Chlorine in PDB 8d1x: Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae

Enzymatic activity of Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae

All present enzymatic activity of Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae:
3.4.11.1; 3.4.11.10;

Protein crystallography data

The structure of Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae, PDB code: 8d1x was solved by Seattle Structural Genomics Center For Infectious Disease, Seattlestructural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.17 / 2.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 96.61, 93.25, 179.47, 90, 101.32, 90
R / Rfree (%) 17 / 20.3

Other elements in 8d1x:

The structure of Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae also contains other interesting chemical elements:

Manganese (Mn) 6 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae (pdb code 8d1x). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae, PDB code: 8d1x:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 8d1x

Go back to Chlorine Binding Sites List in 8d1x
Chlorine binding site 1 out of 6 in the Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae


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 Aminopeptidase A From Neisseria Gonorrhoeae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl501

b:50.4
occ:1.00
 NH1 A:ARG328 2.8 48.2 1.0
N A:GLY327 3.4 40.8 1.0
O A:LEU352 3.4 46.3 1.0
CD1 A:LEU352 3.4 35.7 1.0
N A:ARG328 3.7 40.1 1.0
CA A:GLY327 3.7 37.8 1.0
N A:GLU326 3.8 45.2 1.0
CA A:ALA325 3.9 44.8 1.0
C A:ALA325 3.9 42.1 1.0
CG A:ARG328 3.9 40.9 1.0
CZ A:ARG328 4.0 45.1 1.0
CG A:LEU352 4.1 36.0 1.0
C A:GLY327 4.2 38.2 1.0
NZ A:LYS242 4.2 44.5 1.0
C A:LEU352 4.3 40.5 1.0
O A:ASP324 4.4 53.4 1.0
O A:HOH601 4.4 43.7 1.0
C A:GLU326 4.4 40.5 1.0
MN A:MN500 4.4 59.5 1.0
CD A:ARG328 4.4 38.5 1.0
O A:ALA325 4.5 41.3 1.0
CB A:ALA325 4.5 43.2 1.0
CA A:LEU352 4.6 35.7 1.0
NE A:ARG328 4.7 36.6 1.0
CA A:GLU326 4.7 43.8 1.0
CA A:ARG328 4.8 34.0 1.0
CB A:ARG328 4.8 35.5 1.0
OE2 A:GLU326 4.9 51.0 1.0
CB A:LEU352 5.0 39.1 1.0
NH2 A:ARG328 5.0 50.7 1.0
N A:ALA325 5.0 47.4 1.0

Chlorine binding site 2 out of 6 in 8d1x

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Chlorine binding site 2 out of 6 in the Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae


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 Aminopeptidase A From Neisseria Gonorrhoeae within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl501

b:57.0
occ:1.00
 NH1 B:ARG328 3.0 44.0 1.0
O B:LEU352 3.1 52.6 1.0
N B:GLY327 3.5 41.2 1.0
CD1 B:LEU352 3.6 39.5 1.0
CA B:GLY327 3.8 39.5 1.0
N B:ARG328 3.8 36.8 1.0
CA B:ALA325 4.0 41.2 1.0
N B:GLU326 4.0 45.7 1.0
O B:HOH601 4.0 43.9 1.0
C B:LEU352 4.1 47.1 1.0
C B:ALA325 4.1 45.5 1.0
NZ B:LYS242 4.1 48.2 1.0
CG B:ARG328 4.1 39.7 1.0
CG B:LEU352 4.2 36.4 1.0
MN B:MN500 4.2 61.4 1.0
C B:GLY327 4.3 38.5 1.0
CZ B:ARG328 4.3 41.0 1.0
O B:ASP324 4.4 53.7 1.0
CA B:LEU352 4.4 44.5 1.0
C B:GLU326 4.5 43.4 1.0
O B:ALA325 4.7 41.0 1.0
CD B:ARG328 4.7 33.8 1.0
CB B:ALA325 4.7 35.7 1.0
CA B:GLU326 4.9 45.0 1.0
CB B:LEU352 4.9 42.8 1.0
OE2 B:GLU326 4.9 54.1 1.0
NE B:ARG328 4.9 30.4 1.0
CA B:ARG328 4.9 33.4 1.0
CB B:ARG328 5.0 37.3 1.0

