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Bromine in PDB 1lz9: Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme

Enzymatic activity of Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme

All present enzymatic activity of Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme:
3.2.1.17;

Protein crystallography data

The structure of Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme, PDB code: 1lz9 was solved by Z.Dauter, M.Dauter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.70
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.600, 78.600, 37.200, 90.00, 90.00, 90.00
R / Rfree (%) 21 / 29

Other elements in 1lz9:

The structure of Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme also contains other interesting chemical elements:

Sodium (Na) 1 atom

Bromine Binding Sites:

The binding sites of Bromine atom in the Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme (pdb code 1lz9). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 6 binding sites of Bromine where determined in the Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme, PDB code: 1lz9:
Jump to Bromine binding site number: 1; 2; 3; 4; 5; 6;

Bromine binding site 1 out of 6 in 1lz9

Go back to Bromine Binding Sites List in 1lz9
Bromine binding site 1 out of 6 in the Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br201

b:23.0
occ:1.00
 OH A:TYR23 3.2 9.8 1.0
O A:HOH218 3.5 13.4 1.0
CE2 A:TYR23 3.9 10.7 1.0
CZ A:TYR23 3.9 9.2 1.0
CA A:GLY104 4.2 7.4 1.0
O A:HOH322 4.4 33.1 1.0
O A:ARG21 4.7 11.9 1.0
N A:GLY104 4.7 10.2 1.0
O A:HOH235 4.8 18.7 1.0

Bromine binding site 2 out of 6 in 1lz9

Go back to Bromine Binding Sites List in 1lz9
Bromine binding site 2 out of 6 in the Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br202

b:24.5
occ:1.00
 OG A:SER24 3.2 15.9 1.0
N A:GLY26 3.3 12.0 1.0
CB A:SER24 3.6 12.7 1.0
CA A:GLN121 3.7 14.0 1.0
CA A:GLY26 3.7 9.5 1.0
N A:GLN121 3.9 11.5 1.0
CD1 A:ILE124 4.0 32.2 1.0
CB A:GLN121 4.0 23.0 1.0
CG A:GLN121 4.2 24.0 1.0
N A:LEU25 4.3 11.9 1.0
C A:LEU25 4.4 10.9 1.0
CG1 A:ILE124 4.4 17.5 1.0
O A:VAL120 4.4 13.2 1.0
C A:SER24 4.4 12.3 1.0
C A:VAL120 4.4 10.0 1.0
O A:HOH394 4.5 28.2 0.5
CG2 A:VAL120 4.6 13.3 1.0
CA A:SER24 4.6 9.8 1.0
C A:GLY26 4.7 7.6 1.0
O A:SER24 4.8 13.6 1.0
CA A:LEU25 4.8 10.0 1.0
N A:ASN27 4.8 10.3 1.0
C A:GLN121 4.9 11.2 1.0
O A:HOH319 5.0 32.7 1.0
O A:HOH223 5.0 14.7 1.0

Bromine binding site 3 out of 6 in 1lz9

Go back to Bromine Binding Sites List in 1lz9
Bromine binding site 3 out of 6 in the Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 3 of Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br203

b:30.7
occ:1.00
 O A:HOH339 3.2 35.3 1.0
O A:HOH213 3.3 11.3 1.0
N A:THR69 3.3 12.3 1.0
O A:THR69 3.4 14.4 1.0
C A:GLY67 3.5 18.0 1.0
N A:ARG68 3.6 12.5 1.0
OD1 A:ASN65 3.7 14.3 1.0
C A:THR69 3.7 14.9 1.0
N A:GLY67 3.7 12.8 1.0
CA A:GLY67 3.8 12.1 1.0
OG A:SER72 3.9 19.1 1.0
CA A:THR69 4.0 11.2 1.0
O A:HOH226 4.0 16.3 1.0
O A:GLY67 4.1 16.4 1.0
O A:HOH295 4.1 28.3 1.0
C A:ARG68 4.2 10.4 1.0
CA A:ARG68 4.2 10.8 1.0
CB A:THR69 4.3 15.3 1.0
OD1 A:ASP66 4.5 10.9 1.0
N A:PRO70 4.6 19.3 1.0
C A:ASP66 4.8 11.2 1.0
CG A:ASN65 4.8 14.1 1.0
OG1 A:THR69 4.8 13.4 1.0
NA A:NA209 4.8 15.3 1.0
N A:ASP66 5.0 9.6 1.0

