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Chlorine in PDB 4oxd: Structure of the Ldcb Ld-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition

Protein crystallography data

The structure of Structure of the Ldcb Ld-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition, PDB code: 4oxd was solved by C.N.Hoyland, C.Aldridge, R.M.Cleverley, K.Sidiq, M.C.Duchene, R.A.Daniel, W.Vollmer, R.J.Lewis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.80 / 2.80
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 345.954, 42.549, 79.318, 90.00, 93.07, 90.00
R / Rfree (%) 27.3 / 33.4

Other elements in 4oxd:

The structure of Structure of the Ldcb Ld-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Zinc (Zn) 18 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Structure of the Ldcb Ld-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition (pdb code 4oxd). 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 the Ldcb Ld-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition, PDB code: 4oxd:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in 4oxd

Go back to Chlorine Binding Sites List in 4oxd
Chlorine binding site 1 out of 2 in the Structure of the Ldcb Ld-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of the Ldcb Ld-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl305

b:46.7
occ:1.00
NH1 C:ARG120 3.5 55.4 1.0
CB C:ALA146 3.7 49.7 1.0
OG C:SER151 3.8 37.5 1.0
NE2 C:GLN125 3.9 54.5 1.0
N C:ALA146 4.0 50.2 1.0
CD2 C:HIS153 4.2 33.5 1.0
CA C:ALA146 4.5 49.9 1.0
CB C:SER145 4.6 49.5 1.0
CZ C:ARG120 4.6 55.6 1.0
CB C:SER151 4.6 37.3 1.0
NE2 C:HIS153 4.7 33.7 1.0
CD C:GLN125 4.8 54.3 1.0
OE1 C:GLN125 4.8 54.6 1.0
O C:HOH406 4.8 15.1 1.0
C C:SER145 4.9 50.3 1.0

Chlorine binding site 2 out of 2 in 4oxd

Go back to Chlorine Binding Sites List in 4oxd
Chlorine binding site 2 out of 2 in the Structure of the Ldcb Ld-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of the Ldcb Ld-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl303

b:27.4
occ:1.00
OD2 D:ASP114 3.7 39.3 1.0
N D:ASP114 3.8 39.9 1.0
OG D:SER113 3.9 38.1 1.0
CG D:ASP114 4.0 38.9 1.0
CB D:ASP114 4.2 39.0 1.0
NZ C:LYS127 4.3 60.5 1.0
CA D:SER113 4.4 39.3 1.0
OD1 D:ASP114 4.6 39.0 1.0
C D:SER113 4.6 39.1 1.0
CA D:ASP114 4.6 39.8 1.0
CB D:SER113 4.6 38.9 1.0
CD2 D:HIS115 4.9 43.9 1.0

Reference:

C.N.Hoyland, C.Aldridge, R.M.Cleverley, M.C.Duchene, G.Minasov, O.Onopriyenko, K.Sidiq, P.J.Stogios, W.F.Anderson, R.A.Daniel, A.Savchenko, W.Vollmer, R.J.Lewis. Structure of the Ldcb Ld-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition. Structure V. 22 949 2014.
ISSN: ISSN 0969-2126
PubMed: 24909784
DOI: 10.1016/J.STR.2014.04.015
Page generated: Sat Dec 12 11:02:01 2020

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