Transporter Classification Database
Family 1.A.56 The Copper Transporter (Ctr) Family 1.A.57 The Human SARS Caronavirus Viroporin (SARS-VP) 1.A.58 The Type B Influenza Virus Matrix Protein

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classification of membrane proteins including ion channels

The Transporter Classification Database (or TCDB) is an International Union of Biochemistry and Molecular Biology (IUBMB)-approved classification system for membrane transport proteins, including ion channels.[1][2][3]

Contents Classification

The upper level of classification and a few examples of proteins with known 3D structure:

1. Channels and pores 1.A α-type channels 1.B. β-Barrel porins and other outer membrane proteins 1.C Pore-forming toxins (proteins and peptides) 1.D Non-ribosomally synthesized channels 1.E Holins Main article: Holins 1.F Vesicle fusion pores 1.G Viral fusion pores 1.H Paracellular channels 1.I Membrane-bound channels 2. Electrochemical potential-driven transporters 2.A Porters (uniporters, symporters, antiporters) See also: Amino acid transporter 2.B Nonribosomally synthesized porters 2.C Ion-gradient-driven energizers 3. Primary active transporters 3.A. P-P-bond hydrolysis-driven transporters 3.B Decarboxylation-driven transporters 3.C Methyltransfer-driven transporters 3.D. Oxidoreduction-driven transporters

They include a number of transmembrane cytochrome b-like proteins including coenzyme Q - cytochrome c reductase (cytochrome bc1 ); cytochrome b6f complex; formate dehydrogenase, respiratory nitrate reductase; succinate - coenzyme Q reductase (fumarate reductase); and succinate dehydrogenase. See electron transport chain.

