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Zinc in PDB 4i68: Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain

Enzymatic activity of Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain

All present enzymatic activity of Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain:
3.6.4.13;

Protein crystallography data

The structure of Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain, PDB code: 4i68 was solved by M.G.Rudolph, D.Klostermeier, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.43 / 1.63
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 25.160, 46.030, 59.610, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 23.1

Other elements in 4i68:

The structure of Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain (pdb code 4i68). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain, PDB code: 4i68:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 4i68

Go back to Zinc Binding Sites List in 4i68
Zinc binding site 1 out of 3 in the Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain


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 the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn604

b:12.5
occ:1.00
OE1 A:GLU425 2.0 15.1 1.0
O A:HOH713 2.1 18.1 1.0
O A:HOH774 2.2 25.1 1.0
OE2 A:GLU425 2.7 15.3 1.0
CD A:GLU425 2.7 11.2 1.0
NE A:ARG436 3.9 9.1 1.0
CG A:GLU425 4.1 8.6 1.0
O A:HOH712 4.2 9.7 1.0
O A:HOH701 4.4 7.1 1.0
NH2 A:ARG436 4.4 7.1 1.0
CZ A:ARG436 4.6 10.3 1.0
CD A:ARG436 4.8 4.8 1.0
CG A:ARG436 4.9 4.6 1.0

Zinc binding site 2 out of 3 in 4i68

Go back to Zinc Binding Sites List in 4i68
Zinc binding site 2 out of 3 in the Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain


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 the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn605

b:20.3
occ:1.00
O A:HOH744 2.0 19.3 1.0
OE1 A:GLU499 2.1 19.6 1.0
CD A:GLU499 2.9 20.1 1.0
OE2 A:GLU499 3.0 17.5 1.0
O A:HOH773 3.5 44.1 1.0
O A:HOH797 4.0 26.8 1.0
O A:HOH760 4.1 22.4 1.0
CD2 A:LEU447 4.2 25.3 1.0
CG A:GLU499 4.3 15.0 1.0
OE1 A:GLU466 4.6 32.1 1.0
CB A:GLU499 4.7 16.3 1.0

Zinc binding site 3 out of 3 in 4i68

Go back to Zinc Binding Sites List in 4i68
Zinc binding site 3 out of 3 in the Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the R444A / R449A Double Mutant of the Hera Rna Helicase Rrm Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn606

b:32.7
occ:1.00
OE1 A:GLU432 2.2 15.7 1.0
O A:HOH729 2.4 17.8 1.0
OE2 A:GLU432 2.7 28.0 1.0
CD A:GLU432 2.8 18.6 1.0
O A:HOH752 3.2 20.2 1.0
NE1 A:TRP435 3.6 8.8 1.0
CG A:GLU432 4.2 10.0 1.0
O A:HOH709 4.2 10.9 1.0
O A:HOH764 4.4 22.7 1.0
NH2 A:ARG503 4.4 40.2 1.0
CE2 A:TRP435 4.4 8.7 1.0
CD1 A:TRP435 4.5 7.8 1.0
CZ2 A:TRP435 4.6 10.3 1.0
O A:HOH787 4.7 30.7 1.0
CB A:GLU432 5.0 6.4 1.0

Reference:

L.Steimer, J.P.Wurm, M.H.Linden, M.G.Rudolph, J.Wohnert, D.Klostermeier. Recognition of Two Distinct Elements in the Rna Substrate By the Rna-Binding Domain of the T. Thermophilus Dead Box Helicase Hera. Nucleic Acids Res. V. 41 6259 2013.
ISSN: ISSN 0305-1048
PubMed: 23625962
DOI: 10.1093/NAR/GKT323
Page generated: Sun Oct 27 00:30:54 2024

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