Atomistry » Chlorine » PDB 1l9n-1lwg » 1lkd
Atomistry »
  Chlorine »
    PDB 1l9n-1lwg »
      1lkd »

Chlorine in PDB 1lkd: Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb)

Enzymatic activity of Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb)

All present enzymatic activity of Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb):
1.13.11.39;

Protein crystallography data

The structure of Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb), PDB code: 1lkd was solved by S.Dai, J.T.Bolin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.97 / 1.70
Space group I 4 2 2
Cell size a, b, c (Å), α, β, γ (°) 122.640, 122.640, 107.232, 90.00, 90.00, 90.00
R / Rfree (%) 20.3 / 22

Other elements in 1lkd:

The structure of Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb) also contains other interesting chemical elements:

Iron (Fe) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb) (pdb code 1lkd). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb), PDB code: 1lkd:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 1lkd

Go back to Chlorine Binding Sites List in 1lkd
Chlorine binding site 1 out of 4 in the Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb)


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 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl300

b:12.7
occ:1.00
 CL1 A:BP6300 0.0 12.7 1.0
CB2 A:BP6300 1.7 18.5 1.0
CB3 A:BP6300 2.7 19.6 1.0
CB1 A:BP6300 2.8 16.4 1.0
CA1 A:BP6300 3.2 13.6 1.0
O A:HOH9092 3.4 19.8 1.0
CG2 A:VAL148 3.4 18.8 1.0
CA2 A:BP6300 3.5 15.1 1.0
OA2 A:BP6300 3.5 14.9 1.0
CG1 A:VAL148 3.8 17.1 1.0
CE2 A:PHE187 3.8 13.6 1.0
CZ A:PHE187 3.9 13.0 1.0
CE1 A:HIS210 4.0 14.3 1.0
CB4 A:BP6300 4.0 21.1 1.0
CA6 A:BP6300 4.0 13.6 1.0
CB6 A:BP6300 4.1 17.6 1.0
CE A:MET175 4.2 33.6 1.0
CB A:VAL148 4.2 15.5 1.0
CB A:ALA198 4.3 11.0 1.0
CA3 A:BP6300 4.5 13.6 1.0
CB5 A:BP6300 4.6 19.6 1.0
CE2 A:PHE202 4.7 22.3 1.0
FE A:FE2500 4.8 12.9 1.0
NE2 A:HIS210 4.8 13.9 1.0
ND1 A:HIS210 4.9 12.4 1.0
CA5 A:BP6300 4.9 13.6 1.0
CZ A:PHE202 5.0 23.7 1.0
CD2 A:PHE187 5.0 12.5 1.0

Chlorine binding site 2 out of 4 in 1lkd

Go back to Chlorine Binding Sites List in 1lkd
Chlorine binding site 2 out of 4 in the Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb)


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 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl300

b:7.7
occ:1.00
 CL2 A:BP6300 0.0 7.7 1.0
CB6 A:BP6300 1.7 17.6 1.0
CB5 A:BP6300 2.7 19.6 1.0
CB1 A:BP6300 2.8 16.4 1.0
O A:HOH9189 2.9 63.5 1.0
CA1 A:BP6300 3.2 13.6 1.0
CE1 A:HIS241 3.3 14.6 1.0
OH A:TYR250 3.5 16.5 1.0
CA6 A:BP6300 3.6 13.6 1.0
CB A:PRO280 3.7 15.9 1.0
CG A:PRO280 3.9 16.0 1.0
ND1 A:HIS241 4.0 13.3 1.0
CB4 A:BP6300 4.0 21.1 1.0
CB2 A:BP6300 4.1 18.5 1.0
CA2 A:BP6300 4.1 15.1 1.0
CZ A:TYR250 4.2 15.3 1.0
C5 A:P6G600 4.2 45.2 1.0
C3 A:P6G600 4.2 43.0 1.0
OG A:SER281 4.4 20.1 1.0
CE1 A:TYR250 4.4 14.3 1.0
NE2 A:HIS241 4.5 13.4 1.0
O7 A:P6G600 4.5 47.4 1.0
OA2 A:BP6300 4.5 14.9 1.0
CB3 A:BP6300 4.6 19.6 1.0
O4 A:P6G600 4.6 43.9 1.0
CA5 A:BP6300 4.7 13.6 1.0
O A:PRO280 4.8 14.0 1.0
ND1 A:HIS285 4.9 13.4 1.0
CA A:PRO280 4.9 13.8 1.0
C A:PRO280 4.9 14.4 1.0
CE A:MET175 4.9 33.6 1.0

