6CSE

Crystal structure of sodium/alanine symporter AgcS with L-alanine bound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.24 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.230 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural basis for substrate binding and specificity of a sodium-alanine symporter AgcS.

Ma, J.Lei, H.T.Reyes, F.E.Sanchez-Martinez, S.Sarhan, M.F.Hattne, J.Gonen, T.

(2019) Proc. Natl. Acad. Sci. U.S.A. 116: 2086-2090


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Monoclonal antibody FAB heavy chain
A, H
214N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Monoclonal antibody FAB light chain
B, L
213N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Sodium/alanine symporter AgcS
M, C
453Methanococcus maripaludis (strain S2 / LL)Mutation(s): 0 
Gene Names: agcS
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Amino Acid/Polyamine/Organocation (APC) Superfamily
Protein: 
AgcS sodium/alanine symporter with bound L-alanine
Find proteins for Q6LX42 (Methanococcus maripaludis (strain S2 / LL))
Go to UniProtKB:  Q6LX42
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
M
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
ALA
Query on ALA

Download SDF File 
Download CCD File 
M
ALANINE
C3 H7 N O2
QNAYBMKLOCPYGJ-REOHCLBHSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.24 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.230 
  • Space Group: P 61
Unit Cell:
Length (Å)Angle (°)
a = 183.477α = 90.00
b = 183.477β = 90.00
c = 349.067γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
PHASERphasing
PDB_EXTRACTdata extraction
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-01-30
    Type: Initial release
  • Version 1.1: 2019-02-20
    Type: Data collection, Database references