Protein Info for HMPREF1078_RS10030 in Parabacteroides merdae CL09T00C40

Annotation: sodium ion-translocating decarboxylase subunit beta

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 50 100 150 200 250 300 350 398 signal peptide" amino acids 1 to 19 (19 residues), see Phobius details transmembrane" amino acids 34 to 56 (23 residues), see Phobius details amino acids 63 to 79 (17 residues), see Phobius details amino acids 105 to 124 (20 residues), see Phobius details amino acids 130 to 151 (22 residues), see Phobius details amino acids 184 to 210 (27 residues), see Phobius details amino acids 231 to 257 (27 residues), see Phobius details amino acids 278 to 300 (23 residues), see Phobius details amino acids 307 to 330 (24 residues), see Phobius details amino acids 375 to 397 (23 residues), see Phobius details TIGR01109: sodium ion-translocating decarboxylase, beta subunit" amino acids 40 to 392 (353 residues), 481.2 bits, see alignment E=9.4e-149 PF03977: OAD_beta" amino acids 41 to 396 (356 residues), 505.7 bits, see alignment E=3.3e-156

Best Hits

Swiss-Prot: 51% identical to GCDB_ACIFV: Glutaconyl-CoA decarboxylase subunit beta (gcdB) from Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)

KEGG orthology group: K01572, oxaloacetate decarboxylase, beta subunit [EC: 4.1.1.3] (inferred from 97% identity to pdi:BDI_0160)

MetaCyc: 51% identical to GcdB (Acidaminococcus fermentans)
RXN-19739 [EC: 7.2.4.5]

Predicted SEED Role

"Methylmalonyl-CoA decarboxylase, beta chain (EC 4.1.1.41)" in subsystem Na+ translocating decarboxylases and related biotin-dependent enzymes or Propionyl-CoA to Succinyl-CoA Module (EC 4.1.1.41)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 4.1.1.3, 4.1.1.41

Use Curated BLAST to search for 4.1.1.3 or 4.1.1.41 or 7.2.4.5

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 (398 amino acids)

>HMPREF1078_RS10030 sodium ion-translocating decarboxylase subunit beta (Parabacteroides merdae CL09T00C40)
MLGSVLLQAAGTAHESFLQFLGENLELFLTYTGVYNATPGHLIMILVGLLFIFLAIKYEF
EPMLLIPIGFGILIGNIPFKDAGLQVGIYEQGSVLNILYQGVTSGWYPPLIFLGIGAMTD
FSALISNPKLMLIGAAAQFGIFGAYIIALQMGFEPNQAGAIGIIGGADGPTAIFLSSKLA
PNLMGAIAVSAYSYMALVPIIQPPFMRLLTTQKERLIRMKPPRAVSSTEKIVFPIVGLLL
TCFLVPSGLPLLGMLFFGNLLKESGVTRRLAETARGPLIDTITILLGITVGASTQATQFL
TLNSIKIFGLGALSFVIATCAGILFVKFFNLFLKEGNKINPLIGNSGVSAVPDSARISQN
VGLEYDPTNYLLMHAMGPNVAGVIGSAVAAGILLGFLG