Protein Info for GFF3845 in Variovorax sp. SCN45

Annotation: Ribonuclease E (EC 3.1.26.12)

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 1068 TIGR00757: ribonuclease, Rne/Rng family" amino acids 14 to 423 (410 residues), 515.4 bits, see alignment E=5.9e-159 PF00575: S1" amino acids 36 to 116 (81 residues), 36.9 bits, see alignment 6e-13 PF10150: RNase_E_G" amino acids 120 to 389 (270 residues), 328.9 bits, see alignment E=4e-102 PF20833: RNase_E_G_Thio" amino acids 401 to 485 (85 residues), 108.1 bits, see alignment E=3e-35

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)

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

Find the best match in UniProt

Protein Sequence (1068 amino acids)

>GFF3845 Ribonuclease E (EC 3.1.26.12) (Variovorax sp. SCN45)
MKRMLINATQAEERRLAIVDGQKLLDYEIEIEGREQRKGNIYKAVVTRVEPSLEACFVDY
GEDRHGFLPFKEISKQYFAEGVSASQARIQDAIREGQELTVQVEKEERGNKGAALTTFIS
LAGRYVVLMPNNPRGGGVSRRIEGDDRAELKEAMDQLEYPKGMSIIARTAGIGRSAPELQ
WDLNYLLKLWSAIDGAAKGGKGAFLIYQESSLVIRAIRDYFNHDIGDILIDTDDIYDQAQ
QFMAHVMPEHAARVKRYRDDAALFSRFQIEHQIESAYARTVQLPSGGAIVIDHTEALVSV
DVNSARAIKGGDIEETATRTNLEAADEVARQMRLRDLGGLIVIDFIDMDESKNRREVESR
LRDALRQDRARVQFGSISKFGLMEMSRQRLKPALSEGSSIPCPRCGGSGHIRDTESSALQ
ILRIIQEESMKDNTAAVHVQVPVEVASFLLNEKRPEIAKIELKQRVTVLMVPNKTLETPN
YKLERLKHDDPRLDHIEASYKMADEIEDPTSVTRRSQEPTNKQTPVIKGVLPDAPAPVVP
PKPEAVRAPAAAAPAPVAPPVVTAPVPAQTGFFSWIKNLFGGTPAPAPAPAPAAIPVEPP
KPRRDGRPGRDGEARGGSRDGEQRRGGRGGEGRGEGRNAEGRGEGGGRSGGRDGERRGGR
GGERREGREGREGRNSSELRADGAPQQPREQREPREQREPREPREARAPRDGEQRRNGRG
ERREGEGRDGRNAPAEALDGNLNLEAQQLASGEEGNAGERAPRARGERRERGERNERGER
GERNSDRAERNGDAQQPRGETALAGEDAAAQGERQPRNGRDEQRAPRGERGGERGERNDG
RRERRNDAPQAEADGRGAEAAAADVEQTNDAGNEQAPRREGDERRGRSRDRYGRDRRERG
PRDENEAGAQAAEVAEVAVAEAATTTADVQEEAPAPRHQPQQQLPLASEQQAVVAEAVVA
APVAAAPVAAPAPVANGRALPKVQPFELPLDELAQIAQNSGLQWVNSDAERIAQARAAIA
AEPKPVHVPRERPPLVVLDEGPLVLVETRRDLGSMSLPFEQQQQQQPL