Family Search for PF08719 (NADAR)
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Running HMMer for PF08719
PF08719 hits 21 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
FCOL_RS13285 NADAR family protein from Flavobacterium columnare ATCC 49512
Aligns to 16:175 / 177 (90.4%), covers 99.4% of PF08719, 197.6 bits
- Comparative Analysis of the Flavobacterium columnare Genomovar I and II Genomes
Kumru, Frontiers in microbiology 2017 - “...2-phosphotransferase 3029802-3030464 FCOL_RS13270 Hypothetical protein 3030527-3031030 FCOL_RS13275 RNase III inhibitor 3031196-3031753 FCOL_RS13280 Hypothetical protein 3031753-3032286 FCOL_RS13285 Hypothetical protein 3032283-3033113 FCOL_RS13290 Phosphoribosylpyrophosphate synthetase 3033491-3034183 FCOL_RS13295 NUDIX hydrolase The F. columnare 94-081 genome contains one incomplete phage cluster of 13.8 kb with 16 genes, two of which have...”
AWN65_RS00880 NADAR family protein from Flavobacterium covae
Aligns to 16:175 / 178 (89.9%), covers 99.4% of PF08719, 196.9 bits
- Comparative Analysis of the Flavobacterium columnare Genomovar I and II Genomes
Kumru, Frontiers in microbiology 2017 - “...hypothetical protein 185330-185518 AWN65_RS00865 Hypothetical protein 185635-186198 AWN65_RS00870 Hypothetical protein 186284-187126 AWN65_RS00875 Crystallin J1 187123-187659 AWN65_RS00880 Hypothetical protein 187656-188486 AWN65_RS00885 Phosphoribosylpyrophosphate synthetase 188909-189601 AWN65_RS00890 NUDIX hydrolase Flavobacterium columnare ATCC 49512 Region I 1241010-1241513 FCOL_RS05470 Chromosome partitioning protein ParB 1241510-1242790 FCOL_RS05475 Phosphoadenosine phosphosulfate sulfurtransferase 1242787-1244013 FCOL_RS05310 Hypothetical...”
PA4580 hypothetical protein from Pseudomonas aeruginosa PAO1
Aligns to 24:183 / 184 (87.0%), covers 99.4% of PF08719, 184.7 bits
DR_1263 NADAR family protein from Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
Aligns to 9:157 / 159 (93.7%), covers 100.0% of PF08719, 176.5 bits
- A small RNA regulates pprM, a modulator of pleiotropic proteins promoting DNA repair, in Deinococcus radiodurans under ionizing radiation
Villa, Scientific reports 2021 - “...significant enrichment of three DrRRA regulated transcripts (DR_0944 (thioredoxin) and two uncharacterized proteins (DR_1264 and DR_1263)) and pprM (DR_0907) among the top 8 targets (at least fourfold enriched) (Fig. S5 B). PprM is a predicted cold shock protein that has been described previously as being a...”
- Discovery and Characterization of Native Deinococcus radiodurans Promoters for Tunable Gene Expression
Chen, Applied and environmental microbiology 2019 - “...aaaCTCGAGcgtatttgccgggat ataCCGCGGTTTCAGcattctgttgtgagcatatcag 452 DR_1263 ataCCGCGGTTTCAGcatgttgtgtgtcgtcctca ataCTCGAGgagcaaaatatccaaggcga 159 DR_2439...”
- N 4-Cytosine DNA Methylation Is Involved in the Maintenance of Genomic Stability in Deinococcus radiodurans
Li, Frontiers in microbiology 2019 - “...Hypothetical protein, DdrD DR_0227 6.7254 2.40E-68 Hypothetical protein, DdrG DR_0438 2.8941 1.45E-15 Hypothetical protein, DdrH DR_1263 6.2741 5.17E-81 Hypothetical protein, DdrJ DR_1264 5.7875 1.67E-55 Hypothetical protein, DdrK DR_2574 3.6669 4.24E-37 Transcriptional repressor of the RDR regulon, DdrO DR_B0100 3.2083 1.08E-18 Putative RNA or DNA ligase, DdrP...”
