Gadolinium in PDB 5c6l: Crystal Structure of Gadolinium Derivative of Hewl Solved Using Intense Free-Electron Laser Radiation

All present enzymatic activity of Crystal Structure of Gadolinium Derivative of Hewl Solved Using Intense Free-Electron Laser Radiation:
3.2.1.17;

The structure of Crystal Structure of Gadolinium Derivative of Hewl Solved Using Intense Free-Electron Laser Radiation, PDB code: 5c6l was solved by L.Galli, T.R.M.Barends, S.-K.Son, T.A.White, A.Barty, S.Botha, S.Boutet, C.Caleman, R.B.Doak, M.H.Nanao, K.Nass, R.L.Shoeman, N.Timneanu, R.Santra, I.Schlichting, H.N.Chapman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.30 / 2.10
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	79.200, 79.200, 39.400, 90.00, 90.00, 90.00
R / Rfree (%)	21.9 / 28

The structure of Crystal Structure of Gadolinium Derivative of Hewl Solved Using Intense Free-Electron Laser Radiation also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

The binding sites of Gadolinium atom in the Crystal Structure of Gadolinium Derivative of Hewl Solved Using Intense Free-Electron Laser Radiation (pdb code 5c6l). This binding sites where shown within 5.0 Angstroms radius around Gadolinium atom.
In total 2 binding sites of Gadolinium where determined in the Crystal Structure of Gadolinium Derivative of Hewl Solved Using Intense Free-Electron Laser Radiation, PDB code: 5c6l:
Jump to Gadolinium binding site number: 1; 2;

Gadolinium binding site 1 out of 2 in the Crystal Structure of Gadolinium Derivative of Hewl Solved Using Intense Free-Electron Laser Radiation


Mono view


Stereo pair view

A full contact list of Gadolinium with other atoms in the Gd binding site number 1 of Crystal Structure of Gadolinium Derivative of Hewl Solved Using Intense Free-Electron Laser Radiation within 5.0Å range: probe atom residue distance (Å) B Occ A:Gd207 b:26.4 occ:1.00 O5 A:DO3201 2.3 36.0 1.0 O7 A:DO3201 2.4 24.6 1.0 O1 A:DO3201 2.5 41.8 1.0 O3 A:DO3201 2.6 25.0 1.0 N4 A:DO3201 2.7 27.0 1.0 C2 A:DO3201 2.9 30.9 1.0 C1 A:DO3201 3.0 31.3 1.0 N1 A:DO3201 3.2 30.6 1.0 N2 A:DO3201 3.3 29.3 1.0 C9 A:DO3201 3.3 37.6 1.0 C10 A:DO3201 3.3 35.5 1.0 C3 A:DO3201 3.4 29.8 1.0 C13 A:DO3201 3.4 36.0 1.0 C11 A:DO3201 3.4 31.5 1.0 C15 A:DO3201 3.4 26.6 1.0 C16 A:DO3201 3.5 26.2 1.0 C7 A:DO3201 3.5 27.3 1.0 C6 A:DO3201 3.5 29.6 1.0 C5 A:DO3201 3.5 31.2 1.0 C12 A:DO3201 3.6 29.6 1.0 C8 A:DO3201 3.6 28.4 1.0 C4 A:DO3201 3.6 30.0 1.0 N3 A:DO3201 3.6 33.1 1.0 C14 A:DO3201 3.9 31.8 1.0 O1 A:DO3202 4.2 23.6 1.0 O6 A:DO3201 4.4 35.4 1.0 O2 A:DO3201 4.5 40.8 1.0 C17 A:DO3201 4.5 28.0 1.0 O4 A:DO3201 4.6 34.0 1.0 O2 A:DO3202 4.7 26.5 1.0 C9 A:DO3202 4.8 28.5 1.0

Gadolinium binding site 2 out of 2 in the Crystal Structure of Gadolinium Derivative of Hewl Solved Using Intense Free-Electron Laser Radiation


Mono view


Stereo pair view

A full contact list of Gadolinium with other atoms in the Gd binding site number 2 of Crystal Structure of Gadolinium Derivative of Hewl Solved Using Intense Free-Electron Laser Radiation within 5.0Å range: probe atom residue distance (Å) B Occ A:Gd208 b:35.2 occ:1.00 O3 A:DO3202 2.5 29.4 1.0 O5 A:DO3202 2.5 29.4 1.0 N4 A:DO3202 2.6 28.0 1.0 O7 A:DO3202 2.6 23.3 1.0 C12 A:DO3202 2.8 27.4 1.0 O1 A:DO3202 2.8 23.6 1.0 C4 A:DO3202 2.9 30.7 1.0 N2 A:DO3202 3.0 25.4 1.0 C11 A:DO3202 3.1 30.4 1.0 N3 A:DO3202 3.1 28.9 1.0 C14 A:DO3202 3.2 30.2 1.0 C10 A:DO3202 3.2 29.6 1.0 C13 A:DO3202 3.2 32.0 1.0 C3 A:DO3202 3.2 29.7 1.0 C7 A:DO3202 3.3 27.5 1.0 C5 A:DO3202 3.3 30.2 1.0 C6 A:DO3202 3.3 28.8 1.0 C16 A:DO3202 3.4 26.7 1.0 C8 A:DO3202 3.4 29.4 1.0 C9 A:DO3202 3.4 28.5 1.0 N1 A:DO3202 3.5 30.8 1.0 C15 A:DO3202 3.5 26.0 1.0 C2 A:DO3202 3.6 30.6 1.0 C1 A:DO3202 3.8 31.2 1.0 O3 A:DO3201 4.3 25.0 1.0 O4 A:DO3202 4.3 32.2 1.0 O6 A:DO3202 4.4 32.7 1.0 C17 A:DO3202 4.5 27.3 1.0 O4 A:DO3201 4.6 34.0 1.0 O2 A:DO3202 4.7 26.5 1.0 C11 A:DO3201 4.9 31.5 1.0

L.Galli, S.K.Son, T.R.Barends, T.A.White, A.Barty, S.Botha, S.Boutet, C.Caleman, R.B.Doak, M.H.Nanao, K.Nass, R.L.Shoeman, N.Timneanu, R.Santra, I.Schlichting, H.N.Chapman. Towards Phasing Using High X-Ray Intensity. Iucrj V. 2 627 2015.
ISSN: ESSN 2052-2525
PubMed: 26594370
DOI: 10.1107/S2052252515014049