diff data/attic/lysis-family-v1.0.2.json @ 1:6e3a843b6304 draft

planemo upload commit 94b0cd1fff0826c6db3e7dc0c91c0c5a8be8bb0c
author cpt
date Mon, 05 Jun 2023 02:53:18 +0000
parents
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/data/attic/lysis-family-v1.0.2.json	Mon Jun 05 02:53:18 2023 +0000
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+{
+    "endolysins": [
+        "serine protease inhibitor complex",
+        "lysin",
+        "peptidoglycan stem peptide endopeptidase",
+        "serpin complex",
+        "peptidoglycan endopeptidase",
+        "mucopeptide N-acetylmuramoylhydrolase",
+        "peptidoglycan muralytic",
+        "omega-amidase",
+        "protein-N-terminal glutamine amidohydrolase",
+        "glycosylase",
+        "threonine endopeptidase",
+        "w-amidase",
+        "serine-type endopeptidase inhibitor complex",
+        "beta-1,4-poly-N-acetyl glucosamidinase",
+        "muralytic",
+        "omega-amidodicarboxylate amidohydrolase",
+        "endopeptidase activator",
+        "lysozyme inhibitor",
+        "threonine-type endopeptidase",
+        "hydrolase",
+        "endopeptidase regulator",
+        "endopeptidase",
+        "penicillin amidohydrolase",
+        "poly[1,4-(N-acetyl-beta-D-glucosaminide)] glycanohydrolase",
+        "1,4-N-acetylmuramidase",
+        "benzylpenicillin acylase",
+        "aspartic-type endopeptidase inhibitor",
+        "endolysin",
+        "acylamide amidohydrolase",
+        "cytolysis",
+        "prevention of cysteine-type endopeptidase",
+        "carboxypeptidase",
+        "alpha-keto acid-omega-amidase",
+        "fatty acylamidase",
+        "acylamidase",
+        "calcium-dependent cysteine-type endopeptidase",
+        "lysozyme",
+        "activation of cysteine-type endopeptidase",
+        "serine-type endopeptidase",
+        "small conjugating protein-specific endopeptidase",
+        "amidohydrolase",
+        "peptidoglycan N-acetylmuramoylhydrolase",
+        "acetamidase",
+        "ubiquitin-like protein-specific endopeptidase",
+        "chitodextrinase",
+        "aspartic-type endopeptidase",
+        "palmitoleoyl [acyl-carrier protein]-dependent acyltransferase",
+        "muramidase",
+        "endopeptidase complex",
+        "N-acetylaminohydrolase",
+        "endopeptidase inhibitor",
+        "semacylase",
+        "penicillin acylase",
+        "PNGase",
+        "penicillin amidase",
+        "acylase",
+        "NtQ-amidase",
+        "N-linked-glycopeptide-(N-acetyl-beta-D-glucosaminyl)-L-asparagine amidohydrolase",
+        "alpha-acylamino-beta-lactam acylhydrolase",
+        "serine-type endopeptidase inhibitor",
+        "poly-beta-glucosaminidase",
+        "glycosidase",
+        "mucopeptide glucohydrolase",
+        "serine-type endopeptidase complex",
+        "cysteine-type endopeptidase inhibitor",
+        "amidase",
+        "peptidoglycan cross-bridge peptide endopeptidase",
+        "cysteine-type endopeptidase",
+        "1,4-beta-poly-N-acetylglucosaminidase",
+        "chitinase",
+        "muraminidase",
+        "ampicillin acylase",
+        "peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase",
+        "thiol endopeptidase",
+        "aspartic endopeptidase",
+        "N,O-diacetylmuramidase"
+    ],
+    "holins": [
+        "canonical holin",
+        "holin",
+        "antiholin",
+        "cytolysis",
+        "pinholin",
+        "anti-holin",
+        "anti-holins",
+        "co-holin",
+        "co-holins"
+    ],
+    "endolysin_domains": [
+        "2-acetamido-4-O-(2-amino-2-deoxy-beta-D-glucopyranosyl)-2-deoxy-D-glucose exo-beta-D-glucosaminidase",
+        "aspartylglycosylamine amidohydrolase",
+        "4-N-(beta-N-acetyl-D-glucosaminyl)-L-asparagine amidohydrolase",
+        "endo-beta-N-acetylglucosaminidase L",
+        "exo-beta-D-glucosaminidase",
+        "alpha-N-acetylglucosaminidase",
+        "sucrose:1,6-alpha-D-glucan 3(6)-alpha-D-glucosyltransferase",
+        "peptidoglycan lytic transglycosylase",
+        "N-acetylhexosaminidase",
+        "endo-beta-N-acetylglucosaminidase H",
+        "viral exit from host cell by cytolysis",
+        "glycopeptide-D-mannosyl-4-N-(N-acetyl-D-glucosaminyl)2-asparagine 1,4-N-acetyl-beta-glucosaminohydrolase",
+        "N-acetyl-beta-glucosaminidase",
+        "beta-aspartylglucosylamine amidohydrolase",
+        "N4-(beta-N-acetyl-D-glucosaminyl)-L-asparagine amidohydrolase",
+        "endo-N-acetyl-beta-glucosaminidase",
+        "alpha-N-acetyl-D-glucosaminide N-acetylglucosaminohydrolase",
+        "alpha-acetylglucosaminidase",
+        "alpha-D-2-acetamido-2-deoxyglucosidase",
+        "soluble lytic transglycosylase",
+        "4-alpha-glucanotransferase",
+        "beta-acetylhexosaminidinase",
+        "non-lytic viral release",
+        "viral release by cell lysis",
+        "Peptidase_M15_3",
+        "beta-hexosaminidase",
+        "Peptidase_M15_4",
+        "DUF3597",
+        "YkuD",
+        "endo-beta-(1->4)-N-acetylglucosaminidase",
+        "Peptidase_M23",
+        "beta-1,4-poly-N-acetyl glucosamidinase",
+        "peptidoglycan glycosyltransferase",
+        "lysis of host organelle involved in viral entry into host cell",
+        "poly[1,4-(N-acetyl-beta-D-glucosaminide)] glycanohydrolase",
+        "aspartylglucosylaminidase",
+        "transferase",
+        "beta-N-acetyl-D-hexosaminide N-acetylhexosaminohydrolase",
+        "N-acetyl-alpha-D-glucosaminidase",
+        "Peptidase_U40",
+        "sucrose:1,6-alpha-D-glucan 3-alpha- and 6-alpha-glucosyltransferase",
+        "endo-N-acetyl-beta-D-glucosaminidase",
+        "viral release from host cell by cytolysis",
+        "endoglycosidase S",
+        "beta-D-hexosaminidase",
+        "undecaprenyldiphospho-N-acetyl-D-glucosaminyl-(1->4)-(N-acetyl-D-muramoylpentapeptide):undecaprenyldiphospho-(N-acetyl-D-glucosaminyl-(1->4)-N-acetyl-D-muramoylpentapeptide) disaccharidetransferase",
+        "transglycosidase",
+        "mannosyl-glycoprotein endo-beta-N-acetylglucosamidase",
+        "mannosyl-glycoprotein 1,4-N-acetamidodeoxy-beta-D-glycohydrolase",
+        "chitosan glucosaminohydrolase",
+        "aspartylglucosaminidase",
+        "oligo-1,4-1,4-glucantransferase",
+        "peptidoglycan transglycosylase",
+        "endo-beta-N-acetylglucosaminidase",
+        "Amidase_5",
+        "Glyco_hydro_19",
+        "amylomaltase",
+        "lytic transglycosylase",
+        "1,4-alpha-D-glucan:1,4-alpha-D-glucan 6-alpha-D-(1,4-alpha-D-glucano)-transferase",
+        "beta-acetylaminodeoxyhexosidase",
+        "peptidoglycan TGase",
+        "dextrin transglycosylase",
+        "amylo-(1,4 to 1,6)transglucosidase",
+        "alpha-1,4-glucan:alpha-1,4-glucan-6-glycosyltransferase",
+        "aspartylglucosylamine deaspartylase",
+        "exochitosanase",
+        "Glyco_hydro_25",
+        "glycosyltransferase",
+        "N-acetyl-beta-D-hexosaminidase",
+        "chitosan exo-1,4-beta-D-glucosaminidase",
+        "mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase",
+        "lytic endotransglycosylase",
+        "NLPC_P60",
+        "beta-N-acetyl-D-hexosaminidase",
+        "lytic viral release",
+        "VanY",
+        "N-acetyl-beta-hexosaminidase",
+        "N-aspartyl-beta-glucosaminidase",
+        "amylo-(1,4->1,6)-transglycosylase",
+        "beta-D-N-acetylhexosaminidase",
+        "exo-1,4-beta-D-glucosaminidase",
+        "glucosan transglycosylase",
+        "aspartylglucosylaminase",
+        "Glyco_hydro_108",
+        "amylose isomerase",
+        "N-acetyl-alpha-glucosaminidase",
+        "Glucosaminidase",
+        "N4-(beta-N-acetylglucosaminyl)-L-asparaginase",
+        "Amidase_2",
+        "alpha-glucan-branching glycosyltransferase",
+        "1,4-alpha-D-glucan:1,4-alpha-D-glucan 4-alpha-D-glycosyltransferase",
+        "glycopeptide-D-mannosyl-N4-(N-acetyl-D-glucosaminyl)2-asparagine 1,4-N-acetyl-beta-glucosaminohydrolase",
+        "endoglycosidase H",
+        "debranching enzyme maltodextrin glycosyltransferase",
+        "Transglycosylase",
+        "bactoprenyldiphospho-N-acetylmuramoyl-(N-acetyl-D-glucosaminyl)-pentapeptide:peptidoglycan N-acetylmuramoyl-N-acetyl-D-glucosaminyltransferase",
+        "Amidase02_C",
+        "Chitinase",
+        "1,4-alpha-glucan branching enzyme",
+        "glucosyl-N-acetylglucosamine glucosaminidase",
+        "glycosylasparaginase",
+        "beta-N-acetylhexosaminidase",
+        "PG-II",
+        "di-N-acetylchitobiosyl beta-N-acetylglucosaminidase",
+        "1,4-glucan-6-(1,4-glucano)-transferase",
+        "sucrose-1,6-alpha-glucan 3(6)-alpha-glucosyltransferase",
+        "chitodextrinase",
+        "glycogen branching enzyme",
+        "endo-beta-N-acetylglucosaminidase D",
+        "NlpD",
+        "Peptidase_C39_2",
+        "endo-beta-acetylglucosaminidase",
+        "branching glycosyltransferase",
+        "viral release by host cell lysis",
+        "N,N'-diacetylchitobiosyl beta-N-acetylglucosaminidase",
+        "poly-beta-glucosaminidase",
+        "transglycosylase",
+        "viral penetration via lysis of host organellar membrane",
+        "NAG",
+        "1,4-beta-poly-N-acetylglucosaminidase",
+        "chitinase",
+        "endo-beta-N-acetylglucosaminidase F",
+        "Amidase_3",
+        "VANY",
+        "PET-C39-2",
+        "TRANG",
+        "PET-15-4",
+        "AMI-5",
+        "PET-U40",
+        "NLPC-P60",
+        "PET-M23",
+        "YKUD",
+        "GH25",
+        "GH19",
+        "CHAP",
+        "PET-15-3",
+        "GLUCO",
+        "GH108",
+        "NLPD",
+        "AMI-2",
+        "SLT",
+        "AMI-3",
+        "AMIO2-C",
+        "GyH",
+        "SLAP",
+        "FOG",
+        "PG_binding_1",
+        "SH3b",
+        "PG_binding_3",
+        "SH3-related",
+        "ChW",
+        "SH3_3",
+        "SH3_5",
+        "Cpl-7",
+        "LGFP",
+        "SPOR",
+        "LysM",
+        "CPL7",
+        "SH3-3",
+        "SLAP",
+        "FOG",
+        "SH3b",
+        "SH3-r",
+        "CHW",
+        "PG-3",
+        "PG-1",
+        "LGFP",
+        "LYSM",
