Protein Info for SO3529 in Shewanella oneidensis MR-1

Name: lytB
Annotation: penicillin tolerance protein LytB (NCBI ptt file)

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: 100% identical to ISPH_SHEON: 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH) from Shewanella oneidensis (strain MR-1)

KEGG orthology group: K03527, 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [EC: 1.17.1.2] (inferred from 100% identity to son:SO_3529)

MetaCyc: 66% identical to 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (Escherichia coli K-12 substr. MG1655)
RXN-24043 [EC: 1.17.7.4]; 1.17.7.4 [EC: 1.17.7.4]

Predicted SEED Role

"4-hydroxy-3-methylbut-2-enyl diphosphate reductase (EC 1.17.1.2)" in subsystem Isoprenoid Biosynthesis or polyprenyl synthesis (EC 1.17.1.2)

MetaCyc Pathways

superpathway of geranylgeranyl diphosphate biosynthesis II (via MEP) (11/12 steps found)
taxadiene biosynthesis (engineered) (11/13 steps found)
methylerythritol phosphate pathway I (8/9 steps found)
methylerythritol phosphate pathway II (8/9 steps found)
isoprene biosynthesis I (8/10 steps found)
superpathway of ergosterol biosynthesis II (10/26 steps found)

KEGG Metabolic Maps

Isozymes

No predicted isozymes

Use Curated BLAST to search for 1.17.1.2 or 1.17.7.4

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 Q8EBI7 at UniProt or InterPro

Protein Sequence (318 amino acids)

>SO3529 penicillin tolerance protein LytB (NCBI ptt file) (Shewanella oneidensis MR-1)
MKFDPTSPSLNIMLANPRGFCAGVDRAISIVERALELFSPPIYVRHEVVHNRYVVQNLKD
RGAVFVEELDQVPDNNIVIFSAHGVSQAVRAEAKARGLRVFDATCPLVTKVHLQVTRASR
KGIECILIGHAGHPEVEGTMGQYDNPNGGVYLIESPADVETLEVRDPNNLCFVTQTTLSV
DDTLDIISALLKRFPSIEGPRKDDICYATQNRQDAVRNLSADVDLLIVVGSKNSSNSNRL
RELALKTGTQSYLVDTADDIDSSWFENITKVAVTAGASAPEVLVQQVVQAIAKLAPSVVT
EVEGRKEDTVFAVPAELR