Protein Info for HMPREF1078_RS17040 in Parabacteroides merdae CL09T00C40

Annotation: DNA helicase RecQ

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 726 transmembrane" amino acids 56 to 71 (16 residues), see Phobius details TIGR01389: ATP-dependent DNA helicase RecQ" amino acids 10 to 601 (592 residues), 687.2 bits, see alignment E=1.9e-210 TIGR00614: ATP-dependent DNA helicase, RecQ family" amino acids 11 to 462 (452 residues), 503.8 bits, see alignment E=4.7e-155 PF00270: DEAD" amino acids 23 to 185 (163 residues), 89.2 bits, see alignment E=9.1e-29 PF04851: ResIII" amino acids 24 to 181 (158 residues), 25.5 bits, see alignment E=4.1e-09 PF00271: Helicase_C" amino acids 224 to 329 (106 residues), 79.8 bits, see alignment E=6.3e-26 PF16124: RecQ_Zn_bind" amino acids 340 to 402 (63 residues), 65.6 bits, see alignment E=1.9e-21 PF09382: RQC" amino acids 405 to 514 (110 residues), 91.6 bits, see alignment E=1.1e-29 PF00570: HRDC" amino acids 533 to 599 (67 residues), 64.5 bits, see alignment E=2.4e-21 PF21220: RecQ-1-like_HTH" amino acids 623 to 673 (51 residues), 93.7 bits, see alignment 2.1e-30

Best Hits

KEGG orthology group: K03654, ATP-dependent DNA helicase RecQ [EC: 3.6.4.12] (inferred from 94% identity to pdi:BDI_2394)

Predicted SEED Role

"ATP-dependent DNA helicase RecQ" in subsystem DNA-replication or DNA repair, bacterial RecFOR pathway

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.12

Use Curated BLAST to search for 3.6.4.12

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 (726 amino acids)

>HMPREF1078_RS17040 DNA helicase RecQ (Parabacteroides merdae CL09T00C40)
MAKKDNLTEELKKHFGFDTFKGNQRAIIENVLAGNDTFVLMPTGGGKSLCYQLPSLMMQG
TAIVISPLIALMKNQVDAMRNFSEEDGVAHFINSSLNKSAIDQVKDDIRNGRTKLLYVAP
ESLTKDENVEFLRQVNISFYAVDEAHCISEWGHDFRPEYRRIRPIINEIGKRPLIALTAT
ATPKVQHDIQKNLGMIDASVFKSSFNRSNLYYEIRPKTANIDREIIKYIKSNEGKSGIIY
CLSRKKVEEFADILKANGIKALPYHAGMDSQQRSSNQDAFLMEKADVIVATIAFGMGIDK
PDVRYVIHYDIPKSLEGYYQETGRAGRDGGEGQCIAFYAYKDLQKLEKFMQGKPVAEQEI
GKQLLLETAAYAETSVCRRKVLLHYFGEEYLEENCGNCDNCLNPKKKVEAKELLSAVLEV
VGTLKEKFKAEYIVNMLVGNETSEIQSYKHNELEIFGSGSDEEEKTWNAVIRQALIAGYL
AKDIENYGLLKITEKGKEFIKKPVSFKITEDNEFDEEEEEVPVRGGAACAVDPALFSMMK
DLRKKLSKRLEVPPFVIFQDPSLEAMATTYPVTLEELQNIPGVGAGKAKRYGKEFIELIK
RHVEENEIERPEDLRVRTVANKSKLKVSIIQRIDRKVALDEIAMTNGLEFNELLDEIEAI
VYSGTRINIDYFLNDVMDEDHIDDIYEYFKDSETDDLEDAIEELGGDYTEEEIRLVRIKF
LSEMAN