Protein Info for HMPREF1078_RS06335 in Parabacteroides merdae CL09T00C40

Annotation: DNA polymerase I

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 940 PF02739: 5_3_exonuc_N" amino acids 2 to 169 (168 residues), 193.9 bits, see alignment E=4e-61 TIGR00593: DNA polymerase I" amino acids 3 to 940 (938 residues), 1014.9 bits, see alignment E=0 PF01367: 5_3_exonuc" amino acids 174 to 265 (92 residues), 114.4 bits, see alignment E=7.1e-37 PF01612: DNA_pol_A_exo1" amino acids 350 to 527 (178 residues), 106.5 bits, see alignment E=3.5e-34 PF22619: DNA_polI_exo1" amino acids 379 to 485 (107 residues), 31.5 bits, see alignment E=3.5e-11 PF00476: DNA_pol_A" amino acids 561 to 938 (378 residues), 553.4 bits, see alignment E=6.6e-170

Best Hits

Predicted SEED Role

"DNA polymerase I (EC 2.7.7.7)" in subsystem DNA-replication or DNA Repair Base Excision (EC 2.7.7.7)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.7.7.7

Use Curated BLAST to search for 2.7.7.7

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 (940 amino acids)

>HMPREF1078_RS06335 DNA polymerase I (Parabacteroides merdae CL09T00C40)
MKLFLIDAYALIYRSYYAFIKNPRINSKGMNTSAIFGFINSLEDVLKRENPTHIAVGFDP
KGPTFRHEAYEQYKAQRQETPEDIRKSVPFIKDIIEAYNIPILEVPRYEADDVIGTVAKQ
AEKEGFEVYMMTPDKDYGQLVSEHIFMYRPRFGGDYEIMGVPEVLDKYGLTSVDQVIDLL
GLMGDSSDNIPGCPGVGEKTAQKLLAEFGTIENLLENTDKLKGSLQKKVMENMEQIRFSK
FLATIKTDVPIRFDAAKCIREKMNEERLVEIYTELEFRTFINRMSGEPEKVKTESKTAPA
PAKADTRKKAAPAGPIQGSLFEEFATEPTAVPKYSTLANLKSTPHTYYLVDTEEKRIELG
RFLNEQDFFAFDTETDGIDPLKAGLVGMSFAVKENEAWYVPVPAAREEADKILAHFSPAL
QNPKSLKIGQNIKFDILVVRKYGIRIAGPLFDTMIAHYLLNPELRHGMDYLAETYLKYKT
VRIEELIGPRERKQLTMRDVPVVQVAEYAAEDADITLKLKNYFTPCLEKEGLESLFYDIE
MPLIYVLAEMEYTGVTLDTVALKQSSEELTTALKKLEKEIYELAGMKFNINSARQVGEVL
FDHLKIEEKARKTKTGSYSTSEEILEKMRSKHPVVGKLLEYRGLKKLLSTYIDALPELIN
PETGKIHTSYNQAVTSTGRLSSTNPNLQNIPVRDELGREIRKAFTAENEDCIFFSADYSQ
IELRIMAHLSQDAHMIEAFRSGADIHAATAAKIYGIPVEEVTSDMRRKAKTANFGIIYGI
SVFGLAERLSIPRAESKELIEGYFKTYPDIRAYMDESIEVAKEKGYVETIYKRKRFLPDI
NSHNAIVRGYAERNAINAPIQGSAADIIKVAMVRIFNRFETEGLKSKMILQVHDELNFNV
YKDELEKVKQIVLDEMENAIKLQVPLIADCGEGVNWLEAH