Protein Info for DZA65_RS12995 in Dickeya dianthicola ME23

Annotation: exoribonuclease II

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 50 100 150 200 250 300 350 400 450 500 550 600 643 TIGR02062: exoribonuclease II" amino acids 1 to 641 (641 residues), 1082.1 bits, see alignment E=0 TIGR00358: VacB and RNase II family 3'-5' exoribonucleases" amino acids 6 to 640 (635 residues), 751.9 bits, see alignment E=5.7e-230 PF08206: OB_RNB" amino acids 24 to 80 (57 residues), 63.8 bits, see alignment 1.4e-21 PF00773: RNB" amino acids 189 to 515 (327 residues), 294.1 bits, see alignment E=2.2e-91 PF00575: S1" amino acids 558 to 638 (81 residues), 40.9 bits, see alignment E=3.4e-14

Best Hits

Swiss-Prot: 82% identical to RNB_PECAS: Exoribonuclease 2 (rnb) from Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)

KEGG orthology group: K01147, exoribonuclease II [EC: 3.1.13.1] (inferred from 97% identity to ddd:Dda3937_03104)

MetaCyc: 75% identical to RNase II (Escherichia coli K-12 substr. MG1655)
Exoribonuclease II. [EC: 3.1.13.1]; 3.1.13.1 [EC: 3.1.13.1]; 3.1.13.1 [EC: 3.1.13.1]

Predicted SEED Role

"Exoribonuclease II (EC 3.1.13.1)" in subsystem RNA processing and degradation, bacterial (EC 3.1.13.1)

MetaCyc Pathways

Isozymes

Compare fitness of predicted isozymes for: 3.1.13.1

Use Curated BLAST to search for 3.1.13.1

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 A0A3A4CXZ2 at UniProt or InterPro

Protein Sequence (643 amino acids)

>DZA65_RS12995 exoribonuclease II (Dickeya dianthicola ME23)
MFQDNPLLAQLKQQLHSQTPRAEGIVKATDKGFGFLEADAQKSYFIPPPQMKKVMHGDRI
IAALHTEKEREIAEPETLVEPFLTRFVGRVQKKDDRLSIVPDHPLLKDAIPCRPARGVEQ
DFKAGDWAVAEMRRHPLKGDRGFFADLTHYITTGDDPLAPWWVTLSRHNLERIAPDADAA
ELNDGQLEREDLTGLDFVTIDSASTEDMDDALYVQDNGDGTLDMTVAIADPTAYVRADSE
LDAIARQRAFTNYLPGFNIPMLPRHLSDDICSLRPNERRPVLACRMTIAADGALSQIRFF
AAWIESRAKLVYDDVSNWLEQQGDWQPESDNIADQIRLLHRVCLARNAWRTTHALVFRDR
PDYRFLLGENGEVLDIVTEPRRIANRIVEEAMIAANVCAAQVLRDALGFGVYNVHNGFDP
VSIDQAVAVLESNGIQADAQQLLTLDGFCVLRRELDAQPTQFLDSRIRRFQTFAEISTAP
GPHFGLGLEAYATWTSPIRKYGDMVNHRLLKAVITHTPAEKPQDEVTLQLAERRRLNRMA
ERDVSDWLYARFLKDKAGTDARFTGEIMDVNRGGLRVRLLENGATAFIPASFIHAVRDEL
VCSQDTGIVTVKGEPVYRQSDTLTVMLTEVRLETRNIIAKPAA