Cadmium in PDB 4lyb: Cds Within A Lysoyzme Single Crystal

All present enzymatic activity of Cds Within A Lysoyzme Single Crystal:
3.2.1.17;

The structure of Cds Within A Lysoyzme Single Crystal, PDB code: 4lyb was solved by H.Wei, S.House, J.Wu, J.Zhang, Z.Wang, Y.He, Y.-G.Gao, H.Robinson, W.Li, J.-M.Zuo, I.M.Robertson, Y.Lu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 1.21
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	78.677, 78.677, 37.251, 90.00, 90.00, 90.00
R / Rfree (%)	n/a / n/a

The binding sites of Cadmium atom in the Cds Within A Lysoyzme Single Crystal (pdb code 4lyb). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 5 binding sites of Cadmium where determined in the Cds Within A Lysoyzme Single Crystal, PDB code: 4lyb:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5;

Cadmium binding site 1 out of 5 in the Cds Within A Lysoyzme Single Crystal


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Cds Within A Lysoyzme Single Crystal within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd201 b:38.4 occ:1.00 OH A:TYR23 3.0 16.6 1.0 CZ A:TYR23 3.7 14.9 1.0 CE2 A:TYR23 3.7 15.1 1.0 CA A:GLY104 4.2 16.7 1.0 O A:ARG21 4.7 17.3 1.0 CE1 A:TYR23 4.9 14.4 1.0 N A:GLY104 4.9 16.4 1.0 CD2 A:TYR23 4.9 15.0 1.0

Cadmium binding site 2 out of 5 in the Cds Within A Lysoyzme Single Crystal


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Cds Within A Lysoyzme Single Crystal within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd202 b:42.1 occ:1.00 OG A:SER24 3.0 20.0 1.0 N A:GLY26 3.2 14.8 1.0 CA A:GLY26 3.4 15.3 1.0 CB A:SER24 3.5 17.3 1.0 CA A:GLN121 3.7 20.4 1.0 CD1 A:ILE124 4.0 30.1 1.0 N A:GLN121 4.0 18.3 1.0 CB A:GLN121 4.1 27.6 1.0 CG1 A:ILE124 4.2 21.8 1.0 CG A:GLN121 4.2 30.4 1.0 CG2 A:VAL120 4.2 22.8 1.0 O A:VAL120 4.2 17.7 1.0 C A:VAL120 4.3 17.2 1.0 N A:LEU25 4.3 17.1 1.0 C A:LEU25 4.4 15.8 1.0 C A:SER24 4.4 15.1 1.0 C A:GLY26 4.5 14.1 1.0 CA A:SER24 4.6 16.9 1.0 N A:ASN27 4.6 14.7 1.0 CA A:LEU25 4.8 16.0 1.0 O A:HOH431 4.9 42.5 1.0 C A:GLN121 4.9 18.7 1.0 O A:SER24 4.9 15.9 1.0 CB A:VAL120 5.0 18.0 1.0

Cadmium binding site 3 out of 5 in the Cds Within A Lysoyzme Single Crystal


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Cds Within A Lysoyzme Single Crystal within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd203 b:56.0 occ:1.00 OG1 A:THR43 2.8 18.8 1.0 O A:GLN41 2.8 17.1 1.0 N A:THR43 3.0 14.9 1.0 CB A:THR43 3.5 19.0 1.0 CG2 A:THR43 3.5 17.9 1.0 C A:ALA42 3.7 13.0 1.0 CA A:THR43 3.8 16.4 1.0 C A:GLN41 3.8 14.1 1.0 CA A:ALA42 3.9 15.2 1.0 O A:THR43 4.2 19.8 1.0 N A:ALA42 4.3 13.1 1.0 C A:THR43 4.5 18.0 1.0 O A:ALA42 4.6 13.7 1.0 CB A:GLN41 5.0 13.6 1.0

Cadmium binding site 4 out of 5 in the Cds Within A Lysoyzme Single Crystal


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Cds Within A Lysoyzme Single Crystal within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd204 b:44.8 occ:1.00 O A:HOH325 3.0 16.2 1.0 N A:THR69 3.2 17.4 1.0 O A:THR69 3.4 18.9 1.0 N A:ARG68 3.5 17.0 1.0 C A:GLY67 3.5 16.2 1.0 CA A:GLY67 3.5 17.3 1.0 N A:GLY67 3.6 17.2 1.0 O A:HOH352 3.6 25.9 1.0 OD1 A:ASN65 3.6 18.5 1.0 C A:THR69 3.6 16.0 1.0 O A:HOH385 3.7 34.3 1.0 OG A:SER72 3.7 24.4 1.0 CA A:THR69 3.8 19.3 1.0 O A:HOH334 3.9 20.1 1.0 CB A:THR69 4.1 15.7 1.0 O A:GLY67 4.2 18.7 1.0 C A:ARG68 4.2 18.0 1.0 OD1 A:ASP66 4.2 14.9 1.0 CA A:ARG68 4.3 16.8 1.0 N A:PRO70 4.4 19.1 1.0 O A:HOH501 4.6 14.2 1.0 C A:ASP66 4.7 14.6 1.0 OG1 A:THR69 4.8 16.6 1.0 N A:ASP66 4.8 13.8 1.0 CG A:ASN65 4.8 16.1 1.0 CB A:SER72 4.9 21.1 1.0 O A:HOH331 5.0 21.8 0.5

Cadmium binding site 5 out of 5 in the Cds Within A Lysoyzme Single Crystal


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Cds Within A Lysoyzme Single Crystal within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd205 b:85.8 occ:1.00 O A:HOH342 2.4 20.2 1.0 OD2 A:ASP52 2.5 26.1 1.0 O A:HOH303 3.0 26.9 1.0 CG A:ASP52 3.2 15.8 1.0 O A:GLN57 3.5 15.6 1.0 O A:HOH450 3.6 35.8 1.0 OD1 A:ASP52 3.6 20.0 1.0 O A:HOH351 3.9 26.5 1.0 CB A:ASP52 4.3 15.0 1.0 O A:HOH307 4.3 18.3 1.0 O A:HOH487 4.4 38.8 1.0 OE1 A:GLU35 4.4 15.0 1.0 CB A:GLN57 4.5 14.4 1.0 C A:GLN57 4.6 14.3 1.0 O A:HOH363 4.7 35.6 1.0 O A:HOH422 4.7 24.3 1.0 OE2 A:GLU35 4.9 16.4 1.0 CD A:GLU35 5.0 14.4 1.0

H.Wei, S.House, J.Wu, J.Zhang, Z.Wang, Y.He, Y.-G.Gao, H.Robinson, W.Li, J.-M.Zuo, I.M.Robertson, Y.Lu. Enhanced and Tunable Fluorescent Quantum Dots Within A Single Crystal of Protein To Be Published.