Protein Info for HMPREF1078_RS11165 in Parabacteroides merdae CL09T00C40

Annotation: pseudouridine synthase

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 50 100 150 200 250 300 350 400 450 485 PF13275: S4_2" amino acids 247 to 305 (59 residues), 35.8 bits, see alignment 8.9e-13 PF01479: S4" amino acids 251 to 296 (46 residues), 45.6 bits, see alignment 7.1e-16 PF00849: PseudoU_synth_2" amino acids 310 to 441 (132 residues), 81.6 bits, see alignment E=1.1e-26 TIGR00093: pseudouridine synthase" amino acids 314 to 472 (159 residues), 154.2 bits, see alignment E=1.2e-49

Best Hits

KEGG orthology group: K06178, ribosomal large subunit pseudouridine synthase B [EC: 5.4.99.12] (inferred from 74% identity to pdi:BDI_3726)

Predicted SEED Role

"Ribosomal large subunit pseudouridine synthase B (EC 4.2.1.70)" in subsystem Two cell division clusters relating to chromosome partitioning (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

Find the best match in UniProt

Protein Sequence (485 amino acids)

>HMPREF1078_RS11165 pseudouridine synthase (Parabacteroides merdae CL09T00C40)
MSTEERDESQPRPRKVIPSIRRENTDQDSERRPYNQGYNRPEGNNYERRPYNRGGYNSYG
DNRSYGDRPSRPRTYDNRDGGYNKPYNRDNGGNRSYGNSNREGGYNSRPSYGSNRPYGNN
DRPSYGNDRSYGNDRPYNRPSRPNYEDRGKAYSATPSGEGVSGDGVKKRRPRVGDTRVSS
SYDNRDNRGGRPSYGNNNNRYGNGGGRGGYNNNRRPNNNRRTGDYNPNAKYNFQKQLKYK
EVLADPNEPIRLNKFLSNAGVCSRREADEFIQEGVVQVNGQIVTELGTKITRQDTVLFKD
QPVQIESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTTGVLLL
TNDGDLASKLTHPSFKKKKIYHVWLDKNVSIEDMEKIANGLELEDGEIHADAISYASEDD
KSQVGIEIHSGRNRIVRRIFESLGYHVVKLDRVYFAGLTKKNLGRGKWRYLNEREVNALR
MGAFE