Protein Info for HSERO_RS13570 in Herbaspirillum seropedicae SmR1

Annotation: hemolysin D

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 50 100 150 200 250 300 350 406 transmembrane" amino acids 24 to 44 (21 residues), see Phobius details PF00529: CusB_dom_1" amino acids 35 to 346 (312 residues), 55 bits, see alignment E=1.6e-18 PF16576: HlyD_D23" amino acids 60 to 288 (229 residues), 53.7 bits, see alignment E=4.4e-18 PF13533: Biotin_lipoyl_2" amino acids 61 to 109 (49 residues), 33.4 bits, see alignment 7.8e-12 PF13437: HlyD_3" amino acids 218 to 337 (120 residues), 55.7 bits, see alignment E=1.8e-18

Best Hits

Swiss-Prot: 52% identical to EMRA_ECOLI: Multidrug export protein EmrA (emrA) from Escherichia coli (strain K12)

KEGG orthology group: K03543, multidrug resistance protein A (inferred from 100% identity to hse:Hsero_2704)

MetaCyc: 52% identical to multidrug efflux pump membrane fusion protein EmrA (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-363; TRANS-RXN-364; TRANS-RXN-365

Predicted SEED Role

"Membrane fusion component of tripartite multidrug resistance system" in subsystem Multidrug Resistance, Tripartite Systems Found in Gram Negative Bacteria

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

See D8IXU8 at UniProt or InterPro

Protein Sequence (406 amino acids)

>HSERO_RS13570 hemolysin D (Herbaspirillum seropedicae SmR1)
MSDSTTQQQPQANNNGNGKRKRQLILLTLVLLVIAVACFLYWFLHARFFEETDDAYVGGN
VVQISAQVGGTVVAVKADDTQVVKAGQQLVALDAADTRLALDQAQAALAQAVRQTRQLFL
NNDTLAANVAAADSNLARAREDLQRRQAGLSSGAVSQEDVSHARDAVKSAVAALDQARAA
AAANRALTDHTSVTEHPNVLQAATAVRNAYLNYARVNIVAPVSGFVSKRSVQVGQRIAAG
NPLMAIVPLEQIWIDANFKESQLQHIRIGQPVEVIADVYGSSVKYKGTVIGFSAGTGGAF
SLLPAQNATGNWIKVVQRVPVRIALDPEQVRAHPLRIGLSTTATVDIHGDGRALEAVPTN
YQTNVYDDLGKQADAIVDRIISDNASGLPQAHKSKAAAAPVAVPHT