Bromine binding site 4 out of 6 in 1lz9

Go back to Bromine Binding Sites List in 1lz9
Bromine binding site 4 out of 6 in the Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 4 of Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br204

b:26.4
occ:1.00
 N A:ILE88 3.5 12.4 1.0
O A:HOH250 3.7 20.8 1.0
O A:HOH274 3.8 25.4 1.0
CE1 A:HIS15 3.8 24.7 1.0
CA A:ASP87 3.9 13.2 1.0
CG1 A:ILE88 3.9 10.2 1.0
O A:SER86 4.1 15.0 1.0
CB A:ALA11 4.1 16.4 1.0
CZ A:PHE3 4.2 10.1 1.0
C A:ASP87 4.2 10.9 1.0
OD1 A:ASP87 4.3 16.4 1.0
CG2 A:ILE88 4.3 15.1 1.0
CB A:ILE88 4.4 8.6 1.0
O A:HOH320 4.5 32.8 1.0
CA A:ILE88 4.5 11.0 1.0
NE2 A:HIS15 4.6 22.8 1.0
ND1 A:HIS15 4.6 18.4 1.0
O A:HOH371 4.7 44.1 1.0
CB A:ASP87 4.7 26.4 1.0
CG A:ASP87 4.7 37.6 1.0
CE2 A:PHE3 4.7 13.8 1.0
CD1 A:ILE88 4.7 12.4 1.0
C A:SER86 5.0 13.4 1.0
N A:ASP87 5.0 12.3 1.0

Bromine binding site 5 out of 6 in 1lz9

Go back to Bromine Binding Sites List in 1lz9
Bromine binding site 5 out of 6 in the Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 5 of Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br205

b:34.9
occ:1.00
 O A:HOH308 3.4 31.2 1.0
NZ A:LYS33 3.7 23.4 1.0
CE2 A:PHE38 3.9 17.8 1.0
O A:HOH380 3.9 24.8 0.5
CZ3 A:TRP123 4.0 16.8 1.0
CD A:ARG5 4.1 15.7 1.0
CE A:LYS33 4.2 19.3 1.0
CD A:LYS33 4.3 11.9 1.0
CB A:ARG5 4.4 14.7 1.0
CZ A:PHE38 4.5 9.4 1.0
O A:HOH400 4.5 30.2 0.5
CG A:ARG5 4.6 12.3 1.0
CE3 A:TRP123 4.7 13.5 1.0
NE A:ARG5 4.7 26.4 1.0
O A:HOH301 4.8 29.6 1.0
CD2 A:PHE38 4.8 17.1 1.0
CH2 A:TRP123 4.9 16.8 1.0

Bromine binding site 6 out of 6 in 1lz9

Go back to Bromine Binding Sites List in 1lz9
Bromine binding site 6 out of 6 in the Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 6 of Anomalous Signal of Solvent Bromines Used For Phasing of Lysozyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br206

b:46.8
occ:1.00
 O A:HOH263 2.6 22.9 1.0
O A:HOH404 3.2 33.2 0.5
ND2 A:ASN65 3.5 24.8 1.0
CA A:PRO79 3.9 9.7 1.0
CB A:PRO79 4.0 10.1 1.0
N A:PRO79 4.0 11.1 1.0
CB A:ASN65 4.1 7.8 1.0
CD A:PRO79 4.2 14.3 1.0
CG A:ASN65 4.3 14.1 1.0
CG A:PRO79 4.3 12.4 1.0
C A:ILE78 4.6 10.9 1.0
O A:ASN65 4.6 9.6 1.0
O A:ILE78 4.8 12.7 1.0
ND2 A:ASN74 4.8 16.4 1.0
O A:HOH321 4.8 33.0 1.0

Reference:

Z.Dauter, M.Dauter. Anomalous Signal of Solvent Bromides Used For Phasing of Lysozyme. J.Mol.Biol. V. 289 93 1999.
ISSN: ISSN 0022-2836
PubMed: 10339408
DOI: 10.1006/JMBI.1999.2744
Page generated: Wed Jul 10 16:51:29 2024

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