Cation diffusion facilitator

Cation diffusion facilitators (CDFs) are transmembrane proteins that provide tolerance of cells to divalent metal ions, such as cadmium, zinc, and cobalt. These proteins are considered to be efflux pumps that remove these divalent metal ions from cells.[1][2] However, some members of the CDF superfamily are implicated in ion uptake.[3] All members of the CDF family possess six putative transmembrane spanners with strongest conservation in the four N-terminal spanners.[4] The Cation Diffusion Facilitator (CDF) Superfamily includes the following families:[4][5]

Cation_efflux
Identifiers
SymbolCation_efflux
PfamPF01545
Pfam clanCL0184
InterProIPR002524
TCDB2.A.4
OPM superfamily183
OPM protein3h90

The Cation Diffusion Facilitator (CDF) Family

The CDF family (TC# 2.A.4) is a ubiquitous family, members of which are found in bacteria, archaea and eukaryotes.[4] They transport heavy metal ions, such as cadmium, zinc, cobalt, nickel, copper and mercuric ions. There are 9 mammalian paralogues, ZnT1 - 8 and 10.[6] Most proteins from the family have six transmembrane helices, but MSC2 of S. cerevisiae) and Znt5 and hZTL1 of H. sapiens have 15 and 12 predicted TMSs, respectively.[7] These proteins exhibit an unusual degree of sequence divergence and size variation (300-750 residues). Eukaryotic proteins exhibit differences in cell localization. Some catalyze heavy metal uptake from the cytoplasm into various intracellular eukaryotic organelles (ZnT2-7) while others (ZnT1) catalyze efflux from the cytoplasm across the plasma membrane into the extracellular medium. Thus, some are found in plasma membranes while others are in organellar membranes such as vacuoles of plants and yeast and the golgi of animals.[8][9][10] They catalyze cation:proton antiport, have a single essential zinc-binding site within the transmembrane domains of each monomer within the dimer, and have a binuclear zinc-sensing and binding site in the cytoplasmic C-terminal region.[11] A representative list of proteins belonging to the CDF family can be found in the Transporter Classification Database.

Phylogeny

Prokaryotic and eukaryotic proteins cluster separately but may function with the same polarity by similar mechanisms. These proteins are secondary carriers which utilize the proton motive force (pmf) and function by H+ antiport (for metal efflux). One member, CzcD of Bacillus subtilis (TC# 2.A.4.1.3) , has been shown to exchange the divalent cation (Zn2+ or Cd2+ ) for two monovalent cations (K+ and H+ ) in an electroneutral process energized by the transmembrane pH gradient.[12] Another, ZitB of E. coli (TC #2.A.4.1.4), has been reconstituted in proteoliposomes and studied kinetically.[13] It appears to function by simple Me2+:H+ antiport with a 1:1 stoichiometry.

Montanini et al. (2007) have conducted phylogenetic analysis of CDF family members. Their analysis revealed three major and two minor phylogenetic groups. They suggest that the three major groups segregated according to metal ion specificity:[14]

  1. Mn2+
  2. Fe2+ and Zn2+ as well as other metal ions
  3. Zn2+ plus other metals, but not Iron.

Structure

X-ray structure of YiiP of E. coli represents a homodimer.[15][16]

Coudray et al. (2013) used cryoelectron microscopy to determine a 13 Å resolution structure of a YiiP homolog from Shewanella oneidensis within a lipid bilayer in the absence of Zn2+. Starting from the x-ray structure in the presence of Zn2+, they used molecular dynamic flexible fitting to build a model. Comparison of the structures suggested a conformational change that involves pivoting of a transmembrane, four-helix bundle (M1, M2, M4, and M5) relative to the M3-M6 helix pair. Although accessibility of transport sites in the x-ray model indicates that it represents an outward-facing state, their model was consistent with an inward-facing state, suggesting that the conformational change is relevant to the alternating access mechanism for transport. They speculated that the dimer may coordinate rearrangement of the transmembrane helices.[17]

Involved in metal tolerance/resistance by efflux, most CDF proteins share a two-modular architecture consisting of a transmembrane domain (TMD) and a C-terminal domain (CTD) that protrudes into the cytoplasm. A Zn2+ and Cd2+ CDF transporter from the marine bacterium, Maricaulis maris, that does not possess the CTD is a member of a new, CTD-lacking subfamily of CDFs.

Transport Reaction

The generalized transport reaction for CDF family members is:

Me2+ (in) H+ (out) ± K+ (out) → Me2+ (out) H+ (in) ± K+ (in).

gollark: UPDATED UPDATE: LyricLy is now reduced in classification to class-22H due to Incident 20200805-α.
gollark: UPDATE: He has been reclassified as a class-29P apionomoformic entity.
gollark: NOTICE: LyricLy is now classified as a class-27P apionomoform.
gollark: There are, in the comments, techniques to make it smaller which may make it actually fit.
gollark: Yeeees.

See also

References
  1. Xiong A, Jayaswal RK (August 1998). "Molecular characterization of a chromosomal determinant conferring resistance to zinc and cobalt ions in Staphylococcus aureus". J. Bacteriol. 180 (16): 4024–9. doi:10.1128/JB.180.16.4024-4029.1998. PMC 107394. PMID 9696746.
  2. Kunito T, Kusano T, Oyaizu H, Senoo K, Kanazawa S, Matsumoto S (April 1996). "Cloning and sequence analysis of czc genes in Alcaligenes sp. strain CT14". Biosci. Biotechnol. Biochem. 60 (4): 699–704. doi:10.1271/bbb.60.699. PMID 8829543.
  3. Conklin DS, McMaster JA, Culbertson MR, Kung C (September 1992). "COT1, a gene involved in cobalt accumulation in Saccharomyces cerevisiae". Mol. Cell. Biol. 12 (9): 3678–88. doi:10.1128/mcb.12.9.3678. PMC 360222. PMID 1508175.
  4. Paulson, IT; Saier, MH Jr. (1997). "A novel family of ubiquitous heavy metal ion transport proteins". Journal of Membrane Biology. 156 (2): 99–103. doi:10.1007/s002329900192. PMID 9075641.
  5. Saier, MH Jr. "Cation Diffusion Facilitator (CDF) Superfamily". Transporter Classification Database.
  6. Cousins, Robert J.; Liuzzi, Juan P.; Lichten, Louis A. (2006-08-25). "Mammalian zinc transport, trafficking, and signals". The Journal of Biological Chemistry. 281 (34): 24085–24089. doi:10.1074/jbc.R600011200. ISSN 0021-9258. PMID 16793761.
  7. Cragg, Ruth A.; Christie, Graham R.; Phillips, Siôn R.; Russi, Rachel M.; Küry, Sébastien; Mathers, John C.; Taylor, Peter M.; Ford, Dianne (2002-06-21). "A novel zinc-regulated human zinc transporter, hZTL1, is localized to the enterocyte apical membrane". The Journal of Biological Chemistry. 277 (25): 22789–22797. doi:10.1074/jbc.M200577200. ISSN 0021-9258. PMID 11937503.
  8. Chao, Yang; Fu, Dax (2004-04-23). "Thermodynamic studies of the mechanism of metal binding to the Escherichia coli zinc transporter YiiP". The Journal of Biological Chemistry. 279 (17): 17173–17180. doi:10.1074/jbc.M400208200. ISSN 0021-9258. PMID 14960568.
  9. Haney, Christopher J.; Grass, Gregor; Franke, Sylvia; Rensing, Christopher (2005-06-01). "New developments in the understanding of the cation diffusion facilitator family". Journal of Industrial Microbiology & Biotechnology. 32 (6): 215–226. doi:10.1007/s10295-005-0224-3. ISSN 1367-5435. PMID 15889311.
  10. MacDiarmid, Colin W.; Milanick, Mark A.; Eide, David J. (2003-04-25). "Induction of the ZRC1 metal tolerance gene in zinc-limited yeast confers resistance to zinc shock". The Journal of Biological Chemistry. 278 (17): 15065–15072. doi:10.1074/jbc.M300568200. ISSN 0021-9258. PMID 12556516.
  11. Kambe, Taiho (2012-01-01). "Molecular architecture and function of ZnT transporters" (PDF). Current Topics in Membranes. 69: 199–220. doi:10.1016/B978-0-12-394390-3.00008-2. ISBN 9780123943903. ISSN 1063-5823. PMID 23046652.
  12. Guffanti, Arthur A.; Wei, Yi; Rood, Sacha V.; Krulwich, Terry A. (2002-07-01). "An antiport mechanism for a member of the cation diffusion facilitator family: divalent cations efflux in exchange for K+ and H+". Molecular Microbiology. 45 (1): 145–153. doi:10.1046/j.1365-2958.2002.02998.x. ISSN 0950-382X. PMID 12100555.
  13. Chao, Yang; Fu, Dax (2004-03-26). "Kinetic study of the antiport mechanism of an Escherichia coli zinc transporter, ZitB". The Journal of Biological Chemistry. 279 (13): 12043–12050. doi:10.1074/jbc.M313510200. ISSN 0021-9258. PMID 14715669.
  14. Montanini, Barbara; Blaudez, Damien; Jeandroz, Sylvain; Sanders, Dale; Chalot, Michel (2007-01-01). "Phylogenetic and functional analysis of the Cation Diffusion Facilitator (CDF) family: improved signature and prediction of substrate specificity". BMC Genomics. 8: 107. doi:10.1186/1471-2164-8-107. ISSN 1471-2164. PMC 1868760. PMID 17448255.
  15. Wei, Yinan; Li, Huilin; Fu, Dax (2004-09-17). "Oligomeric state of the Escherichia coli metal transporter YiiP". The Journal of Biological Chemistry. 279 (38): 39251–39259. doi:10.1074/jbc.M407044200. ISSN 0021-9258. PMID 15258151.
  16. Lu, Min; Fu, Dax (2007-09-21). "Structure of the zinc transporter YiiP". Science. 317 (5845): 1746–1748. Bibcode:2007Sci...317.1746L. doi:10.1126/science.1143748. ISSN 1095-9203. PMID 17717154.
  17. Coudray, Nicolas; Valvo, Salvatore; Hu, Minghui; Lasala, Ralph; Kim, Changki; Vink, Martin; Zhou, Ming; Provasi, Davide; Filizola, Marta (2013-02-05). "Inward-facing conformation of the zinc transporter YiiP revealed by cryoelectron microscopy". Proceedings of the National Academy of Sciences of the United States of America. 110 (6): 2140–2145. Bibcode:2013PNAS..110.2140C. doi:10.1073/pnas.1215455110. ISSN 1091-6490. PMC 3568326. PMID 23341604.
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