Protein Info for Shew_1594 in Shewanella loihica PV-4

Annotation: RluA family pseudouridine synthase (RefSeq)

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

1 50 100 150 200 250 300 329 TIGR00005: pseudouridine synthase, RluA family" amino acids 28 to 326 (299 residues), 309.1 bits, see alignment E=1.6e-96 PF01479: S4" amino acids 32 to 78 (47 residues), 43.2 bits, see alignment 2.6e-15 PF00849: PseudoU_synth_2" amino acids 115 to 262 (148 residues), 105.9 bits, see alignment E=2.3e-34

Best Hits

Swiss-Prot: 66% identical to RLUC_PASMU: Ribosomal large subunit pseudouridine synthase C (rluC) from Pasteurella multocida (strain Pm70)

KEGG orthology group: K06179, ribosomal large subunit pseudouridine synthase C [EC: 5.4.99.12] (inferred from 100% identity to slo:Shew_1594)

MetaCyc: 68% identical to 23S rRNA pseudouridine955/2504/2580 synthase (Escherichia coli K-12 substr. MG1655)
RXN-11838 [EC: 5.4.99.24]

Predicted SEED Role

"Ribosomal large subunit pseudouridine synthase C (EC 4.2.1.70)" in subsystem Ribosome biogenesis bacterial (EC 4.2.1.70)

MetaCyc Pathways

KEGG Metabolic Maps

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 or 5.4.99.24

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Compare to protein 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 A3QDB3 at UniProt or InterPro

Protein Sequence (329 amino acids)

>Shew_1594 RluA family pseudouridine synthase (RefSeq) (Shewanella loihica PV-4)
MCSLKETRRSMNNQQALNKVELVTIDEDNLGQRIDNFLVTKLKGVPKSMIYRIVRKGEVR
VNKKRIKPEYKLQDGDIVRIPPVRVSASEDKPGPSAKLTKVSQLEGRILFEDKAIIVLNK
PAGIAVHGGSGVDFGVIEAMRSLRPQQKFLELVHRLDKETSGVLLIAKKRRALKHLHDQL
RYKKMQKDYMALVRGEWQNHDKVINAPLLKLTLKSGERIVRVNQEGKPSETRFKIMQRYQ
GATLVQASPVTGRTHQIRVHCQYAGHPIACDEKYSEQKFDDAMRELGLNRLFLHAAQLKF
THPVSEEVMQVKAPLDKALQDLLNKLDKA