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Aluminium in PDB 3w6p: Crystal Structure of Human DLP1 in Complex with Gdp.ALF4

Enzymatic activity of Crystal Structure of Human DLP1 in Complex with Gdp.ALF4

All present enzymatic activity of Crystal Structure of Human DLP1 in Complex with Gdp.ALF4:
3.6.5.5;

Protein crystallography data

The structure of Crystal Structure of Human DLP1 in Complex with Gdp.ALF4, PDB code: 3w6p was solved by H.Kishida, S.Sugio, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 1.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 51.410, 109.130, 128.730, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 21.4

Other elements in 3w6p:

The structure of Crystal Structure of Human DLP1 in Complex with Gdp.ALF4 also contains other interesting chemical elements:

Fluorine (F) 8 atoms
Magnesium (Mg) 2 atoms
Calcium (Ca) 1 atom
Sodium (Na) 2 atoms

Aluminium Binding Sites:

The binding sites of Aluminium atom in the Crystal Structure of Human DLP1 in Complex with Gdp.ALF4 (pdb code 3w6p). This binding sites where shown within 5.0 Angstroms radius around Aluminium atom.
In total 2 binding sites of Aluminium where determined in the Crystal Structure of Human DLP1 in Complex with Gdp.ALF4, PDB code: 3w6p:
Jump to Aluminium binding site number: 1; 2;

Aluminium binding site 1 out of 2 in 3w6p

Go back to Aluminium Binding Sites List in 3w6p
Aluminium binding site 1 out of 2 in the Crystal Structure of Human DLP1 in Complex with Gdp.ALF4


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 1 of Crystal Structure of Human DLP1 in Complex with Gdp.ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Al802

b:8.2
occ:1.00
AL A:ALF802 0.0 8.2 1.0
F3 A:ALF802 1.8 11.9 1.0
F2 A:ALF802 1.8 9.4 1.0
F1 A:ALF802 1.8 14.7 1.0
F4 A:ALF802 1.8 11.9 1.0
O3B A:GDP801 2.0 5.0 1.0
O A:HOH1103 2.0 6.8 1.0
NA A:NA804 3.3 8.0 1.0
PB A:GDP801 3.3 6.3 1.0
MG A:MG803 3.4 3.1 1.0
O2B A:GDP801 3.6 6.7 1.0
N A:SER35 3.9 5.2 1.0
O1B A:GDP801 4.0 4.9 1.0
NZ A:LYS38 4.0 7.0 1.0
N A:THR59 4.0 7.0 1.0
O A:HOH915 4.1 5.2 1.0
O A:HOH1101 4.1 8.2 1.0
N A:VAL58 4.1 8.0 1.0
N A:GLY149 4.2 5.5 1.0
OG1 A:THR59 4.3 6.3 1.0
CB A:THR59 4.3 6.9 1.0
CG A:GLN34 4.4 7.1 1.0
O A:HOH1102 4.5 5.5 1.0
O3A A:GDP801 4.5 5.8 1.0
O A:THR59 4.5 6.6 1.0
CA A:GLN34 4.6 5.2 1.0
CA A:SER35 4.6 6.0 1.0
O A:GLY56 4.6 9.3 1.0
CA A:THR59 4.7 7.3 1.0
OG A:SER35 4.7 5.7 1.0
C A:GLN34 4.8 5.4 1.0
CE A:LYS38 4.8 7.2 1.0
CA A:ILE57 4.9 9.1 1.0
CA A:VAL58 4.9 7.7 1.0
CA A:GLY149 4.9 5.4 1.0
CA A:PRO148 4.9 6.0 1.0
C A:VAL58 4.9 7.6 1.0
CB A:VAL58 5.0 7.9 1.0

Aluminium binding site 2 out of 2 in 3w6p

Go back to Aluminium Binding Sites List in 3w6p
Aluminium binding site 2 out of 2 in the Crystal Structure of Human DLP1 in Complex with Gdp.ALF4


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 2 of Crystal Structure of Human DLP1 in Complex with Gdp.ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Al802

b:9.3
occ:1.00
AL B:ALF802 0.0 9.3 1.0
F3 B:ALF802 1.8 14.0 1.0
F2 B:ALF802 1.8 10.6 1.0
F1 B:ALF802 1.8 16.6 1.0
F4 B:ALF802 1.8 13.1 1.0
O B:HOH1135 2.0 5.0 1.0
O3B B:GDP801 2.0 6.1 1.0
NA B:NA804 3.3 10.5 1.0
PB B:GDP801 3.3 5.8 1.0
MG B:MG803 3.5 3.0 1.0
O2B B:GDP801 3.6 6.6 1.0
N B:SER35 3.9 6.1 1.0
O1B B:GDP801 4.0 5.0 1.0
N B:THR59 4.0 7.3 1.0
NZ B:LYS38 4.1 5.0 1.0
O B:HOH951 4.1 7.4 1.0
N B:VAL58 4.1 8.8 1.0
N B:GLY149 4.1 6.0 1.0
O B:HOH1134 4.2 7.9 1.0
CB B:THR59 4.3 6.8 1.0
CG B:GLN34 4.3 8.6 1.0
OG1 B:THR59 4.3 6.4 1.0
O3A B:GDP801 4.4 5.0 1.0
O B:HOH1136 4.5 7.3 1.0
O B:THR59 4.5 6.9 1.0
CA B:GLN34 4.5 5.8 1.0
CA B:SER35 4.6 6.8 1.0
O B:GLY56 4.6 11.9 1.0
CA B:THR59 4.7 6.6 1.0
C B:GLN34 4.7 5.7 1.0
OG B:SER35 4.7 7.7 1.0
CE B:LYS38 4.8 7.2 1.0
CA B:GLY149 4.8 5.8 1.0
CA B:ILE57 4.8 10.6 1.0
CA B:VAL58 4.8 8.3 1.0
C B:VAL58 4.9 8.1 1.0
CB B:VAL58 4.9 8.6 1.0
CB B:GLN34 4.9 5.7 1.0
CA B:PRO148 5.0 6.2 1.0

Reference:

H.Kishida, S.Sugio. Crystal Structure of Gtpase Domain Fused with Minimal Stalks From Human Dynamin-1-Like Protein (DLP1) in Complex with Several Nucleotide Analogues Curr Top Pept Protein Res. V. 14 67 2013.
ISSN: ISSN 0972-4524
Page generated: Sat Dec 12 01:32:40 2020

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