Protein Info for Shew_0740 in Shewanella loihica PV-4

Annotation: L-serine dehydratase 1 (RefSeq)

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: 73% identical to SDHL_ECOLI: L-serine dehydratase 1 (sdaA) from Escherichia coli (strain K12)

KEGG orthology group: K01752, L-serine dehydratase [EC: 4.3.1.17] (inferred from 100% identity to slo:Shew_0740)

MetaCyc: 73% identical to L-serine deaminase I (Escherichia coli K-12 substr. MG1655)
L-serine ammonia-lyase. [EC: 4.3.1.17]

Predicted SEED Role

"L-serine dehydratase, beta subunit (EC 4.3.1.17) / L-serine dehydratase, alpha subunit (EC 4.3.1.17)" in subsystem Glycine and Serine Utilization or Pyruvate Alanine Serine Interconversions (EC 4.3.1.17)

MetaCyc Pathways

superpathway of L-lysine, L-threonine and L-methionine biosynthesis II (13/15 steps found)
L-serine degradation (3/3 steps found)
glycine degradation (3/3 steps found)
L-methionine biosynthesis II (5/6 steps found)
D-serine degradation (2/3 steps found)
L-cysteine degradation II (2/3 steps found)
L-tryptophan degradation II (via pyruvate) (2/3 steps found)
glycine betaine degradation III (4/7 steps found)
felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis (2/5 steps found)
L-mimosine degradation (4/8 steps found)
glycine betaine degradation I (4/8 steps found)
glutathione-mediated detoxification I (3/8 steps found)
purine nucleobases degradation II (anaerobic) (11/24 steps found)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 4.3.1.17

Use Curated BLAST to search for 4.3.1.17

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

See A3QAW4 at UniProt or InterPro

Protein Sequence (455 amino acids)

>Shew_0740 L-serine dehydratase 1 (RefSeq) (Shewanella loihica PV-4)
MVSAFDIFKIGVGPSSSHTVGPMKAAKGFVDDLRQRGELLSITSVKVDIYGSLSLTGKGH
HTDSAIIMGLAGNSPETVDIDLTPEFIRQVAMTSCLPLGTEGHGVDFPPEAVVFHPEALA
LHENGMTLSAYVGQQCVYHKTYYSIGGGFIVDEEHFGMTAANEVVLPYPFANAEELLDLC
QETGMSISAIMMANERALHSEAHIAEGFEAVWHTMKEAIERGCHTEGVLAGPLRVPRRAP
ALFRQLATGERLSADPMMIVDWVNMFALAVSEENAAGGRVVTSPTNGAAGIIPAVLAYFD
KFIQPVGPKEYSRYFLAAAAIGGLYKRNASISGAEVGCQGEVGVACSMAAAGLAELMGGN
PAQVCIAAEIGMEHNLGLTCDPVAGQVQVPCIERNAIASVKAINSARMALRRNSEPRVSL
DKVIATMYETGKDMHVKYRETSQGGLAIKVTSICA