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        SIB Swiss Institute of Bioinformatics; Geneva, Switzerland
        European Bioinformatics Institute (EBI); Hinxton, United Kingdom
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Description: Protein nomenclature publication list
Name:        nomlist.txt
Release:     2022_03 of 03-Aug-2022

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This document list papers that  are important in defining the nomenclature or
terminology  relative to proteins  in general  and  in particular on specific
family or groups of proteins.

An important reference which assembles documents of the various international
commissions on biochemical nomenclature:

Biochemical Nomenclature and Related Documents
A Compendium
Second edition, 1992

International Union of Biochemistry and Molecular Biology
Edited by C. Liebecq
Portland Press, London and Chapel Hill

ISBN 1 85578 005 4


The full publications list of the nomenclature commissions of IUPAC-IUBMB is
available on WWW:

 http://www.chem.qmw.ac.uk/iupac/


Another important reference is the "Genetic nomenclature Guide" published
by Trends in Genetics (the current edition is from 1998).


------------------------------------------------------------------------------
General nomenclature references
------------------------------------------------------------------------------

Nomenclature and symbolism for amino acids and peptides:

 IUPAC-IUB Joint Commission on Biochemical Nomenclature (JCBN).
 Eur. J. Biochem. 138:9-37(1984).
 Corrections: Eur. J. Biochem. 152:1-1(1985).
              Eur. J. Biochem. 213:1-3(1993).

 http://www.chem.qmw.ac.uk/iupac/AminoAcid/


Nomenclature for multiple forms of enzymes:

 IUPAC-IUB Commission on Biochemical Nomenclature (CBN).
 Eur. J. Biochem. 82:1-3(1978).

 http://www.chem.qmw.ac.uk/iubmb/misc/isoen.html


Nomenclature for multienzymes:

 Nomenclature Committee of the International Union of Biochemistry (NC-IUB).
 Eur. J. Biochem. 185:485-486(1989).

 http://www.chem.qmw.ac.uk/iubmb/misc/menz.html


Nomenclature of protein splicing elements (inteins and exteins):

 PubMed=8165123;
 Perler F.B., Davis E.O., Dean G.E., Gimble F.S., Jack W.E., Neff N.,
 Noren C.J., Thorner J., Belfort M.
 Nucleic Acids Res. 22:1125-1127(1994).


Definition of the terms homology and homologous:

 PubMed=3621342;
 Reeck G.R., de Haen C., Teller D.C., Doolittle R.F., Fitch W.M.,
 Dickerson R.E., Chambon P., McLachlan A.D., Margoliash E., Jukes T.H.,
 Zuckerlandl E.
 Cell 50:667-667(1987).

 Dover G.
 Cell 51:515-515(1987).

 Aboitiz F.
 Cell 51:515-516(1987).

 Wegnez M.
 Cell 51:516-516(1987).


Nomenclature for designating variants:

 Sequence variant nomenclature website
 http://varnomen.hgvs.org/

 PubMed=26931183;
 den Dunnen J.T., Dalgleish R., Maglott D.R., Hart R.K., Greenblatt M.S.,
 McGowan-Jordan J., Roux A.F., Smith T., Antonarakis S.E., Taschner P.E.
 Hum. Mutat. 37:564-569 (2016)

 PubMed=11479744;
 den Dunnen J.T., Antonarakis S.E.
 Hum. Genet. 109:121-124(2001).

 PubMed=10612815;
 den Dunnen J.T., Antonarakis S.E.
 Hum. Mutat. 15:7-12(2000).

 PubMed=9450896;
 Antonarakis S.E.
 Hum. Mutat. 11:1-3(1998).

 Pubmed=8401532;
 Beaudet A.L., Tsui L.-C.
 Hum. Mutat. 2:245-248(1993).

 Beutler E.
 Am. J. Hum. Genet. 53:783-785(1993).


Nomenclature for targeting signals:

 Varshavsky A.
 Cell 64:13-15(1991).


------------------------------------------------------------------------------
Species specific genes nomenclature references
------------------------------------------------------------------------------

Arabidopis thaliana genes:

 http://www.arabidopsis.org/portals/nomenclature/guidelines.jsp
 http://mutant.lse.okstate.edu/genepage/namerule.html


Bacterial gene naming convention:

 PubMed=5961488;
 Demerec M., Adelberg A.E., Clark A.J., Hartman P.E.
 Genetics 54:61-76(1966).

 PubMed=5635521;
 Demerec M., Adelberg E.A., Clark A.J., Hartman P.E.
 J. Gen. Microbiol. 50:1-14(1968).


Caenorhabditis elegans genes:

 http://www.wormbase.org/about/userguide/nomenclature#a2id51f986bk3h74cje0g--10


Chicken genes:

 http://projects.roslin.ac.uk/chickmap/nomenclature.html


Dictyostelium genes:

http://dictybase.org/Dicty_Info/nomenclature_guidelines.html


Drosophila genes:

 http://flybase.bio.indiana.edu/static_pages/docs/nomenclature/nomenclature3.html


Human genes:

 Shows T.B., McAlpine P.J., Boucheix C., Collins F.S., Conneally P.M.,
 Frezal J., Gershowitz H., Goodfellow P.N., Hall J.G., Issitt P., Jones C.A.,
 Knowles B.B., Lewis M., McKusick V.A., Meisler M., Morton N.E.,
 Rubinstein P., Schanfield M.S., Schmickel R.D., Skolnick M.H., Spence A.M.,
 Sutherland G.
 Cytogenet. Cell Genet. 46:11-2(1987).

 White J.A., McAlpine P.J., Antonarakis S., Cann H., Eppig J.T., Frazer K.,
 Frezal J., Lancet D., Nahmias J., Pearson P., Peters J., Scott H., Spurr N.,
 Talbot C. Jr., Povey S.
 Genomics 45:468-471(1997).

 PubMed=11944974;
 Wain H.M., Bruford E.A., Lovering R.C., Lush M.J., Wright M.W., Povey S.
 Genomics 79:464-470(2002).

 http://www.genenames.org/guidelines.html


Mouse genes:

 PubMed=9344685;
 Maltais L.J., Blake J.A., Eppig J.T., Davisson M.T.
 Genomics 45:471-476(1997).

 http://www.informatics.jax.org/mgihome/nomen/


Neurospora crassa genes:

 Perkins D.D.
 Fungal Genet. Newsl. 46:31-41(1999).

 http://www.fgsc.net/fgn46/perkins.htm


Plant genes:

 Nomenclature of sequenced plant genes.
 Commission on Plant Gene Nomenclature (CPGN)
 Plant Mol. Biol. Rep. Vol. 12, Number 2, Supplement, June 1994.


Rat genes:

 Levan G., Hedrich H.J., Remmers E.F., Serikawa T., Yoshida M.C.
 Mamm. Genome 6:447-448(1995).

 http://www.ratmap.org/Nomenclature_Rules.html


Xenopus genes:

http://www.xenbase.org/gene/static/geneNomenclature.jsp


Yeast genes:

 http://www.yeastgenome.org/gene_guidelines.shtml


Zebrafish (Zebra danio) genes:

 http://zfin.org/zf_info/nomen.html


------------------------------------------------------------------------------
Protein families specific nomenclature references
------------------------------------------------------------------------------

ADAM metalloproteases:

 http://www.people.virginia.edu/~jw7g/Table_of_the_ADAMs.html


Aldehyde dehydrogenases:

 PubMed=10780262;
 Vasiliou V., Bairoch A., Tipton K.F., Nebert D.W.
 Pharmacogenetics 9:421-434(1999).

 PubMed=11306055;
 Sophos N.A., Pappa A., Ziegler T.L., Vasiliou V.
 Chem. Biol. Interact. 130 -132:323-132:337(2001).


Aldo-keto reductases (AKR).

 http://www.med.upenn.edu/akr/nomenclature.shtml


Allergens:

 IUIS/WHO Allergen Nomenclature Subcommittee.
 Bull. World Health Organ. 64:767-770(1986).

 Marsh D.G., Goodfriend L., King T.P., Loewenstein H., Platts-Mills T.A.E.
 Clin. Allergy 18:201-209(1988).

 WHO/IUS Allergen Nomenclature Subcommittee
 King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E.,
 Thomas W.
 ACI News 6/2:38-44(1994).

 IUIS/WHO Allergen Nomenclature Subcommittee.
 Bull. World Health Organ. 72:797-806(1994).

 http://www.allergen.org/Pub.htm


Amphibian antimicrobial peptides (frog subfamily Phyllomedusinae)

 PubMed=18644413; DOI=10.1016/j.peptides.2008.06.017
 Amiche M., Ladram A., Nicolas P.
 Peptides 29:2074-2082 (2008).

Amphibian antimicrobial peptides (frog subfamily Ranidae)

 PubMed=18585417; DOI=10.1016/j.peptides.2008.05.029
 Conlon J.M.
 journal article: Peptides 29:1815-1819 (2008)

Amyloid fibril proteins:

 WHO/IUIS Nomenclature Sub-Committee.
 Bull. World Health Organ. 71:105-108(1993).


Annexins:

 PubMed=2333094;
 Crumpton M.J., Dedman J.R.
 Nature 345:212-212(1990).


Arylamine N-acetyltransferases:

 PubMed=7773298;
 Vatsis K.P., Weber W.W., Bell D.A., Dupret J.-M., Evans D.A., Grant D.M.,
 Hein D.W., Lin H.J., Meyer U.A., Relling M.V., Sim E., Suzuki T., Yamazoe Y.
 Pharmacogenetics 5:1-17(1995).

 PubMed=10862519;
 Hein D.W., Grant D.M., Sim E.
 Pharmacogenetics 10:291-292(2000).

 http://www.louisville.edu/medschool/pharmacology/NAT.html


Bacterial polysaccharide synthesis genes:

 PubMed=9004408;
 Reeves P.R., Hobbs M., Valvano M.A., Skurnik M., Whitfield C.,
 Coplin D., Kido N., Klena J., Maskell D., Raetz C.R., Rick P.D.
 Trends Microbiol. 4:495-503(1996).

 http://sydney.edu.au/science/molecular_bioscience/BPGD/bpgn_help.htm


17-beta-hydroxysteroid dehydrogenases:

 PubMed=10431140;
 Peltoketo H., Luu-The V., Simard J., Adamski J.
 J. Mol. Endocrinol. 23:1-11(1999).

 PubMed=11165003;
 Adamski J., Jakob F.J.
 Mol. Cell. Endocrinol. 171:1-4(2001).


Calcium channels:

 PubMed=1332082;
 Spedding M., Paoletti R.
 Pharm. Rev. 44:363-376(1992).

 PubMed=9254840;
 Lory P., Ophoff R.A., Nahmias J.
 Hum. Genet. 100:149-150(1997).

 PubMed=10774722;
 Ertel E.A., Campbell K.P., Harpold M.M., Hofmann F., Mori Y.,
 Perez-Reyes E., Schwartz A., Snutch T.P., Tanabe T., Birnbaumer L.,
 Tsien R.W., Catterall W.A.
 Neuron 25:533-535(2000).


Caspases:

 PubMed=8861900;
 Alnemri E.S., Livingston D.J., Nicholson D.W., Salvesen G., Thornberry N.A.,
 Wong W.W., Yuan J.Y.
 Cell 87:171-171(1996).


CD antigens:

 PubMed=7902854;
 Schlossman S.F., Boumsell L., Gilks W., Harlan J.M., Kishimoto T.,
 Morimoto C., Ritz J., Shaw S., Silverstein R.L., Springer T.A.,
 Tedder T.F., Todd R.F.
 J. Immunol. 152:1-2(1994).

 PubMed=9342899;
 Bull. World Health Organ. 75:385-387(1997).

 PubMed=12723570;
 Zola H., Swart B., Boumsell L., Mason D.Y.
 J. Immunol. Methods 275:1-8(2003).

 PubMed=16020511; DOI=10.1182/blood-2005-03-1338;
 Zola H., Swart B., Nicholson I., Aasted B., Bensussan A., Boumsell L.,
 Buckley C., Clark G., Drbal K., Engel P., Hart D., Horejsi V.,
 Isacke C., Macardle P., Malavasi F., Mason D., Olive D.,
 Saalmueller A., Schlossman S.F., Schwartz-Albiez R., Simmons P.,
 Tedder T.F., Uguccioni M., Warren H.
 Blood 106:3123-3126(2005).

 http://www.hlda8.org/


Chemokine receptors:

 PubMed=10699158;
 Murphy P.M., Baggiolini M., Charo I.F., Hebert C.A., Horuk R.,
 Matsushima K., Miller L.H., Oppenheim J.J., Power C.A.
 Pharmacol. Rev. 52:145-176(2000).


Complement component C2 variants:

 WHO-IUS Nomenclature Sub-Committee.
 Bull. WHO 70:527-528(1992).


Complement component C4 allotypes:

 PubMed=2088664;
 Mauff G., Alper C.A., Dawkins R., Doxiadias G., Giles C.M., Hauptmann G.,
 Rittner C., Schneider P.M.
 Complement Inflamm. 7:261-268(1990).

 WHO-IUS Nomenclature Sub-Committee.
 Bull. World Health Organ. 70:531-535(1992).


Complement factor B allotypes:

 PubMed=2088663;
 Geserick G., Abbal M., Mauff G., Siemens I.
 Complement Inflamm. 7:255-260(1990).

 WHO-IUS Nomenclature Sub-Committee.
 Bull. World Health Organ. 70:541-543(1992).


Connexins:

 PubMed=1320430;
 Kumar N.M., Gilula N.B.
 Semin. Cell Biol. 3:3-16(1992).


Conotoxin superfamilies:

 PubMed=22760645; DOI=10.1007/s00239-012-9507-2;
 Puillandre N., Koua D., Favreau P., Olivera B.M., Stocklin R.;
 J. Mol. Evol. 74:297-309(2012).


Coronaviruses structural proteins:

 PubMed=2103094;
 Cavanagh D., Brian D.A., Enjuanes L., Holmes K.V., Lai M.M., Laude H.,
 Siddell S.G., Spaan W., Taguchi F., Talbot P.J.
 Adv. Exp. Med. Biol. 276:1-2(1990).

