Atomistry » Chlorine » PDB 9dpu-9edn » 9dqw
Atomistry »
  Chlorine »
    PDB 9dpu-9edn »
      9dqw »

Chlorine in PDB 9dqw: Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp

Enzymatic activity of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp

All present enzymatic activity of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp:
6.3.2.9;

Protein crystallography data

The structure of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp, PDB code: 9dqw was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.09 / 1.45
Space group P 41
Cell size a, b, c (Å), α, β, γ (°) 65.441, 65.441, 135.609, 90, 90, 90
R / Rfree (%) 15 / 16.5

Other elements in 9dqw:

The structure of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp (pdb code 9dqw). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp, PDB code: 9dqw:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in 9dqw

Go back to Chlorine Binding Sites List in 9dqw
Chlorine binding site 1 out of 3 in the Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl503

b:19.7
occ:1.00
 OG A:SER415 3.2 18.4 1.0
O A:HOH909 3.2 20.6 1.0
O A:HOH706 3.2 23.6 1.0
N A:SER415 3.2 16.2 1.0
O A:HOH627 3.3 21.6 1.0
CB A:SER415 3.8 15.5 1.0
CB A:ALA414 3.9 16.5 1.0
CA A:ALA414 3.9 14.9 1.0
CB A:PHE422 4.0 17.2 1.0
N A:PHE422 4.0 16.5 1.0
CA A:SER415 4.0 17.0 1.0
C A:ALA414 4.1 16.2 1.0
CD2 A:LEU416 4.3 22.6 1.0
CG A:LEU416 4.4 22.0 1.0
CD2 A:PHE422 4.4 20.8 1.0
CA A:PHE422 4.4 15.9 1.0
O18 A:UMA502 4.4 19.3 1.0
CG2 A:THR321 4.5 16.5 1.0
N A:LEU416 4.6 18.4 1.0
O A:HOH984 4.7 29.3 1.0
C A:SER415 4.7 15.5 1.0
O A:HOH831 4.7 22.0 1.0
CG A:PHE422 4.7 16.5 1.0
C A:ASN421 4.8 17.0 1.0
CA A:ASN421 5.0 17.7 1.0

Chlorine binding site 2 out of 3 in 9dqw

Go back to Chlorine Binding Sites List in 9dqw
Chlorine binding site 2 out of 3 in the Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl504

b:36.6
occ:1.00
 ND2 A:ASN240 2.6 48.1 1.0
NZ A:LYS254 2.9 22.6 1.0
NH1 A:ARG249 3.0 40.2 1.0
CB A:ASN240 3.3 29.0 1.0
CG A:ASN240 3.4 41.5 1.0
CE A:LYS254 3.4 23.0 1.0
CD A:ARG249 3.6 42.9 1.0
CG A:LYS254 3.9 18.7 1.0
CZ A:ARG249 4.0 44.5 1.0
CG A:ARG249 4.2 30.0 1.0
NE A:ARG249 4.2 38.1 1.0
CD A:LYS254 4.3 20.4 1.0
CB A:TRP247 4.4 16.9 1.0
O A:HOH607 4.5 36.6 1.0
CG A:TRP247 4.5 17.0 1.0
CD1 A:TRP247 4.5 16.8 1.0
OD1 A:ASN240 4.6 47.3 1.0
CA A:ASN240 4.7 25.9 1.0

Chlorine binding site 3 out of 3 in 9dqw

Go back to Chlorine Binding Sites List in 9dqw
Chlorine binding site 3 out of 3 in the Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl505

b:32.9
occ:1.00
 N A:TYR3 3.0 27.9 1.0
NE A:ARG27 3.1 32.0 0.5
NH2 A:ARG27 3.3 29.6 0.5
NE2 A:GLN4 3.3 30.1 1.0
CZ A:ARG27 3.6 25.4 0.5
CA A:TYR3 3.9 24.3 1.0
CA A:ASP2 3.9 35.3 1.0
N A:GLN4 3.9 28.5 1.0
C A:ASP2 3.9 33.8 1.0
CB A:TYR3 4.0 24.7 1.0
CG A:GLN4 4.0 33.8 1.0
CD2 A:TYR3 4.0 23.3 1.0
O A:ALA1 4.1 47.1 1.0
C A:TYR3 4.2 28.1 1.0
CD A:GLN4 4.2 33.9 1.0
CD A:ARG27 4.2 30.4 0.5
CB A:ARG27 4.2 36.4 0.5
CB A:ARG27 4.2 36.4 0.5
OD1 A:ASP2 4.3 36.1 1.0
CG A:TYR3 4.4 21.2 1.0
CG A:ARG27 4.5 31.9 0.5
CG A:ASP2 4.6 44.9 1.0
CG A:ARG27 4.6 33.2 0.5
O A:ARG27 4.6 35.2 1.0
CD A:ARG27 4.7 30.9 0.5
CA A:GLN4 4.8 30.4 1.0
N A:ASP2 4.8 36.2 1.0
CB A:ASP2 4.8 37.5 1.0
CG2 A:VAL29 4.9 30.1 1.0
C A:ALA1 4.9 46.6 1.0
NH1 A:ARG27 4.9 30.3 0.5
CB A:GLN4 4.9 31.8 1.0

Reference:

S.Seibold, L.Liu, S.Lovell, K.P.Battaile. Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp To Be Published.
Page generated: Sun Jul 13 16:23:42 2025

Last articles

Fe in 4PK6
Fe in 4PK5
Fe in 4PJY
Fe in 4PIZ
Fe in 4PD4
Fe in 4PIY
Fe in 4PH9
Fe in 4PBU
Fe in 4PIX
Fe in 4PGK
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy