Protein Info for Psyr_1390 in Pseudomonas syringae pv. syringae B728a ΔmexB

Annotation: RNA-binding S4

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

Best Hits

KEGG orthology group: K06182, ribosomal large subunit pseudouridine synthase F [EC: 5.4.99.12] (inferred from 100% identity to psb:Psyr_1390)

Predicted SEED Role

"tRNA pseudouridine synthase A (EC 4.2.1.70)" in subsystem tRNA processing (EC 4.2.1.70)

MetaCyc Pathways

pseudouridine degradation (1/2 steps found)

KEGG Metabolic Maps

Pyrimidine metabolism

Isozymes

Compare fitness of predicted isozymes for: 4.2.1.70, 5.4.99.12

Use Curated BLAST to search for 4.2.1.70 or 5.4.99.12

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See Q4ZWN1 at UniProt or InterPro

Protein Sequence (236 amino acids)

>Psyr_1390 RNA-binding S4 (Pseudomonas syringae pv. syringae B728a ΔmexB)
MTDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKVSTQKIELSPDAKADS
PEPVTIILHKPASASAEEALQMITPGTLSVEHSYSKRPLKGHFMRLEAISSLQANASGLM
VFSQDWKILRKLTDDRSKIEQEYVVEISGEMAAHGLNRLNHGLTYKGKELPAVKASWQNE
SRLRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAKEKF