Protein Info for HMPREF1078_RS11910 in Parabacteroides merdae CL09T00C40

Annotation: TonB-dependent receptor

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 1066 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details TIGR04056: TonB-linked outer membrane protein, SusC/RagA family" amino acids 51 to 1066 (1016 residues), 1005 bits, see alignment E=4.9e-306 PF13620: CarboxypepD_reg" amino acids 52 to 122 (71 residues), 43.9 bits, see alignment 5.1e-15 PF13715: CarbopepD_reg_2" amino acids 53 to 133 (81 residues), 67.7 bits, see alignment 1.5e-22 PF07715: Plug" amino acids 140 to 249 (110 residues), 78.4 bits, see alignment E=1.1e-25 TIGR04057: TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region" amino acids 225 to 255 (31 residues), 68 bits, see alignment (E = 4.4e-23) PF00593: TonB_dep_Rec_b-barrel" amino acids 473 to 1004 (532 residues), 77.7 bits, see alignment E=3.5e-25

Best Hits

Predicted SEED Role

"TonB family protein / TonB-dependent receptor" in subsystem Iron acquisition in Vibrio or Ton and Tol transport systems

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 (1066 amino acids)

>HMPREF1078_RS11910 TonB-dependent receptor (Parabacteroides merdae CL09T00C40)
MKNNKMAIICLLSLLPSISVLANENYITDPATSLRGKSDSAVPTRLQQNGKTITGIVQDA
LGPIAGANIIVKGTTNGNITDMDGKFMLENVPANATLVISYIGFTPQEIRVGNQTTFNIT
LQEDSEALDEVVVVGYGVMKKKDLTGAVSQLSSSSMKDLKVSHPTEAMAGKLAGVQVQQV
GGQPGQAATIRVRGSGSITASSAPLYVVDGYPLGEQNLNAINPNDIESIEVLKDASAAAI
YGSRAANGVVLVTTKSGKTGKVSVSLDIYAGFQNVTKKMDLMNAQEFVEFSREAFNNNYI
SKVPGASASDPLSMRPSGNRYRYPAIYDDAAYIASLGAGTDWQDEIFRTSPVQNYQLTVT
GGDEKTKYMFSAGYFNQQGVVINSDYERFSARAKIDSELNSWLKLGVNLAPTYMNANKTT
QGHWASDGVINAALATSPVVPVYNEDGTWASQSMYAVASDGLTGVPNAVALTHIHNYDTD
LRLFSNGYIELSLLKNLKLKSTIGADIREYRGEYFRPATIPNNGNVAPLPSTERKATEKS
TEVINWLNENTITYFESWGKHELDAVAGVTAQKNIYRYTEATGSDFPNDKIQTLNNATVK
SSKSERKTWTLLSYLARVNYRYNNKYYLTASIRADGSSRFGKNNRYGYFPSGSVAWRLSQ
EDFLKDVKWLSDMKIRASYGITGNNNIGDYASIGIMENANYVLGTGTGNIVNGAAQKSFS
NADLTWEKTRQTDLGFEISVLDSRLSLSLDLYYRKTTDLLMDVDIPTITGFEKAMQNIGK
MRNKGLEITLSGTPFRGKDFTWDATGNISVNRNKVLALGPTGDPIFSDGGAGTTHVTMVG
QPIGAFYGYKMLGIFKTKEELDSYPHLADTQVGDVMFEDVNGDHKIDADDRTIIGNNMPD
FTWGMTHSFTFKNFDASISLQGVVGNEVLHLGRRFYTQGEGNQNQLKEMMGRWQSESNPG
NGWIPRANSQPTGQNNAISSRWVEDGSFLRVNNLTVGYTLPEAFTKKCSIQRARVYVSTQ
NLLTITSYSGYNPETSFKEDNVTAPGTDYGMYPLYRTCTFGINVTF