Zinc in PDB 5lb3: Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg.

Enzymatic activity of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg.

All present enzymatic activity of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg.:
3.6.4.12;

Protein crystallography data

The structure of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg., PDB code: 5lb3 was solved by J.A.Newman, H.Aitkenhead, P.Savitsky, T.Krojer, F.Von Delft, C.H.Arrowsmith, A.M.Edwards, C.Bountra, O.Gileadi, Structural Genomicsconsortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.88 / 1.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 72.757, 62.943, 104.703, 90.00, 95.44, 90.00
R / Rfree (%) 19.5 / 23.4

Other elements in 5lb3:

The structure of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg. also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg. (pdb code 5lb3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg., PDB code: 5lb3:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5lb3

Go back to Zinc Binding Sites List in 5lb3
Zinc binding site 1 out of 2 in the Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn501

b:24.0
occ:1.00
SG B:CYS434 2.3 25.9 1.0
SG B:CYS411 2.4 22.1 1.0
SG B:CYS427 2.4 25.3 1.0
SG B:CYS431 2.4 21.4 1.0
CB B:CYS427 3.1 20.3 1.0
CB B:CYS434 3.1 21.3 1.0
CB B:CYS411 3.2 21.0 1.0
CB B:CYS431 3.5 23.6 1.0
CA B:CYS411 3.6 21.0 1.0
N B:CYS431 4.0 23.1 1.0
N B:ARG412 4.1 21.4 1.0
N B:CYS434 4.2 20.6 1.0
C B:CYS411 4.3 22.2 1.0
CD2 B:HIS413 4.3 23.5 1.0
CA B:CYS434 4.3 24.2 1.0
CA B:CYS431 4.3 23.0 1.0
CA B:CYS427 4.6 32.9 1.0
C B:GLY430 4.6 23.6 1.0
N B:HIS413 4.7 19.7 1.0
O B:HOH906 4.7 37.5 1.0
N B:GLY430 4.7 27.4 1.0
O B:HOH804 4.8 24.3 1.0
N B:CYS411 4.9 25.9 1.0
C B:CYS431 4.9 22.4 1.0
CB B:HIS413 4.9 22.4 1.0
O B:CYS427 5.0 35.0 1.0
CG B:HIS413 5.0 21.0 1.0
O B:CYS431 5.0 26.0 1.0

Zinc binding site 2 out of 2 in 5lb3

Go back to Zinc Binding Sites List in 5lb3
Zinc binding site 2 out of 2 in the Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg. within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn501

b:21.8
occ:1.00
SG E:CYS427 2.3 22.9 1.0
SG E:CYS431 2.3 20.0 1.0
SG E:CYS411 2.3 19.6 1.0
SG E:CYS434 2.4 20.9 1.0
CB E:CYS411 3.1 21.9 1.0
CB E:CYS434 3.2 17.9 1.0
CB E:CYS431 3.4 19.2 1.0
CB E:CYS427 3.5 29.4 1.0
CA E:CYS411 3.6 21.1 1.0
N E:CYS427 3.6 24.6 1.0
CA E:CYS427 4.0 25.0 1.0
N E:ARG412 4.0 17.7 1.0
N E:CYS431 4.1 17.9 1.0
N E:ALA428 4.1 23.9 1.0
C E:CYS411 4.2 21.9 1.0
N E:CYS434 4.2 16.5 1.0
CA E:CYS431 4.3 18.7 1.0
CA E:CYS434 4.3 18.2 1.0
C E:CYS427 4.4 24.0 1.0
CD2 E:HIS413 4.6 20.8 1.0
N E:HIS413 4.6 17.4 1.0
C E:GLY430 4.7 16.4 1.0
C E:ALA426 4.7 25.2 1.0
C E:CYS431 4.8 21.4 1.0
O E:CYS431 4.8 18.7 1.0
O E:HOH731 4.8 22.2 1.0
N E:CYS411 4.9 22.1 1.0
CB E:HIS413 4.9 19.6 1.0
N E:GLY430 5.0 22.8 1.0
CA E:ALA426 5.0 22.0 1.0

Reference:

J.A.Newman, H.Aitkenhead, P.Savitsky, O.Gileadi. Insights Into the Recq Helicase Mechanism Revealed By the Structure of the Helicase Domain of Human RECQL5. Nucleic Acids Res. V. 45 4231 2017.
ISSN: ESSN 1362-4962
PubMed: 28100692
DOI: 10.1093/NAR/GKW1362
Page generated: Wed Dec 16 06:28:37 2020

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