+        "SPOR",
+        "SH3-5",
+        "cell wall amidase",
+        "CWA",
+        "N-acetylmuramoyl-L-alanine amidase of type 2",
+        "NALAA-2",
+        "IPR002502",
+        "PF01510",
+        "SM00644",
+        "SSF55846",
+        "G3DSA:3.40.80.10",
+        "CD06583",
+        "SLT1",
+        "soluble lytic murein transglycosylase of type 1",
+        "IPR010618",
+        "TG",
+        "IPR010618 (transglycosylase)",
+        "PGB1",
+        "peptidoglycan binding domain type 1",
+        "IPR002477",
+        "sporulation-related",
+        "IPR007730",
+        "sarcoma [src] homology 3 of type 3",
+        "PF08329 (SH3-3)",
+        "sarcoma [src] homology 3 of type 5",
+        "PF08460 (SH3-5)",
+        "sarcoma [src] homology 3 of type 8",
+        "SH3-8",
+        "PF13457",
+        "S-layer protien",
+        "IPR024968",
+        "lysin motif",
+        "IPR018392",
+        "CW7",
+        "cell wall binding domain of Cpl-7",
+        "IPR013168",
+        "SLH",
+        "S-layer homology domain",
+        "IPR001119",
+        "CWB1",
+        "cell wall binding repeat of type 1",
+        "IPR018337",
+        "CWB2",
+        "cell wall binding repeat of type 2",
+        "IPR007253",
+        "clostridial hydrophobic repeat with a conserved W residue",
+        "IPR006637",
+        "N-acetylmuramoyl-L-alanine amidase of type 3",
+        "NALAA-3",
+        "IPR002508",
+        "PF01520",
+        "SM00646",
+        "G3DSA:3.40.630.40",
+        "CD2696",
+        "AMIN",
+        "N-terminal nonamidase",
+        "IPR021731",
+        "SH3-4",
+        "sarcoma [src] homology 3 of type 4",
+        "PF06347",
+        "N-acetylmuramoyl-L-alanine amidase of type 5",
+        "NALAA-5",
+        "IPR008044",
+        "PF05382",
+        "cell wall glycosidases",
+        "CWG",
+        "glycoside hydrolase family 3",
+        "GHF-3",
+        "IPR002772",
+        "IPR001764",
+        "PF01915",
+        "SSF52279",
+        "G3DSA:3.40.50.1700",
+        "PF00933",
+        "PR00133",
+        "G3DSA:3.20.20.300",
+        "CWBD1",
+        "LPXTG",
+        "glycoside hydrolase family 73",
+        "GHF-73",
+        "IPR002901",
+        "PF01832",
+        "SM00047",
+        "MltG",
+        "membrane-bound lytic transglycosylase of type G",
+        "IPR003770",
+        "CWBD2",
+        "glycoside hydrolase family 22",
+        "GHF-22",
+        "IPR001916",
+        "PF00062",
+        "glycoside hydrolase family 24",
+        "GHF-24",
+        "IPR002196",
+        "2ANV",
+        "2ANX",
+        "glycoside hydrolase family 25",
+        "GHF-25",
+        "IPR002053",
+        "PF01183",
+        "cell wall peptidase",
+        "CWP",
+        "cysteine histidine-dependent amidohydrolases/peptidase",
+        "IPR007921",
+        "PF05257",
+        "PS50911",
+        "SleB",
+        "Spore cortex-lytic enzyme of Bacilus",
+        "IPR011105",
+        "SLT2",
+        "soluble lytic murein transglycosylase of type 2",
+        "IPR031304",
+        "N lipoprotein C/protein of 60-kDa",
+        "NlpC/P60",
+        "IPR000064",
+        "PF0877",
+        "G3DSA:3.90.1720.10",
+        "PGB2",
+        "peptidoglycan binding domain of type 2",
+        "IPR014927",
+        "SH3-1",
+        "sarcoma [src] homology 3 of type 1",
+        "PF00018",
+        "SH3-2",
+        "sarcoma [src] homology 3 of type 2",
+        "PF07653",
+        "SH3-6",
+        "sarcoma [src] homology 3 of type 6",
+        "PF12913",
+        "SH3-7",
+        "sarcoma [src] homology 3 of type 7",
+        "PF12914",
+        "Peptidase M14",
+        "PM14",
+        "IPR000834",
+        "PF00246",
+        "PS00132",
+        "PR00765",
+        "SM00631",
+        "Peptidase M15",
+        "PM15",
+        "IPR000755",
+        "PF01427",
+        "MF01924",
+        "PIRSF026671",
+        "PGB3",
+        "peptidoglycan binding domain of type 3",
+        "IPR018537",
+        "Peptidase M23",
+        "PM23",
+        "IPR016047",
+        "PF01551",
+        "RlpA",
+        "rare lipoprotein A",
+        "IPR034718",
+        "SH3-9",
+        "sarcoma [src] homology 3 of type 9",
+        "PF14604",
+        "Peptidase M74",
+        "PM74",
+        "IPR005073",
+        "PF03411",
+        "MF01623",
+        "PIRSF018455",
+        "Peptidase S11",
+        "PS11",
+        "IPR001967",
+        "PF00768",
+        "Peptidase S13",
+        "PS13",
+        "IPR000667",
+        "PF02113",
+        "TIGR00666",
+        "PR0922",
+        "Peptidase S66",
+        "PS66",
+        "IPR003507",
+        "PF02016",
+        "PIRSF028757",
+        "Transpeptidase",
+        "TP",
+        "IPR0005490",
+        "PF03734",
+        "PGB4",
+        "peptidoglycan binding domain of type 4",
+        "IPR022029"
+    ],
+    "spanin_domains": [
+        "IPR020000",
+        "Bacteriophage P2, LysB",
+        "IPR020130",
+        "Spanin, outer lipoprotein subunit, T7likevirus",
+        "IPR016417",
+        "Spanin, inner membrane subunit, T7likevirus-type",
+        "TIGR03495",
+        "phage lysis regulatory protein, LysB family",
+        "IPR004929",
+        "Spanin, inner membrane subunit",
+        "IPR010346",
+        "Spanin, outer membrane subunit",
+        "PF17531",
+        "outer-membrane spanin sub-unit",
+        "MF_04137",
+        "PF06085",
+        "Lipoprotein Rz1 precursor"
+    ],
+    "holin_domains": [
+        "IPR006479",
+        "PF07332",
+        "Putative Actinobacterial Holin-X, holin superfamily III",
+        "IPR007953",
+        "Holin-like, BlyB",
+        "IPR006485",
+        "Bacteriophage holin",
+        "IPR020109",
+        "Holin, r1t-type",
+        "IPR009937",
+        "IPR007633",
+        "Bacteriophage P2, GpY, holin",
+        "IPR032111",
+        "Clostridium phage holin",
+        "IPR020982",
+        "Bacteriophage T4, GpT, holin",
+        "IPR006480",
+        "Bacteriophage holin family",
+        "IPR006493",
+        "Holin, BlyA",
+        "IPR009708",
+        "Bacteriophage A118-like, holin/antiholin",
+        "IPR032124",
+        "Bacteriophage F116-like holin",
+        "IPR032127",
+        "LydA-holin antagonist LydB",
+        "IPR032118",
+        "Bacteriophage holin HP1 family",
+        "PF04531",
+        "PF04688",
+        "SPP1 phage holin",
+        "PF04971",
+        "Bacteriophage P21 holin S",
+        "IPR032126",
+        "LydA-like holin",
+        "PF16079",
+        "Phage holin family Hol44, in holin superfamily V",
+        "PF16084",
+        "LydA-holin antagonist",
+        "PF04550",
+        "Phage holin family 2",
+        "PF06946",
+        "Bacteriophage A118-like holin, Hol118",
