Magnesium in PDB 5tes: Tev Cleaved Human Atp Citrate Lyase Bound to Citrate and Adp

Enzymatic activity of Tev Cleaved Human Atp Citrate Lyase Bound to Citrate and Adp

All present enzymatic activity of Tev Cleaved Human Atp Citrate Lyase Bound to Citrate and Adp:
2.3.3.8;

Protein crystallography data

The structure of Tev Cleaved Human Atp Citrate Lyase Bound to Citrate and Adp, PDB code: 5tes was solved by J.Hu, M.E.Fraser, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.89 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 56.170, 85.140, 199.010, 90.00, 90.00, 90.00
R / Rfree (%) 19.4 / 25.2

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Tev Cleaved Human Atp Citrate Lyase Bound to Citrate and Adp (pdb code 5tes). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Tev Cleaved Human Atp Citrate Lyase Bound to Citrate and Adp, PDB code: 5tes:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5tes

Go back to Magnesium Binding Sites List in 5tes
Magnesium binding site 1 out of 2 in the Tev Cleaved Human Atp Citrate Lyase Bound to Citrate and Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Tev Cleaved Human Atp Citrate Lyase Bound to Citrate and Adp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg902

b:34.4
occ:1.00
O3B A:ADP903 1.9 35.5 1.0
HOB3 A:ADP903 2.1 42.6 1.0
O A:HOH1095 2.1 32.0 1.0
O1A A:ADP903 2.2 37.1 1.0
O A:ASN203 2.2 44.0 1.0
OD2 A:ASP216 2.3 22.9 1.0
O A:HOH1081 2.3 34.4 1.0
PB A:ADP903 3.2 26.9 1.0
CG A:ASP216 3.3 29.8 1.0
PA A:ADP903 3.3 32.8 1.0
O3A A:ADP903 3.4 33.2 1.0
C A:ASN203 3.4 26.9 1.0
HB3 A:ASP216 3.5 44.5 1.0
HB2 A:ASP216 3.5 44.5 1.0
HB3 A:ASN203 3.6 33.6 1.0
HD3 A:PRO204 3.6 43.2 1.0
CB A:ASP216 3.7 37.1 1.0
HH21 A:ARG66 4.0 36.1 1.0
H5'2 A:ADP903 4.1 38.9 1.0
HOB2 A:ADP903 4.1 36.6 1.0
HD22 A:ASN203 4.1 38.0 1.0
HOA2 A:ADP903 4.1 40.1 1.0
O2B A:ADP903 4.1 30.5 1.0
O1B A:ADP903 4.2 37.1 1.0
O2A A:ADP903 4.2 33.4 1.0
CD A:PRO204 4.2 36.0 1.0
CB A:ASN203 4.2 28.0 1.0
O A:HOH1105 4.3 24.3 1.0
N A:PRO204 4.3 30.3 1.0
HD2 A:PRO204 4.3 43.2 1.0
ND2 A:ASN203 4.4 31.6 1.0
OD1 A:ASP216 4.4 37.5 1.0
CA A:ASN203 4.4 30.9 1.0
CG A:ASN203 4.5 40.4 1.0
HG12 A:VAL140 4.5 61.0 1.0
H A:ASN203 4.6 38.5 1.0
O A:HOH1041 4.6 32.0 1.0
O5' A:ADP903 4.6 39.9 1.0
H3' A:ADP903 4.6 45.1 1.0
NH2 A:ARG66 4.8 30.1 1.0
O3' A:ADP903 4.8 40.1 1.0
HD21 A:ASN203 4.8 38.0 1.0
C5' A:ADP903 4.9 32.5 1.0
N A:ASN203 5.0 32.1 1.0

Magnesium binding site 2 out of 2 in 5tes

Go back to Magnesium Binding Sites List in 5tes
Magnesium binding site 2 out of 2 in the Tev Cleaved Human Atp Citrate Lyase Bound to Citrate and Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Tev Cleaved Human Atp Citrate Lyase Bound to Citrate and Adp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg901

b:40.5
occ:1.00
O B:HOH1002 2.1 34.3 1.0
O3P B:NEP760 2.1 32.9 1.0
O A:HOH1017 2.1 28.5 1.0
O A:HOH1045 2.2 39.5 1.0
O A:HOH1074 2.2 28.7 1.0
HD2 B:NEP760 3.2 41.3 1.0
P B:NEP760 3.6 39.4 1.0
H A:GLY282 3.7 47.2 1.0
HA3 A:GLY282 3.7 43.0 1.0
OE2 B:GLU599 3.8 36.0 1.0
OE1 B:GLU599 3.8 43.9 1.0
O A:HOH1075 3.9 43.8 1.0
O1P B:NEP760 3.9 32.9 1.0
O B:HOH1014 4.0 25.1 1.0
O B:HOH1005 4.0 41.1 1.0
CD2 B:NEP760 4.0 34.4 1.0
OA1 A:FLC901 4.1 38.0 1.0
CD B:GLU599 4.1 39.0 1.0
OE2 A:GLU306 4.2 44.0 1.0
OG A:SER308 4.2 49.6 1.0
NE2 B:NEP760 4.2 30.5 1.0
N A:GLY282 4.4 39.3 1.0
OA2 A:FLC901 4.4 42.3 1.0
HG A:SER308 4.5 59.6 1.0
CA A:GLY282 4.5 35.8 1.0
O2P B:NEP760 4.5 34.6 1.0
OG A:SER263 4.6 49.7 1.0
CAC A:FLC901 4.7 37.2 1.0
HA B:NEP760 4.8 51.7 1.0
HB3 A:SER263 4.8 51.0 1.0
HB2 A:SER263 4.8 51.0 1.0
O B:HOH1057 4.8 33.0 1.0
O B:HOH1001 4.9 29.4 1.0
HA2 A:GLY282 4.9 43.0 1.0
HG A:SER263 5.0 59.6 1.0

Reference:

J.Hu, A.Komakula, M.E.Fraser. Binding of Hydroxycitrate to Human Atp-Citrate Lyase. Acta Crystallogr D Struct V. 73 660 2017BIOL.
ISSN: ISSN 2059-7983
PubMed: 28777081
DOI: 10.1107/S2059798317009871
Page generated: Mon Dec 14 21:11:50 2020

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