 PubMed=2184577;
 Cavanagh D., Brian D.A., Enjuanes L., Holmes K.V., Lai M.M., Laude H.,
 Siddell S.G., Spaan W., Taguchi F., Talbot P.J.
 Virology 176:306-307(1990).


Dihydropyrimidine dehydrogenase alleles:

 PubMed=9918128;
 McLeod H.L., Collie-Duguid E.S., Vreken P., Johnson M.R., Wei X., Sapone A.,
 Diasio R.B., Fernandez-Salguero P., van Kuilenberg A.B., van Gennip A.H.,
 Gonzalez F.J.
 Pharmacogenetics 8:455-459(1998).


dnaJ mammalian homologs:

 PubMed=11147971;
 Ohtsuka K., Hata M.
 Cell Stress Chaperones 5:98-112(2000).


Electron-transfer proteins:

 Nomenclature Committee of the International Union of Biochemistry (NC-IUB).
 Eur. J. Biochem. 200:599-611(1991).
 Corrections: Eur. J. Biochem. 213:1-3(1993).


Ephrins and ephrin receptors:

 PubMed=9267020;
 Eph Nomenclature Committee.
 Cell 90:403-404(1997).

 http://130.15.90.245/eph_nomeclature.htm


Eukaryotic DNA polymerases:

 PubMed=2390988;
 Burgers P.M.J., Bambara R.A., Campbell J.L., Chang L.M.S., Downey K.M.,
 Huebscher U., Lee M.Y.W.T., Linn S.M., So A.G., Spadari S.
 Eur. J. Biochem. 191:617-618(1990).

 DNA polymerase delta subunits:

 PubMed=11165510;
 MacNeill S.A., Baldacci G., Burgers P.M., Huebscher U.
 Trends Biochem. Sci. 26:16-17(2001).


Extracellular protein modules:

 Bork P., Bairoch A.
 Extracellular protein modules: a proposed nomenclature.
 Trends Biochem. Sci. 20:Special poster supplement TIBSC02(1995).


Fc receptors (FcR):

 IUIS Subcommittee on Nomenclature.
 Bull. World Health Organ. 67:449-449(1989).

 IUIS/WHO Subcommittee on Nomenclature of Fc receptors.
 Bull. World Health Organ. 72:809-809(1994).


Fibrinogen gamma chains:

 PubMed=2814930;
 Francis C.W., Mosesson M.W.
 Thromb. Haemost. 62:813-814(1989).


Fibroblast growth factors:

 Ann. N Y Acad. Sci. 638:XIII-XVI(1991).


Flavin-containing monooxygenases:

 PubMed=8311461;
 Lawton M.P., Cashman J.R., Cresteil T., Dolphin C.T., Elfarra A.A.,
 Hines R.N., Hodgson E., Kimura T., Ozols J., Phillips I.R., Philpot R.M.,
 Poulsen L.L., Rettie A.E., Shephard E.A., Williams D.E., Ziegler D.M.
 Arch. Biochem. Biophys. 308:254-257(1994).


Forkhead domain proteins/genes:

 PubMed=10702024;
 Kaestner K.H., Knochel W., Martinez D.E.
 Genes Dev. 14:142-146(2000).


Galectins (beta-galactoside-binding lectins):

 PubMed=8124704;
 Barondes S.H., Castronovo V., Cooper D.N.W., Cummings R.D., Drickamer K.,
 Feizi T., Gitt M.A., Hirabayashi J., Hughes C., Kasai K.-I., Leffler H.,
 Liu F.-T., Lotan R., Mercurio A.M., Monsigny M., Pillai S., Poirer F.,
 Raz A., Rigby P.W.J., Rini J.M., Wang J.L.
 Cell 76:597-598(1994).


Mouse globin genes:

 PubMed=3403963;
 Lyon M.F., Barker J.E., Popp R.A.
 J. Hered. 79:93-95(1988).


Human glutathione transferases:

 PubMed=1540145;
 Mannervik B., Awasthi Y.C., Board P.G., Hayes J.D., Di Ilio C.,
 Ketterer B., Listowsky I., Morgenstern R., Muramatsu M., Pearson W.R.,
 Pickett C.P., Sato K., Widerstein M., Wolf C.R.
 Biochem. J. 282:305-306(1992).


Glycosyl hydrolases:

 PubMed=1747104;
 Henrissat B.
 Biochem. J. 280:309-316(1991).

 PubMed=8352747;
 Henrissat B., Bairoch A.
 Biochem. J. 293:781-788(1993).

 PubMed=8687420;
 Henrissat B., Bairoch A.
 Biochem. J. 316:695-696(1996).

 https://www.uniprot.org/docs/glycosid
 http://www.cazy.org/


Human heat shock genes/proteins:

 PubMed=18663603;
 Kampinga H.H., Hageman J., Vos M.J., Kubota H., Tanguay R.M., Bruford E.A.,
 Cheetham M.E., Chen B., Hightower L.E.;
 Cell Stress Chaperones 0:0-0(2008).


HLA system:

 PubMed=8505060;
 Bodmer J.G., Marsh S.G., Albert E.D., Bodmer W.F., Dupont B., Erlich H.A.,
 Mach B., Mayr W.R., Parham P., Sasazuki T., Schreuder G.M.T.,
 Strominger J.L., Svejgaard A., Terasaki P.
 Immunobiology 187:51-69(1993).

 PubMed=10363728
 Bodmer J.G., Marsh S.G., Albert E.D., Bodmer W.F., Bontrop R.E.,
 Dupont B., Erlich H.A., Hansen J.A., Mach B., Mayr W.R., Parham P.,
 Petersdorf E.W., Sasazuki T., Schreuder G.M., Strominger J.L.,
 Svejgaard A., Terasaki P.I.
 Hum. Immunol. 60:361-395(1999).

 PubMed=11295476;
 Marsh S.G., Bodmer J.G., Albert E.D., Bodmer W.F., Bontrop R.E.,
 Dupont B., Erlich H.A., Hansen J.A., Mach B., Mayr W.R., Parham P.,
 Petersdorf E.W., Sasazuki T., Schreuder G.M., Strominger J.L.,
 Svejgaard A., Terasaki P.I.
 Hum. Immunol. 62:419-468(2001).

 http://www.anthonynolan.org.uk/research/hlainformaticsgroup/nomenclature-for-factors-of-the-hla-system-2004


HMG proteins:

 PubMed=11246012;
 Bustin M.
 Trends Biochem. Sci. 26:152-153(2001).


HOX genes:

 PubMed=1358459;
 Scott M.P.
 Cell 71:551-553(1992).

 PubMed=8098522;
 Scott M.P.
 Nucleic Acids Res. 21:1687-1688(1993).


Hrp outer protein (Hop) effector proteins:

 PubMed=8736546;
 Bogdanove A.J., Beer S.V., Bonas U., Boucher C.A., Collmer A.,
 Coplin D.L., Cornelis G.R., Huang H.-C., Hutcheson S.W.,
 Panopoulos N.J., Van Gijsegem F.
 Mol. Microbiol. 20:681-683(1996).

 PubMed=15828679;
 Lindeberg M., Stavrinides J., Chang J.H., Alfano J.R., Collmer A.,
 Dangl J.L., Greenberg J.T., Mansfield J.W., Guttman D.S.
 "Proposed guidelines for a unified nomenclature and phylogenetic
 analysis of type III Hop effector proteins in the plant pathogen
 Pseudomonas syringae.";
 Mol. Plant Microbe Interact. 18:275-282(2005).


IGF binding proteins:

 Endocrinology 130:1736-1737(1992).


Immunoglobulins (Ig):

 IMGT gene name nomenclature for Ig and TcR of all species.
 http://imgt.cines.fr/textes/IMGTScientificChart/Nomenclature/IMGTnomenclature.html

 Lefranc M.-P., Lefranc G.
 The Immunoglobulin FactsBook
 Academic Press, London / San Diego, (2001).

 Rowe D.S.
 Nature 228:509-511(1970).

 Immunochemistry 7:497-500(1970).


Bacillus thuringiensis insecticidial toxins:

 PubMed=9729610;
 Crickmore N., Zeigler D.R., Feitelson J., Schnepf E., Van Rie J.,
 Lereclus D., Baum J., Dean D.H.
 Microbiol. Mol. Biol. Rev. 62:807-813(1998).

 http://www.biols.susx.ac.uk/Home/Neil_Crickmore/Bt/


Initiation, elongation and termination factors for translation in eukaryotes:

 Nomenclature Committee of the International Union of Biochemistry (NC-IUB).
 Eur. J. Biochem. 186:1-3(1989).


Human interferon genes:

 PubMed=8151140;
 Diaz M.O., Bohlander S., Allen G.
 J. Interferon Res. 13:443-444(1993).


Interleukins:

 WHO/IUIS Nomenclature Subcommittee on Interleukin Designation.
 Bull. World Health Organ. 69:483-484(1991).

 IUIS/WHO Standing Committee on Interleukin Designation.
 Bull. World Health Organ. 72:811-811(1994).

 IUIS/WHO Standing Committee on Interleukin Designation.
 Bull. World Health Organ. 74:451-452(1996).

 IUIS/WHO Standing Committee on Interleukin Designation.
 Bull. World Health Organ. 75:175-175(1997).


Interleukin-1 genes:

 PubMed=11574262;
 Sims J.E., Nicklin M.J., Bazan J.F., Barton J.L., Busfield S.J.,
 Ford J.E., Kastelein R.A., Kumar S., Lin H., Mulero J.J., Pan J.,
 Pan Y., Smith D.E., Young P.R.
 Trends Immunol. 22:536-537(2001).