Chlorine binding site 3 out of 6 in 8d1x

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Chlorine binding site 3 out of 6 in the Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae


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 Aminopeptidase A From Neisseria Gonorrhoeae within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl501

b:61.8
occ:1.00
 NH1 C:ARG328 3.0 47.3 1.0
O C:LEU352 3.3 52.8 1.0
N C:GLY327 3.3 49.4 1.0
CD1 C:LEU352 3.5 47.9 1.0
N C:ARG328 3.6 47.0 1.0
CA C:GLY327 3.6 52.5 1.0
O C:HOH602 3.7 56.7 1.0
CG C:ARG328 3.9 43.8 1.0
N C:GLU326 4.0 51.0 1.0
C C:GLY327 4.0 50.1 1.0
C C:ALA325 4.0 49.8 1.0
CA C:ALA325 4.0 48.2 1.0
CG C:LEU352 4.1 44.1 1.0
NZ C:LYS242 4.2 56.2 1.0
C C:LEU352 4.2 48.0 1.0
CZ C:ARG328 4.3 45.2 1.0
CA C:LEU352 4.4 47.8 1.0
C C:GLU326 4.4 47.5 1.0
MN C:MN500 4.5 68.1 1.0
CD C:ARG328 4.5 41.6 1.0
O C:ASP324 4.5 63.6 1.0
O C:ALA325 4.6 50.5 1.0
CA C:ARG328 4.7 44.9 1.0
CB C:ALA325 4.7 43.4 1.0
CB C:ARG328 4.8 41.9 1.0
CA C:GLU326 4.8 51.3 1.0
OE2 C:GLU326 4.8 63.3 1.0
NE C:ARG328 4.8 37.0 1.0
CB C:LEU352 4.8 46.7 1.0

Chlorine binding site 4 out of 6 in 8d1x

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Chlorine binding site 4 out of 6 in the Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae


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 Aminopeptidase A From Neisseria Gonorrhoeae within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl501

b:57.0
occ:1.00
 NH1 D:ARG328 2.7 48.4 1.0
O D:HOH649 2.9 51.4 1.0
O D:LEU352 3.4 54.6 1.0
N D:GLY327 3.5 44.0 1.0
CD1 D:LEU352 3.7 43.2 1.0
N D:ARG328 3.7 42.7 1.0
CA D:ALA325 3.7 48.5 1.0
C D:ALA325 3.8 48.7 1.0
CG D:ARG328 3.8 45.3 1.0
N D:GLU326 3.8 47.6 1.0
CA D:GLY327 3.9 43.8 1.0
CZ D:ARG328 4.0 46.3 1.0
CG D:LEU352 4.2 43.0 1.0
C D:GLY327 4.3 43.1 1.0
O D:ASP324 4.3 54.3 1.0
CD D:ARG328 4.3 39.9 1.0
O D:ALA325 4.3 44.8 1.0
CB D:ALA325 4.4 43.6 1.0
C D:LEU352 4.4 46.9 1.0
C D:GLU326 4.4 45.6 1.0
MN D:MN500 4.5 62.7 1.0
NE D:ARG328 4.6 37.7 1.0
CA D:LEU352 4.7 46.2 1.0
CB D:ARG328 4.7 44.1 1.0
CA D:GLU326 4.7 45.4 1.0
NZ D:LYS242 4.8 51.0 1.0
CA D:ARG328 4.8 38.5 1.0
O D:HOH601 4.8 39.8 1.0
N D:ALA325 4.9 47.6 1.0
OE2 D:GLU326 4.9 52.2 1.0
NH2 D:ARG328 5.0 46.4 1.0

