Magnesium in PDB 6ia7: T. Brucei IFT22 Gtp-Bound Crystal Structure

Protein crystallography data

The structure of T. Brucei IFT22 Gtp-Bound Crystal Structure, PDB code: 6ia7 was solved by S.Wachter, J.Basquin, E.Lorentzen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.36 / 2.30
Space group P 61
Cell size a, b, c (Å), α, β, γ (°) 55.845, 55.845, 263.443, 90.00, 90.00, 120.00
R / Rfree (%) 21.2 / 26.4

Other elements in 6ia7:

The structure of T. Brucei IFT22 Gtp-Bound Crystal Structure also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the T. Brucei IFT22 Gtp-Bound Crystal Structure (pdb code 6ia7). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the T. Brucei IFT22 Gtp-Bound Crystal Structure, PDB code: 6ia7:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6ia7

Go back to Magnesium Binding Sites List in 6ia7
Magnesium binding site 1 out of 2 in the T. Brucei IFT22 Gtp-Bound Crystal Structure


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of T. Brucei IFT22 Gtp-Bound Crystal Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg302

b:48.2
occ:1.00
O A:HOH402 1.8 49.1 1.0
OG A:SER19 2.0 55.0 1.0
O1B A:GTP301 2.2 58.5 1.0
O1G A:GTP301 2.2 54.1 1.0
OD2 A:ASP73 3.0 87.1 1.0
CB A:SER19 3.2 51.2 1.0
OD1 A:ASP73 3.4 84.5 1.0
PB A:GTP301 3.4 56.8 1.0
PG A:GTP301 3.5 54.9 1.0
CG A:ASP73 3.6 80.0 1.0
N A:SER19 3.7 56.8 1.0
O3B A:GTP301 3.8 54.4 1.0
CG A:LYS18 3.9 46.9 1.0
CA A:SER19 3.9 56.0 1.0
O2B A:GTP301 4.2 60.1 1.0
O2G A:GTP301 4.2 57.1 1.0
NZ A:LYS18 4.3 59.7 1.0
CE A:LYS18 4.4 57.6 1.0
CA A:THR39 4.6 70.0 1.0
O3G A:GTP301 4.7 51.0 1.0
O3A A:GTP301 4.7 55.2 1.0
N A:ASN40 4.7 68.7 1.0
O A:VAL74 4.7 62.8 1.0
C A:LYS18 4.7 53.6 1.0
CA A:GLY75 4.7 58.9 1.0
CD A:LYS18 4.8 51.9 1.0
O1A A:GTP301 4.8 53.4 1.0
O2A A:GTP301 4.8 62.3 1.0
O A:ASN40 4.9 57.3 1.0
O A:GLU38 4.9 68.7 1.0
OG1 A:THR39 5.0 65.6 1.0

Magnesium binding site 2 out of 2 in 6ia7

Go back to Magnesium Binding Sites List in 6ia7
Magnesium binding site 2 out of 2 in the T. Brucei IFT22 Gtp-Bound Crystal Structure


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of T. Brucei IFT22 Gtp-Bound Crystal Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg302

b:50.4
occ:1.00
OG B:SER19 1.8 55.2 1.0
O3G B:GTP301 2.0 61.5 1.0
O2B B:GTP301 2.3 52.5 1.0
O B:HOH413 3.0 83.3 1.0
CB B:SER19 3.1 54.1 1.0
PG B:GTP301 3.3 57.7 1.0
PB B:GTP301 3.4 52.8 1.0
O3B B:GTP301 3.5 55.0 1.0
N B:THR39 3.8 76.0 1.0
O1A B:GTP301 3.9 49.5 1.0
O B:HOH408 4.0 54.1 1.0
N B:SER19 4.2 55.6 1.0
CA B:SER19 4.2 53.7 1.0
O2G B:GTP301 4.3 49.3 1.0
O1G B:GTP301 4.3 57.8 1.0
OD2 B:ASP73 4.3 55.6 1.0
O1B B:GTP301 4.5 47.0 1.0
O3A B:GTP301 4.5 49.9 1.0
OD1 B:ASP73 4.5 58.9 1.0
PA B:GTP301 4.6 49.4 1.0
O B:VAL74 4.7 62.3 1.0
CG B:ASP73 4.8 54.3 1.0
O2A B:GTP301 4.9 47.8 1.0
N B:ASN40 5.0 99.4 1.0

Reference:

S.Wachter, J.Jung, S.Shafiq, J.Basquin, C.Fort, P.Bastin, E.Lorentzen. Binding of IFT22 to the Intraflagellar Transport Complex Is Essential For Flagellum Assembly. Embo J. V. 38 2019.
ISSN: ESSN 1460-2075
PubMed: 30940671
DOI: 10.15252/EMBJ.2018101251
Page generated: Mon Dec 14 22:56:31 2020

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