Protein Info for Xcc-8004.2004.1 in Xanthomonas campestris pv. campestris strain 8004

Annotation: tRNA pseudouridine synthase B (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 50 100 150 200 250 308 TIGR00431: tRNA pseudouridine(55) synthase" amino acids 11 to 219 (209 residues), 223.7 bits, see alignment E=1.1e-70 PF01509: TruB_N" amino acids 32 to 180 (149 residues), 166.6 bits, see alignment E=7.5e-53 PF16198: TruB_C_2" amino acids 181 to 238 (58 residues), 55.9 bits, see alignment E=5.8e-19 PF09157: TruB-C_2" amino acids 245 to 299 (55 residues), 54.5 bits, see alignment E=1.4e-18

Best Hits

Swiss-Prot: 100% identical to TRUB_XANC8: tRNA pseudouridine synthase B (truB) from Xanthomonas campestris pv. campestris (strain 8004)

KEGG orthology group: K03177, tRNA pseudouridine synthase B [EC: 5.4.99.12] (inferred from 100% identity to xcc:XCC2509)

MetaCyc: 44% 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)

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 Q4UWA0 at UniProt or InterPro

Protein Sequence (308 amino acids)

>Xcc-8004.2004.1 tRNA pseudouridine synthase B (EC 4.2.1.70) (Xanthomonas campestris pv. campestris strain 8004)
VRPRITFRPLHGILLLDKPAGLSSNNALQAARRLLRAEKGGHTGSLDPLATGLLPLCFGE
ATKIAGLLLGSAKAYDAEIVLGVTTDTDDADGQPLRERSVPALSEAALQAALAPFIGRIQ
QQAPIYSALKQGGEPLYAKARRGEVIEAPVREVEVHAITLTSYASPRLRLRVTCGSGTYI
RSLARDLGEVLGCGAHIAALRRVWVEPFRTPEMITLEALTALVESGADAAQLLLPVAAGL
SDFAQITLDATLAARFRMGQRLRDPAFPEGQVAVFDADGSPAGLGLVDADGRLSPQRLFN
GLNAAAAC