DR1263 conserved hypothetical protein from Deinococcus radiodurans R1
Aligns to 72:220 / 222 (67.1%), covers 100.0% of PF08719, 175.1 bits
RIBX_NOSP7 / B2J4E5 N-glycosidase Npun_R5314; Riboflavin biosynthesis intermediates N-glycosidase; EC 3.2.2.- from Nostoc punctiforme (strain ATCC 29133 / PCC 73102) (see paper)
Aligns to 4:146 / 156 (91.7%), covers 100.0% of PF08719, 148.5 bits
- function: Catalyzes the hydrolysis of the N-glycosidic bond in the first two intermediates of riboflavin biosynthesis, which are highly reactive metabolites, yielding relatively innocuous products. Thus, can divert a surplus of harmful intermediates into relatively harmless products and pre-empt the damage these intermediates would otherwise do. May act on other substrates in vivo. Has no activity against GTP, nucleoside monophosphates or ADP-ribose.
catalytic activity: 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)-pyrimidine + H2O = 2,5,6-triamino-4-hydroxypyrimidine + D-ribose 5-phosphate (RHEA:23436)
catalytic activity: 5-amino-6-(5-phospho-D-ribosylamino)uracil + H2O = 5,6- diaminouracil + D-ribose 5-phosphate (RHEA:55020)
8bauA / W2PSB7 Phytophthora nicotianae var. Parasitica nadar in complex with adp- ribose (see paper)
Aligns to 13:186 / 189 (92.1%), covers 99.4% of PF08719, 140.4 bits
- Ligand: [(2r,3s,4r,5r)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl[hydroxy-[[(2r,3s,4r,5s)-3,4,5-trihydroxyoxolan-2-yl]methoxy]phosphoryl] hydrogen phosphate (8bauA)
TTHERM_00486130 swarming motility protein ybiA from Tetrahymena thermophila SB210
Aligns to 59:200 / 204 (69.6%), covers 100.0% of PF08719, 135.8 bits
- Proteomic analysis of the ventral disc of Giardia lamblia
Lourenço, BMC research notes 2012 - “...marneffei ] 6 79 15571 -.VIEALLQFTNDIEKQSFQVLHK.D K.DVVVILQR.I R.IAVESQLDSR.D R.IAVESQLDSRDVYSLEEGFK.A R.DVYSLEEGFK.A 2D 9 XP_001032825.1 Hypothetical protein TTHERM_00486130 [ Tetrahymena thermophila SB210] 6 63 18838 K.DAGRQISILVLGK.M R.QISILVLGK.M R.QISILVLGKMPEEFFDIGK.K 2D 10 AAK32143.1 giardin delta chain [Giardia intestinalis] 147 30969 R.VTDFHEDFKR.Q K.IAQEHDDLLESIR.Y K.TSAEESFGAFIGNLTNER.N R.ADREQSIDEYLR.D K.VLAGVVAELIATR.K Table with isolated ventral disc...”
W8SSB7 N-glycosidase YbiA from Escherichia coli
Aligns to 7:146 / 149 (94.0%), covers 98.8% of PF08719, 132.6 bits
- Label-Free Proteomic Approach to Study the Non-lethal Effects of Silver Nanoparticles on a Gut Bacterium
Domingo, Frontiers in microbiology 2019 - “...1a1b All AgNPs treatments 2-methylcitrate synthase (N3MZ53; log2FC = 2.98, 3.06, 3.21) GTP cyclohydrolase II (W8SSB7; log2FC = 3.32, 3.21, 3.21) Glyoxalase I (T9A3H1; log2FC = 4.57, 4.44, 4.43) ABC transporter-binding protein MlaB (N2GWD3; log2FC = -5.95, 5.68, 5.84) 1-Acylglycerol-3-phosphate O -acyltransferase (X7PK56; log2FC = 4.74,...”
YbiA / b0798 N-glycosidase YbiA from Escherichia coli K-12 substr. MG1655 (see 3 papers)
ybiA / P30176 N-glycosidase YbiA from Escherichia coli (strain K12) (see 3 papers)
RIBX_ECOLI / P30176 N-glycosidase YbiA; Riboflavin biosynthesis intermediates N-glycosidase; EC 3.2.2.- from Escherichia coli (strain K12) (see 2 papers)
ybiA / ECOCYC|EG11579-MONOMER swarming motility protein ybiA from Escherichia coli K12 (see 6 papers)
b0798 hypothetical protein from Escherichia coli str. K-12 substr. MG1655
Aligns to 18:157 / 160 (87.5%), covers 98.8% of PF08719, 132.2 bits
- function: Catalyzes the hydrolysis of the N-glycosidic bond in the first two intermediates of riboflavin biosynthesis, which are highly reactive metabolites, yielding relatively innocuous products. Thus, can divert a surplus of harmful intermediates into relatively harmless products and pre-empt the damage these intermediates would otherwise do. Helps maintain flavin levels. May act on other substrates in vivo. Has no activity against GTP, nucleoside monophosphates or ADP-ribose (PubMed:25431972). Is Required for swarming motility (PubMed:17122336).
catalytic activity: 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)-pyrimidine + H2O = 2,5,6-triamino-4-hydroxypyrimidine + D-ribose 5-phosphate (RHEA:23436)
catalytic activity: 5-amino-6-(5-phospho-D-ribosylamino)uracil + H2O = 5,6- diaminouracil + D-ribose 5-phosphate (RHEA:55020)
disruption phenotype: Strongly represses cell swarming but no effect on cell swimming (PubMed:17122336). Cells lacking this gene show significantly reduced FAD and FMN levels (both by 13%) (PubMed:25431972). - Transcriptional profile of the Escherichia coli response to the antimicrobial insect peptide cecropin A
Hong, Antimicrobial agents and chemotherapy 2003 - “...ylcD (b0574) entE (b0594) ybfC (b0704) rh1E (b0797) ybiA (b0798) ybiX (b0804) -- (b0817) -- (b0872) csgD (b1040) pin (b1158) ychK (b1234) -- (b1364) ydbA...”
A1S_0598 hypothetical protein from Acinetobacter baumannii ATCC 17978
Aligns to 1:103 / 105 (98.1%), covers 60.1% of PF08719, 130.8 bits
- Molecular mechanisms of ethanol-induced pathogenesis revealed by RNA-sequencing
Camarena, PLoS pathogens 2010 - “...4.5 4-hydroxyphenylpyruvate dioxygenase, COG3185 A1S_1031 2.1 Protease La Repressed Genes A1S_0520 0.46 Putative dehydrogenase, COG0644 A1S_0598 0.42 Hypothetical protein, DUF1768 A1S_0661 0.5 Phage integrase family protein, P-4 like integrase A1S_0669 0.44 Putative arsenite efflux permease, COG0798 A1S_0923 0.51 Malate:quinone oxidoreductase A1S_1174 0.32 DNA polymerase V, UmuD...”
VP_RS15305 GTP cyclohydrolase II from Vibrio parahaemolyticus RIMD 2210633
Aligns to 6:145 / 353 (39.7%), covers 100.0% of PF08719, 130.4 bits
RIBXA_VIBVY / Q7MGG3 Riboflavin biosynthesis protein VVA0006; EC 3.2.2.-; EC 3.5.4.25 from Vibrio vulnificus (strain YJ016) (see paper)
Aligns to 22:161 / 367 (38.1%), covers 100.0% of PF08719, 129.0 bits
- function: Catalyzes the hydrolysis of the N-glycosidic bond in the first two intermediates of riboflavin biosynthesis, which are highly reactive metabolites, yielding relatively innocuous products. Thus, can divert a surplus of harmful intermediates into relatively harmless products and pre-empt the damage these intermediates would otherwise do. Has no activity against GTP, nucleoside monophosphates or ADP- ribose.
function: Catalyzes the conversion of GTP to 2,5-diamino-6- ribosylamino-4(3H)-pyrimidinone 5'-phosphate (DARP), formate and pyrophosphate.
catalytic activity: 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)-pyrimidine + H2O = 2,5,6-triamino-4-hydroxypyrimidine + D-ribose 5-phosphate (RHEA:23436)
catalytic activity: 5-amino-6-(5-phospho-D-ribosylamino)uracil + H2O = 5,6- diaminouracil + D-ribose 5-phosphate (RHEA:55020)
catalytic activity: GTP + 4 H2O = 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)- pyrimidine + formate + 3 H(+) + 2 phosphate (RHEA:23704)
cofactor: Zn(2+) (Binds 1 zinc ion per subunit.)
FE46_RS11855 NADAR family protein from Flavobacterium psychrophilum
Aligns to 5:144 / 209 (67.0%), covers 98.8% of PF08719, 128.5 bits
RIBRX_MAIZE / K7WIZ6 Riboflavin biosynthesis protein PYRR, chloroplastic; EC 1.1.1.193; EC 3.2.2.- from Zea mays (Maize) (see 2 papers)
Aligns to 456:610 / 623 (24.9%), covers 98.8% of PF08719, 121.9 bits
- function: Pyrimidine reductase involved in the riboflavin biosynthesis pathway. Has also a non-functional N-terminal deaminase domain that lacks the catalytically essential zinc-binding residues. 39% activity when NADH replaces NADPH. No evidence for a phosphatase activity conferred by the N-terminal domain.
