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Chlorine in PDB 4eac: Crystal Structure of Mannonate Dehydratase From Escherichia Coli Strain K12

Enzymatic activity of Crystal Structure of Mannonate Dehydratase From Escherichia Coli Strain K12

All present enzymatic activity of Crystal Structure of Mannonate Dehydratase From Escherichia Coli Strain K12:
4.2.1.8;

Protein crystallography data

The structure of Crystal Structure of Mannonate Dehydratase From Escherichia Coli Strain K12, PDB code: 4eac was solved by X.Qiu, Y.Zhu, Y.Yuan, Y.Zhang, H.Liu, Y.Gao, M.Teng, L.Niu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.42 / 2.30
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 158.961, 238.461, 54.345, 90.00, 90.00, 90.00
R / Rfree (%) 18.3 / 21.9

Other elements in 4eac:

The structure of Crystal Structure of Mannonate Dehydratase From Escherichia Coli Strain K12 also contains other interesting chemical elements:

Manganese (Mn) 4 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Mannonate Dehydratase From Escherichia Coli Strain K12 (pdb code 4eac). 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 Mannonate Dehydratase From Escherichia Coli Strain K12, PDB code: 4eac:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 4eac

Go back to Chlorine Binding Sites List in 4eac
Chlorine binding site 1 out of 4 in the Crystal Structure of Mannonate Dehydratase From Escherichia Coli Strain K12


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 Mannonate Dehydratase From Escherichia Coli Strain K12 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl401

b:10.3
occ:1.00
 NH1 A:ARG349 3.1 11.9 1.0
NH1 A:ARG373 3.2 7.2 1.0
N A:ARG6 3.3 12.1 1.0
N A:ASP351 3.5 12.9 1.0
CD A:ARG349 3.7 12.8 1.0
CD A:PRO350 3.7 12.7 1.0
CB A:ARG349 3.7 13.2 1.0
CG A:PRO350 3.8 11.5 1.0
CG A:ARG349 3.9 12.2 1.0
CA A:TRP5 3.9 12.9 1.0
CD A:ARG373 3.9 8.3 1.0
CA A:ASP351 4.0 13.5 1.0
CB A:ARG6 4.0 12.4 1.0
O A:ASP351 4.0 13.8 1.0
N A:PRO350 4.1 12.4 1.0
C A:TRP5 4.1 13.0 1.0
CZ A:ARG349 4.2 12.3 1.0
CA A:ARG6 4.2 12.6 1.0
CZ A:ARG373 4.3 9.5 1.0
C A:ASP351 4.3 13.9 1.0
NE A:ARG349 4.4 12.9 1.0
C A:PRO350 4.5 12.4 1.0
C A:ARG349 4.5 12.7 1.0
CG A:TRP5 4.5 12.8 1.0
NE A:ARG373 4.5 8.9 1.0
CA A:ARG349 4.6 13.5 1.0
O A:THR4 4.6 13.6 1.0
CD2 A:TRP5 4.7 11.4 1.0
CA A:PRO350 4.7 12.0 1.0
CB A:TRP5 4.7 12.6 1.0
O A:ARG6 4.8 11.6 1.0
CB A:PRO350 4.8 11.8 1.0
CE1 A:TYR368 4.9 11.7 1.0
N A:TRP5 4.9 13.8 1.0
CE3 A:TRP5 4.9 11.2 1.0
CG A:ARG373 5.0 6.8 1.0
CD1 A:TRP5 5.0 11.9 1.0

Chlorine binding site 2 out of 4 in 4eac

Go back to Chlorine Binding Sites List in 4eac
Chlorine binding site 2 out of 4 in the Crystal Structure of Mannonate Dehydratase From Escherichia Coli Strain K12


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 Mannonate Dehydratase From Escherichia Coli Strain K12 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl401

b:10.4
occ:1.00
 NH1 B:ARG349 3.1 11.2 1.0
N B:ARG6 3.2 11.2 1.0
NH1 B:ARG373 3.2 6.1 1.0
N B:ASP351 3.5 13.2 1.0
CD B:ARG349 3.6 11.6 1.0
CD B:PRO350 3.6 11.9 1.0
CG B:PRO350 3.7 12.1 1.0
CB B:ARG349 3.7 11.8 1.0
CG B:ARG349 3.8 10.7 1.0
CA B:TRP5 3.8 11.5 1.0
CD B:ARG373 3.9 8.7 1.0
N B:PRO350 4.0 12.4 1.0
C B:TRP5 4.0 11.4 1.0
CB B:ARG6 4.0 10.7 1.0
CA B:ASP351 4.1 13.6 1.0
O B:ASP351 4.1 14.5 1.0
CZ B:ARG349 4.2 11.7 1.0
CA B:ARG6 4.2 11.2 1.0
CZ B:ARG373 4.3 7.7 1.0
NE B:ARG349 4.3 12.4 1.0
C B:ASP351 4.4 14.4 1.0
CG B:TRP5 4.5 11.6 1.0
C B:PRO350 4.5 13.2 1.0
C B:ARG349 4.5 12.2 1.0
NE B:ARG373 4.5 8.6 1.0
O B:THR4 4.6 12.1 1.0
CA B:ARG349 4.6 12.2 1.0
CA B:PRO350 4.6 12.7 1.0
CD2 B:TRP5 4.6 10.2 1.0
CB B:TRP5 4.7 11.5 1.0
CB B:PRO350 4.7 12.3 1.0
O B:ARG6 4.9 11.2 1.0
N B:TRP5 4.9 12.0 1.0
CD1 B:TRP5 4.9 10.1 1.0
CG B:ARG373 4.9 8.5 1.0
CE3 B:TRP5 4.9 10.3 1.0
CE1 B:TYR368 5.0 12.4 1.0