Chlorine binding site 3 out of 4 in 1lkd

Go back to Chlorine Binding Sites List in 1lkd
Chlorine binding site 3 out of 4 in the Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb)


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 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl301

b:37.9
occ:1.00
 CL1 A:BP6301 0.0 37.9 1.0
CB2 A:BP6301 1.7 37.7 1.0
CB3 A:BP6301 2.7 37.5 1.0
CB1 A:BP6301 2.8 37.4 1.0
CA1 A:BP6301 3.2 36.9 1.0
CD2 A:LEU204 3.4 25.0 1.0
CA2 A:BP6301 3.5 37.3 1.0
OA2 A:BP6301 3.5 38.0 1.0
CD A:PRO205 3.9 24.2 1.0
CB4 A:BP6301 4.0 38.3 1.0
CA6 A:BP6301 4.0 36.1 1.0
CB6 A:BP6301 4.1 37.1 1.0
CA3 A:BP6301 4.5 37.7 1.0
CB5 A:BP6301 4.6 37.4 1.0
CG A:PRO205 4.7 24.9 1.0
CG A:LEU204 4.7 26.3 1.0
CA A:LEU204 4.7 22.2 1.0
O A:PRO203 4.8 22.5 1.0
CB A:LEU204 4.8 22.4 1.0
CA5 A:BP6301 4.9 36.5 1.0

Chlorine binding site 4 out of 4 in 1lkd

Go back to Chlorine Binding Sites List in 1lkd
Chlorine binding site 4 out of 4 in the Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of 2,3-Dihydroxybiphenyl 1,2-Dioxygenase (Dhbd) Complexed with 2',6'-Dicl Dihydroxybiphenyl (Dhb) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl301

b:36.0
occ:1.00
 CL2 A:BP6301 0.0 36.0 1.0
CB6 A:BP6301 1.7 37.1 1.0
CB5 A:BP6301 2.7 37.4 1.0
CB1 A:BP6301 2.8 37.4 1.0
O A:SER255 3.0 22.7 1.0
CA1 A:BP6301 3.3 36.9 1.0
CE A:LYS206 3.3 25.4 1.0
CA A:GLY256 3.3 19.2 1.0
C A:GLY256 3.6 19.7 1.0
CA6 A:BP6301 3.6 36.1 1.0
N A:VAL257 3.8 17.3 1.0
CG A:LYS206 3.9 22.7 1.0
C A:SER255 3.9 20.8 1.0
CB4 A:BP6301 4.0 38.3 1.0
CB2 A:BP6301 4.1 37.7 1.0
N A:GLY256 4.1 18.8 1.0
CA2 A:BP6301 4.1 37.3 1.0
CD A:LYS206 4.1 23.8 1.0
O A:GLY256 4.2 20.6 1.0
NZ A:LYS206 4.3 26.0 1.0
CB3 A:BP6301 4.6 37.5 1.0
OA2 A:BP6301 4.6 38.0 1.0
CA5 A:BP6301 4.7 36.5 1.0
CA A:VAL257 4.8 18.2 1.0

Reference:

S.Dai, F.H.Vaillancourt, H.Maaroufi, N.M.Drouin, D.B.Neau, V.Snieckus, J.T.Bolin, L.D.Eltis. Identification and Analysis of A Bottleneck in Pcb Biodegradation Nat.Struct.Biol. V. 9 934 2002.
ISSN: ISSN 1072-8368
PubMed: 12415290
DOI: 10.1038/NSB866
Page generated: Thu Jul 10 18:04:13 2025

Last articles

Mg in 3C9U
Mg in 3CBT
Mg in 3CBQ
Mg in 3CBG
Mg in 3CBE
Mg in 3C9T
Mg in 3CB9
Mg in 3CAW
Mg in 3CA9
Mg in 3C5P
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy