Protein Info for Shew_0625 in Shewanella loihica PV-4
Annotation: spermidine synthase (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: 79% identical to SPEE_SHEON: Polyamine aminopropyltransferase (speE) from Shewanella oneidensis (strain MR-1)
KEGG orthology group: K00797, spermidine synthase [EC: 2.5.1.16] (inferred from 100% identity to slo:Shew_0625)Predicted SEED Role
"Spermidine synthase (EC 2.5.1.16)" in subsystem Polyamine Metabolism (EC 2.5.1.16)
MetaCyc Pathways
- superpathway of arginine and polyamine biosynthesis (14/17 steps found)
- spermidine biosynthesis I (2/2 steps found)
- superpathway of polyamine biosynthesis I (5/8 steps found)
- superpathway of polyamine biosynthesis II (4/8 steps found)
- L-methionine salvage cycle III (6/11 steps found)
- L-methionine salvage cycle I (bacteria and plants) (6/12 steps found)
KEGG Metabolic Maps
- Arginine and proline metabolism
- Glutathione metabolism
- Methionine metabolism
- Urea cycle and metabolism of amino groups
- beta-Alanine metabolism
Isozymes
Compare fitness of predicted isozymes for: 2.5.1.16
Use Curated BLAST to search for 2.5.1.16
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
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 A3QAJ9 at UniProt or InterPro
Protein Sequence (575 amino acids)
>Shew_0625 spermidine synthase (RefSeq) (Shewanella loihica PV-4) MQSTHTTTPAPAGVKSLSWFDDLLLLGIMAVLAACGLIYEYLLSHYAGRILGALEAAIYT MIGLMIVSMGVGAFAARKIRCAFTGFAMLELCVALCGALAILITAAVIGFGQQLPIIIAS TIGLPPDQLPQGGFIGTLQKLSEYLPYAWGVLLGLMIGMEIPLIARVRQSLCDEHLMHNA GTIYGADYIGAGVGAAIWVIFMLALDIQLAAALTASFNLLAGFLFIWRFWSKIRFNRLLL AGHLLATGILLVLAIHGPKWDQAFNNLLYKDKVVYAKATRFQQLTFTERLRGNHLAPVYS LYINGRLQFSSQDEHIYHAFLVHPTLAASARHDKVLIIGGGDGLGLRQVLKWQPKQVTLM DLDADLVRLFKEGDPEMPPRLSNALLKLNGDAFNDARVELLIDDAFNGADKLIRRGEKFD AIIVDLPDPSHPDLNKLYSDLFYRKLKELLSSDGAISVQSTSPYHAAKAFISVGKTLQAA SFQVEQYHHNVPSFGEWGWSIGTLRGQNAKQRLSSMTELPVDDPWLTPGLIRAAFEFPKN YYEHADQVKVNDIGSMHLYRYHQRAWSEDENLTLD