Protein Info for SO0952 in Shewanella oneidensis MR-1

Name: recJ
Annotation: single-stranded-DNA-specific exonuclease RecJ (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 50 100 150 200 250 300 350 400 450 500 574 TIGR00644: single-stranded-DNA-specific exonuclease RecJ" amino acids 22 to 570 (549 residues), 489.8 bits, see alignment E=4.3e-151 PF01368: DHH" amino acids 71 to 229 (159 residues), 94.7 bits, see alignment E=8e-31 PF02272: DHHA1" amino acids 357 to 451 (95 residues), 76.6 bits, see alignment E=2.8e-25 PF17768: RecJ_OB" amino acids 466 to 569 (104 residues), 78.8 bits, see alignment E=4.6e-26

Best Hits

Swiss-Prot: 58% identical to RECJ_DICD3: Single-stranded-DNA-specific exonuclease RecJ (recJ) from Dickeya dadantii (strain 3937)

KEGG orthology group: K07462, single-stranded-DNA-specific exonuclease [EC: 3.1.-.-] (inferred from 100% identity to son:SO_0952)

MetaCyc: 56% identical to ssDNA-specific exonuclease RecJ (Escherichia coli K-12 substr. MG1655)
Exodeoxyribonuclease VII. [EC: 3.1.11.6]

Predicted SEED Role

"Single-stranded-DNA-specific exonuclease RecJ (EC 3.1.-.-)" in subsystem DNA-replication or DNA Repair Base Excision or DNA repair, bacterial RecFOR pathway (EC 3.1.-.-)

Isozymes

Compare fitness of predicted isozymes for: 3.1.-.-, 3.1.11.6

Use Curated BLAST to search for 3.1.-.- or 3.1.11.6

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 Q8EI92 at UniProt or InterPro

Protein Sequence (574 amino acids)

>SO0952 single-stranded-DNA-specific exonuclease RecJ (NCBI ptt file) (Shewanella oneidensis MR-1)
MIHKIIRRPTVDDSHLPTHLPPLLRQLYARRGVLPSECELVLKGLLRPDTMKGLDLAAKL
IADAMQLDKSILIVGDFDADGATSTSVCILALRMMGASKVDYLIPNRFDYGYGLSPEIVA
VAASKQAQLLITVDNGISSIEGVAAAKAFGMQVVITDHHLPGHELPKADAIVNPNQPGCQ
FASKSIAGVGVAFYLMTALRAELRARNWYQARGIAEPNLGTLLDIVALGTVADVVSLDTN
NRILVEAGLQRVRSGRCRVGITALLEVAKRNPARIVASDFGFAVGPRLNAAGRLDEMALG
VETLLCEDMMYARRMAAELDSLNQERRELEVGMQQEALKSLEYLKLNEEQLPWGIALFQE
DWHQGVIGILASRIKDKYHRPVIAFADAGNGEIKGSARSIKGLHMRDLLELVNSRHPGLI
SKFGGHAMAAGLTLKSGGFATFAKAYDDAVREQLKPEQLTGELWSDGELTPTELTLEIAQ
LLRNAGPWGQSFEEPLFDGYFKIIQQRIVGDRHLKLVLETQCGTVMLDAIAFNVALHTWP
DATIQHARIVYKLDVNEYRGNFTLQLMVEQIEPM