Protein Info for HER17_RS11675 in Pectobacterium carotovorum WPP14

Annotation: spermidine/putrescine ABC transporter substrate-binding protein PotD

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 50 100 150 200 250 300 347 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details PF02030: Lipoprotein_8" amino acids 6 to 103 (98 residues), 36.5 bits, see alignment E=6.4e-13 PF01547: SBP_bac_1" amino acids 39 to 283 (245 residues), 87.6 bits, see alignment E=4e-28 PF13416: SBP_bac_8" amino acids 41 to 310 (270 residues), 139.2 bits, see alignment E=6.1e-44 PF13531: SBP_bac_11" amino acids 41 to 284 (244 residues), 36.7 bits, see alignment E=1e-12 PF13343: SBP_bac_6" amino acids 77 to 321 (245 residues), 106.6 bits, see alignment E=3.8e-34

Best Hits

Swiss-Prot: 81% identical to POTD_SHIFL: Spermidine/putrescine-binding periplasmic protein (potD) from Shigella flexneri

KEGG orthology group: K11069, spermidine/putrescine transport system substrate-binding protein (inferred from 97% identity to pwa:Pecwa_2144)

MetaCyc: 81% identical to spermidine preferential ABC transporter periplasmic binding protein (Escherichia coli K-12 substr. MG1655)
ABC-25-RXN [EC: 7.6.2.11, 7.6.2.16]; 7.6.2.11 [EC: 7.6.2.11, 7.6.2.16]

Predicted SEED Role

"ABC transporter, periplasmic spermidine putrescine-binding protein PotD (TC 3.A.1.11.1)" in subsystem Polyamine Metabolism (TC 3.A.1.11.1)

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.6.2.11 or 7.6.2.16

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 (347 amino acids)

>HER17_RS11675 spermidine/putrescine ABC transporter substrate-binding protein PotD (Pectobacterium carotovorum WPP14)
MKKWPHLLAACAMAFGISTANADDSKTLYFYNWTEYVPPGLLEQFTKETGIKVIYSTYES
NESMYAKLKTYKDGAYDLVVPSTYFISKMSKEGMLQKIDTSKLSNFHNLDPNLLHKSFDP
NNDYSIPYIWGATAIGINHEMIDPASVTRWADLWDTKYKNSLLLTDDAREVFQIALRKLG
YSANTTDPKEIEAAYKELQALMPNVLTFNSDNPGNPFIEGEVNLGMVWNGSAYVARQAGT
PLDVIWPKEGGIFWMDSLAIPANAKNVDGAMKLIDFLLRPEVAAQVAETIGYPTPNLAAK
KLLPPEVSGDKTLYPDDETIAKGEWQNDVGSASTLYETYFQQLKAGR