Protein Info for GFF1388 in Pseudomonas sp. DMC3

Annotation: Delta-aminolevulinic acid dehydratase

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

Best Hits

Swiss-Prot: 77% identical to HEM2_SHIFL: Delta-aminolevulinic acid dehydratase (hemB) from Shigella flexneri

KEGG orthology group: K01698, porphobilinogen synthase [EC: 4.2.1.24] (inferred from 97% identity to pfo:Pfl01_3751)

MetaCyc: 77% identical to porphobilinogen synthase (Escherichia coli K-12 substr. MG1655)
Porphobilinogen synthase. [EC: 4.2.1.24]

Predicted SEED Role

"Porphobilinogen synthase (EC 4.2.1.24)" in subsystem Experimental tye or Heme and Siroheme Biosynthesis (EC 4.2.1.24)

MetaCyc Pathways

adenosylcobalamin biosynthesis II (aerobic) (31/33 steps found)
adenosylcobalamin biosynthesis I (anaerobic) (29/36 steps found)
superpathway of heme b biosynthesis from glutamate (9/10 steps found)
tetrapyrrole biosynthesis I (from glutamate) (6/6 steps found)
superpathway of heme b biosynthesis from glycine (6/8 steps found)
tetrapyrrole biosynthesis II (from glycine) (3/4 steps found)
superpathway of bacteriochlorophyll a biosynthesis (6/26 steps found)

KEGG Metabolic Maps

Porphyrin and chlorophyll metabolism

Isozymes

Compare fitness of predicted isozymes for: 4.2.1.24

Use Curated BLAST to search for 4.2.1.24

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 (324 amino acids)

>GFF1388 Delta-aminolevulinic acid dehydratase (Pseudomonas sp. DMC3)
MSSQFPEARPRRLRRNASLRSLFQETEFSLNDLVLPIFVEEDIDDFVPITSMPGVQRIPE
RKLASEIERYARAGIKSVMTFGVSHHLDANGSDTWREDGLVSRMSRIAKDAVPEMIVMSD
TCFCEYTDHGHCGVMHNHEVDNDQTLINLGKQAVAAARAGADVIAPSAAMDGQVRAIRQA
LDAAGFTQIPIMAYSTKFASALYGPFREAGGSALKGDRKSYQMNPMNRREALRESLLDEQ
EGADALMVKPAGAYLDIIRDIRQASNLPLAAYQVSGEYAMIKFGAQAGAIDEDRVVRESL
GAIKRAGADLIFTYFAMDLALAGI