+        "PF05105",
+        "PF16080",
+        "Bacteriophage holin family HP1",
+        "TIGR01598",
+        "holin, phage phi LC3 family",
+        "PF05102",
+        "holin, BlyA family",
+        "IPR021497",
+        "Holin of 3TMs, for gene-transfer release",
+        "IPR023760",
+        "Holin-like protein CidA",
+        "PF16083",
+        "LydA holin phage, holin superfamily III",
+        "PF10960",
+        "BhlA holin family",
+        "TIGR01606",
+        "holin, BlyA family",
+        "PF11031",
+        "Bacteriophage T holin",
+        "PF16082",
+        "Bacteriophage holin family, superfamily II-like",
+        "TIGR01673",
+        "phage holin, LL-H family",
+        "PF11351",
+        "IPR007054",
+        "Lysis protein S",
+        "IPR007165",
+        "Mycobacterial 4 TMS phage holin, superfamily IV",
+        "PF09682",
+        "Bacteriophage holin of superfamily 6 (Holin_LLH)",
+        "IPR031614",
+        "Putative holin",
+        "PF05449",
+        "Putative 3TM holin, Phage_holin_3",
+        "IPR019715",
+        "Haemolysin XhlA",
+        "IPR005538",
+        "LrgA/CidA family",
+        "IPR034696",
+        "Antiholin T4 type",
+        "IPR008473",
+        "Putative 3TM holin, Phage holin 3",
+        "MF_04104",
+        "MF_04108",
+        "PF04020",
+        "IPR031612",
+        "Putative phage holin",
+        "IPR032128",
+        "Pyocin R2, holin",
+        "IPR032121",
+        "Mycobacterial phage holin",
+        "Antiholin-like protein LrgA",
+        "IPR024891",
+        "Antiholin-like protein LrgB",
+        "IPR019682",
+        "Bacteriophage T7, Gp17.5, holin",
+        "IPR032637",
+        "Putative phage holin-like",
+        "IPR006481",
+        "Bacteriophage lambda, GpS, holin",
+        "PF05289",
+        "Borrelia hemolysin accessory protein",
+        "IPR007300",
+        "CidB/LrgB family",
+        "PF16936",
+        "IPR010026",
+        "Phage holin, LL-H family",
+        "IPR025140",
+        "Putative 2/3 transmembrane domain holin",
+        "IPR031616",
+        "Putative Holin-like Toxin (Hol-Tox)",
+        "PF10746",
+        "Phage holin T7 family, holin superfamily II",
+        "PF16931",
+        "TIGR01592",
+        "holin, SPP1 family",
+        "TIGR01594",
+        "phage holin, lambda family",
+        "PF16938",
+        "Putative phage holin Dp-1",
+        "TIGR01593",
+        "toxin secretion/phage lysis holin",
+        "MF_01143",
+        "Holin-like protein CidA [cidA]",
+        "PF16085",
+        "Bacteriophage holin Hol, superfamily III",
+        "PF05106",
+        "Phage holin family (Lysis protein S)",
+        "PF13272",
+        "PF16935",
+        "PF16945",
+        "Putative lactococcus lactis phage r1t holin",
+        "PF17368",
+        "Spore morphogenesis and germination YwcE",
+        "PF16081",
+        "Mycobacterial 2 TMS Phage Holin (M2 Hol) Family"
+    ],
+    "spanins": [
+        "isp",
+        "osp",
+        "usp",
+        "ISP",
+        "OSP",
+        "USP",
+        "EOS",
+        "OOS",
+        "SOS",
+        "SIS",
+        "OIS",
+        "EIS",
+        "embedded",
+        "overlapping",
+        "separated",
+        "unimolecular",
+        "spanin",
+        "Rz",
+        "outer membrane spanin",
+        "inner membrane spanin"
+    ]
+}
\ No newline at end of file