Kallikrein-kinin genes:

 Carretero O.A., Carbini L.A., Scicli A.G.
 J. Hypertens. 11:693-697(1993).

 Scicli A.G.,Carbini L.A., Carretero O.A.
 J. Hypertens. 11:775-780(1993).

 Carbini L.A., Scicli A.G., Carretero O.A.
 J. Hypertens. 11:893-898(1993).

 Human kallikrein gene family:

 PubMed=11067830;
 Diamandis E.P., Yousef G.M., Clements J., Ashworth L.K., Yoshida S.,
 Egelrud T., Nelson P.S., Shiosaka S., Little S., Lilja H.,
 Stenman U.H., Rittenhouse H.G., Wain H.
 Clin. Chem. 46:1855-1858(2000).


Keratins:

 PubMed=16831889; DOI=10.1083/jcb.200603161;
 Schweizer J., Bowden P.E., Coulombe P.A., Langbein L., Lane E.B.,
 Magin T.M., Maltais L., Omary M.B., Parry D.A., Rogers M.A.,
 Wright M.W.;
 J. Cell Biol. 174:169-174(2006).


Laminins:

 PubMed=7921537;
 Burgeson R.E., Chiquet M., Deutzmann R., Ekblom P., Engel J., Kleinman H.,
 Martin G.F., Meneguzzi G., Paulsson M., Sanes J., Timpl R., Tryggvason K.,
 Yamada Y., Yurchenco P.D.
 Matrix Biol. 14:209-211(1994).


Lantibiotics:

 de Vos W.M., Jung G., Sahl H.-G.
 (In) Nisin and novel antibiotics; Jung G., Sahl H.-G., Eds, pp.457-463,
 ESCOM Science Publishers, Leiden, (1991). ISBN: 90-72199-1-1


Mediator complex subunits:

 PubMed=15175151; DOI=10.1016/j.molcel.2004.05.011;
 Bourbon H.M., Aguilera A., Ansari A.Z., Asturias F.J., Berk A.J.,
 Bjorklund S., Blackwell T.K., Borggrefe T., Carey M., Carlson M.,
 Conaway J.W., Conaway R.C., Emmons S.W., Fondell J.D., Freedman L.P.,
 Fukasawa T., Gustafsson C.M., Han M., He X., Herman P.K.,
 Hinnebusch A.G., Holmberg S., Holstege F.C., Jaehning J.A., Kim Y.J.,
 Kuras L., Leutz A., Lis J.T., Meisterernest M., Naar A.M., Nasmyth K.,
 Parvin J.D., Ptashne M., Reinberg D., Ronne H., Sadowski I.,
 Sakurai H., Sipiczki M., Sternberg P.W., Stillman D.J., Strich R.,
 Struhl K., Svejstrup J.Q., Tuck S., Winston F., Roeder R.G.,
 Kornberg R.D.
 Mol. Cell 14:553-557(2004).


Metallothioneins:

 PubMed=1779826;
 Kojima Y.
 Methods Enzymol. 205:8-10(1991).


Bovine milk-fat globule membrane proteins:

 PubMed=10714856;
 Mather I.H.
 J. Dairy Sci. 83:203-247(2000).


Arabidopsis chloroplast and mitochondrial peptidases:

 PubMed=11299370;
 Adam Z., Adamska I., Nakabayashi K., Ostersetzer O., Haussuhl K.,
 Manuell A., Zheng B., Vallon O., Rodermel S.R., Shinozaki K., Clarke A.K.
 Plant Physiol. 125:1912-1918(2001).


Mitochondrial peptidases:

 PubMed=8212133;
 Kalousek F., Neupert W., Omura T., Schatz G., Schmitz U.K.
 Trends Biochem. Sci. 18:249-249(1994).


Mucins:

 PubMed=1714883;
 Taylor-Papadimitriou J.
 Int. J. Cancer 49:1-5(1991).


NF-kappa-B/I-kappa-B family:

 PubMed=8224837;
 Nabel G.J., Verma I.M.
 Genes Dev. 7:2063-2063(1993).


Nuclear receptors:

 PubMed=10219237;
 Nuclear Receptors Committee
 Cell 97:1-20(1999).


Orosomucoid variants:

 PubMed=8447119;
 Yuasa I., Weidinger S., Umetsu K., Suenaga K., Ishimoto G., Eap B.C.,
 Duche J.-C., Baumann P.
 Vox Sang. 64:47-55(1993).


P450:

 PubMed=7678494;
 Nelson D.R., Kamataki T., Waxman D.J., Guengerich F.P., Estrabrook R.W.,
 Feyereisen R., Gonzalez F.J., Coon M.J., Gunsalus I.C., Gotoh O., Okuda K.,
 Nebert D.W.
 DNA Cell Biol. 12:1-51(1993).