function: Catalyzes the hydrolysis of the N-glycosidic bond in the first two intermediates of riboflavin biosynthesis, which are highly reactive metabolites, yielding relatively innocuous products. Thus, can divert a surplus of harmful intermediates into relatively harmless products and pre-empt the damage these intermediates would otherwise do. Has no activity against GTP, nucleoside monophosphates or ADP- ribose.
catalytic activity: 5-amino-6-(5-phospho-D-ribitylamino)uracil + NADP(+) = 5- amino-6-(5-phospho-D-ribosylamino)uracil + H(+) + NADPH (RHEA:17845)
catalytic activity: 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)-pyrimidine + H2O = 2,5,6-triamino-4-hydroxypyrimidine + D-ribose 5-phosphate (RHEA:23436)
catalytic activity: 5-amino-6-(5-phospho-D-ribosylamino)uracil + H2O = 5,6- diaminouracil + D-ribose 5-phosphate (RHEA:55020)
disruption phenotype: Lethal when homozygous. Required for both endosperm and embryo formation in the seed.
PHS1 / F4JBI5 5-amino-6-(5-phosphoribosylamino)uracil reductase (EC 1.1.1.193) from Arabidopsis thaliana (see paper)
Aligns to 427:583 / 596 (26.3%), covers 98.8% of PF08719, 121.5 bits
NP_498348 NADAR domain-containing protein from Caenorhabditis elegans
Q9GYR5 NADAR domain-containing protein from Caenorhabditis elegans
Aligns to 226:405 / 937 (19.2%), covers 92.6% of PF08719, 92.6 bits
- A novel, essential trans-splicing protein connects the nematode SL1 snRNP to the CBC-ARS2 complex.
Fasimoye, Nucleic acids research 2022 - GeneRIF: A novel, essential trans-splicing protein connects the nematode SL1 snRNP to the CBC-ARS2 complex.
- A novel, essential trans-splicing protein connects the nematode SL1 snRNP to the CBC-ARS2 complex
Fasimoye, Nucleic acids research 2022 - “...open reading frame identifier. Note that SNA-3 and PRDX-2 only appear with their Uniprot identifiers Q9GYR5 and A0A0K3AUJ9, respectively, in Supplemental File 3 summarising the results of the analyses done using PERSEUS. Significantly enriched proteins in SNA-1 immunoprecipitations (Figure 1A ) are, as expected, SNA-1 protein...”
- “...KIN-10), an ortholog of human peroxiredoxin 1 (PRDX-2) and a novel, nematode-specific protein (Uniprot identifier Q9GYR5), which is encoded by the gene C23G10.8. This latter protein, we named SNA-3 ( s mall n uclear RNA a ssociated), based on its association with SL1 RNA and on...”
RIBRX_ARATH / Q9STY4 Riboflavin biosynthesis protein PYRR, chloroplastic; EC 1.1.1.193; EC 3.2.2.- from Arabidopsis thaliana (Mouse-ear cress) (see 3 papers)
AT3G47390 cytidine/deoxycytidylate deaminase family protein from Arabidopsis thaliana
Aligns to 448:586 / 599 (23.2%), covers 67.5% of PF08719, 86.6 bits
- function: Pyrimidine reductase involved in the riboflavin biosynthesis pathway. Has also a non-functional N-terminal deaminase domain that lacks the catalytically essential zinc-binding residues.
function: Catalyzes the hydrolysis of the N-glycosidic bond in the first two intermediates of riboflavin biosynthesis, which are highly reactive metabolites, yielding relatively innocuous products. Thus, can divert a surplus of harmful intermediates into relatively harmless products and pre-empt the damage these intermediates would otherwise do. Helps maintain flavin levels. Has no activity against GTP, nucleoside monophosphates or ADP-ribose.
catalytic activity: 5-amino-6-(5-phospho-D-ribitylamino)uracil + NADP(+) = 5- amino-6-(5-phospho-D-ribosylamino)uracil + H(+) + NADPH (RHEA:17845)
catalytic activity: 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)-pyrimidine + H2O = 2,5,6-triamino-4-hydroxypyrimidine + D-ribose 5-phosphate (RHEA:23436)
catalytic activity: 5-amino-6-(5-phospho-D-ribosylamino)uracil + H2O = 5,6- diaminouracil + D-ribose 5-phosphate (RHEA:55020) - Gene Expression Profiling of Iron Deficiency Chlorosis Sensitive and Tolerant Soybean Indicates Key Roles for Phenylpropanoids under Alkalinity Stress
Waters, Frontiers in plant science 2018 - “...II 5.0 4.1 1.1 0.9 1.2 0.9 At4g20960 PYRD MU51870 Medtr4g119220 Glyma.07G071800 Diaminohydroxyphosphoribosylaminopyrimidine deaminase 4.3 AT3G47390 PHS1,PYRR MELO3C010048 Medtr7g080120 Glyma.18G242600 Cytidine/Deoxycytidylate deaminase family protein 4.3 3.3 AT3G47390 PHS1,PYRR MELO3C010049 Medtr7g080120 Glyma.18G242600 Cytidine/Deoxycytidylate deaminase family protein 2.7 AT2G44050 COS1 MU59012 contig_50382_2 Glyma.08G087500 COS1 (COI1 SUPPRESSOR1); 6,7-dimethyl-8-ribityllumazine synthase...”
- Alkaline stress and iron deficiency regulate iron uptake and riboflavin synthesis gene expression differently in root and leaf tissue: implications for iron deficiency chlorosis
Hsieh, Journal of experimental botany 2016 - “...Csa6M003430 MU51870 AT4G20960 Diaminohydroxyphosphoribosylamino- pyrimidine deaminase 369 505 1.4 415 394 0.9 PHS1 Csa1M655920 Melo3C010048 AT3G47390 Pyrimidine reductase 177 1670 9.4 27 25 1.0 DMRLs Csa6M366300 MU59012 AT2G44050 Dimethyl-8-ribityllumazine synthase 1838 6234 3.4 1690 1142 0.7 RIBC Csa6M128550 MU45607 AT2G20690 Riboflavin synthase chain 220 385 1.8...”
- Identification and characterization of the missing pyrimidine reductase in the plant riboflavin biosynthesis pathway
Hasnain, Plant physiology 2013 (PubMed)- “...deaminase domain, and that the Arabidopsis PyrR gene (At3g47390) is coexpressed with riboflavin synthesis genes. These observations imply that PyrR is a...”
- “...this inference, Arabidopsis or maize (Zea mays) PyrR (At3g47390 or GRMZM2G090068) restored riboflavin prototrophy to an E. coli ribD deletant strain when...”
YP_009345041 hypothetical protein from Xinzhou nematode virus 1
Aligns to 1074:1228 / 2708 (5.7%), covers 98.2% of PF08719, 84.8 bits
- RNA helicase domains of viral origin in proteins of insect retrotransposons: possible source for evolutionary advantages
Morozov, PeerJ 2017 - “..._***_ Hubei virga-like virus 2 6e47 42 YP_009337412 _***_ Xinzhou nematode virus 1 1e30 36 YP_009345041 _***_ Xingshan nematode virus 2 1e30 35 YP_009345038 Tischeria quercitella (Tischeriidae) Hubei virga-like virus 1 2e40 38 YP_009337423 _***_ Hubei virga-like virus 2 9e40 38 YP_009337412 _***_ Lodeiro virus 1e27...”
- “..._***_ Hubei virga-like virus 2 1e44 39 YP_009337412 _***_ Xinzhou nematode virus 1 3e32 39 YP_009345041 _***_ Broad bean necrosis virus 2e29 35 NP_740761 Ostrinia nubilalis (Crambidae) Hubei virga-like virus 1 7e45 41 YP_009337423 _***_ Hubei virga-like virus 2 2e41 41 YP_009337412 _***_ Xinzhou nematode virus...”
YP_009333461 hypothetical protein 1 from Beihai sipunculid worm virus 5
Aligns to 1412:1553 / 2368 (6.0%), covers 92.6% of PF08719, 70.9 bits
- Virome of Australia's most endangered parrot in captivity evidenced of harboring hitherto unknown viruses
Klukowski, Microbiology spectrum 2024 - “...Psittacine picornavirus 1 OP577483 Yes 300.43 15,115 6,549 nt, no Beihai sipunculid worm virus 5 YP_009333461 29.77 Riboviria; Picornavirus Psittacine picornavirus 2 OP577484 Yes 340.23 11,865 4,853 nt, no Wuhan arthropod virus ( YP_009342255 ) 26.46 Parvoviridae Psittaciform ambidensovirus 1 OP577482 Yes 406.03 13,582 4.644 nt,...”
- “...link with another picornavirus, Beihai sipunculid worm virus 5 sequenced from China (GenBank accession no. YP_009333461 ) ( 27 ). The second picornavirus isolated in this study is a psittacine picornavirus 2 (GenBank accession no. OP577484 ) that emerged in a subclade with four other picornaviruses....”
YP_009345038 RdRp from Xingshan nematode virus 2
Aligns to 1077:1232 / 2722 (5.7%), covers 93.9% of PF08719, 42.5 bits
Or search for genetic data about PF08719 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory