Putative aliphatic sulfonates transport permease protein SsuC5 (VPARA_09240, A0A0H2M6G6) in Variovorax paradoxus strain TBEA6 is a 284-amino-acid multi-pass integral inner-membrane subunit (NCBIfam NF008470, PANTHER PTHR30151:SF38) of the SsuABC ATP-binding cassette (ABC) importer complex. Encoded on genomic contig JZWI01000005 (EMBL KLN57913.1) immediately downstream of the ATPase subunit ssuB2 (VPARA_09230, KLN57912.1) and immediately upstream of the alkanesulfonate monooxygenase ssuD (VPARA_09250, KLN57914.1), with the periplasmic binding protein ssuA2 (VPARA_09270, KLN57916.1) and FMN reductase ssuE (VPARA_09290, KLN57918.1) in the same cluster, SsuC5 contains five predicted transmembrane alpha-helices (residues 34-56, 91-114, 126-144, 150-169, and 245-264) and a conserved ABC transmembrane type-1 domain (PROSITE PS50928, Pfam PF00528, residues 80-264) that forms the membrane translocation pathway for importing aliphatic sulfonates into the cytoplasm.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0005886 plasma membrane | IEA GO_REF:0000120 | ACCEPT | Summary: Core subcellular localization supported by the five transmembrane alpha-helices and the ABC transmembrane type-1 domain (PROSITE PS50928, residues 80-264). Reason: SsuC5 is a multi-pass integral inner-membrane protein containing five transmembrane helices (residues 34-56, 91-114, 126-144, 150-169, and 245-264) and an ABC transmembrane type-1 domain (PROSITE PS50928, PROSITE-ProRule PRU00441, RuleBase RU363032, residues 80-264) embedded in the bacterial plasma membrane. Supporting Evidence: file:VARPD/ssuC5/ssuC5-uniprot.txt CC -!- SUBCELLULAR LOCATION: Cell membrane {ECO:0000256|ARBA:ARBA00004651, CC ECO:0000256|RuleBase:RU363032}; Multi-pass membrane protein CC {ECO:0000256|ARBA:ARBA00004651, ECO:0000256|RuleBase:RU363032}. |
| GO:0016020 membrane | IEA GO_REF:0000120 | TOO GENERAL | Summary: True but uninformative parent cellular component already entailed by the accepted specific child term GO:0005886 (plasma membrane). Reason: GO:0016020 (membrane) is true of SsuC5 but adds no information beyond the more specific cellular component GO:0005886 (plasma membrane) already accepted in this review. Supporting Evidence: file:VARPD/ssuC5/ssuC5-uniprot.txt FT DOMAIN 80..264 FT /note="ABC transmembrane type-1" FT /evidence="ECO:0000259|PROSITE:PS50928" |
| GO:0042918 alkanesulfonate transmembrane transport | IEA GO_REF:0000117 | ACCEPT | Summary: Core biological process mediated by SsuC5 (NCBIfam NF008470, PANTHER PTHR30151:SF38) as the transmembrane permease subunit of the SsuA2B2C5 importer. Reason: Classification in NCBIfam NF008470 (ssuC) and PANTHER PTHR30151:SF38 (ALIPHATIC SULFONATES TRANSPORT PERMEASE PROTEIN SSUC-RELATED), together with consecutive genomic placement between ssuB2 (VPARA_09230, KLN57912.1) and ssuD (VPARA_09250, KLN57914.1) on contig JZWI01000005, support SsuC5's core role in alkanesulfonate transmembrane transport (GO:0042918; PMID:10781534, PMID:10781557). Supporting Evidence: file:VARPD/ssuC5/ssuC5-uniprot.txt DR PANTHER; PTHR30151:SF38; ALIPHATIC SULFONATES TRANSPORT PERMEASE PROTEIN SSUC-RELATED; 1. PMID:10781557 The first group consists of ssuA , ssuB , and ssuC , which are the genes for a putative ATP-binding cassette (ABC)-type transport system. |
| GO:0043190 ATP-binding cassette (ABC) transporter complex | IEA GO_REF:0000104 | MODIFY | Summary: Correct but general complex term; refine to GO:0055052 (ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing) for this bacterial binding-protein-dependent SsuABC importer. Reason: SsuC5 (VPARA_09240, KLN57913.1) is a binding-protein-dependent ABC importer permease (RuleBase RU363032, NCBIfam NF008470) that assembles with the ATPase ssuB2 (VPARA_09230, UniProtKB:A0A0H2MBB8, KLN57912.1) and the periplasmic substrate-binding protein ssuA2 (VPARA_09270, UniProtKB:A0A0H2M784, KLN57916.1), so GO:0043190 is refined to its more specific descendant GO:0055052 (ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing; PMID:10781534, PMID:10781557). Proposed replacements: ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing Supporting Evidence: file:VARPD/ssuC5/ssuC5-uniprot.txt CC -!- SIMILARITY: Belongs to the binding protein-dependent transport system CC permease family. {ECO:0000256|RuleBase:RU363032}. PMID:10781557 The first group consists of ssuA , ssuB , and ssuC , which are the genes for a putative ATP-binding cassette (ABC)-type transport system. |
| GO:0055085 transmembrane transport | IEA GO_REF:0000002 | TOO GENERAL | Summary: True but uninformative parent process already entailed by the accepted specific child term GO:0042918 (alkanesulfonate transmembrane transport). Reason: GO:0055085 (transmembrane transport) is a broad ancestor term that adds no specificity beyond GO:0042918 (alkanesulfonate transmembrane transport) already accepted in this review. Supporting Evidence: file:VARPD/ssuC5/ssuC5-uniprot.txt DR PANTHER; PTHR30151:SF38; ALIPHATIC SULFONATES TRANSPORT PERMEASE PROTEIN SSUC-RELATED; 1. |
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Download this section (compressed HTML)Q: Does SsuC5 (VPARA_09240) assemble as a homodimer in the SsuA2B2C5 complex of Variovorax paradoxus TBEA6, and what is the functional division of labor among the five annotated ssuC paralogs in the TBEA6 genome?
Suggested experts: Kertesz MA, Leisinger T
Experiment: Construct a ΞssuC5 (VPARA_09240) deletion mutant in Variovorax paradoxus TBEA6 and test complementation of aliphatic sulfonate-dependent growth in sulfate-free minimal medium.
Hypothesis: Deletion of ssuC5 abolishes alkanesulfonate import through the VPARA_09230-VPARA_09290 locus unless compensated by a paralogous SsuC permease.
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