 CYP2D6 alleles:

 PubMed=8807658;
 Daly A.K., Brockmoller J., Broly F., Eichelbaum M., Evans W.E.,
 Gonzalez F.J., Huang J.D., Idle J.R., Ingelman-Sundberg M., Ishizaki T.,
 Jacqz-Aigrain E., Meyer U.A., Nebert D.W., Steen V.M., Wolf C.R.,
 Zanger U.M.
 Pharmacogenetics 6:193-201(1996).

 P450 alleles WWW sites:

 http://www.cypalleles.ki.se/


Peptides hormones:

 IUPAC-IUB Commission on Biochemical Nomenclature (CBN).
 Eur. J. Biochem. 55:485-486(1975).


Peroxisome biogenesis factors:

 PubMed=8858157;
 Distel B., Erdmann R., Gould S.J., Blobel G., Crane D.I., Cregg J.M.,
 Dodt G., Fujiki Y., Goodman J.M., Just W.W., Kiel J.A.K.W., Kunau W.-H.,
 Lazarow P.B., Mannaerts G.P., Moser H.W., Osumi T., Rachubinski R.A.,
 Roscher A., Subramani S., Tabak H.F., Tsukamoto T., Valle D.,
 van der Klei I., van Veldhoven P.P., Veenhuis M.
 J. Cell Biol. 135:1-3(1996).


Pharmalogical receptors:

 PubMed=1438521;
 Kenakin T.P., Bond R.A., Bonner T.I.
 Pharm. Rev. 44:351-362(1992).


Phosphodiesterases:

 http://depts.washington.edu/pde/Nomenclature.html


Phospholipase D in angiosperms:

 PubMed=11876823;
 Elias M., Potocky M., Cvrckova F., Zarsky V V.
 BMC Genomics 3:2-2(2002).


Phytochromes:

 Quail P.H., Briggs W.R., Chory J., Hangarter R.P., Harberd N.P.,
 Kendrick R.E., Koornneef M., Parks B., Sharrock R.A., Schaefer E.,
 Thompson W.F., Whitelam G.C.
 Plant Cell 6:468-471(1994).


Mouse pigmentation genes:

 PubMed=10841027;
 Jordan S., Beermann F.
 Pigment Cell Res. 13:70-71(2000).


Potassium channels:

 PubMed=8122320;
 Pongs O.
 Trends Pharmacol. Sci. 14:435-435(1993).


Protein transport machinery of the mitochondrial membranes:

 PubMed=8851659;
 Pfanner N., Douglas M.G., Endo T., Hoogenraad N.J., Jensen R.E.,
 Meijer M., Neupert M., Schatz G., Schmitz U.K., Shore G.C.
 Trends Biochem. Sci. 21:51-52(1996).


PTS system proteins and domains:

 Saier M.H. Jr., Reizer J.
 J. Bacteriol. 174:1433-1438(1992).


Purinoceptors:

 PubMed=7938164;
 Fredholm B.B., Abbracchio M.P., Burnstock G., Daly J.W., Harden T.K.,
 Jacobson K.A., Leff P., Williams M.
 Pharmacol. Rev. 46:143-156(1994).

 PubMed=9133776;
 Fredholm B.B., Abbracchio M.P., Burnstock G., Dubyak G.R.,
 Harden T.K., Jacobson K.A., Schwabe U., Williams M.
 Trends Pharmacol. Sci. 18:79-82(1997).


RAS superfamily of GTP-binding proteins:

 PubMed=1592203;
 Kahn R.A., Der C.J., Bokoch G.M.
 FASEB J. 6:2512-2513(1992).


Receptor and ion channels:

 1998 Receptors and Ion Channel Nomenclature Supplement
 Ninth Edition
 IUPHAR, Alexander S.P.H., Peters J.A.
 Trends in Pharmacological Sciences
 ISSN 1357 485X


Restriction enzymes:

 Roberts R.J., Macelis D.
 Nucleic Acids Res. 25:248-262(1997).


RNA adenosine deaminases:

 PubMed=9292492;
 Bass B.L., Nishikura K., Keller W., Seeburg P.H., Emeson R.B.,
 O'Connell M.A., Samuel C.E., Herbert A.
 RNA 3:947-949(1997)


RTX-toxins:

 PubMed=8409915;
 Frey J., Bosse J.T., Chang Y.-F., Cullen J.M., Fenwich B., Gerlach G.F.,
 Gygi D., Haesebrouck F., Inzana T.J., Jansen R., Kamp E.M., McDonald J.,
 McInnes J.I., Mittal K.R., Nicolet J., Rycroft A.N., Segers R.P.A.M.,
 Smits M.A., Stenbaek E., Struck D.K., van den Bosch J.F., Willson P.J.,
 Young R.
 J. Gen. Microbiol. 139:1723-1728(1993).


