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

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