Protein Info for GFF3095 in Sphingobium sp. HT1-2

Annotation: Single-stranded-DNA-specific exonuclease RecJ

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 50 100 150 200 250 300 350 400 450 500 550 588 transmembrane" amino acids 200 to 221 (22 residues), see Phobius details TIGR00644: single-stranded-DNA-specific exonuclease RecJ" amino acids 34 to 582 (549 residues), 498.7 bits, see alignment E=8.6e-154 PF01368: DHH" amino acids 88 to 247 (160 residues), 77.7 bits, see alignment E=1.5e-25 PF02272: DHHA1" amino acids 365 to 459 (95 residues), 66 bits, see alignment E=5.5e-22 PF17768: RecJ_OB" amino acids 473 to 583 (111 residues), 54.9 bits, see alignment E=1.2e-18

Best Hits

KEGG orthology group: K07462, single-stranded-DNA-specific exonuclease [EC: 3.1.-.-] (inferred from 89% identity to sjp:SJA_C1-32130)

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.-.-

Use Curated BLAST to search for 3.1.-.-

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

Find the best match in UniProt

Protein Sequence (588 amino acids)

>GFF3095 Single-stranded-DNA-specific exonuclease RecJ (Sphingobium sp. HT1-2)
MTFALNIARSITGQPWRWRGLGADARSPGYQPDDLVAQLLLARGCPPDGVEAHRNPTIRH
FMPDPSLFRDMDAAAERLADAVQRGEDVRIFGDYDVDGATSAALLIRLLRDIGLDARPYI
PDRLMEGYGPSGEALVRLAGDGAQLIVTVDCGAQAFEALDMAKAAGVDVVVVDHHKCAAA
LPVALALVNPNRLDENDAAAVHGHLAAVGMAFLLGAALLRTLRARGWFATRPEPAIMELL
DIVALGTVADVAQLKGLNRAFVAQGLKVMAKRRNIGLAALMDASRLNRAPLCHDLGFALG
PRINAGGRVGKADLGVRLLTTEDPAEAARIAAELDRLNEERRAIESIVQEQAEALLAAQD
NRAVALVAGPGWHPGVIGIVAGRLKERAGRPAIVVALDEDGVGKGSGRSISGVDLGAAVL
AAKDSGLLVAGGGHAMAAGLTVMADKVDALAEFLDDRLSAAVARARDGRALLIDAVLAPA
GVNPDFVAAIEAGGPYGAGWPAPLIAAGPMRVIRADVVGNGHLRAIMAGDDGRSIKTIAF
RQAESELGQAILGAPRDRRLWVAGRAKIDDWGSRPAAELHLEDAAWAD