Protein Info for HMPREF1078_RS01360 in Parabacteroides merdae CL09T00C40

Annotation: 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 1064 transmembrane" amino acids 12 to 31 (20 residues), see Phobius details amino acids 333 to 357 (25 residues), see Phobius details amino acids 364 to 386 (23 residues), see Phobius details amino acids 392 to 414 (23 residues), see Phobius details amino acids 435 to 456 (22 residues), see Phobius details amino acids 469 to 493 (25 residues), see Phobius details amino acids 538 to 555 (18 residues), see Phobius details amino acids 872 to 890 (19 residues), see Phobius details amino acids 897 to 917 (21 residues), see Phobius details amino acids 923 to 948 (26 residues), see Phobius details amino acids 969 to 991 (23 residues), see Phobius details amino acids 1004 to 1026 (23 residues), see Phobius details TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 4 to 1031 (1028 residues), 1025.1 bits, see alignment E=0 PF00873: ACR_tran" amino acids 4 to 1026 (1023 residues), 976.7 bits, see alignment E=1.3e-297 PF03176: MMPL" amino acids 333 to 496 (164 residues), 32.5 bits, see alignment E=4.8e-12 amino acids 835 to 1022 (188 residues), 31.4 bits, see alignment E=1e-11

Best Hits

KEGG orthology group: None (inferred from 84% identity to pdi:BDI_2909)

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)

Compare to protein 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 (1064 amino acids)

>HMPREF1078_RS01360 efflux RND transporter permease subunit (Parabacteroides merdae CL09T00C40)
MKGNIFIKRPVMAISISILILAIGLISLFTLPVEQYPDIAPPTVHVSATYTGADANAVMN
SVIMPLEESINGVENMMYMTSTATNAGSATIEVYFKQGTNPDMAAVNVQNRVTKAQGLLP
AEVTRIGVSTQKRQTSFLQIDALVSTDGRFDKTFLGNYLDINVIPRIKRIEGVGDVMELG
DTYSMRIWLNPERMAQYGLVPSDVTAVLGEQNIEAPTGSLGENSKNVFQYTMKYRGRLKS
VEEFQNIVVRAQEDGSVLRLKDVAKVELGTLSYGFDSQMDGKPAVTFMIYQVAGSNATEV
NERIAAELEKMKEELPTGMEFITMMSSNDFLFASIYNVVETLIVAIILVILVVYFFLQDF
KSTLIPSISIIVSLIGTFACLTAAGFTINILTLFALVLAIGTVVDDAIVVVEAVQAKFDA
GYTSSYQATKDAMGDVTMAVISCTCVFMAVFIPVTFMGGTSGIFYTQFGVTMATSVGLSM
ICALTLCPALCAMMMRPSDGNKSAKSFNGRVRAAYNASFNAVLGKYKKGVMFFIHHRWMV
WAGTIASIILLGWLISNTKTGLVPQEDQGTIMANVAIAPGSTLEETGKVLDKVENILKNT
PEVEHYARVAGYGFLAGQGTSYGMAIIRLKNWDERKGAEHVSDAVVARLNAQFAQIKEAQ
IFCFQPGMIPGYGLGNSIELNLQDRTGGDMSTFYGNAMQYIGALNQRPEVAMAYTSYAMN
FPQISVDVDAAKCKRAGISPSMVLDVLGSYCGGAYVSNYNQFGKVYRVMSQASPEYRLDE
QALNNMFVRNGTEMAPLSQFVTLKRVLGPEVSNRFNLFSCITVNVNPAPGYSTGEVQQAI
EEVAAQMLPTGYGYEYGGMAREEANTGGSQTLFIYAVCILLIYLILACLYESFLVPWAVI
LSVPFGLMGSFLFAKLFGLENNIYLQTGVIMLIGLLAKTAILITEFAIERRRKGMGIVES
AYSAAQARLRPILMTVLTMIFGMLPLMFASGAGANGNSSLGTGVVGGMAVGTLALLFVVP
VFYIIFEYMQEKIRPPMEVETDMQVALEKQKSQTERDGLNNENK