GONUTS has been updated to MW1.31 Most things seem to be working but be sure to report problems.

Have any questions? Please email us at ecoliwiki@gmail.com

Category:Team Interior Nebulas

From GONUTS
Jump to: navigation, search

SUPER BOWL ROUND Spring 2012

StatusPageUserDate/TimeGO Term (Aspect)ReferenceEvidenceNotesLinks
requireschangesPSEPU:Q9Z417Dixonkev, Team Interior Nebulas2012-04-14 16:09:30 CDTGO:0006725 cellular aromatic compound metabolic process (P)PMID:9440519ECO:0000314 direct assay evidence used in manual assertion

fig. 1: shows extracts from organism in comparison to known products

fig. 2: spectra analysis of enzymatic reactions identifying various products

challenge
acceptableECOLI:AROBAbdull31, Team Interior Nebulas2012-04-14 13:15:28 CDTGO:0003856 3-dehydroquinate synthase activity (F)PMID:6386050ECO:0000315 mutant phenotype evidence used in manual assertion

By comparing table II and III, E. coli transformants show more dehydroquinate synthase activity than wild-type E. coli.

Based on table IV, aroB gene was inserted behind the tac promoter and increase dehydroquinate synthase activity even more.

challenge
requireschangesCUPNE:Q8KTD6Dixonkev, Team Interior Nebulas2012-04-13 21:01:36 CDTGO:0009712 catechol-containing compound metabolic process (P)PMID:12057943ECO:0000314 direct assay evidence used in manual assertion

fig 2: mass spec compares products to identical known molecules

fig 5: degredation of 2,4,6-TCP and increase of 6-CHQ-ox over time

challenge
acceptableAGRFC:URODHAbdull31, Team Interior Nebulas2012-04-13 17:58:39 CDTGO:0050388 uronate dehydrogenase activity (F)PMID:19060141ECO:0000314 direct assay evidence used in manual assertion

Fig. 2 shows purified uronate dehydrogenase of A. tumefaciens udh gene transformed in E. coli which were analyzed by SDS-PAGE (lane 3)

Table 2 shows turnover numbers and Michaelis constants of uronate dehydrogenase from A. tumefaciens

challenge
requireschanges9BURK:O69264Dixonkev, Team Interior Nebulas2012-04-13 17:44:04 CDTGO:0000166 nucleotide binding (F)PMID:9249026ECO:0000314 direct assay evidence used in manual assertion

fig. 1: chloride release with growth turbidity

fig.4: C13-catechol production shown with degradation of CI4- benzene

challenge
requireschangesHYPJE:Q92458Dixonkev, Team Interior Nebulas2012-04-13 12:12:24 CDTGO:0005975 carbohydrate metabolic process (P)PMID:9020869ECO:0000314 direct assay evidence used in manual assertion

fig 2.: change in reactants/product levels during hydrolysis

fig 1.: shows purity of beta-xylosidase in comparison to marker proteins

challenge
acceptableMOUSE:UGDHAbdull31, Team Interior Nebulas2012-04-12 21:04:09 CDTGO:0003979 UDP-glucose 6-dehydrogenase activity (F)PMID:9737970ECO:0000314 direct assay evidence used in manual assertion

Fig. 4A shows expression of Ugdh in the developing mouse embryo which revealed a single Ugdh transcript of approximately 2.4 kb.

Based on Table II, spectrophotometric measurement indicated that Udpgdh activity of lysates prepared from transfection of a mouse Ugdh expression vector into COS-1 cells was elevated 5–12-fold in comparison to those prepared from vector only, mock-transfected, control cells

challenge
updatedbyinstructorSTRSU:A0A142UME2Abdull31, Team Interior Nebulas2012-04-12 20:15:32 CDTGO:0008927 mannonate dehydratase activity (F)PMID:19617363ECO:0000315 mutant phenotype evidence used in manual assertion

Based on fig. 1 (mass spec), two dominant peaks were found after incubation with mannonate dehydratase(ManD). The first peak corresponds to remaining substrate(D-mannonate), whereas the second peak is consistent with formation of the expected protonated dehydration product, 2-KDG (IDA inferred)

Based on table 2, wild type ManD show high affinity to the substrate but the mutant protein Y325F was catalytically inactive while the activity of H311A was only 2.4% that of the native enzyme. The results of site-directed mutagenesis confirmed the functional of these residues in the dehydration reaction (IMP inferred)

challenge
unacceptableSTRPY:HASAAbdull31, Team Interior Nebulas2012-04-12 20:13:49 CDTGO:0050501 hyaluronan synthase activity (F)PMID:8366070ECO:0000315 mutant phenotype evidence used in manual assertion

Based on fig. 1, hyaluronan(HA) synthase gene was identified based on the fact that Tn insertional mutagenesis caused the band on the gel.

