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Category:Team Gnome Scribblerz

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StatusPageUserDate/TimeGO Term (Aspect)ReferenceEvidenceNotesLinks
updatedbyinstructorMYCTU:WHIB1Tgoh1, Team Gnome Scribblerz2012-11-18 17:26:03 CSTGO:0045892 negative regulation of transcription, DNA-templated (P)PMID:22464736ECO:0000314 direct assay evidence used in manual assertion

Figure 2. Apo-WhiB1 inhibits transcription of groEL2 in vitro

challenge
unacceptableARATH:DRE1BTgoh1, Team Gnome Scribblerz2012-11-18 15:52:23 CSTGO:0043565 sequence-specific DNA binding (F)PMID:9023378ECO:0000314 direct assay evidence used in manual assertion

Fig. 4. CBF1 binds to C-repeat/DRE.

challenge
unacceptableARATH:DRE1BTgoh1, Team Gnome Scribblerz2012-11-18 15:52:23 CSTGO:0006950 response to stress (P)PMID:9023378ECO:0000314 direct assay evidence used in manual assertion

Fig. 6: Northern shows that low termperature/water deficit conditions do not change CBF1 transcript levels

challenge
acceptableECOH1:TIBCJsamra1, Team Gnome Scribblerz2012-11-18 14:11:16 CSTGO:0016757 transferase activity, transferring glycosyl groups (F)PMID:16484190ECO:0000314 direct assay evidence used in manual assertion

Fig 1

challenge
acceptableECOLX:F8SKF2Jsamra1, Team Gnome Scribblerz2012-11-18 14:08:53 CSTGO:0016757 transferase activity, transferring glycosyl groups (F)PMID:16484190ECO:0000314 direct assay evidence used in manual assertion

Fig 1

challenge
unacceptableECOLI:AG43Jsamra1, Team Gnome Scribblerz2012-11-18 14:05:45 CSTGO:0006486 protein glycosylation (P)PMID:16484190ECO:0000314 direct assay evidence used in manual assertion

Figure 1, Figure 4B

challenge
updatedbyinstructorECOH1:TIBAJsamra1, Team Gnome Scribblerz2012-11-18 13:59:36 CSTGO:0045203 integral to cell outer membrane (C)PMID:10417177ECO:0000314 direct assay evidence used in manual assertion

Fig 1B&C + Fig 2B

challenge
updatedbyinstructorSTAAU:Q1HAH9Jsamra1, Team Gnome Scribblerz2012-11-18 12:59:09 CSTGO:0008649 rRNA methyltransferase activity (F)PMID:23150671ECO:0000315 mutant phenotype evidence used in manual assertion

fig 3

challenge
unacceptableECOLI:AROKJsamra1, Team Gnome Scribblerz2012-11-18 12:38:12 CSTGO:0006486 protein glycosylation (P)PMID:23145077ECO:0000314 direct assay evidence used in manual assertion

Fig 2 & Fig 5

challenge
unacceptableENTFL:Q9KHL9Jsamra1, Team Gnome Scribblerz2012-11-15 20:32:03 CSTGO:0008716 D-alanine-D-alanine ligase activity (F)PMID:22969085ECO:0000314 direct assay evidence used in manual assertion

figure 2, part A, lane 2

challenge
unacceptableARATH:DRE1BTgoh1, Team Gnome Scribblerz2012-11-04 17:25:27 CSTGO:0009648 photoperiodism (P)PMID:22927419ECO:0000314 direct assay evidence used in manual assertion

CBF1 transcript levels at zeitgeber time 8 (ZT8) were about three to fivefold higher in short day (SD; 8 hr. light, 16 hr. dark) plants compared with long day (LD; 16 hr. light, 8 hr.dark) plants. These levels were measured via qRT-PCR (See Fig. S1)

challenge
acceptableECOLI:AHPCJsamra1, Team Gnome Scribblerz2012-11-04 17:18:29 CSTGO:0019290 siderophore biosynthetic process (P)PMID:23042987ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 2B,C&D, Fig 4, Fig 5, Fig 6, Table 3

challenge
updatedbyinstructorSULIR:KMTJsamra1, Team Gnome Scribblerz2012-11-04 16:54:59 CSTGO:0016279 protein-lysine N-methyltransferase activity (F)PMID:23086207ECO:0000314 direct assay evidence used in manual assertion

Fig 1D&E, Fig 2

challenge
updatedbyinstructorHALVD:AGLSJsamra1, Team Gnome Scribblerz2012-11-04 16:37:19 CSTGO:0005886 plasma membrane (C)PMID:23086206ECO:0000314 direct assay evidence used in manual assertion