S100 calcium-binding proteins:

 PubMed=7759097;
 Schaefer B.W., Wicki R., Engelkamp D., Mattei M.-G., Heizmann C.W.
 Genomics 25:638-643(1995).


Scorpion potassium channel toxins:

 PubMed=10542442;
 Tytgat J., Chandy K.G., Garcia M.L., Gutman G.A.,
 Martin-Eauclaire M.F., van der Walt J.J., Possani L.D.
 Trends Pharmacol. Sci. 20:444-447(1999).

 PubMed=15208019; DOI=10.1016/j.toxicon.2004.03.022;
 Rodriguez de la Vega R.C., Possani L.D.
 Toxicon 43:865-875(2004).


Scorpion sodium channel toxins:

 PubMed=22355312:
 Guerrero-Vargas J.A., Mourao C.B., Quintero-Hernandez V.,
 Possani L.D., Schwartz E.F.
 PLoS ONE 7:E30478-E30478(2012).


Sea anemone toxins:

 PubMed=22683676;
 Oliveira J.S., Fuentes-Silva D., King G.F.
 Toxicon 60:539-550 (2012)

 PubMed=22222611;
 Kozlov S., Grishin E.
 Peptides 33:240-244 (2012)


Semaphorins:

 PubMed=10367884;
 Semaphorin Nomenclature Committee.
 Cell 97:551-552(1999).


Serine/threonine protein phosphatases:

 Cohen P.T.W.
 Adv. Protein Phosphat. 8:371-376(1994).


Serotonin receptors:

 PubMed=15335760;
 Branchek T.
 Curr. Biol. 3:315-317(1993).


Spider toxins:

 PubMed=18619481;
 King G.F., Gentz M.C., Escoubas P., Nicholson G.M.
 Toxicon 52:264-276(2008).

 PubMed=28786958; DOI=10.3390/toxins9080245
 Koua D., Kuhn-Nentwig L.
 journal article: Toxins 9:1-17 (2017)

Spider phospholipase D (SicTox family):

 [Pubmed: 16480957]
 Murakami M.T., Fernandes-Pedrosa M.F., de Andrade S.A.,
 Gabdoulkhakov A., Betzel C., Tambourgi D.V., Arni R.K.;
 Biochem. Biophys. Res. Commun. 342:323-329(2006).

 [Pubmed: 19042943]
 Binford G.J., Bodner M.R., Cordes M.H., Baldwin K.L., Rynerson M.R.,
 Burns S.N., Zobel-Thropp P.A.;
 Mol. Biol. Evol. 26:547-566(2009).

Elapid snake three-finger toxins:

 PubMed=12962311;
 Fry B.G., Wuster W., Kini R.M., Brusic V., Khan A., Venkataraman D.,
 Rooney A.P.
 J. Mol. Evol. 57:110-129(2003).


Snaclec (Snake venom C-type lectin-like proteins):

 Pubmed=19362105;
 Clemetson K.J., Morita T., Kini R.M.
 Toxicon 54:83-83(2009).


Snake venom metalloproteinases and disintegrins

 [Pubmed: 18479462]
 Fox J.W., Serrano S.M.
 FEBS J. 275:3016-3030(2008).


T-cell receptors (TcR):

 IMGT gene name nomenclature for Ig and TcR of all species.
 http://imgt.cines.fr/textes/IMGTScientificChart/Nomenclature/IMGTnomenclature.html

 WHO-IUS Nomenclature Sub-Committee on TCR Designation.
 Bull. World Health Organ. 71:113-115(1993).


TRP cation channels:

 PubMed=11864597;
 Montell C., Birnbaumer L., Flockerzi V., Bindels R.J., Bruford E.A.,
 Caterina M.J., Clapham D.E., Harteneck C., Heller S., Julius D.,
 Kojima I., Mori Y., Penner R., Prawitt D., Scharenberg A.M.,
 Schultz G., Shimizu N., Zhu M.X.
 Mol. Cell 9:229-231(2002).


UDP-glucuronosyltransferases:

 PubMed=1909870;
 Burchell B., Nebert D.W., Nelson D.R., Bock K.W., Iyanagi T., Jansen P.L.,
 Lancet D., Mulder G.J., Chowdhury J.R., Siest G., Tephly T.R., Mackenzie P.I.
 DNA Cell Biol. 10:487-494(1991).

 PubMed=9295054;
 Mackenzie P.I., Owens I.S., Burchell B., Bock K.W., Bairoch A., Belanger A.,
 Fournel-Gigleux S., Green M., Hum D.W., Iyanagi T., Lancet D., Louisot P.,
 Magdalou J., Chowdhury J.R., Ritter J.K., Schachter H., Tephly T.R.,
 Tipton K.F., Nebert D.W.
 Pharmacogenetics 7:255-269(1997).

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