Protein Info for SO2785 in Shewanella oneidensis MR-1

Name: rne
Annotation: ribonuclease E (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

1 100 200 300 400 500 600 700 800 900 1000 1088 transmembrane" amino acids 113 to 130 (18 residues), see Phobius details TIGR00757: ribonuclease, Rne/Rng family" amino acids 13 to 424 (412 residues), 562.7 bits, see alignment E=2.5e-173 PF00575: S1" amino acids 36 to 117 (82 residues), 46.8 bits, see alignment 4.8e-16 PF10150: RNase_E_G" amino acids 121 to 390 (270 residues), 334.8 bits, see alignment E=6.1e-104 PF20833: RNase_E_G_Thio" amino acids 402 to 486 (85 residues), 111.2 bits, see alignment 3.2e-36

Best Hits

KEGG orthology group: K08300, ribonuclease E [EC: 3.1.26.12] (inferred from 80% identity to she:Shewmr4_2405)

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 Q8EDG6 at UniProt or InterPro

Protein Sequence (1088 amino acids)

>SO2785 ribonuclease E (NCBI ptt file) (Shewanella oneidensis MR-1)
MKRMLINATQSEELRVALVDGQQLYDLDIESPGHEQKKSNIYKGKITRVEPSLEAAFVDY
GAERHGFLPLKEIAREYFPKGYSFQGRPNIKEVVSEGQEVIVQIDKEERGNKGAALTTFI
SLAGSYLVLMPNNPRAGGISRRIEGDERTELKEAMADLEVPAGMGLIVRTAGVGKESTEL
KWDLKVLQHHWAAITEAAQTKGAPFLIHQESNVIVRAIRDYLRRDVGEILIDHPRIYEEA
KQHIALVRPDFVERVKLYEAEVPLFTHYQIESQIESAFQREVRLPSGGSIVIDPTEALTS
IDINSARATKGGDIEETALNTNLEAADEIARQLRLRDLGGLVVIDFIDMTPVRHQREVEN
RLRDAVHHDRARVQLGRISRFGLMEMSRQRLRPSLEESAAHICPRCHGQGTIRSTESLAL
SILRLMEEEAIKENTSQIEAIVPVDVAAFLLNEKRKAIRITEQRHDVEVYVIPDPHMMTP
DYRVIRHRTDDEIDESSYKRIEQPEAKLYEPRKLERTAAPAPALKGFTAPQKVEQDVAPV
AKVEAAKPGLFSKLFSAIGSFFSSSDNAATEKSAETKKSDSQATNANRRNRRNDTRRTRN
NQDTEKAKEGSREPRARNAKKVADAPQAQERPIREKDESAKRAKPEAKNRSQAPKEVIAD
VQDEAPKQEVVRERRQRRNMRRKVRMDNTTDVVETSIQEEAILAEIVAINADAAVEAQPE
AKAPRSRRQPRKEVAVANETTDTPATDAADEAKPIDAIADAPIVESQADIQVDPKSEAQL
ATTDEDNTDVDDKTKRESRDGQRRSRRSPRHLRAAGQRRRRDEDEQSTAAPAQFIPNDAL
GEDQDYPAPMAIVETVNFADQAVAETVAVEVEVKSVATQPTTVAHTADVTTSYEATFSES
KAIDDATSAVAVEQLTDIKADVVDTEIASEPVVNDNATQTVKVSNVIAESSVVIEPTVQT
TVVAQTDVRTFDAKAEEVTQATEKAELKEVVKSVASAPMAKPAAIVKPQVKPVVAQASAV
QPSEAVVSKPKAASRFGAMVSSEMTKPTVEVRAQVEVPKGREYENTPASEAATKLKHSNS
AESDMARP