Chlorine binding site 3 out of 4 in 4eac

Go back to Chlorine Binding Sites List in 4eac
Chlorine binding site 3 out of 4 in the Crystal Structure of Mannonate Dehydratase From Escherichia Coli Strain K12


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 Mannonate Dehydratase From Escherichia Coli Strain K12 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl401

b:14.9
occ:1.00
 NH1 C:ARG373 3.2 9.7 1.0
NH1 C:ARG349 3.2 15.2 1.0
N C:ARG6 3.2 13.9 1.0
N C:ASP351 3.6 16.1 1.0
CB C:ARG349 3.6 13.6 1.0
CD C:ARG349 3.6 14.7 1.0
CG C:PRO350 3.7 13.5 1.0
CD C:PRO350 3.8 13.4 1.0
CA C:TRP5 3.8 13.4 1.0
CD C:ARG373 3.8 11.7 1.0
CG C:ARG349 3.9 14.1 1.0
C C:TRP5 4.0 14.1 1.0
CB C:ARG6 4.1 14.5 1.0
N C:PRO350 4.1 13.9 1.0
CA C:ASP351 4.1 16.9 1.0
O C:ASP351 4.1 18.5 1.0
CA C:ARG6 4.2 14.5 1.0
CZ C:ARG349 4.2 15.9 1.0
CZ C:ARG373 4.3 10.7 1.0
NE C:ARG349 4.4 15.5 1.0
C C:ASP351 4.4 17.7 1.0
CG C:TRP5 4.5 13.0 1.0
NE C:ARG373 4.5 11.7 1.0
C C:ARG349 4.5 13.6 1.0
C C:PRO350 4.6 15.1 1.0
CA C:ARG349 4.6 13.6 1.0
O C:THR4 4.6 13.7 1.0
CD2 C:TRP5 4.6 12.1 1.0
CB C:TRP5 4.6 13.1 1.0
CA C:PRO350 4.7 14.3 1.0
CB C:PRO350 4.8 13.8 1.0
O C:ARG6 4.8 14.3 1.0
N C:TRP5 4.8 13.7 1.0
CG C:ARG373 4.9 10.6 1.0
CD1 C:TRP5 4.9 12.6 1.0
CE1 C:TYR368 4.9 17.8 1.0
CE3 C:TRP5 5.0 10.2 1.0

Chlorine binding site 4 out of 4 in 4eac

Go back to Chlorine Binding Sites List in 4eac
Chlorine binding site 4 out of 4 in the Crystal Structure of Mannonate Dehydratase From Escherichia Coli Strain K12


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 Mannonate Dehydratase From Escherichia Coli Strain K12 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl401

b:21.5
occ:1.00
 NH1 D:ARG373 3.1 17.8 1.0
NH1 D:ARG349 3.2 24.7 1.0
N D:ARG6 3.2 23.5 1.0
CD D:ARG349 3.6 24.2 1.0
N D:ASP351 3.6 22.4 1.0
CB D:ARG349 3.7 23.2 1.0
CD D:PRO350 3.7 20.2 1.0
CD D:ARG373 3.7 17.0 1.0
CG D:ARG349 3.8 23.5 1.0
CA D:TRP5 3.8 22.6 1.0
CG D:PRO350 3.9 19.6 1.0
CB D:ARG6 4.0 24.3 1.0
C D:TRP5 4.0 23.6 1.0
N D:PRO350 4.1 20.8 1.0
O D:ASP351 4.1 24.6 1.0
CA D:ASP351 4.1 23.7 1.0
CZ D:ARG373 4.2 17.7 1.0
CA D:ARG6 4.2 24.4 1.0
CZ D:ARG349 4.2 25.2 1.0
NE D:ARG349 4.3 24.9 1.0
NE D:ARG373 4.4 18.1 1.0
C D:ASP351 4.4 23.7 1.0
CG D:TRP5 4.5 21.1 1.0
C D:ARG349 4.5 21.8 1.0
CA D:ARG349 4.6 22.6 1.0
CD2 D:TRP5 4.6 18.9 1.0
C D:PRO350 4.6 21.0 1.0
CB D:TRP5 4.6 21.9 1.0
O D:THR4 4.7 23.1 1.0
CA D:PRO350 4.8 20.3 1.0
CG D:ARG373 4.8 16.1 1.0
CD1 D:TRP5 4.9 20.7 1.0
N D:TRP5 4.9 23.6 1.0
O D:ARG6 4.9 23.8 1.0
CE1 D:TYR368 4.9 24.2 1.0
CB D:PRO350 4.9 18.7 1.0
CE3 D:TRP5 4.9 17.1 1.0

Reference:

X.Qiu, Y.Tao, Y.Zhu, Y.Yuan, Y.Zhang, H.Liu, Y.Gao, M.Teng, L.Niu. Structural Insights Into Decreased Enzymatic Activity Induced By An Insert Sequence in Mannonate Dehydratase From Gram Negative Bacterium. J.Struct.Biol. V. 180 327 2012.
ISSN: ISSN 1047-8477
PubMed: 22796868
DOI: 10.1016/J.JSB.2012.06.013
Page generated: Sat Dec 12 10:34:00 2020

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