Protein Info for Sama_0963 in Shewanella amazonensis SB2B

Annotation: pseudouridylate 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 50 100 150 200 250 315 TIGR00431: tRNA pseudouridine(55) synthase" amino acids 10 to 218 (209 residues), 287.1 bits, see alignment E=4.2e-90 PF01509: TruB_N" amino acids 32 to 179 (148 residues), 188.2 bits, see alignment E=1.7e-59 PF16198: TruB_C_2" amino acids 180 to 247 (68 residues), 73.4 bits, see alignment E=2e-24 PF09157: TruB-C_2" amino acids 251 to 308 (58 residues), 64.2 bits, see alignment E=1.2e-21

Best Hits

Swiss-Prot: 100% identical to TRUB_SHEAM: tRNA pseudouridine synthase B (truB) from Shewanella amazonensis (strain ATCC BAA-1098 / SB2B)

KEGG orthology group: K03177, tRNA pseudouridine synthase B [EC: 5.4.99.12] (inferred from 100% identity to saz:Sama_0963)

MetaCyc: 68% identical to tRNA pseudouridine55 synthase (Escherichia coli K-12 substr. MG1655)
RXN-11839 [EC: 5.4.99.25]

Predicted SEED Role

"tRNA pseudouridine synthase B (EC 4.2.1.70)" in subsystem tRNA processing (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 5.4.99.25

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 A1S464 at UniProt or InterPro

Protein Sequence (315 amino acids)

>Sama_0963 pseudouridylate synthase (RefSeq) (Shewanella amazonensis SB2B)
MARRTKGRNIDGIVLLDKPTGMSSNHALQRVKRIYNASKAGHTGALDPLATGMLPVCLGE
ATKFSQHLLDADKRYLVTAKLGQRTDTSDSDGEVVSERPLNFTQEALDAALDSFRGDTLQ
VPSMFSALKYQGQPLYKYAREGKEVPREARPITVFELNFIKLEGDELTLDIHCSKGTYIR
TIIDDLGEKLGCGAHVIMLRRTAVAGYPYERMVTIEALEALLEQAEKEGVEPKTLLDPLL
LPMDTAVANFPEVNIPDAVAPYLMNGNPVRVAGVSSDSLLRITLGEARRFVGVGAINDDG
LLAPKRLVVFYDDEA