17.4
|
1.0
|
C23
|
A:8ZA2001
|
2.7
|
17.6
|
1.0
|
HG22
|
A:ILE1105
|
3.0
|
22.9
|
1.0
|
CL1
|
A:8ZA2001
|
3.0
|
21.1
|
1.0
|
HG13
|
A:VAL1102
|
3.2
|
21.4
|
1.0
|
HB2
|
A:ALA1106
|
3.2
|
17.4
|
1.0
|
HB
|
A:ILE1105
|
3.3
|
20.6
|
1.0
|
O
|
A:VAL1102
|
3.4
|
15.1
|
1.0
|
HE2
|
A:PHE1089
|
3.5
|
27.2
|
1.0
|
HG21
|
A:ILE1105
|
3.5
|
22.9
|
1.0
|
H
|
A:ALA1106
|
3.5
|
16.2
|
1.0
|
CG2
|
A:ILE1105
|
3.6
|
19.1
|
1.0
|
HA
|
A:ALA1106
|
3.7
|
16.8
|
1.0
|
N
|
A:ALA1106
|
3.7
|
13.5
|
1.0
|
CB
|
A:ILE1105
|
3.9
|
17.2
|
1.0
|
HG12
|
A:VAL1102
|
3.9
|
21.4
|
1.0
|
C18
|
A:8ZA2001
|
4.0
|
16.5
|
1.0
|
C20
|
A:8ZA2001
|
4.0
|
17.4
|
1.0
|
CA
|
A:ALA1106
|
4.0
|
14.0
|
1.0
|
CG1
|
A:VAL1102
|
4.0
|
17.8
|
1.0
|
CB
|
A:ALA1106
|
4.0
|
14.5
|
1.0
|
HG23
|
A:ILE1086
|
4.3
|
21.5
|
1.0
|
CE2
|
A:PHE1089
|
4.3
|
22.7
|
1.0
|
C
|
A:ILE1105
|
4.3
|
15.0
|
1.0
|
HD2
|
A:PHE1089
|
4.3
|
24.9
|
1.0
|
HA
|
A:VAL1102
|
4.4
|
17.8
|
1.0
|
C
|
A:VAL1102
|
4.4
|
14.3
|
1.0
|
HG23
|
A:ILE1105
|
4.5
|
22.9
|
1.0
|
C19
|
A:8ZA2001
|
4.5
|
15.3
|
1.0
|
HG11
|
A:VAL1102
|
4.6
|
21.4
|
1.0
|
HB1
|
A:ALA1106
|
4.6
|
17.4
|
1.0
|
HB3
|
A:ALA1106
|
4.6
|
17.4
|
1.0
|
CA
|
A:ILE1105
|
4.7
|
15.0
|
1.0
|
CD2
|
A:PHE1089
|
4.7
|
20.8
|
1.0
|
HG21
|
A:ILE1086
|
4.7
|
21.5
|
1.0
|
CA
|
A:VAL1102
|
4.8
|
14.8
|
1.0
|
HD12
|
A:ILE1105
|
4.9
|
26.0
|
1.0
|
CG2
|
A:ILE1086
|
4.9
|
17.9
|
1.0
|
O
|
A:ILE1105
|
4.9
|
15.3
|
1.0
|
HD13
|
A:ILE1105
|
4.9
|
26.0
|
1.0
|
CB
|
A:VAL1102
|
5.0
|
16.7
|
1.0
|
|
Chlorine binding site 2 out
of 2 in 5v86
Go back to
Chlorine Binding Sites List in 5v86
Chlorine binding site 2 out
of 2 in the Structure of DCN1 Bound to Nacm-Opt
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Structure of DCN1 Bound to Nacm-Opt within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl2001
b:21.1
occ:1.00
|
CL1
|
A:8ZA2001
|
0.0
|
21.1
|
1.0
|
C21
|
A:8ZA2001
|
1.7
|
17.4
|
1.0
|
C22
|
A:8ZA2001
|
2.7
|
20.2
|
1.0
|
C20
|
A:8ZA2001
|
2.8
|
17.4
|
1.0
|
HA
|
A:ALA1106
|
2.9
|
16.8
|
1.0
|
CL2
|
A:8ZA2001
|
3.0
|
29.5
|
1.0
|
HB2
|
A:ALA1111
