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PMID: 15181215 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S. Research Support, U.S. Gov't, P.H.S.

Homology modeling of representative subfamilies of Arabidopsis major intrinsic proteins. Classification based on the aromatic/arginine selectivity filter.

Plant physiology ·Vol. 135 ·No. 2 ·2004-06-00 ·Pages 1059-68

Wallace IS, Roberts DM

Abstract

Major intrinsic proteins (MIPs) are a family of membrane channels that facilitate the bidirectional transport of water and small uncharged solutes such as glycerol. The 35 full-length members of the MIP family in Arabidopsis are segregated into four structurally homologous subfamilies: plasma membrane intrinsic proteins (PIPs), tonoplast intrinsic proteins (TIPs), nodulin 26-like intrinsic membrane proteins (NIPs), and small basic intrinsic proteins (SIPs). Computational methods were used to construct structural models of the putative pore regions of various plant MIPs based on homology modeling with the atomic resolution crystal structures of mammalian aquaporin 1 and the bacterial glycerol permease GlpF. Based on comparisons of the narrow selectivity filter regions (the aromatic/Arg [ar/R] filter), the members of the four phylogenetic subfamilies of Arabidopsis MIPs can be classified into eight groups. PIPs possess a uniform ar/R signature characteristic of high water transport aquaporins, whereas TIPs are highly diverse with three separate conserved ar/R regions. NIPs possess two separate conserved ar/R regions, one that is similar to the archetype, soybean (Glycine max) nodulin 26, and another that is characteristic of Arabidopsis NIP6;1. The SIP subfamily possesses two ar/R subgroups, characteristic of either SIP1 or SIP2. Both SIP ar/R residues are divergent from all other MIPs in plants and other kingdoms. Overall, these findings suggest that higher plant MIPs have a common fold but show distinct differences in proposed pore apertures, potential to form hydrogen bonds with transported molecules, and amphiphilicity that likely results in divergent transport selectivities.

MeSH Terms
Aquaporin 1 Aquaporins/chemistry,genetics,metabolism Arabidopsis/genetics,metabolism Arabidopsis Proteins/classification,genetics,metabolism Biological Transport Membrane Proteins/chemistry,genetics,metabolism Models, Molecular Molecular Sequence Data Multigene Family Plant Proteins/chemistry,genetics,metabolism Protein Conformation Water/metabolism
Chemicals
Aquaporins Arabidopsis Proteins Membrane Proteins Plant Proteins major intrinsic protein, plant nodulin plasma membrane intrinsic protein 2 Arabidopsis tonoplast intrinsic protein, plant Water Aquaporin 1
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Wallace Ian S
Department of Biochemistry, Cellular, and Molecular Biology and Center of Excellence in Structural Biology, The University of Tennessee, Knoxville, Tennessee 37996, USA.
Roberts Daniel M
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Article Info
Journal
Plant physiology
Abbr.
Plant Physiol
ISSN
0032-0889
DOI
10.1104/pp.103.033415
Published
2004-06-00
Epub
2004-00-04
Pages
1059-68
Language
English
Region
United States
NLM ID
0401224
PMCID
PMC514140
Subset
IM
Grants
NCRR NIH HHS · RR018470-01 · United States
Databases
GENBANK
AAC28529, AAC42249, AAC64216, AAC79629, AAD18141, AAD18142, AAD31569, AAF02782, AAF14664, AAF18716, AAF26804, AAF30303, AAF81320, AAF97261, AAM51272, BAB01264, BAB01832, BAB09071, BAB09487, BAB09839, BAB10360, BAB10361, CAA17774, CAA28471, CAB67649, CAB71073, CAB72165, F71442, T01947, T02327, T04053, T05028, T05378, T06738, T12999
PDB
1FX8, 1J4N
RefSeq
NP_174472
External Links
PubMed source DOI: 10.1104/pp.103.033415 PMC Full Text View journal details
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