3.E. Light absorption-driven transporters 4. Group translocators 4.A Phosphotransfer-driven group translocators Main article: PTS-GFL superfamily 4.B Nicotinamide ribonucleoside uptake transporters 4.C Acyl CoA ligase-coupled transporters 4.D Polysaccharide Synthase/Exporters 4.E. Vacuolar Polyphosphate Polymerase-catalyzed Group Translocators 5. Transport electron carriers 5.A Transmembrane 2-electron transfer carriers 5.B Transmembrane 1-electron transfer carriers 8. Accessory factors involved in transport 8.A Auxiliary transport proteins 8.B Ribosomally synthesized protein/peptide toxins that target channels and carriers 8.C Non-ribosomally synthesized toxins that target channels and carriers 9. Incompletely characterized transport systems 9.A Recognized transporters of unknown biochemical mechanism 9.B Putative transport proteins 9.C Functionally characterized transporters lacking identified sequences References
  1. ^ Saier, Milton H.; Reddy, Vamsee S.; Tamang, Dorjee G.; Västermark, Åke (January 2014). "The Transporter Classification Database". Nucleic Acids Research. 42 (D1): D251–D258. doi:10.1093/nar/gkt1097. PMC 3964967. Retrieved 1 March 2016..mw-parser-output cite.citation{font-style:inherit}.mw-parser-output .citation q{quotes:"\"""\"""'""'"}.mw-parser-output .id-lock-free a,.mw-parser-output .citation .cs1-lock-free a{background:url("//upload.wikimedia.org/wikipedia/commons/thumb/6/65/Lock-green.svg/9px-Lock-green.svg.png")no-repeat;background-position:right .1em center}.mw-parser-output .id-lock-limited a,.mw-parser-output .id-lock-registration a,.mw-parser-output .citation .cs1-lock-limited a,.mw-parser-output .citation .cs1-lock-registration a{background:url("//upload.wikimedia.org/wikipedia/commons/thumb/d/d6/Lock-gray-alt-2.svg/9px-Lock-gray-alt-2.svg.png")no-repeat;background-position:right .1em center}.mw-parser-output .id-lock-subscription a,.mw-parser-output .citation .cs1-lock-subscription a{background:url("//upload.wikimedia.org/wikipedia/commons/thumb/a/aa/Lock-red-alt-2.svg/9px-Lock-red-alt-2.svg.png")no-repeat;background-position:right .1em center}.mw-parser-output .cs1-subscription,.mw-parser-output .cs1-registration{color:#555}.mw-parser-output .cs1-subscription span,.mw-parser-output .cs1-registration span{border-bottom:1px dotted;cursor:help}.mw-parser-output .cs1-ws-icon a{background:url("//upload.wikimedia.org/wikipedia/commons/thumb/4/4c/Wikisource-logo.svg/12px-Wikisource-logo.svg.png")no-repeat;background-position:right .1em center}.mw-parser-output code.cs1-code{color:inherit;background:inherit;border:inherit;padding:inherit}.mw-parser-output .cs1-hidden-error{display:none;font-size:100%}.mw-parser-output .cs1-visible-error{font-size:100%}.mw-parser-output .cs1-maint{display:none;color:#33aa33;margin-left:0.3em}.mw-parser-output .cs1-subscription,.mw-parser-output .cs1-registration,.mw-parser-output .cs1-format{font-size:95%}.mw-parser-output .cs1-kern-left,.mw-parser-output .cs1-kern-wl-left{padding-left:0.2em}.mw-parser-output .cs1-kern-right,.mw-parser-output .cs1-kern-wl-right{padding-right:0.2em}
  2. ^ Saier, M. H.; Yen, M. R.; Noto, K.; Tamang, D. G.; Elkan, C. (1 January 2009). "The Transporter Classification Database: recent advances". Nucleic Acids Research. 37 (Database): D274–D278. doi:10.1093/nar/gkn862. PMC 2686586. PMID 19022853. Retrieved 1 March 2016.
  3. ^ Saier, M. H.; Tran, C. V.; Barabote, R. D. (1 January 2006). "TCDB: the Transporter Classification Database for membrane transport protein analyses and information". Nucleic Acids Research. 34 (90001): D181–D186. doi:10.1093/nar/gkj001. PMC 1334385. PMID 16381841. Retrieved 1 March 2016.
External links Membrane transport protein: ion channels (TC 1A)Ca2+: Calcium channelLigand-gated Voltage-gated Na+: Sodium channelConstitutively active Proton-gated Voltage-gated K+: Potassium channelCalcium-activated Inward-rectifier Tandem pore domain Voltage-gated MiscellaneousCl−: Chloride channel H+: Proton channel M+: CNG cation channel M+: TRP cation channel H2O (+ solutes): Porin Cytoplasm: Gap junction By gating mechanismIon channel class see also disorders Pore-forming toxins (TC 1C)Antimicrobial cationic peptides Other, human Other, nonhuman Non-ribosomally synthesized channels (TC 1D) Membrane protein: vesicular transport proteins (TC 1F)Synaptic vesicleSNAREQ-SNARE R-SNARE Synaptotagmin Other COPI COPII RME/Clathrin Caveolae Other/ungroupedVesicle formationAdaptor protein complex 1: Adaptor protein complex 2: Adaptor protein complex 3: Adaptor protein complex 4: BLOC-1: BLOC-2: BLOC-3: Coats: Small GTPase Other See also vesicular transport protein disorders
Membrane proteins, carrier proteins: membrane transport proteins solute carrier (TC 2A)By groupSLC1–10(1): (2): (3): (4): (5): (6): (7): (8): (9): (10): SLC11–20(11): (12): (13): (14): (15): (16): (17): (18): (19): (20): SLC21–30(21): (22): (23): (24): (25): (26): (27): (28): (29): (30): SLC31–40(31): (32): (33): (34): (35): (36): (37): (38): (39): (40): SLC41–48(41): (42): (43): (44): (45): (46): (47): (48): SLCO1–4 Ion pumpsSymporter, Cotransporter Antiporter (exchanger) see also solute carrier disorders Nonribosomally synthesized porters (TC 2B) Membrane proteins, carrier proteins: membrane transport proteins ABC-transporter (TC 3A1)A B C D E F G see also ABC transporter disorders Membrane transport protein: ion pumps, ATPases / ATP synthase (TC 3A2-3A3)F-, V-, and A-type ATPase (3.A.2)H+ (F-type) H+ (V-type) A-ATPasefound in ArcheaP-type ATPase (3.A.3) see also ATPase disorders Ion pump: proton pumps: Oxidoreduction-driven transporters (TC 3D)ETC Other

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