Family Search for PF19904 (DUF6377)
April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.
PF19904 hits 7 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
BT3309 transcriptional regulator from Bacteroides thetaiotaomicron VPI-5482
Aligns to 257:511 / 547 (46.6%), covers 100.0% of PF19904, 332.1 bits
- A Bacteroidetes locus dedicated to fungal 1,6-β-glucan degradation: Unique substrate conformation drives specificity of the key endo-1,6-β-glucanase
Temple, The Journal of biological chemistry 2017 - “...locus PUL 1,6--glucan ( 10 , 12 ). PUL 1,6--glucan was predicted to extend from bt3309 to bt3314 ( Fig. 1 A ) and is predicted to encode five proteins: a SusR type regulator (BT3309), a SusCD-like pair (BT331011), and enzymes belonging to GH30_3 (BT3312) and...”
- “...five genes in this locus were evaluated by RT-PCR. The gene encoding the PUL regulator BT3309 was not activated by pustulan; bt3314 was up-regulated 10-fold; and transcription of the other genes in the locus increased 100-fold. The PUL was not activated when B. thetaiotaomicron was cultured...”
- Polysaccharides utilization in human gut bacterium Bacteroides thetaiotaomicron: comparative genomics reconstruction of metabolic and regulatory networks
Ravcheev, BMC genomics 2013 - “...BT3091 proteins are evolutionarily conserved in five and six genomes, respectively. Three other SusR paralogs (BT3309, BT2160, and BT4069) in B. thetaiotaomicron have orthologs only in the closely related genome of B. ovatus . The SusR family of regulatory proteins is a unique feature of the...”
- “...3 Pectic galactan b SusR-like regulators BT2160 SusR4 2 BT3091 SusR2 5 Dextran b, c BT3309 SusR3 2 BT3705 SusR 6 Starch a BT4069 2 For details, see Additional file 1 . 1 Regulator locus tags are shown for B. thetaiotaomicron VPI-5482. 2 Regulator names are...”
- Honor thy symbionts
Xu, Proceedings of the National Academy of Sciences of the United States of America 2003 - “...cycloisomaltooligosaccharide glucanotransferase, and an -glucosidase; another (BT3309) is positioned immediately upstream of SusC and SusD homologs, a...”
BT3091 putative regulatory protein from Bacteroides thetaiotaomicron VPI-5482
Aligns to 258:510 / 550 (46.0%), covers 100.0% of PF19904, 318.2 bits
- Engineering dual-glycan responsive expression systems for tunable production of heterologous proteins in Bacteroides thetaiotaomicron
Jones, Scientific reports 2019 - “...DX constitutive strain was created by placing the P ON bt1311 promoter 33 upstream of bt3091 , the PUL48 SusR-like gene (SusR DX ), to generate the strain B. theta -P ON SusR DX . The AG constitutive strain was created by placing P ON upstream...”
- “...was used to insert one of three promoters in front of the start codon of bt3091 ( SusR DX ) or bt0267 ( HTCS AG ). The three promoters were P bt1311 (promoter from pAT593 33 ), P bt3090 (the contiguous sequence between the stop codon...”
- Polysaccharides utilization in human gut bacterium Bacteroides thetaiotaomicron: comparative genomics reconstruction of metabolic and regulatory networks
Ravcheev, BMC genomics 2013 - “...identified SusR paralogs in B. thetaiotaomicron have orthologs in other Bacteroides genomes. The BT3705 and BT3091 proteins are evolutionarily conserved in five and six genomes, respectively. Three other SusR paralogs (BT3309, BT2160, and BT4069) in B. thetaiotaomicron have orthologs only in the closely related genome of...”
- “...4 Heparin a, b BT4673 HTCS_Pga 3 Pectic galactan b SusR-like regulators BT2160 SusR4 2 BT3091 SusR2 5 Dextran b, c BT3309 SusR3 2 BT3705 SusR 6 Starch a BT4069 2 For details, see Additional file 1 . 1 Regulator locus tags are shown for B....”
- Honor thy symbionts
Xu, Proceedings of the National Academy of Sciences of the United States of America 2003 - “...26, 2003) are found in B. thetaiotaomicron: one (BT3091) sits immediately upstream of a gene cluster containing SusC and SusD homologs, a...”
BT3705 regulatory protein SusR from Bacteroides thetaiotaomicron VPI-5482
Aligns to 307:547 / 582 (41.4%), covers 100.0% of PF19904, 295.0 bits
BXY_47670 DUF6377 domain-containing protein from Bacteroides xylanisolvens XB1A
Aligns to 256:496 / 531 (45.4%), covers 100.0% of PF19904, 294.9 bits
BT4069 conserved hypothetical protein, putative regulatory protein from Bacteroides thetaiotaomicron VPI-5482
Aligns to 256:493 / 534 (44.6%), covers 100.0% of PF19904, 287.8 bits
BT2160 SusR4: regulator of disaccharide catabolism (SusR4) from Bacteroides thetaiotaomicron VPI-5482
BT2160 putative regulatory protein from Bacteroides thetaiotaomicron VPI-5482
Aligns to 272:526 / 561 (45.5%), covers 100.0% of PF19904, 268.0 bits
- mutant phenotype: Specifically important in carbon source D-Trehalose dihydrate; carbon source palatinose hydrate; carbon source D-Raffinose pentahydrate; carbon source D-Leucrose. Predicted to regulate the operon BT2160:BT2156 (PMCID:PMC3878776)
- Steamed broccoli sprouts alleviate DSS-induced inflammation and retain gut microbial biogeography in mice
Holman, mSystems 2023 - “...most common, followed by BT2157 and BT2156 , BT2159 , and then the regulatory gene BT2160 (Fig. S7). Copy numbers were not significantly different for any individual gene by diet treatment and/or anatomical location (ANOVA, P > 0.05, adjusted for multiple comparisons with Tukeys HSD). However,...”