Chlorine binding site 5 out of 6 in 8d1x

Go back to Chlorine Binding Sites List in 8d1x
Chlorine binding site 5 out of 6 in the Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cl501

b:57.6
occ:1.00
 NH1 E:ARG328 2.9 35.2 1.0
N E:GLY327 3.3 39.1 1.0
O E:LEU352 3.4 48.6 1.0
CD1 E:LEU352 3.6 38.9 1.0
N E:ARG328 3.6 40.6 1.0
CA E:GLY327 3.7 38.1 1.0
N E:GLU326 3.8 44.8 1.0
CA E:ALA325 3.8 44.0 1.0
C E:ALA325 3.8 43.9 1.0
CG E:ARG328 4.0 40.1 1.0
CG E:LEU352 4.1 33.7 1.0
C E:GLY327 4.1 41.4 1.0
CZ E:ARG328 4.2 32.9 1.0
O E:HOH667 4.3 40.2 1.0
C E:LEU352 4.3 43.8 1.0
O E:ASP324 4.3 59.6 1.0
C E:GLU326 4.3 40.0 1.0
O E:ALA325 4.4 39.9 1.0
CB E:ALA325 4.5 42.6 1.0
CA E:LEU352 4.5 41.3 1.0
MN E:MN500 4.5 62.7 1.0
CD E:ARG328 4.5 32.0 1.0
O E:HOH601 4.6 38.1 1.0
NZ E:LYS242 4.6 49.3 1.0
CA E:GLU326 4.7 41.8 1.0
OE2 E:GLU326 4.7 51.2 1.0
CA E:ARG328 4.8 35.3 1.0
CB E:ARG328 4.8 37.6 1.0
NE E:ARG328 4.8 30.1 1.0
CB E:LEU352 4.9 40.9 1.0
N E:ALA325 4.9 47.6 1.0
CD E:GLU326 4.9 48.1 1.0
OE1 E:GLU326 5.0 46.1 1.0

Chlorine binding site 6 out of 6 in 8d1x

Go back to Chlorine Binding Sites List in 8d1x
Chlorine binding site 6 out of 6 in the Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cl501

b:52.8
occ:1.00
 NH1 F:ARG328 3.2 41.4 1.0
N F:GLY327 3.3 45.5 1.0
O F:LEU352 3.4 44.2 1.0
CD1 F:LEU352 3.4 38.0 1.0
O F:HOH603 3.6 45.7 1.0
CA F:GLY327 3.6 42.9 1.0
N F:ARG328 3.6 43.2 1.0
N F:GLU326 4.0 44.4 1.0
C F:ALA325 4.0 44.4 1.0
CA F:ALA325 4.0 42.7 1.0
CG F:LEU352 4.0 36.8 1.0
C F:GLY327 4.1 42.5 1.0
CG F:ARG328 4.1 43.0 1.0
C F:LEU352 4.3 41.4 1.0
NZ F:LYS242 4.4 44.1 1.0
C F:GLU326 4.4 43.6 1.0
CZ F:ARG328 4.4 39.2 1.0
CA F:LEU352 4.5 40.0 1.0
O F:ASP324 4.5 54.6 1.0
MN F:MN500 4.6 64.2 1.0
O F:ALA325 4.6 46.6 1.0
CB F:ALA325 4.7 43.5 1.0
CD F:ARG328 4.7 39.9 1.0
CA F:GLU326 4.8 44.2 1.0
CA F:ARG328 4.8 39.8 1.0
OE2 F:GLU326 4.8 53.1 1.0
CB F:LEU352 4.9 39.2 1.0
CB F:ARG328 4.9 41.7 1.0

Reference:

J.Abendroth, N.D.Debouver, D.D.Lorimer, P.S.Horanyi, T.E.Edwards. Crystal Structure of Aminopeptidase A From Neisseria Gonorrhoeae To Be Published.
Page generated: Tue Jul 30 08:23:49 2024

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