Atomistry » Magnesium » PDB 5l5v-5lcf » 5lb5
Atomistry »
  Magnesium »
    PDB 5l5v-5lcf »
      5lb5 »

Magnesium in PDB 5lb5: Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form).

Enzymatic activity of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form).

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

Protein crystallography data

The structure of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form)., PDB code: 5lb5 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) 100.90 / 2.00
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 63.590, 84.750, 106.691, 108.82, 90.06, 96.86
R / Rfree (%) 24.4 / 28.2

Other elements in 5lb5:

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

Zinc (Zn) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form). (pdb code 5lb5). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form)., PDB code: 5lb5:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 5lb5

Go back to Magnesium Binding Sites List in 5lb5
Magnesium binding site 1 out of 4 in the Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form).


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form). within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg503

b:53.4
occ:1.00
 O A:HOH637 2.0 57.3 1.0
O A:HOH675 2.2 49.0 1.0
O1B A:ADP504 2.3 41.6 1.0
O A:HOH691 2.5 47.8 1.0
O A:HOH672 2.5 59.1 1.0
PB A:ADP504 3.5 41.4 1.0
O2B A:ADP504 3.7 43.6 1.0
OG A:SER59 4.0 38.3 1.0
OD2 A:ASP157 4.1 56.9 1.0
OD1 A:ASP157 4.1 47.3 1.0
O A:HOH660 4.4 43.5 1.0
CE A:LYS58 4.4 26.1 1.0
CG A:ASP157 4.5 47.4 1.0
OE2 A:GLU158 4.5 60.4 1.0
O3B A:ADP504 4.6 39.2 1.0
O3A A:ADP504 4.6 42.6 1.0
O1A A:ADP504 4.8 42.2 1.0
NE2 A:GLN86 4.8 61.4 1.0
O2A A:ADP504 4.8 46.0 1.0
NZ A:LYS58 4.9 25.9 1.0
CB A:LYS58 4.9 29.0 1.0

Magnesium binding site 2 out of 4 in 5lb5

Go back to Magnesium Binding Sites List in 5lb5
Magnesium binding site 2 out of 4 in the Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form).


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form). within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg503

b:50.8
occ:1.00
 O B:HOH684 2.1 43.1 1.0
O3B B:ADP504 2.2 37.4 1.0
O B:HOH605 2.2 47.4 1.0
O B:HOH686 2.3 43.3 1.0
O B:HOH630 2.3 37.6 1.0
PB B:ADP504 3.3 34.2 1.0
O2B B:ADP504 3.4 36.8 1.0
OG B:SER59 3.9 38.3 1.0
OE2 B:GLU158 4.1 63.9 1.0
O2A B:ADP504 4.1 34.5 1.0
O3A B:ADP504 4.3 37.0 1.0
O1B B:ADP504 4.4 31.8 1.0
OD2 B:ASP157 4.5 45.3 1.0
O B:HOH663 4.5 28.3 1.0
OD1 B:ASP157 4.6 38.2 1.0
PA B:ADP504 4.6 37.8 1.0
O1A B:ADP504 4.6 39.4 1.0
CE B:LYS58 4.6 29.6 1.0
O B:HOH613 4.8 53.0 1.0
NE2 B:GLN86 4.9 63.6 1.0
CG B:ASP157 4.9 38.7 1.0
CB B:LYS58 5.0 31.7 1.0
NZ B:LYS58 5.0 26.4 1.0

Magnesium binding site 3 out of 4 in 5lb5

Go back to Magnesium Binding Sites List in 5lb5
Magnesium binding site 3 out of 4 in the Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form).


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form). within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg502

b:71.1
occ:1.00
 O C:HOH657 2.0 52.0 1.0
O C:HOH668 2.3 52.6 1.0
O C:HOH615 2.7 54.5 1.0
O2B C:ADP503 2.9 67.5 1.0
O3B C:ADP503 3.7 62.2 1.0
OE2 C:GLU158 3.7 82.0 1.0
PB C:ADP503 3.9 64.2 1.0
OD1 C:ASP157 4.1 54.8 1.0
CD C:GLU158 4.5 85.5 1.0
OG C:SER59 4.6 60.9 1.0
OD2 C:ASP157 4.6 61.4 1.0
NZ C:LYS58 4.7 41.5 1.0
NE2 C:GLN86 4.7 0.7 1.0
CG C:ASP157 4.7 55.1 1.0
O2A C:ADP503 4.7 60.5 1.0
CE C:LYS58 4.7 47.3 1.0
O1B C:ADP503 4.9 61.2 1.0
O3A C:ADP503 4.9 62.6 1.0

Magnesium binding site 4 out of 4 in 5lb5

Go back to Magnesium Binding Sites List in 5lb5
Magnesium binding site 4 out of 4 in the Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form).


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of Human RECQL5 Helicase in Complex with Adp/Mg (Tricilinc Form). within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg503

b:68.0
occ:1.00
 O D:HOH649 2.1 51.4 1.0
O D:HOH618 2.4 58.2 1.0
O D:HOH660 2.5 47.5 1.0
O1B D:ADP504 2.6 68.0 1.0
O D:HOH610 3.0 59.5 1.0
PB D:ADP504 3.8 67.0 1.0
OG D:SER59 3.9 62.9 1.0
O3B D:ADP504 3.9 65.2 1.0
OD2 D:ASP157 4.1 57.6 1.0
O1A D:ADP504 4.2 73.8 1.0
OD1 D:ASP157 4.3 52.1 1.0
NE2 D:GLN86 4.6 0.5 1.0
O2A D:ADP504 4.6 71.6 1.0
CG D:ASP157 4.6 51.5 1.0
O3A D:ADP504 4.7 69.6 1.0
PA D:ADP504 4.8 72.4 1.0
OE1 D:GLU158 4.9 71.0 1.0
O2B D:ADP504 5.0 65.7 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: Sun Sep 29 19:48:31 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy