Protein Info for Shew_1593 in Shewanella loihica PV-4

Annotation: ribonuclease (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

1 100 200 300 400 500 600 700 800 900 1000 1128 transmembrane" amino acids 113 to 130 (18 residues), see Phobius details TIGR00757: ribonuclease, Rne/Rng family" amino acids 13 to 424 (412 residues), 566.9 bits, see alignment E=1.3e-174 PF00575: S1" amino acids 36 to 117 (82 residues), 49.1 bits, see alignment 9e-17 PF10150: RNase_E_G" amino acids 121 to 390 (270 residues), 332.9 bits, see alignment E=2.3e-103 PF20833: RNase_E_G_Thio" amino acids 403 to 486 (84 residues), 109.9 bits, see alignment 8.5e-36

Best Hits

Predicted SEED Role

"Ribonuclease E (EC 3.1.26.12)" in subsystem RNA processing and degradation, bacterial or Ribosome biogenesis bacterial (EC 3.1.26.12)

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 3.1.26.12

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 A3QDB2 at UniProt or InterPro

Protein Sequence (1128 amino acids)

>Shew_1593 ribonuclease (RefSeq) (Shewanella loihica PV-4)
MKRMLINATQSEELRVALVDGQQLYDLDIESPGHEQKKANIYKGKITRVEPSLEAAFVDY
GAERHGFLPLKEIAREYFPKGYSFQGRPNIKEVVKEGQEVIVQIDKEERGNKGAALTTFI
SLAGSYLVLMPNNPRAGGISRRIEGDERTELKAAMSELEVPQGMGLIVRTAGVGKDAAEL
KWDLKVLQHHWAAIEEAAQNRPAPFLIHQESNVIVRAIRDYLRRDVGEVLIDHQRIYEQA
KQHVALVRPDFVDRIKRYEAEVPLFTHFQIETQIESAFQREVRLPSGGSIVIDPTEALTS
IDINSARATKGGDIEETALNTNLEAADEIARQLRLRDLGGLVVIDFIDMTPVRHQREVEN
RMRDAVHHDRARVQLGRISRFGLMEMSRQRLRPSLEESAAHLCPRCHGQGTIRGTESLAL
SILRLMEEEAIKENTSQIEAIVPVDVAAFLLNEKRKAIRITEQRHDVEVYVIPDPNMTTP
DYRVTRHRKDDQISESSYKLLEQPESKLYEPRKLERAASPEPALKGFSTPVKDAPTQAAP
APAKPAEKAQEPGLIAKLFAAIGKLFGGEPEQPKEEVKKEQPRRNAQNRNSRRNNRRNDT
RKSRDEGKETDNKRSRSAKPDDADSRSAKSRNEKRQKRDRDDKPQSQSKDTESQAQQPKQ
EAARERRQRRNMRRKVRVQSEQQLADEAALAIEVAEKANDEQVQVPAAEATADDKPQRQK
RQPRKSKPKQDKADKLEEETQAEQVADEDTASEQPAVETQAANEPKDTEVTTQVEAHADE
AQAEEASAQPQEGESEGKREPREGQRRSRRSPRHLRAAGQRRRRDEEGNGEVNNGEPAFI
PNEVETAPLLGEQLEQEGSVVEAVSEVQATATEQEAVKQEADEVTTVAETTVTETTVTET
TVAEEAPAKAAAEEASQEESKPKPRRRAPKAKVASEEETSVEEAQQSLPLAGEAKASLKE
EVQAELDLTSTPEEVKASQEAAPQAEDVAAQAEEPAAVETAPVETPEVETEAKTEAPAAK
ESSAASAPMAKPAAVPAPTAKVKPAAKVEATPAEDKPEETASDEAEKPAPKATSRFGSMV
SSTMTKPEVEARALVDTPSGRQYEATAKEASAEPVKRGNSANSEMARP