3A2A | pdb_00003a2a

The structure of the carboxyl-terminal domain of the human voltage-gated proton channel Hv1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 
    0.266 (Depositor), 0.254 (DCC) 
  • R-Value Work: 
    0.252 (Depositor), 0.251 (DCC) 
  • R-Value Observed: 
    0.253 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 3A2A

This is version 1.2 of the entry. See complete history

Literature

The role and structure of the carboxyl-terminal domain of the human voltage-gated proton channel Hv1.

Li, S.J.Zhao, Q.Zhou, Q.Unno, H.Zhai, Y.Sun, F.

(2010) J Biological Chem 285: 12047-12054

  • DOI: https://doi.org/10.1074/jbc.M109.040360
  • Primary Citation Related Structures: 
    3A2A

  • PubMed Abstract: 

    The voltage-gated proton channel Hv1 has a voltage sensor domain but lacks a pore domain. Although the C-terminal domain of Hv1 is known to be responsible for dimeric architecture of the channel, its role and structure are not known. We report that the full-length Hv1 is mainly localized in intracellular compartment membranes rather than the plasma membrane. Truncation of either the N or C terminus alone or both together revealed that the N-terminal deletion did not alter localization, but deletion of the C terminus either alone or together with the N terminus resulted in expression throughout the cell. These results indicate that the C terminus is essential for Hv1 localization but not the N terminus. In the 2.0 A structure of the C-terminal domain, the two monomers form a dimer via a parallel alpha-helical coiled-coil, in which one chloride ion binds with the Neta atom of Arg(264). A pH-dependent structural change of the protein has been observed, but it remains a dimer irrespective of pH value.


  • Organizational Affiliation
    • Key Laboratory of Bioactive Materials, Ministry of Education, College of Physics Science, Nankai University, Tianjin 300071, China. shujieli@nankai.edu.cn

Macromolecule Content 

  • Total Structure Weight: 26.91 kDa 
  • Atom Count: 1,466 
  • Modeled Residue Count: 164 
  • Deposited Residue Count: 232 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Voltage-gated hydrogen channel 1
A, B, C, D
58Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q96D96 (Homo sapiens)
Explore Q96D96 
Go to UniProtKB:  Q96D96
PHAROS:  Q96D96
GTEx:  ENSG00000122986 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96D96
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free:  0.266 (Depositor), 0.254 (DCC) 
  • R-Value Work:  0.252 (Depositor), 0.251 (DCC) 
  • R-Value Observed: 0.253 (Depositor) 
Space Group: P 43
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.65α = 90
b = 37.65β = 90
c = 137.04γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
ADSCdata collection
MOSFLMdata reduction
SCALAdata scaling
SOLVEphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-02-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2024-10-23
    Changes: Data collection, Database references, Derived calculations, Structure summary