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Sodium in PDB 1l2t: Dimeric Structure of MJ0796, A Bacterial Abc Transporter Cassette

Protein crystallography data

The structure of Dimeric Structure of MJ0796, A Bacterial Abc Transporter Cassette, PDB code: 1l2t was solved by P.C.Smith, N.Karpowich, J.Rosen, J.F.Hunt, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.90
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 80.887, 106.311, 116.941, 90.00, 90.00, 90.00
R / Rfree (%) 18.5 / 25.1

Sodium Binding Sites:

The binding sites of Sodium atom in the Dimeric Structure of MJ0796, A Bacterial Abc Transporter Cassette (pdb code 1l2t). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Dimeric Structure of MJ0796, A Bacterial Abc Transporter Cassette, PDB code: 1l2t:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 1l2t

Go back to Sodium Binding Sites List in 1l2t
Sodium binding site 1 out of 2 in the Dimeric Structure of MJ0796, A Bacterial Abc Transporter Cassette


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Dimeric Structure of MJ0796, A Bacterial Abc Transporter Cassette within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1502

b:24.4
occ:1.00
O A:HOH2103 2.0 44.0 1.0
O B:HOH2012 2.2 14.9 1.0
O1G A:ATP1301 2.2 20.8 1.0
OG A:SER45 2.3 22.0 1.0
O2B A:ATP1301 2.5 20.4 1.0
NE2 A:GLN90 3.0 24.9 1.0
CB A:SER45 3.4 19.1 1.0
PG A:ATP1301 3.5 19.3 1.0
PB A:ATP1301 3.5 21.1 1.0
O3B A:ATP1301 3.8 24.2 1.0
O A:HOH2047 4.0 25.6 1.0
N B:GLY1148 4.0 17.7 1.0
CD A:GLN90 4.1 24.3 1.0
O3G A:ATP1301 4.1 17.7 1.0
O3A A:ATP1301 4.2 18.2 1.0
O1A A:ATP1301 4.3 24.1 1.0
N A:SER45 4.3 15.3 1.0
CA A:SER45 4.4 18.2 1.0
OD2 A:ASP170 4.4 20.4 1.0
NE2 A:GLN171 4.4 30.0 1.0
OD1 A:ASP170 4.4 18.5 1.0
OE1 A:GLN90 4.5 27.1 1.0
PA A:ATP1301 4.5 24.6 1.0
CA B:GLY1148 4.7 19.3 1.0
O2G A:ATP1301 4.7 21.5 1.0
CB B:SER1147 4.7 20.0 1.0
O1B A:ATP1301 4.8 30.3 1.0
CG A:ASP170 4.9 20.4 1.0

Sodium binding site 2 out of 2 in 1l2t

Go back to Sodium Binding Sites List in 1l2t
Sodium binding site 2 out of 2 in the Dimeric Structure of MJ0796, A Bacterial Abc Transporter Cassette


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Dimeric Structure of MJ0796, A Bacterial Abc Transporter Cassette within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na1501

b:21.5
occ:1.00
O B:HOH2337 2.1 37.4 1.0
O A:HOH2003 2.2 11.8 1.0
O1G B:ATP1302 2.2 20.1 1.0
OG B:SER1045 2.3 17.7 1.0
O2B B:ATP1302 2.5 14.1 1.0
NE2 B:GLN1090 2.9 22.1 1.0
CB B:SER1045 3.3 18.8 1.0
PG B:ATP1302 3.5 20.0 1.0
PB B:ATP1302 3.5 19.3 1.0
O B:HOH2399 3.8 43.3 1.0
O3B B:ATP1302 3.8 20.7 1.0
N A:GLY148 4.1 15.2 1.0
CD B:GLN1090 4.1 20.9 1.0
O A:HOH2270 4.1 24.7 1.0
O3A B:ATP1302 4.2 16.8 1.0
O1A B:ATP1302 4.2 16.8 1.0
O3G B:ATP1302 4.3 21.0 1.0
N B:SER1045 4.3 18.1 1.0
NE2 B:GLN1171 4.3 30.7 1.0
OD2 B:ASP1170 4.3 19.2 1.0
CA B:SER1045 4.4 17.1 1.0
OD1 B:ASP1170 4.4 21.9 1.0
PA B:ATP1302 4.5 19.8 1.0
OE1 B:GLN1090 4.5 24.8 1.0
O2G B:ATP1302 4.6 21.6 1.0
CA A:GLY148 4.7 14.9 1.0
CB A:SER147 4.7 20.3 1.0
CG B:ASP1170 4.8 18.3 1.0
O1B B:ATP1302 4.8 21.4 1.0

Reference:

P.C.Smith, N.Karpowich, L.Millen, J.E.Moody, J.Rosen, P.J.Thomas, J.F.Hunt. Atp Binding to the Motor Domain From An Abc Transporter Drives Formation of A Nucleotide Sandwich Dimer. Mol.Cell V. 10 139 2002.
ISSN: ISSN 1097-2765
PubMed: 12150914
DOI: 10.1016/S1097-2765(02)00576-2
Page generated: Tue Dec 15 05:29:12 2020

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