Atomistry » Bromine » PDB 101d-1e5a » 1d07
Atomistry »
  Bromine »
    PDB 101d-1e5a »
      1d07 »

Bromine in PDB 1d07: Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis UT26 with 1,3-Propanediol, A Product of Debromidation of Dibrompropane, at 2.0A Resolution

Enzymatic activity of Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis UT26 with 1,3-Propanediol, A Product of Debromidation of Dibrompropane, at 2.0A Resolution

All present enzymatic activity of Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis UT26 with 1,3-Propanediol, A Product of Debromidation of Dibrompropane, at 2.0A Resolution:
3.8.1.5;

Protein crystallography data

The structure of Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis UT26 with 1,3-Propanediol, A Product of Debromidation of Dibrompropane, at 2.0A Resolution, PDB code: 1d07 was solved by J.Marek, J.Vevodova, J.Damborsky, I.Smatanova, L.A.Svensson, J.Newman, Y.Nagata, M.Takagi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.00
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 50.227, 71.721, 73.319, 90.00, 90.00, 90.00
R / Rfree (%) 16.9 / 27.4

Bromine Binding Sites:

The binding sites of Bromine atom in the Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis UT26 with 1,3-Propanediol, A Product of Debromidation of Dibrompropane, at 2.0A Resolution (pdb code 1d07). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 2 binding sites of Bromine where determined in the Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis UT26 with 1,3-Propanediol, A Product of Debromidation of Dibrompropane, at 2.0A Resolution, PDB code: 1d07:
Jump to Bromine binding site number: 1; 2;

Bromine binding site 1 out of 2 in 1d07

Go back to Bromine Binding Sites List in 1d07
Bromine binding site 1 out of 2 in the Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis UT26 with 1,3-Propanediol, A Product of Debromidation of Dibrompropane, at 2.0A Resolution


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis UT26 with 1,3-Propanediol, A Product of Debromidation of Dibrompropane, at 2.0A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br901

b:23.8
occ:0.71
 C3 A:PDO903 3.2 40.6 0.7
NE1 A:TRP109 3.5 16.3 1.0
N A:PRO208 3.5 11.3 1.0
CZ A:PHE169 3.6 17.5 1.0
CA A:PRO208 3.6 7.2 1.0
ND2 A:ASN38 3.7 6.9 1.0
C2 A:PDO903 3.8 42.8 0.7
CD A:PRO208 3.8 13.4 1.0
CE2 A:PHE169 3.9 18.4 1.0
CD1 A:TRP109 3.9 13.2 1.0
C A:TRP207 3.9 12.1 1.0
CB A:PRO208 3.9 13.5 1.0
CD1 A:ILE211 3.9 18.0 1.0
CE2 A:PHE151 4.0 13.4 1.0
CB A:ASN38 4.1 13.9 1.0
CB A:TRP207 4.1 15.3 1.0
O A:TRP207 4.3 14.9 1.0
CG1 A:ILE211 4.3 26.6 1.0
CG A:ASN38 4.4 9.6 1.0
O3 A:PDO903 4.4 39.0 0.7
CG A:PRO208 4.5 16.3 1.0
C1 A:PDO903 4.5 45.2 0.7
CE1 A:PHE169 4.6 12.7 1.0
CZ A:PHE151 4.6 23.0 1.0
OD2 A:ASP108 4.7 16.4 1.0
CA A:TRP207 4.7 5.6 1.0
OD1 A:ASP108 4.7 25.0 1.0
CE2 A:TRP109 4.8 20.3 1.0
CD2 A:PHE151 5.0 17.2 1.0

Bromine binding site 2 out of 2 in 1d07

Go back to Bromine Binding Sites List in 1d07
Bromine binding site 2 out of 2 in the Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis UT26 with 1,3-Propanediol, A Product of Debromidation of Dibrompropane, at 2.0A Resolution


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis UT26 with 1,3-Propanediol, A Product of Debromidation of Dibrompropane, at 2.0A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br902

b:29.6
occ:0.71
 O A:HOH1007 2.3 23.9 1.0
O A:PRO175 2.4 15.2 1.0
O A:ILE178 2.4 18.5 1.0
O A:HOH1028 2.7 25.5 1.0
C A:PRO175 3.5 14.3 1.0
C A:ILE178 3.6 26.2 1.0
N A:ILE178 4.2 16.7 1.0
N A:GLY176 4.3 12.2 1.0
CA A:GLY176 4.3 11.1 1.0
CA A:ILE178 4.4 17.2 1.0
C A:GLY176 4.4 19.0 1.0
CA A:PRO175 4.5 20.3 1.0
O A:ARG180 4.5 20.6 1.0
O A:HOH1041 4.6 14.9 1.0
CB A:ILE178 4.6 13.2 1.0
N A:LEU179 4.7 26.4 1.0
N A:LEU177 4.8 19.3 1.0
O A:GLY176 4.8 28.2 1.0
CA A:LEU179 4.8 20.8 1.0
C A:LEU179 4.8 23.4 1.0
CB A:PRO175 4.9 18.9 1.0

Reference:

J.Marek, J.Vevodova, I.K.Smatanova, Y.Nagata, L.A.Svensson, J.Newman, M.Takagi, J.Damborsky. Crystal Structure of the Haloalkane Dehalogenase From Sphingomonas Paucimobilis UT26. Biochemistry V. 39 14082 2000.
ISSN: ISSN 0006-2960
PubMed: 11087355
DOI: 10.1021/BI001539C
Page generated: Sun Jan 24 08:27:02 2021

Last articles

Zn in 7L0B
Zn in 7KZZ
Zn in 7KZL
Zn in 7L3O
Zn in 7L52
Zn in 7L6T
Zn in 7KZ7
Zn in 7L6R
Zn in 7KKM
Zn in 7KKQ
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy