Protein Info for GFF3778 in Sphingobium sp. HT1-2

Annotation: DNA polymerase I (EC 2.7.7.7)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 932 PF02739: 5_3_exonuc_N" amino acids 7 to 172 (166 residues), 178.7 bits, see alignment E=1.9e-56 TIGR00593: DNA polymerase I" amino acids 7 to 932 (926 residues), 880.3 bits, see alignment E=9.8e-269 PF01367: 5_3_exonuc" amino acids 174 to 266 (93 residues), 107.8 bits, see alignment E=8.3e-35 PF01612: DNA_pol_A_exo1" amino acids 327 to 518 (192 residues), 110.4 bits, see alignment E=2.3e-35 PF00476: DNA_pol_A" amino acids 552 to 929 (378 residues), 486.9 bits, see alignment E=1e-149

Best Hits

KEGG orthology group: K02335, DNA polymerase I [EC: 2.7.7.7] (inferred from 81% identity to sjp:SJA_C1-33240)

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 (932 amino acids)

>GFF3778 DNA polymerase I (EC 2.7.7.7) (Sphingobium sp. HT1-2)
MSQQNHLYLVDGSGYIFRAYHQLPPLTNQHGQPVGAVYGYTTMLWKLAEELGKAEGPTHL
AVVLDKGSHTFRNDMYDQYKANRPPAPEDLVPQFPMIRDATRAFSLPCIEEAGFEADDII
ASYTQAAVRAGWHVTIVSSDKDLMQLIQPGVDMYDTMKNERRGADYVMGKFGVLPEQLGD
VLALMGDSVDNVPGVPGIGPKTAAKLITEYGTLEAALDAAPSMKKSKMQENLIAHADMAR
LSRRLVALHDSMDLPEPLDDLTLKGIPKEPLQAFLSHHGFKTLLNRLGAPAATVAVASAA
AATNGADAPPPPPVIEVEHPPIDCALYETVTTVEALQVWIDEARALGVVAVDTETDALDS
MESGLVGISLSTGPGRACYIPLAHRSADDMFGEVPQQIALDDAIRLLKPLLADDAVLKVG
HNIKYDLNVLARVGLEVTPIDDSMVMSFDLDAGKSLGGHGMDEAASVHLNHTCISFKEVT
GTGKKAISFAHVPLDKATAYAAEDAEVTWRLWHKLSGRLPAEGATRVYQLVDRPLIPVVA
GMERQGIKVDREALSRLSGSFSQSIAGLEAEIHELAGHPFTIGSPQQLGVVLFDEMGLKG
GKKGKSGTYSTDVTVLEKLKAEGSAICGLVLEWRQLSKLKSTYTDALQQQINRDTGRVHT
SYSLTGAQTGRLSSTDPNLQNIPIRTEIGRQIRHAFVAEPGNVILAADYSQIELRLAAHM
ADVPALKDAFEQGEDIHNRTAMELFGEVNRDTRGRAKTINFAILYGISRWGLAGRLEISA
DEAQDMISRYYERFPGISVYINETLEKARANGFTETLFGRKTWFPRIKAPVQHERQGAER
AAINAPIQGTSADIIKRAMARMGPALEAAGLPRVRMLLQVHDELVFELPEGDVEAASKVI
RQVMESAAEPMVSLSVPLGVEIGTGPSWGAAH