Protein Info for HSERO_RS04005 in Herbaspirillum seropedicae SmR1

Annotation: type III secretion protein

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 50 100 150 200 250 283 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details transmembrane" amino acids 211 to 233 (23 residues), see Phobius details TIGR02544: type III secretion apparatus lipoprotein, YscJ/HrcJ family" amino acids 3 to 190 (188 residues), 195.9 bits, see alignment E=2.8e-62 PF01514: YscJ_FliF" amino acids 16 to 177 (162 residues), 91.1 bits, see alignment E=4e-30

Best Hits

KEGG orthology group: K03222, type III secretion protein SctJ (inferred from 100% identity to hse:Hsero_0800)

Predicted SEED Role

"Type III secretion bridge between inner and outermembrane lipoprotein (YscJ,HrcJ,EscJ, PscJ)" in subsystem Type III secretion systems, extended

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 D8IZY2 at UniProt or InterPro

Protein Sequence (283 amino acids)

>HSERO_RS04005 type III secretion protein (Herbaspirillum seropedicae SmR1)
MGCLLLLLATLAACSRMVVLQAALNDADANEIILVLNRKGIEVDKQKGKDGVTLLVKDVE
LSRATETMNAAGLPRRSLSNLGEVFKKQGMISSPMEERIRYIHGLSEELESTMLQFDHVV
SARVHVVLPERIAPGEPIQPSSAAVFVKYRPPLDEDAVMPRIRRLVASSIPGLASEDGRS
KVSVVMMPGEPPTPGIEWTMLGPFTVAVSSAGGLALTMSALLLTTLSSLGYIGLQRALRH
PRVARMVAEFAARRIKKAQDKAQAKAQGQAKPQAPEPTAGRGT