|
3.1
|
18.2
|
1.0
|
HB2
|
A:PHE1109
|
3.4
|
18.3
|
1.0
|
CE2
|
A:PHE1117
|
3.5
|
17.0
|
1.0
|
CD2
|
A:PHE1117
|
3.5
|
15.5
|
1.0
|
CZ
|
A:PHE1117
|
3.6
|
18.0
|
1.0
|
CG
|
A:PHE1117
|
3.6
|
14.7
|
1.0
|
CE1
|
A:PHE1117
|
3.7
|
17.9
|
1.0
|
HG22
|
A:ILE1105
|
3.7
|
22.9
|
1.0
|
CD1
|
A:PHE1117
|
3.7
|
17.0
|
1.0
|
CA
|
A:ALA1106
|
3.8
|
14.0
|
1.0
|
HB2
|
A:ALA1106
|
3.9
|
17.4
|
1.0
|
HE2
|
A:PHE1117
|
3.9
|
20.4
|
1.0
|
HD2
|
A:PHE1117
|
3.9
|
18.6
|
1.0
|
CB
|
A:ALA1111
|
4.0
|
15.1
|
1.0
|
C23
|
A:8ZA2001
|
4.0
|
17.6
|
1.0
|
HB3
|
A:PHE1109
|
4.0
|
18.3
|
1.0
|
HZ
|
A:PHE1117
|
4.0
|
21.6
|
1.0
|
C19
|
A:8ZA2001
|
4.1
|
15.3
|
1.0
|
CB
|
A:PHE1109
|
4.1
|
15.2
|
1.0
|
HB2
|
A:PHE1117
|
4.1
|
18.7
|
1.0
|
HE1
|
A:PHE1117
|
4.1
|
21.5
|
1.0
|
HB1
|
A:ALA1111
|
4.1
|
18.2
|
1.0
|
HB3
|
A:ALA1111
|
4.2
|
18.2
|
1.0
|
HD1
|
A:PHE1117
|
4.2
|
20.4
|
1.0
|
CB
|
A:ALA1106
|
4.2
|
14.5
|
1.0
|
HB1
|
A:ALA1106
|
4.3
|
17.4
|
1.0
|
N
|
A:ALA1106
|
4.4
|
13.5
|
1.0
|
CG
|
A:PHE1109
|
4.4
|
14.2
|
1.0
|
CB
|
A:PHE1117
|
4.5
|
15.6
|
1.0
|
C18
|
A:8ZA2001
|
4.5
|
16.5
|
1.0
|
CG2
|
A:ILE1105
|
4.6
|
19.1
|
1.0
|
HE2
|
A:PHE1089
|
4.7
|
27.2
|
1.0
|
O
|
A:ILE1105
|
4.7
|
15.3
|
1.0
|
HD2
|
A:PHE1109
|
4.7
|
22.3
|
1.0
|
H
|
A:ALA1106
|
4.7
|
16.2
|
1.0
|
CD2
|
A:PHE1109
|
4.7
|
18.6
|
1.0
|
HG21
|
A:ILE1105
|
4.8
|
22.9
|
1.0
|
C
|
A:ILE1105
|
4.8
|
15.0
|
1.0
|
HA
|
A:PHE1117
|
4.8
|
19.0
|
1.0
|
C
|
A:ALA1106
|
4.9
|
13.6
|
1.0
|
O
|
A:ALA1106
|
4.9
|
14.2
|
1.0
|
HE1
|
A:PHE1164
|
4.9
|
19.2
|
1.0
|
|
Reference:
D.C.Scott,
J.T.Hammill,
J.Min,
D.Y.Rhee,
M.Connelly,
V.O.Sviderskiy,
D.Bhasin,
Y.Chen,
S.S.Ong,
S.C.Chai,
A.N.Goktug,
G.Huang,
J.K.Monda,
J.Low,
H.S.Kim,
J.A.Paulo,
J.R.Cannon,
A.A.Shelat,
T.Chen,
I.R.Kelsall,
A.F.Alpi,
V.Pagala,
X.Wang,
J.Peng,
B.Singh,
J.W.Harper,
B.A.Schulman,
R.K.Guy.
Blocking An N-Terminal Acetylation-Dependent Protein Interaction Inhibits An E3 Ligase. Nat. Chem. Biol. V. 13 850 2017.
ISSN: ESSN 1552-4469
PubMed: 28581483
DOI: 10.1038/NCHEMBIO.2386
Page generated: Sat Dec 12 12:33:36 2020
|