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Cobalt in PDB 6qnd: Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Xylose Isomerase 60 S Timepoint

Enzymatic activity of Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Xylose Isomerase 60 S Timepoint

All present enzymatic activity of Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Xylose Isomerase 60 S Timepoint:
5.3.1.5;

Protein crystallography data

The structure of Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Xylose Isomerase 60 S Timepoint, PDB code: 6qnd was solved by P.Mehrabi, E.C.Schulz, R.J.D.Miller, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.06 / 2.00
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 95.020, 99.560, 87.650, 90.00, 90.00, 90.00
R / Rfree (%) 18.4 / 21.9

Other elements in 6qnd:

The structure of Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Xylose Isomerase 60 S Timepoint also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Xylose Isomerase 60 S Timepoint (pdb code 6qnd). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total only one binding site of Cobalt was determined in the Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Xylose Isomerase 60 S Timepoint, PDB code: 6qnd:

Cobalt binding site 1 out of 1 in 6qnd

Go back to Cobalt Binding Sites List in 6qnd
Cobalt binding site 1 out of 1 in the Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Xylose Isomerase 60 S Timepoint


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Xylose Isomerase 60 S Timepoint within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co403

b:34.6
occ:1.00
 OE2 A:GLU217 2.1 25.0 1.0
O A:HOH575 2.2 28.4 1.0
OD2 A:ASP255 2.2 28.5 1.0
OD1 A:ASP257 2.3 22.2 1.0
OD1 A:ASP255 2.5 28.6 1.0
NE2 A:HIS220 2.5 25.0 1.0
CG A:ASP255 2.7 27.8 1.0
CD A:GLU217 3.1 28.2 1.0
CD2 A:HIS220 3.1 22.1 1.0
CG A:ASP257 3.2 28.5 1.0
OD2 A:ASP257 3.3 30.7 1.0
OE1 A:GLU217 3.3 24.8 1.0
CE1 A:HIS220 3.6 21.9 1.0
O A:HOH522 3.7 31.1 1.0
ND2 A:ASN247 4.0 21.6 1.0
CB A:ASP255 4.2 23.1 1.0
O A:HOH553 4.3 24.5 1.0
CG A:HIS220 4.3 24.7 1.0
O3 A:GLO401 4.4 29.9 0.6
CG A:GLU217 4.5 20.8 1.0
ND1 A:HIS220 4.5 25.0 1.0
CB A:ASP257 4.6 21.9 1.0
O A:HOH554 4.7 37.0 1.0
OD2 A:ASP287 4.7 31.7 1.0
NZ A:LYS183 4.8 20.5 1.0
MG A:MG402 4.8 28.3 1.0
CE A:LYS183 4.9 24.6 1.0
CA A:ASP257 5.0 23.7 1.0

Reference:

P.Mehrabi, E.C.Schulz, M.Agthe, S.Horrell, G.Bourenkov, D.Von Stetten, J.P.Leimkohl, H.Schikora, T.R.Schneider, A.R.Pearson, F.Tellkamp, R.J.D.Miller. Liquid Application Method For Time-Resolved Analyses By Serial Synchrotron Crystallography. Nat.Methods V. 16 979 2019.
ISSN: ESSN 1548-7105
PubMed: 31527838
DOI: 10.1038/S41592-019-0553-1
Page generated: Sun Jul 13 21:12:53 2025

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