Fig 1B. Sub-cellular fractionation shows plasma membrane localization

challenge
updatedbyinstructorHALVD:AGLSJsamra1, Team Gnome Scribblerz2012-11-04 16:37:19 CSTGO:0004169 dolichyl-phosphate-mannose-protein mannosyltransferase activity (F)PMID:23086206ECO:0000314 direct assay evidence used in manual assertion

Fig 4B&C, table 1

challenge
acceptableENTFA:Q82ZX2Jsamra1, Team Gnome Scribblerz2012-11-04 15:35:03 CSTGO:0009405 pathogenesis (P)PMID:23086208ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 6

challenge
acceptableARATH:SRK2ETgoh1, Team Gnome Scribblerz2012-11-04 14:54:48 CSTGO:0046777 protein autophosphorylation (P)PMID:22090030ECO:0000314 direct assay evidence used in manual assertion

MS analysis confirms that certain Ser/Thr residues were phosphorylated in recombinantly expressed SnRK2.6 (Supp. Fig. 1B). This analysis was performed after SnRK2.6 was purified after dephosphorylation by ABI1. The ratios of phosphorylated peptides to unmodified peptides (this data can elucidate the identity of potential phosphorylated residues of interest)were determined based on ion intensities of targeted peptides at different time points. One can see that S175 was the dominant phosphorylation site.

challenge
acceptableYERPE:Q7CFY4Jsamra1, Team Gnome Scribblerz2012-11-04 14:52:36 CSTGO:0009405 pathogenesis (P)PMID:22851752ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 6, 7, 8 & 9

challenge
acceptableYERPE:Q7CFY4Jsamra1, Team Gnome Scribblerz2012-11-04 14:52:35 CSTGO:0009279 cell outer membrane (C)PMID:22851752ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 3

challenge
updatedbyinstructorARATH:P2C56Tgoh1, Team Gnome Scribblerz2012-11-04 14:33:13 CSTGO:0006470 protein dephosphorylation (P)PMID:22090030ECO:0000314 direct assay evidence used in manual assertion

Addition of ABI1 led to dephosphorylation of pSnRK2.6 (Sup. Fig. 1A). When SnRK2.6 was incubated with the catalytic domain of ABI1, the smeared multiple bands (left side of SDS page figure) reduced to a single one corresponding to an apparent molecular mass of ~41kDA (right lane). This result suggests that SnRK2.6 kinase activity may be hindered via inhibition of ABI1. In addition, using spectrophotometric assayfor protein phosphatases, the kinetic parameters fo ABI1-catalyzed dephosphorylation of SnRK2.6 were deteremined (Fig. 1D), exhibiting a highly specific and efficient inhibition activity.

challenge
acceptableAGRVI:Q0GPY6Jsamra1, Team Gnome Scribblerz2012-10-21 17:59:39 CDTGO:0051213 dioxygenase activity (F)PMID:22448874ECO:0000314 direct assay evidence used in manual assertion

Table 1, Fig 2, Table 2

challenge
acceptableGLUOX:Q5FQD2Jsamra1, Team Gnome Scribblerz2012-10-21 17:58:29 CDTGO:0051213 dioxygenase activity (F)PMID:22448874ECO:0000314 direct assay evidence used in manual assertion

Table 1, Fig 2, Table 2

challenge
acceptableMETFK:Q1GXZ5Jsamra1, Team Gnome Scribblerz2012-10-21 17:54:51 CDTGO:0051213 dioxygenase activity (F)PMID:22448874ECO:0000314 direct assay evidence used in manual assertion

Table 1, Fig 2, Table 2

challenge
updatedbyinstructorPANAA:A0A0H3L116Jsamra1, Team Gnome Scribblerz2012-10-21 17:50:05 CDTGO:0051213 dioxygenase activity (F)PMID:22448874ECO:0000314 direct assay evidence used in manual assertion

Table 1, Fig 2, Table 2

challenge
updatedbyinstructorBACTU:IDOJsamra1, Team Gnome Scribblerz2012-10-21 17:46:56 CDTGO:0051213 dioxygenase activity (F)PMID:22448874ECO:0000314 direct assay evidence used in manual assertion

Table 1, Fig 2, Table 2

challenge
acceptableSTRCO:O86533Jsamra1, Team Gnome Scribblerz2012-10-21 17:01:20 CDTGO:0009086 methionine biosynthetic process (P)PMID:23065973ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 2, 3B, 4 A & B

challenge
acceptableSTRCO:O86533Jsamra1, Team Gnome Scribblerz2012-10-21 17:01:20 CDTGO:2001278 positive regulation of leucine biosynthetic process (P)PMID:23065973ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 4 A & B

challenge
updatedbyinstructorMYCS2:CWSAJsamra1, Team Gnome Scribblerz2012-10-21 15:52:56 CDTGO:0008104 protein localization (P)PMID:23002219ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 4D shows CwsA is necessary for Wag31-mCherry localization

challenge
updatedbyinstructorECOLI:MEPMJsamra1, Team Gnome Scribblerz2012-10-21 14:47:32 CDTGO:0009254 peptidoglycan turnover (P)PMID:23062283ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 4, Fig 3, Fig 5 C & D, Fig 6

challenge
updatedbyinstructorECOLI:MEPMJsamra1, Team Gnome Scribblerz2012-10-21 14:47:32 CDTGO:0004175 endopeptidase activity (F)PMID:23062283ECO:0000314 direct assay evidence used in manual assertion

Fig 4

challenge
updatedbyinstructorECOLI:MEPMJsamra1, Team Gnome Scribblerz2012-10-21 14:41:47 CDTGO:0004175 endopeptidase activity (F)PMID:23062283ECO:0000314 direct assay evidence used in manual assertion

Fig 4

challenge
updatedbyinstructorECOLI:MEPSJsamra1, Team Gnome Scribblerz2012-10-21 14:30:02 CDTGO:0009254 peptidoglycan turnover (P)PMID:23062283ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 2, Fig 5 C & D, Fig 6

challenge
acceptableSTAAU:FMTAJsamra1, Team Gnome Scribblerz2012-10-07 17:52:36 CDTGO:1900192 positive regulation of single-species biofilm formation (P)PMID:22564846ECO:0000314 direct assay evidence used in manual assertion

Figure 10 shows FmtA induces biofilm formation

challenge
acceptableSTAAU:FMTAJsamra1, Team Gnome Scribblerz2012-10-07 17:47:51 CDTGO:0001896 autolysis (P)PMID:22564846ECO:0000314 direct assay evidence used in manual assertion

Figure 9 shows FmtA induces autolysis

challenge
acceptableECOLI:CHEWJsamra1, Team Gnome Scribblerz2012-09-23 17:52:23 CDTGO:0051649 establishment of localization in cell (P)PMID:16856941ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 1 and Table 1. CheW expression in CheW/CheA knockout cells restored the compact clusters found in CheW+CheA+ cells. CheW/CheA knockout cells had a cap or multiple small clusters instead of a single compact cluster.

challenge
acceptableECOLI:CHEAJsamra1, Team Gnome Scribblerz2012-09-23 17:07:51 CDTGO:0031400 negative regulation of protein modification process (P)PMID:15327941ECO:0000314 direct assay evidence used in manual assertion

Figure 1A. Presence of CheA negatively regulates acetylation of CheY.

challenge
acceptableECOLI:ACSAJsamra1, Team Gnome Scribblerz2012-09-23 16:41:29 CDTGO:0033558 protein deacetylase activity (F)PMID:16630631ECO:0000314 direct assay evidence used in manual assertion

Figure 5b. Acs can catalyze deacetylation of CheY.

challenge
acceptableECOLI:ACSAJsamra1, Team Gnome Scribblerz2012-09-23 16:38:16 CDTGO:0018394 peptidyl-lysine acetylation (P)PMID:15327942ECO:0000314 direct assay evidence used in manual assertion

Figure 3. Purified Acs was incubated with ATP, Mg2+, and acetate. Western blotting with anti-acetyl-lysine antibody showed lysine acetylation of Acs.

challenge
acceptableECOLI:ACSAJsamra1, Team Gnome Scribblerz2012-09-23 16:38:16 CDTGO:0034421 post-translational protein acetylation (P)PMID:15327942ECO:0000314 direct assay evidence used in manual assertion

Figure 3. Purified Acs was incubated with Mg2+, ATP, and acetate. Acs showed acetylation.

challenge
updatedbyinstructorECOLI:USPCTgoh1, Team Gnome Scribblerz2012-09-23 16:35:33 CDTGO:0009651 response to salt stress (P)PMID:19101563ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4a: UspC influences kdpFABC expresison and production under salt stress.

challenge
acceptableECOLI:CHEYJsamra1, Team Gnome Scribblerz2012-09-23 16:07:11 CDTGO:0016407 acetyltransferase activity (F)PMID:16630631ECO:0000314 direct assay evidence used in manual assertion

Figure 2. CheY becomes autoacetylated when incubated with acetyl CoA; it shows autoacetyltransferase activity.

challenge
acceptableECOLI:CHEYJsamra1, Team Gnome Scribblerz2012-09-22 23:04:29 CDTGO:0018393 internal peptidyl-lysine acetylation (P)PMID:20398208ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3 shows that the double-mutant with mutations in lysine residues 92 and 122 exhibits significantly less acetylation than WT. This shows that lysine 92 and 122 residues are acetylated.

challenge

CACAO assessment

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Pages in category "Team Gnome Scribblerz"

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