Protein Info for Xcc-8004.1961.1 in Xanthomonas campestris pv. campestris strain 8004

Annotation: tRNA pseudouridine synthase A (EC 4.2.1.70)

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 50 100 150 200 257 TIGR00071: tRNA pseudouridine(38-40) synthase" amino acids 4 to 239 (236 residues), 192.2 bits, see alignment E=5.2e-61 PF01416: PseudoU_synth_1" amino acids 8 to 105 (98 residues), 36.9 bits, see alignment E=2.2e-13 amino acids 144 to 246 (103 residues), 95.2 bits, see alignment E=1.6e-31

Best Hits

Swiss-Prot: 100% identical to TRUA_XANC8: tRNA pseudouridine synthase A (truA) from Xanthomonas campestris pv. campestris (strain 8004)

KEGG orthology group: K06173, tRNA pseudouridine synthase A [EC: 5.4.99.12] (inferred from 100% identity to xcc:XCC2546)

MetaCyc: 55% identical to tRNA pseudouridine38-40 synthase (Escherichia coli K-12 substr. MG1655)
tRNA-pseudouridine synthase I. [EC: 5.4.99.12]

Predicted SEED Role

"tRNA pseudouridine synthase A (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

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 Q4UWD5 at UniProt or InterPro

Protein Sequence (257 amino acids)

>Xcc-8004.1961.1 tRNA pseudouridine synthase A (EC 4.2.1.70) (Xanthomonas campestris pv. campestris strain 8004)
MRYALGVEYDGSEFQGWQQLGEHGGPSVQATLQAALSSVADAPIQVVCAGRTDAGVHGEC
QVVHFDSDARREPRGWMLGTTARLPPSVAVRWCVPAAEDFHARFSARARRYRYRLLNRQI
RPALYRQTLSWERRPLDAQAMHTAAQALLGENDFGAFRSVQCQALHARRNLQAITVQRLG
EVVEVQVQANAFLHHMVRNIVGSLILVGTGEQPIDWIATLLAGRDRTVAGPTAPPQGLVF
IGPLYPAEWHLPAEVTQ