Protein Info for HER17_RS16520 in Pectobacterium carotovorum WPP14

Annotation: exodeoxyribonuclease V subunit alpha

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 50 100 150 200 250 300 350 400 450 500 550 619 PF21185: RecD_N" amino acids 5 to 112 (108 residues), 131.8 bits, see alignment E=5.2e-42 TIGR01447: exodeoxyribonuclease V, alpha subunit" amino acids 6 to 612 (607 residues), 637.7 bits, see alignment E=1e-195 PF13245: AAA_19" amino acids 159 to 309 (151 residues), 119.5 bits, see alignment E=6e-38 PF13604: AAA_30" amino acids 161 to 319 (159 residues), 92.9 bits, see alignment E=1.1e-29 PF00580: UvrD-helicase" amino acids 162 to 248 (87 residues), 29.9 bits, see alignment E=2.3e-10 PF13401: AAA_22" amino acids 168 to 286 (119 residues), 31.4 bits, see alignment E=1.1e-10 PF09848: SLFN-g3_helicase" amino acids 170 to 276 (107 residues), 23.1 bits, see alignment E=2.1e-08 PF05127: Helicase_RecD" amino acids 173 to 289 (117 residues), 43.5 bits, see alignment E=1.7e-14 PF13538: UvrD_C_2" amino acids 541 to 587 (47 residues), 50.2 bits, see alignment 9.1e-17 PF01443: Viral_helicase1" amino acids 541 to 589 (49 residues), 28.4 bits, see alignment 7.3e-10

Best Hits

Swiss-Prot: 62% identical to RECD_ECOLI: RecBCD enzyme subunit RecD (recD) from Escherichia coli (strain K12)

KEGG orthology group: K03581, exodeoxyribonuclease V alpha subunit [EC: 3.1.11.5] (inferred from 94% identity to pct:PC1_0915)

MetaCyc: 62% identical to exodeoxyribonuclease V subunit RecD (Escherichia coli K-12 substr. MG1655)
RXN0-4261 [EC: 5.6.2.3]; Exodeoxyribonuclease V. [EC: 5.6.2.3, 3.1.11.5]; RXN-19004 [EC: 5.6.2.3, 3.1.11.5]

Predicted SEED Role

"Exodeoxyribonuclease V alpha chain (EC 3.1.11.5)" in subsystem DNA-replication (EC 3.1.11.5)

Isozymes

Compare fitness of predicted isozymes for: 3.1.11.5

Use Curated BLAST to search for 3.1.11.5 or 5.6.2.3

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 (619 amino acids)

>HER17_RS16520 exodeoxyribonuclease V subunit alpha (Pectobacterium carotovorum WPP14)
MIALLETALARRLLRPLDVQFARMLADETQPDLLLAAACLSAHSGAGHVCLPLENLQAQT
LFDGREPELAQQLLAGTGLNTVAAWQQRLLASDAVSDGSQPTPLVLQGEKLYLQRNWQSE
GRVARFIASERDTIPVDEPAIRAVLDRLFPDTDEEINWQKVAAAVALTRRIAVISGGPGT
GKTTTVAKLLAALIELNTGNALRIQLAAPTGKAAARLTESLGQALHRLAVDPRLREAFPQ
EATTLHRLLGAVTDSQRLRHHQDNPLHLDVLIVDEASMVDLPMMANVIAALPPHARIIFL
GDRDQLASVEAGAVLGDICRFAEAGYSRARAQQLQRLTGCTLDDSGPEGQSTVGDSICLL
RRSYRFDPNSGIGQLALAVNGGDDARVRAVLNGEFADITCSPLTEAEEYQAMLAQCVEGY
RDYLQLVAAGATPDAVLLAFQRYRQLCALREGPFGVAGLNQRIEQALHQAGLIQRSRNPL
NRWYPGRPVMIERNDAALGLFNGDIGIAMIGESGELRVFFPLPNGETKDVTPSRLPPHDT
AYAMTVHKSQGSEFDHTALVLPNHYLPVLTRELVYTAITRARQRLSLYTDVRILCRAVKT
PTQRYSGLEERISALMMRP