Annotation inferences using phylogenetic trees

Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location vocabulary mapping, accompanied by conservative changes to GO terms applied by UniProt

GO_REF:0000122

AtSubP analysis

PMID:11751054

The leucine-rich repeat as a protein recognition motif.

Provides general context for leucine-rich repeats as protein recognition modules.

PMID:11752391

A genome-wide analysis of Arabidopsis Rop-interactive CRIB motif-containing proteins that act as Rop GTPase targets.

Identifies CRIB-containing Arabidopsis RIC effectors of Rop GTPases. The published RIC7 cloning primers map to AT4G28556, supporting probable misassignment of this experimental evidence to the distinct F4JLB7 LRR protein.

PMID:12068095

Prediction of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A genomic analysis.

Examines Arabidopsis GPI-anchored proteins. The available abstract does not establish whether the exact deposited F4JLB7 product was experimentally tested.

PMID:12805588

Identification of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A proteomic and genomic analysis.

Examines Arabidopsis GPI-anchored proteins. The available abstract does not establish whether the exact deposited F4JLB7 product was experimentally tested.

file:ARATH/F4JLB7/F4JLB7-uniprot.txt

F4JLB7-uniprot.txt

file:ARATH/F4JLB7/F4JLB7-hypotheses/prediction-kinase-activity/openscientist.md

OpenScientist investigation: F4JLB7 kinase activity

file:ARATH/Q1G3K8/Q1G3K8-bioinformatics/RESULTS.md

RIC7 sequence identity and experimental primer mapping

file:projects/PROTNLM_EVALUATION/F4JLB7-RIC7-locus-identity.md

F4JLB7 and RIC7 locus identity investigation

file:ARATH/F4JLB7/F4JLB7-bioinformatics/RESULTS-rereview.md

F4JLB7 re-review analyses (PANTHER placement, C-terminal anchor, CRIB scan)

In the PANTHER 19.0 tree, F4JLB7 (SF38) is sister to the TMM/RLP29 clade (SF42). It ends in a C-terminal hydrophobic anchor with no cytoplasmic tail, as TMM does, and it has no CRIB motif. A pattern that detects the Q1G3K8 positive control finds none.

file:ARATH/F4JLB7/F4JLB7-deep-research-falcon.md

F4JLB7 deep research (falcon)