Fig. 4 shows the presence of HasA in E. coli with pPD41-delta5 (lane C) and pPD41-deltaPstI(lane D) while table 1 shows positive HA production for strains that contain the plasmid. Strains with pPD41-deltaPstI show little activity for HA synthesis because no HasB present which is required for the reaction.

challenge
acceptableSTRPY:UDGAbdull31, Team Interior Nebulas2012-04-12 19:34:51 CDTGO:0003979 UDP-glucose 6-dehydrogenase activity (F)PMID:8463246ECO:0000314 direct assay evidence used in manual assertion

table 1 shows UDP-glucose dehydrogenase activity of Streptococcus pyogenes and E. coli with hasB-containing pGAC147 plasmid

challenge
acceptableECOLI:UXUBAbdull31, Team Interior Nebulas2012-04-12 18:34:33 CDTGO:0008866 fructuronate reductase activity (F)PMID:6997264ECO:0000315 mutant phenotype evidence used in manual assertion

Table 3 shows high mannonate oxidoreductase activity by various mutants when functional uxuB gene present in the plasmid.

challenge
acceptableECOLI:UXUAAbdull31, Team Interior Nebulas2012-04-12 18:32:43 CDTGO:0008927 mannonate dehydratase activity (F)PMID:6997264ECO:0000315 mutant phenotype evidence used in manual assertion

Table 3 shows high mannonate hydrolyase activity by various mutants when functional uxuA gene present in the plasmid.

challenge
requireschangesBACSU:ABFAAbdull31, Team Interior Nebulas2012-04-12 13:28:33 CDTGO:0046556 alpha-N-arabinofuranosidase activity (F)PMID:18757805ECO:0000314 direct assay evidence used in manual assertion

Fig. 2 shows overproduction in E. coli, purification and characterization of AbfA.

challenge
acceptableSOLTU:Q6KF77Abdull31, Team Interior Nebulas2012-04-12 12:54:54 CDTGO:0050358 tropinone reductase activity (F)PMID:11855731ECO:0000314 direct assay evidence used in manual assertion

The recombinant TRII protein expressed in E. coli catalyzes pseudotropine formation from tropinone.

Fig. 4 show relative activity of tropinone.

challenge
acceptablePSEWB:PNPADixonkev, Team Interior Nebulas2012-04-12 11:21:56 CDTGO:0004497 monooxygenase activity (F)PMID:19218392ECO:0000314 direct assay evidence used in manual assertion

Fig. 4 shows mass spec. purification of products

Fig. 5 shows concentration vs. time of degradation of PNP, and influx of concentration of associated products

challenge


MSU Internal Competition

StatusPageUserDate/TimeGO Term (Aspect)ReferenceEvidenceNotesLinks
acceptableCHLRE:Q6DN05Abdull31, Team Interior Nebulas2012-04-01 15:42:39 CDTGO:0006578 betaine biosynthetic process (P)PMID:15701786ECO:0000315 mutant phenotype evidence used in manual assertion

more specifically, the protein involve in Betaine DGTS lipid synthesis

Figure 5 shows DGTS spot on the TLC plates expressed by BTS1

challenge
unacceptable?Dixonkev, Team Interior Nebulas2012-04-01 12:10:58 CDT GO:0018584 (Fig 1: uses lac promoter and subcloning shows ability to form TCP associated with inserted genes Fig 3: autoradiogram of gel maps expression of tftA after insertion in various host cells)2,4,5-trichlorophenoxyacetic acid oxygenase activityIEP: Inferred from Expression Pattern
challenge
requireschangesCLOAB:CRTAbdull31, Team Interior Nebulas2012-03-30 18:13:08 CDTGO:0003859 3-hydroxybutyryl-CoA dehydratase activity (F)PMID:18060402ECO:0000314 direct assay evidence used in manual assertion

Figure 3B shows 3-hydroxybutyryl-CoA dehydratase (CRT) activity

Table 3 shows positive CRT activity by different strains

challenge

Pages in category "Team Interior Nebulas"

The following 2 pages are in this category, out of 2 total.


Jump to pages starting with: A D