Atomistry » Chlorine » PDB 5cu3-5d0t » 5d04
Atomistry »
  Chlorine »
    PDB 5cu3-5d0t »
      5d04 »

Chlorine in PDB 5d04: Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated

Enzymatic activity of Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated

All present enzymatic activity of Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated:
2.5.1.54;

Protein crystallography data

The structure of Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated, PDB code: 5d04 was solved by L.C.Heyes, E.J.Parker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 75.43 / 1.70
Space group P 21 2 21
Cell size a, b, c (Å), α, β, γ (°) 73.620, 75.430, 143.939, 90.00, 90.00, 90.00
R / Rfree (%) 15.2 / 17.8

Other elements in 5d04:

The structure of Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated also contains other interesting chemical elements:

Manganese (Mn) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated (pdb code 5d04). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated, PDB code: 5d04:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 5d04

Go back to Chlorine Binding Sites List in 5d04
Chlorine binding site 1 out of 6 in the Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl402

b:42.0
occ:1.00
 O C:HOH508 2.6 26.8 1.0
OD2 C:ASP200 2.7 19.5 1.0
NH2 C:ARG175 2.9 14.2 1.0
OG1 D:THR102 3.3 25.9 1.0
CB C:ASP200 3.4 17.8 1.0
NH1 C:ARG175 3.4 14.5 1.0
CG C:ASP200 3.5 19.0 1.0
CZ C:ARG175 3.6 13.6 1.0
O D:HOH567 3.9 25.8 1.0
CA C:ILE197 4.3 17.6 1.0
CG C:GLU170 4.3 13.5 1.0
OE2 C:GLU170 4.4 14.9 1.0
CG2 C:ILE197 4.6 19.5 1.0
CB D:THR102 4.6 26.6 1.0
OD1 C:ASP200 4.7 20.7 1.0
O C:ILE197 4.7 16.2 1.0
O C:LYS196 4.7 17.6 1.0
CB C:ILE197 4.8 18.4 1.0
CG2 D:THR102 4.8 26.5 1.0
NZ C:LYS196 4.8 35.6 1.0
CD C:GLU170 4.8 15.0 1.0
CA C:ASP200 4.9 17.6 1.0
NE C:ARG175 4.9 13.3 1.0
C C:ILE197 5.0 17.3 1.0

Chlorine binding site 2 out of 6 in 5d04

Go back to Chlorine Binding Sites List in 5d04
Chlorine binding site 2 out of 6 in the Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl403

b:25.9
occ:1.00
 O C:HOH725 3.0 21.1 1.0
O C:HOH704 3.1 36.5 1.0
NZ C:LYS188 3.1 18.4 1.0
NE C:ARG236 3.2 19.9 1.0
NH1 C:ARG236 3.4 21.5 1.0
CG C:HIS270 3.6 19.0 1.0
ND1 C:HIS270 3.7 18.7 1.0
CZ C:ARG236 3.8 21.5 1.0
CB C:HIS270 3.8 19.8 1.0
CD C:LYS188 3.8 17.7 1.0
CE C:LYS188 3.9 18.1 1.0
CD2 C:HIS270 4.1 19.6 1.0
O C:HOH757 4.2 31.9 1.0
CD C:ARG236 4.3 19.1 1.0
CE1 C:HIS270 4.3 19.0 1.0
CG C:ARG236 4.3 18.2 1.0
OD2 C:ASP267 4.3 17.9 1.0
CB C:ARG236 4.4 17.8 1.0
NE2 C:HIS270 4.5 18.9 1.0
O C:HOH574 4.7 25.9 1.0
O C:HOH667 4.7 34.1 1.0
O C:HOH733 4.7 22.4 1.0
CB C:ALA166 4.8 16.4 1.0
NH2 C:ARG167 5.0 28.7 1.0

Chlorine binding site 3 out of 6 in 5d04

Go back to Chlorine Binding Sites List in 5d04
Chlorine binding site 3 out of 6 in the Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl404

b:33.0
occ:1.00
 O C:HOH733 2.8 22.4 1.0
O C:HOH574 3.0 25.9 1.0
OH C:TYR96 3.0 17.9 1.0
NZ C:LYS188 3.3 18.4 1.0
CE C:LYS188 3.4 18.1 1.0
CE2 C:TYR96 3.5 16.1 1.0
CB C:ALA163 3.6 15.0 1.0
CD C:LYS188 3.6 17.7 1.0
CZ C:TYR96 3.7 16.7 1.0
SD C:MET302 3.9 24.9 1.0
O C:HOH735 3.9 26.1 1.0
CE C:MET302 4.3 20.3 1.0
NH1 C:ARG94 4.4 21.0 1.0
CG C:LYS188 4.6 17.5 1.0
O C:HOH725 4.7 21.1 1.0
OE1 C:GLU145 4.7 16.9 1.0
CD2 C:TYR96 4.7 15.9 1.0
CA C:GLY165 5.0 14.2 1.0

Chlorine binding site 4 out of 6 in 5d04

Go back to Chlorine Binding Sites List in 5d04
Chlorine binding site 4 out of 6 in the Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl405

b:23.3
occ:1.00
 O D:HOH573 2.8 28.1 1.0
O D:HOH580 3.0 14.5 1.0
O D:HOH836 3.1 27.9 1.0
N C:LYS216 3.2 12.1 1.0
O C:HOH726 3.4 17.3 1.0
CB C:THR215 3.7 12.4 1.0
CA C:THR215 3.8 11.8 1.0
CG C:LYS216 3.8 13.2 1.0
C C:THR215 4.0 12.0 1.0
CB C:LYS216 4.0 12.7 1.0
CA C:LYS216 4.2 12.2 1.0
CB D:VAL15 4.2 18.7 1.0
CG1 D:VAL15 4.3 18.6 1.0
CG2 C:THR215 4.3 12.8 1.0
O D:HOH510 4.4 20.4 1.0
NE2 C:GLN153 4.6 11.7 1.0
CG2 D:VAL15 4.9 17.8 1.0
O D:VAL15 4.9 20.3 1.0
OG1 C:THR215 4.9 12.2 1.0
CD C:LYS216 5.0 12.9 1.0
OD2 D:ASP9 5.0 16.9 1.0

Chlorine binding site 5 out of 6 in 5d04

Go back to Chlorine Binding Sites List in 5d04
Chlorine binding site 5 out of 6 in the Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl402

b:19.7
occ:1.00
 O D:HOH749 3.0 36.1 1.0
O D:HOH727 3.0 14.1 1.0
NZ D:LYS188 3.1 13.2 1.0
NE D:ARG236 3.2 12.5 1.0
NH2 D:ARG236 3.3 15.3 1.0
CG D:HIS270 3.6 11.4 1.0
CD D:LYS188 3.7 13.2 1.0
CB D:HIS270 3.7 11.2 1.0
CZ D:ARG236 3.8 13.5 1.0
ND1 D:HIS270 3.8 11.3 1.0
CE D:LYS188 3.9 13.4 1.0
CD2 D:HIS270 4.0 11.4 1.0
CG D:ARG236 4.3 11.6 1.0
CD D:ARG236 4.3 12.1 1.0
O D:HOH814 4.3 25.4 1.0
CE1 D:HIS270 4.3 11.3 1.0
CB D:ARG236 4.5 11.4 1.0
OD2 D:ASP267 4.5 10.4 1.0
NE2 D:HIS270 4.5 11.5 1.0
O D:HOH756 4.6 27.0 1.0
CB D:ALA166 4.6 11.4 1.0
O D:HOH603 4.7 21.8 1.0
O D:HOH763 4.8 19.2 1.0
NH1 D:ARG167 5.0 26.6 1.0

Chlorine binding site 6 out of 6 in 5d04

Go back to Chlorine Binding Sites List in 5d04
Chlorine binding site 6 out of 6 in the Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl403

b:30.4
occ:1.00
 O D:HOH763 2.8 19.2 1.0
O D:HOH603 2.9 21.8 1.0
OH D:TYR96 3.0 13.0 1.0
NZ D:LYS188 3.3 13.2 1.0
CE D:LYS188 3.4 13.4 1.0
CE2 D:TYR96 3.5 11.7 1.0
CB D:ALA163 3.6 12.1 1.0
CD D:LYS188 3.7 13.2 1.0
CZ D:TYR96 3.7 11.7 1.0
O D:HOH781 3.9 21.6 1.0
SD D:MET302 4.1 18.3 1.0
CE D:MET302 4.4 16.1 1.0
NH1 D:ARG94 4.5 15.6 1.0
CG D:LYS188 4.5 13.2 1.0
O D:HOH727 4.7 14.1 1.0
OE1 D:GLU145 4.7 12.6 1.0
CD2 D:TYR96 4.8 11.6 1.0
CA D:GLY165 4.9 10.7 1.0

Reference:

L.C.Heyes, E.J.Parker. Neisseria Meningitidis 3 Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase VAL223ALA Variant Regulated at 1.70 Angstroms Resolution To Be Published.
Page generated: Sat Dec 12 11:37:05 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy