Protein Info for LRK54_RS16730 in Rhodanobacter denitrificans FW104-10B01

Annotation: ATP-dependent Clp protease ATP-binding subunit ClpX

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 50 100 150 200 250 300 350 400 430 TIGR00382: ATP-dependent Clp protease, ATP-binding subunit ClpX" amino acids 14 to 413 (400 residues), 683.6 bits, see alignment E=5e-210 PF06689: zf-C4_ClpX" amino acids 17 to 53 (37 residues), 72.1 bits, see alignment 1.2e-23 PF00493: MCM" amino acids 71 to 195 (125 residues), 28.2 bits, see alignment E=4.5e-10 PF01078: Mg_chelatase" amino acids 113 to 139 (27 residues), 21 bits, see alignment (E = 8.6e-08) PF07724: AAA_2" amino acids 114 to 311 (198 residues), 118.8 bits, see alignment E=1.1e-37 PF07728: AAA_5" amino acids 116 to 193 (78 residues), 28.4 bits, see alignment E=6.5e-10 PF00004: AAA" amino acids 117 to 223 (107 residues), 57.9 bits, see alignment E=7e-19 PF10431: ClpB_D2-small" amino acids 318 to 394 (77 residues), 47.4 bits, see alignment E=7.4e-16

Best Hits

Swiss-Prot: 84% identical to CLPX_STRMK: ATP-dependent Clp protease ATP-binding subunit ClpX (clpX) from Stenotrophomonas maltophilia (strain K279a)

KEGG orthology group: K03544, ATP-dependent Clp protease ATP-binding subunit ClpX (inferred from 84% identity to sml:Smlt0990)

MetaCyc: 74% identical to ATP-dependent Clp protease ATP-binding subunit ClpX (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"ATP-dependent Clp protease ATP-binding subunit ClpX" in subsystem Proteasome bacterial or Proteolysis in bacteria, ATP-dependent

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 (430 amino acids)

>LRK54_RS16730 ATP-dependent Clp protease ATP-binding subunit ClpX (Rhodanobacter denitrificans FW104-10B01)
MSDDRQGRSSDSGKILYCSFCGKSQHEVRKLIAGPSVFICDECVELCNDIIREELEEKAA
SGRTQLPKPKEIRESLDQYVVGQTRAKKALAVAVYNHYKRIESRQKSDDIELGKSNILLI
GPTGSGKTLLAETLARLLNVPFTIADATTLTEAGYVGEDVENIIQKLLQKCDYDVEKAQS
GIVYIDEIDKISRKSENPSITRDVSGEGVQQALLKLIEGTLASVPPQGGRKHPQQEFLQV
DTKNILFICGGAFAGLEKVIQQRSENTSIGFSAEVRSKERTENLGKVLADVEPADLVRFG
LIPEFVGRLPVVATLDELDEAALVKILTEPKNAVTKQFKRLFEMEEVELEFRPEALQAIA
RKALKRKTGARGLRTILEQVLLDTMYELPSLEHVSKVVVDDAVIQGQAEPYLIYRGNLQQ
RVAGDGGDAA