Protein Info for LU632_RS16945 in Erwinia tracheiphila SCR3

Name: rluD
Annotation: 23S rRNA pseudouridine(1911/1915/1917) synthase RluD

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 50 100 150 200 250 300 325 TIGR00005: pseudouridine synthase, RluA family" amino acids 14 to 312 (299 residues), 352.1 bits, see alignment E=1.2e-109 PF01479: S4" amino acids 18 to 65 (48 residues), 38.2 bits, see alignment 9.6e-14 PF00849: PseudoU_synth_2" amino acids 92 to 242 (151 residues), 106 bits, see alignment E=2.2e-34

Best Hits

Swiss-Prot: 85% identical to RLUD_YERPE: Ribosomal large subunit pseudouridine synthase D (rluD) from Yersinia pestis

KEGG orthology group: K06180, ribosomal large subunit pseudouridine synthase D [EC: 5.4.99.12] (inferred from 88% identity to eam:EAMY_0833)

MetaCyc: 82% identical to 23S rRNA pseudouridine1911/1915/1917 synthase (Escherichia coli K-12 substr. MG1655)
RXN-11837 [EC: 5.4.99.23]

Predicted SEED Role

"Ribosomal large subunit pseudouridine synthase D (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 5.4.99.23

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

Find the best match in UniProt

Protein Sequence (325 amino acids)

>LU632_RS16945 23S rRNA pseudouridine(1911/1915/1917) synthase RluD (Erwinia tracheiphila SCR3)
MAQQVELNATIAESQLGQRLDQALAELFPDYSRSRIKDWILNRRVTVNGAITARPKEKVL
GGEQITIKAEIEEDVRWKAQDIALDIVYEDDDILIINKPHNLVVHPGAGNPDGTVLNALL
HRYPAICDVPRAGIVHRLDKDTTGLMVVAKTVPAQTHLVESLQLREITREYEAVAIGRMT
AGGSVDEPISRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRMRLRLETGRTHQIRVHM
SHINHPLVGDPLYGGRPRPPKGASDNFISALRKFDRQALHATMLRLYHPITGIEMEWHAP
LPQDMIDLIAALKADSEEFKEQLDW