Protein Info for HMPREF1078_RS09930 in Parabacteroides merdae CL09T00C40

Annotation: exonuclease SbcCD subunit D

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 50 100 150 200 250 300 350 414 PF00149: Metallophos" amino acids 3 to 235 (233 residues), 46.1 bits, see alignment E=8.1e-16 TIGR00619: exonuclease SbcCD, D subunit" amino acids 3 to 262 (260 residues), 176.3 bits, see alignment E=5.1e-56 PF12320: SbcD_C" amino acids 289 to 391 (103 residues), 32.4 bits, see alignment E=1e-11

Best Hits

KEGG orthology group: K03547, exonuclease SbcD (inferred from 71% identity to pdi:BDI_1730)

Predicted SEED Role

"Exonuclease SbcD" in subsystem DNA repair, bacterial

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 (414 amino acids)

>HMPREF1078_RS09930 exonuclease SbcCD subunit D (Parabacteroides merdae CL09T00C40)
MSLKIIHTADWHLGQTFFGYDRDEEHEAFLSWLIDILTLRQTDVLLIAGDVFDVANPSAA
AQRRFFRFLREANRRNPQLQIVIIAGNHDSAARLEAPIPLLEELNTSIVGAVPRTDLCKI
DFDSLLIPLYNKEGKREAICLAVPYLRQGDYPASKEGKDTYVEGVTRMYRQLYDYADSQR
QPGEALFAMGHLHATGAELSEDDRSERTIMGGLESISVEAFNEDLAYTALGHIHKAQRVG
GRESVRYAGSPLPMSFSEQHYHHQVVAFTLENGCLSDLEAVPIPLRTALHRIPAEPASPA
EVLLSLSNLPLAEEGADRSLWPYLEVQVLLTEPDPGFRHRVEEALADKAVRLTSIIPSYP
KKEGEEDSRPFSYTDLQKIAPLDMLRHTFTNRFGGDLPEELEKMFNDVMREVSL