Protein Info for Shew_2975 in Shewanella loihica PV-4

Annotation: 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 50 100 150 200 230 PF01479: S4" amino acids 1 to 47 (47 residues), 34.3 bits, see alignment 1.6e-12 PF00849: PseudoU_synth_2" amino acids 61 to 191 (131 residues), 63.2 bits, see alignment E=3.4e-21 TIGR00093: pseudouridine synthase" amino acids 65 to 223 (159 residues), 152.9 bits, see alignment E=3.2e-49

Best Hits

Swiss-Prot: 59% identical to RSUA_VIBCH: Ribosomal small subunit pseudouridine synthase A (rsuA) from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

KEGG orthology group: K06183, ribosomal small subunit pseudouridine synthase A [EC: 5.4.99.12] (inferred from 100% identity to slo:Shew_2975)

MetaCyc: 56% identical to 16S rRNA pseudouridine516 synthase (Escherichia coli K-12 substr. MG1655)
RXN-11833 [EC: 5.4.99.19]

Predicted SEED Role

"Ribosomal small subunit pseudouridine synthase A (EC 4.2.1.70)" (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 5.4.99.19

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 A3QH93 at UniProt or InterPro

Protein Sequence (230 amino acids)

>Shew_2975 pseudouridine synthase (RefSeq) (Shewanella loihica PV-4)
MRLDKFISESTQLTRSLAKKALHRGEVTVDGQVIKDGSFKLNESQQVCLDGEPISLIGPR
FIMLHKPADTLCSTVDEVYPSVLNLLDLPHKEDLHIAGRLDADTTGLVLITSDGQWSHRV
TSPKRECGKTYLVQLADPLKAEWVEQFATGLALRSEEGLTKPATLELLGSHEARLTITEG
KYHQVKRMFAAVGNKVVGLHRESVGEIVLDESLAPGEWRYLTEAEIASVK