- Early life exposure to broccoli sprouts confers stronger protection against enterocolitis development in an immunological mouse model of inflammatory bowel disease
Holcomb, mSystems 2023 - “...(qPCR) amplification of its SusR4 regulon, which contains the BT2159-BT2156 operon and the regulatory gene BT2160, from samples along the digestive tract (ileum, cecum, and proximal and distal colon) of mice consuming broccoli sprout and control diets. For B. theta , this operon has been demonstrated...”
- Functional genetics of human gut commensal Bacteroides thetaiotaomicron reveals metabolic requirements for growth across environments
Liu, Cell reports 2021 - “...3-keto intermediate Our fitness assays revealed that components of a gene cluster (BT2157, BT2159, and BT2160) were important for catabolizing the disaccharides trehalose (glucose--1,1-glucose), leucrose (glucose--1,5-fructose), palatinose (glucose--1,6-fructose), and maltitol (glucose--1,4-glucitol) and the trisaccharide raffinose (galactose--1,6-glucose--1,2-fructose) ( Figure 4A ). BT2160 encodes a SusR-family transcription factor...”
- “...(fitness, 1.3 in all experiments on these substrates). Furthermore, BT2158 had the highest co-fitness with BT2160 ( r = 0.67). To confirm these results, we generated individual deletions of BT2158 and BT4448 and assayed growth of these mutants on glucose or trehalose. As expected, BT4448 did...”
- A Metabolic Pathway for Activation of Dietary Glucosinolates by a Human Gut Symbiont
Liou, Cell 2020 - “...a glycoside hydrolase (BT2157), and a sugar-phosphate epimerase/isomerase (BT2156), under the control of transcriptional regulator BT2160 ( Figure 2A ). In silico analysis predicted that BT2160 spans the inner membrane, BT2159 is cytoplasmic, BT2158 is periplasmic, and BT2157 is an outer membrane lipoprotein ( Figure S2A...”
- “...sp D2, and B. ovatus ATCC 8483. Strains lacking a homolog of the regulatory protein BT2160 but containing homologs of BT2159-BT2156, B. uniformis ATCC 8492 and B. intestinalis DSM17393, were unable to metabolize GS to ITC. Presence of the complete gene cluster, however, was not predictive...”
- Polysaccharides utilization in human gut bacterium Bacteroides thetaiotaomicron: comparative genomics reconstruction of metabolic and regulatory networks
Ravcheev, BMC genomics 2013 - “...proteins are evolutionarily conserved in five and six genomes, respectively. Three other SusR paralogs (BT3309, BT2160, and BT4069) in B. thetaiotaomicron have orthologs only in the closely related genome of B. ovatus . The SusR family of regulatory proteins is a unique feature of the Bacteroidetes...”
- “...2 BT4663 HTCS_Hep 4 Heparin a, b BT4673 HTCS_Pga 3 Pectic galactan b SusR-like regulators BT2160 SusR4 2 BT3091 SusR2 5 Dextran b, c BT3309 SusR3 2 BT3705 SusR 6 Starch a BT4069 2 For details, see Additional file 1 . 1 Regulator locus tags are...”
- Honor thy symbionts
Xu, Proceedings of the National Academy of Sciences of the United States of America 2003 - “...several glycosylhydrolases, whereas the fourth SusR homolog (BT2160) is positioned upstream of a putative oxidoreductase and a putative dehydrogenase. B....”
Fjoh_4435 hypothetical protein from Flavobacterium johnsoniae UW101
Aligns to 266:526 / 566 (46.1%), covers 100.0% of PF19904, 233.2 bits
- Bacteroidota polysaccharide utilization system for branched dextran exopolysaccharides from lactic acid bacteria
Nakamura, The Journal of biological chemistry 2023 - “...grown on branched -glucan FjDexUL consists of eight genes that encode proteins Fjoh_4428Fjoh_4435: SusR homolog (Fjoh_4435, hereafter FjDusR), SusC homolog (Fjoh_4434, FjDusC), SusD homolog (Fjoh_4433, FjDusD), SusE/F homolog (Fjoh_4432, FjDusE), GH66 enzyme (Fjoh_4431, FjGH66), GH31 dextranase (Fjoh_4430, FjDex31A ( 44 , 47 )), GH97 enzyme (Fjoh_4429,...”
Or search for genetic data about PF19904 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory