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Cadmium in PDB 1rlw: Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2

Enzymatic activity of Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2

All present enzymatic activity of Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2:
3.1.1.4;

Protein crystallography data

The structure of Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2, PDB code: 1rlw was solved by O.Perisic, R.L.Williams, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 2.40
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 79.410, 79.410, 70.670, 90.00, 90.00, 120.00
R / Rfree (%) 22.7 / 27.3

Other elements in 1rlw:

The structure of Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2 also contains other interesting chemical elements:

Calcium (Ca) 2 atoms

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2 (pdb code 1rlw). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2, PDB code: 1rlw:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 1rlw

Go back to Cadmium Binding Sites List in 1rlw
Cadmium binding site 1 out of 2 in the Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd200

b:52.1
occ:1.00
O A:HOH544 2.1 32.5 1.0
O A:HOH545 2.2 34.3 1.0
NE2 A:HIS18 2.5 40.4 1.0
OG A:SER16 3.1 43.5 1.0
CE1 A:HIS18 3.4 39.7 1.0
CD2 A:HIS18 3.4 39.3 1.0
N A:SER16 4.2 43.2 1.0
CB A:SER16 4.4 43.2 1.0
CG2 A:VAL138 4.5 55.4 1.0
ND1 A:HIS18 4.5 40.1 1.0
CG A:PRO81 4.5 27.0 1.0
CG A:HIS18 4.6 39.6 1.0
CA A:SER16 4.9 43.1 1.0
CB A:PRO81 4.9 26.6 1.0
CG2 A:VAL114 5.0 40.0 1.0

Cadmium binding site 2 out of 2 in 1rlw

Go back to Cadmium Binding Sites List in 1rlw
Cadmium binding site 2 out of 2 in the Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd500

b:21.1
occ:1.00
OD1 A:ASN64 2.2 22.4 1.0
NE2 A:HIS62 2.3 16.8 1.0
O A:HOH627 2.6 28.2 1.0
ND2 A:ASN64 2.7 26.5 1.0
CG A:ASN64 2.8 23.6 1.0
CE1 A:HIS62 3.2 16.2 1.0
CD2 A:HIS62 3.3 15.8 1.0
O A:HOH642 3.5 57.0 1.0
CB A:ASN64 4.3 21.5 1.0
ND1 A:HIS62 4.4 16.0 1.0
O A:HOH531 4.4 39.0 1.0
CG A:HIS62 4.5 16.4 1.0
CA A:ASN64 4.8 19.6 1.0

Reference:

O.Perisic, S.Fong, D.E.Lynch, M.Bycroft, R.L.Williams. Crystal Structure of A Calcium-Phospholipid Binding Domain From Cytosolic Phospholipase A2. J.Biol.Chem. V. 273 1596 1998.
ISSN: ISSN 0021-9258
PubMed: 9430701
DOI: 10.1074/JBC.273.3.1596
Page generated: Sat Dec 12 08:12:32 2020

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