Protein Info for LRK54_RS02100 in Rhodanobacter denitrificans FW104-10B01

Annotation: multidrug efflux RND transporter permease subunit

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

1 100 200 300 400 500 600 700 800 900 1000 1055 signal peptide" amino acids 1 to 27 (27 residues), see Phobius details transmembrane" amino acids 340 to 359 (20 residues), see Phobius details amino acids 366 to 388 (23 residues), see Phobius details amino acids 395 to 413 (19 residues), see Phobius details amino acids 434 to 458 (25 residues), see Phobius details amino acids 470 to 497 (28 residues), see Phobius details amino acids 537 to 555 (19 residues), see Phobius details amino acids 869 to 889 (21 residues), see Phobius details amino acids 896 to 916 (21 residues), see Phobius details amino acids 922 to 947 (26 residues), see Phobius details amino acids 968 to 987 (20 residues), see Phobius details amino acids 999 to 1024 (26 residues), see Phobius details TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 1 to 1038 (1038 residues), 1427.2 bits, see alignment E=0 PF00873: ACR_tran" amino acids 1 to 1026 (1026 residues), 1175.1 bits, see alignment E=0 PF03176: MMPL" amino acids 343 to 496 (154 residues), 31 bits, see alignment E=1.3e-11 amino acids 775 to 1025 (251 residues), 22.9 bits, see alignment E=4e-09

Best Hits

KEGG orthology group: K03296, hydrophobic/amphiphilic exporter-1 (mainly G- bacteria), HAE1 family (inferred from 75% identity to psu:Psesu_1453)

Predicted SEED Role

"RND efflux system, inner membrane transporter CmeB" in subsystem Multidrug Resistance Efflux Pumps or Multidrug efflux pump in Campylobacter jejuni (CmeABC operon)

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 (1055 amino acids)

>LRK54_RS02100 multidrug efflux RND transporter permease subunit (Rhodanobacter denitrificans FW104-10B01)
MPSFFIDRPIFAWVVAILISLGGVLAILNLGVESYPNIAPPSVTVGASYPGASAETTEKA
VTQVIEQQLTGIDHLLYFSSSSSASGRASITLTFESGTDPDIAQVQVQNKVALATPRLPS
EVTQQGVVVAKANAGFLMVVALKSDNPNIDRDRLGDIVGSQVLDQIARVPGVGSTQQFGS
EYAMRIWLNPDQLHGYGLSATQVLNAIRAQNVQFAAGSIGADPALPGQGFTATVSTEGRF
TTPEQFAGIILRANPDGTTVKLGDVARISFGPGNYGFNTTVDGKPIGAFAIQLLPGANAL
NVATAVRGKMDELAPGFPPGVSWFSPYDSTTFVKISIDQVVNTLVEAIVLVFLVMLLFLQ
NLRATIIPTLVIPVALLGTFLGMLVLGFTINQLTLFGMVLAIGIVVDDAIVVIENVERIM
TEENLSPKEATRKAMGQITGAVVAITVVLTAVFVPSALQPGASGIIYKQFALTIAVSMAF
SAFLALSFTPALCASFLQPEHHKKKNIVFRKFNQFFEWATHTYTGHVGNAVRHAPRWMFV
FVLVAVLGGFLYTRLPGSFLPEEDQGYAMSVIQLPPGSTKQRTEEVMGQMLTILKKDPAV
DTVLQVTGFSFIGAGENAGMAFIKLKDWSERQGTAADFIQRANRSLFQIHDARIFVVNIP
TVQGLGQFGGFDMYLQDRSGAGREALTQARNTLLGKASQDPLLTGVRPNALEDAPQLRLD
VDRVQAQSMGLSVGDIYNAVGLMLAPVYVNDFTYGGRVKRVIMQADSSYRMSPDALQHFF
TPSTQTTAAGTPAMIPLSNVVHANWQMGSPSLNRYNGYAAVEIVGSPAPGHASGEAMAEM
EKIVGNDLPKGYGFDWTGQSYQEILSGNAATLLMVLSIVIVFLALAALYESWSIPVSVLL
VLPLGLLGAVVFTLLRGLPNDIYFKVGLITVIGLAAKNAILIVEFAVEQQAHGRTLREGV
IEAARLRLRPILMTSLAFILGVFPLFVSSGAGANARHAIGTGVIGGMLFATLLGVLLIPV
FYVVVRRLLGDKLDGHEHPGIHGPHTFDSDPKRGV