Atomistry » Sodium » PDB 4fpa-4ge8 » 4fxz
Atomistry »
  Sodium »
    PDB 4fpa-4ge8 »
      4fxz »

Sodium in PDB 4fxz: Crystal Structure of Leut-F253A Bound to L-Leucine From Lipid Bicelles

Protein crystallography data

The structure of Crystal Structure of Leut-F253A Bound to L-Leucine From Lipid Bicelles, PDB code: 4fxz was solved by H.Wang, E.Gouaux, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.30 / 2.60
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 122.140, 89.888, 81.262, 90.00, 102.95, 90.00
R / Rfree (%) 21.3 / 22

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Leut-F253A Bound to L-Leucine From Lipid Bicelles (pdb code 4fxz). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Leut-F253A Bound to L-Leucine From Lipid Bicelles, PDB code: 4fxz:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 4fxz

Go back to Sodium Binding Sites List in 4fxz
Sodium binding site 1 out of 2 in the Crystal Structure of Leut-F253A Bound to L-Leucine From Lipid Bicelles


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Leut-F253A Bound to L-Leucine From Lipid Bicelles within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na602

b:32.9
occ:1.00
O A:ALA22 2.3 35.9 1.0
OD1 A:ASN27 2.3 42.9 1.0
O A:THR254 2.4 34.1 1.0
OG1 A:THR254 2.4 41.2 1.0
OD1 A:ASN286 2.4 40.6 1.0
O A:LEU601 2.6 39.9 1.0
C A:ALA22 3.1 35.0 1.0
C A:THR254 3.1 38.3 1.0
CG A:ASN27 3.2 41.2 1.0
CA A:THR254 3.2 39.2 1.0
ND2 A:ASN27 3.3 38.2 1.0
CB A:THR254 3.4 41.5 1.0
CG A:ASN286 3.4 35.5 1.0
ND2 A:ASN286 3.6 35.7 1.0
C A:LEU601 3.6 39.9 1.0
N A:VAL23 3.7 36.4 1.0
CA A:VAL23 3.8 35.0 1.0
N A:LEU601 3.8 36.2 1.0
N A:GLY24 3.9 38.2 1.0
CA A:ALA22 4.0 34.2 1.0
OE2 A:GLU290 4.2 40.7 1.0
CA A:LEU601 4.3 34.7 1.0
C A:VAL23 4.3 37.9 1.0
CB A:ALA22 4.4 32.0 1.0
N A:LEU255 4.4 37.0 1.0
CG2 A:THR254 4.4 41.1 1.0
OXT A:LEU601 4.5 35.8 1.0
N A:THR254 4.6 37.6 1.0
CB A:ASN27 4.6 42.9 1.0
N A:ASN27 4.6 37.7 1.0
CB A:ASN286 4.8 39.4 1.0
O A:ALA253 4.9 36.9 1.0
CA A:GLY24 4.9 36.4 1.0
C A:GLY26 4.9 43.8 1.0

Sodium binding site 2 out of 2 in 4fxz

Go back to Sodium Binding Sites List in 4fxz
Sodium binding site 2 out of 2 in the Crystal Structure of Leut-F253A Bound to L-Leucine From Lipid Bicelles


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Leut-F253A Bound to L-Leucine From Lipid Bicelles within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na603

b:40.4
occ:1.00
O A:GLY20 2.2 38.2 1.0
O A:ALA351 2.3 44.7 1.0
O A:VAL23 2.4 39.4 1.0
OG1 A:THR354 2.4 38.0 1.0
OG A:SER355 2.4 39.0 1.0
N A:SER355 2.6 37.3 1.0
C A:THR354 3.0 37.4 1.0
CB A:THR354 3.1 41.6 1.0
CA A:SER355 3.2 36.1 1.0
CB A:SER355 3.2 41.0 1.0
C A:VAL23 3.3 37.9 1.0
C A:ALA351 3.4 38.4 1.0
C A:GLY20 3.4 43.3 1.0
CA A:THR354 3.5 35.9 1.0
CA A:GLY24 3.7 36.4 1.0
O A:THR354 3.7 38.0 1.0
N A:GLY24 3.9 38.2 1.0
CA A:ALA351 3.9 40.5 1.0
N A:THR354 4.0 35.1 1.0
O A:ASN21 4.1 38.9 1.0
CA A:GLY20 4.2 42.3 1.0
N A:ASN21 4.4 46.3 1.0
C A:ASN21 4.4 39.0 1.0
N A:GLY352 4.5 33.8 1.0
CA A:VAL23 4.5 35.0 1.0
CG2 A:THR354 4.6 42.5 1.0
CA A:ASN21 4.6 37.6 1.0
N A:VAL23 4.6 36.4 1.0
O A:PHE350 4.6 39.9 1.0
CB A:ALA351 4.7 34.5 1.0
O A:GLY352 4.7 40.2 1.0
C A:SER355 4.7 40.2 1.0
C A:GLY352 4.7 40.7 1.0
C A:LEU353 4.9 43.2 1.0
C A:ALA22 4.9 35.0 1.0
CA A:GLY352 4.9 39.8 1.0
O A:ALA22 5.0 35.9 1.0

Reference:

H.Wang, E.Gouaux. Substrate Binds in the S1 Site of the F253A Mutant of Leut, A Neurotransmitter Sodium Symporter Homologue. Embo Rep. V. 13 861 2012.
ISSN: ISSN 1469-221X
PubMed: 22836580
DOI: 10.1038/EMBOR.2012.110
Page generated: Tue Dec 15 06:41:10 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy