2H2P

Crystal structure of CLC-ec1 in complex with Fab fragment in SeCN-


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.278 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Uncoupling of a CLC Cl(-)/H(+) Exchange Transporter by Polyatomic Anions

Nguitragool, W.Miller, C.

(2006) J.Mol.Biol. 362: 682-690

  • DOI: 10.1016/j.jmb.2006.07.006
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • CLC-ec1 is a bacterial archetype of CLC transporters, a ubiquitous class of proteins that catalyze transmembrane exchange of Cl- and H+ necessary for pH regulation of numerous physiological processes. Despite a profusion of high-resolution structures ...

    CLC-ec1 is a bacterial archetype of CLC transporters, a ubiquitous class of proteins that catalyze transmembrane exchange of Cl- and H+ necessary for pH regulation of numerous physiological processes. Despite a profusion of high-resolution structures, the molecular mechanism of exchange remains unknown. Here, we rigorously demonstrate strict exchange stoichiometry of 2 Cl-/1 H+. In addition to Cl- and Br-, two non-halide ions, NO3- and SCN-, are shown to be transported by CLC-ec1, but with reduced H+ counter-transport. The loss of proton coupling to these anions is accompanied by an absence of bound anions in the central and external Cl- binding sites in the protein's anion selectivity region, as revealed by crystallographic comparison of Br- and SeCN- bound to this region.


    Organizational Affiliation

    Department of Biochemistry, Howard Hughes Medical Institute, Brandeis University, Waltham, MA 02454, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CLC Cl transporter
A, B
465Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: clcA (eriC, yadQ)
Find proteins for P37019 (Escherichia coli (strain K12))
Go to UniProtKB:  P37019
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
FAB fragment, heavy chain
C, E
221Rattus norvegicusMutation(s): 0 
Gene Names: Ighg
Find proteins for Q4VBH1 (Rattus norvegicus)
Go to UniProtKB:  Q4VBH1
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
FAB fragment, light chain
D, F
211N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SEK
Query on SEK

Download SDF File 
Download CCD File 
A, B
SELENOCYANATE ION
C N Se
CRDYSYOERSZTHZ-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.278 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 220.581α = 90.00
b = 121.578β = 128.25
c = 151.240γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
ADSCdata collection
DENZOdata reduction
PDB_EXTRACTdata extraction
REFMACrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-05-30
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-18
    Type: Advisory, Refinement description