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Zinc in PDB 2hc9: Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1)

Enzymatic activity of Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1)

All present enzymatic activity of Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1):
3.4.11.1;

Protein crystallography data

The structure of Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1), PDB code: 2hc9 was solved by C.Zhan, Y.Patskovsky, B.C.Wengerter, U.Ramagopal, S.Milstein, M.Vidal, S.C.Almo, S.K.Burley, New York Sgx Research Center For Structuralgenomics (Nysgxrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.85
Space group P 63 2 2
Cell size a, b, c (Å), α, β, γ (°) 131.309, 131.309, 126.344, 90.00, 90.00, 120.00
R / Rfree (%) 14.2 / 17.5

Other elements in 2hc9:

The structure of Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1) also contains other interesting chemical elements:

Sodium (Na) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1) (pdb code 2hc9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1), PDB code: 2hc9:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2hc9

Go back to Zinc Binding Sites List in 2hc9
Zinc binding site 1 out of 2 in the Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn701

b:18.8
occ:1.00
OD1 A:ASP334 2.0 14.9 1.0
O A:HOH2159 2.0 14.9 1.0
OE2 A:GLU336 2.0 16.1 1.0
OD2 A:ASP257 2.1 14.9 1.0
O A:ASP334 2.2 16.2 1.0
CG A:ASP257 3.0 15.5 1.0
CD A:GLU336 3.0 14.7 1.0
C A:ASP334 3.0 15.5 1.0
ZN A:ZN702 3.0 19.0 1.0
CG A:ASP334 3.1 22.7 1.0
OE1 A:GLU336 3.2 17.0 1.0
OD1 A:ASP257 3.2 14.5 1.0
CA A:ASP334 3.4 14.5 1.0
O3 A:GOL1003 3.6 20.6 1.0
CB A:ASP334 3.8 16.0 1.0
OD2 A:ASP334 4.1 17.6 1.0
O1 A:BCT801 4.1 16.9 1.0
NZ A:LYS264 4.2 15.2 1.0
N A:ALA335 4.2 14.1 1.0
N A:GLU336 4.3 17.9 1.0
CE A:LYS264 4.3 17.1 1.0
CB A:ASP257 4.3 12.8 1.0
CG A:GLU336 4.4 14.1 1.0
OD2 A:ASP275 4.5 15.4 1.0
ND2 A:ASN307 4.5 14.7 1.0
C3 A:GOL1003 4.5 25.9 1.0
NZ A:LYS252 4.7 13.5 1.0
N A:ASP334 4.8 13.0 1.0
CA A:ALA335 4.8 12.8 1.0
CA A:GLY259 4.8 14.6 1.0
CB A:GLU336 4.8 14.0 1.0
C1 A:GOL1002 4.8 46.1 1.0
C A:BCT801 4.8 14.9 1.0
C3 A:GOL1002 4.9 46.8 1.0
C2 A:GOL1002 4.9 45.6 1.0
O A:THR333 4.9 14.9 1.0

Zinc binding site 2 out of 2 in 2hc9

Go back to Zinc Binding Sites List in 2hc9
Zinc binding site 2 out of 2 in the Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Caenorhabditis Elegans Leucine Aminopeptidase-Zinc Complex (LAP1) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn702

b:19.0
occ:1.00
OD2 A:ASP275 2.0 15.4 1.0
OE1 A:GLU336 2.1 17.0 1.0
O A:HOH2159 2.1 14.9 1.0
NZ A:LYS252 2.1 13.5 1.0
OD2 A:ASP257 2.6 14.9 1.0
CG A:ASP275 2.8 15.9 1.0
CE A:LYS252 2.9 10.6 1.0
OD1 A:ASP275 3.0 14.1 1.0
ZN A:ZN701 3.0 18.8 1.0
CD A:GLU336 3.1 14.7 1.0
OE2 A:GLU336 3.4 16.1 1.0
CG A:ASP257 3.5 15.5 1.0
O1 A:BCT801 3.5 16.9 1.0
O3 A:GOL1003 4.0 20.6 1.0
C3 A:GOL1003 4.0 25.9 1.0
CB A:ASP257 4.0 12.8 1.0
C2 A:GOL1003 4.2 25.6 1.0
CB A:ASP275 4.2 14.4 1.0
CD A:LYS252 4.4 12.8 1.0
O A:THR362 4.4 15.0 1.0
CG A:GLU336 4.4 14.1 1.0
OD1 A:ASP257 4.4 14.5 1.0
CG2 A:VAL254 4.5 12.5 1.0
CB A:VAL254 4.5 16.2 1.0
CG1 A:VAL254 4.6 17.2 1.0
N A:GLY337 4.6 13.5 1.0
O A:ASP334 4.6 16.2 1.0
O1 A:GOL1003 4.7 37.7 1.0
C A:BCT801 4.7 14.9 1.0
OD1 A:ASP334 4.8 14.9 1.0
CA A:GLY337 4.9 14.6 1.0
O A:LEU363 5.0 18.1 1.0

Reference:

C.Zhan, Y.Patskovsky, B.C.Wengerter, U.Ramagopal, S.Milstein, M.Vidal, S.C.Almo. Crystal Structure and Function of Caenorhabditis Elegans Leucine Aminopeptidase To Be Published.
Page generated: Wed Dec 16 03:30:04 2020

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