Protein Info for GFF4006 in Variovorax sp. SCN45

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 938 PF02739: 5_3_exonuc_N" amino acids 6 to 171 (166 residues), 172.2 bits, see alignment E=1.9e-54 TIGR00593: DNA polymerase I" amino acids 7 to 938 (932 residues), 872 bits, see alignment E=3.1e-266 PF01367: 5_3_exonuc" amino acids 173 to 257 (85 residues), 95.8 bits, see alignment E=4.6e-31 PF01612: DNA_pol_A_exo1" amino acids 344 to 528 (185 residues), 95.7 bits, see alignment E=7.3e-31 PF22619: DNA_polI_exo1" amino acids 416 to 494 (79 residues), 33.7 bits, see alignment E=7.6e-12 PF00476: DNA_pol_A" amino acids 561 to 935 (375 residues), 532.1 bits, see alignment E=1.9e-163

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 (938 amino acids)

>GFF4006 DNA polymerase I (EC 2.7.7.7) (Variovorax sp. SCN45)
MTDKKTLLLVDGSSYLYRAFHAMPDLRAVPGDPKSPATGAIRGMINMMTALRREVRADYA
ACIFDAPGKTFRDDWYPEYKANRSPMPDDLRSQIDPIHEVVKLLGWPVLSVPDVEADDVI
GTLAKIAAAQGVEVIVSSGDKDLSQLVDEHITIIDTMNGKKRDVAGVTAEFGVPPHLMVD
YQTLVGDSVDNVPGVPKVGPKTAAKWLLEYGSLDALVERAAEVKGAAGENLRGALDKLPL
SKRLVTIRTDCELDGHVTGLPSLEGLPVGAPRTAELKPFYEKFGFKSLVKTLEAQEVPPE
LIEENIKKKAASKADKDQGGLFDEPADLSALEAAAPASNLKYDTVMSWEQFDTWLARLEA
SELAAIDTETTSLDEMVAQIVGVSFSVTPGEAAYIPLAHNYPDAPEQLPIDEVLAKLKPW
LENGDKKKLGQHIKYDRHVFANHGIEVQGYAHDTMLQSYVLEVHKPHGLSSLAERHLGRS
GISYEDLCGKGAHQIPFSQVDIAKAAEYSCEDSDQTLDVHNTLWPQLERDEKLRFIYQLE
MDSSEALYRIERNGVLIDAPTLASQSHELGTRIMALEQEAYDIAGQPFNLGSPKQIGEIF
FTKLGLPVVKKTPSGAPSTDEEVLEKLAEDYPLPAKILEHRGLSKLKGTYTDKLGQLANP
RTGRVHTHYAQAVAVTGRLSSNDPNLQNIPIRTPEGRRVREAFVAPAGSVIASADYSQIE
LRIMAHISGDESLLRAFTDGIDVHRATAAEVFGSTPDEVSSEQRRYAKVINFGLIYGMSS
FGLAKNLGIETKAAASYIERYFARYPGVKAYMDETKALAKEQGYVETVFGRRLYLPEINS
PNGPRRGGAERAAINAPMQGTAADLIKLSMVKVQNVLDEEKRGTKMIMQVHDELVFEVPE
GEVEWVRTEIPRIMAGVAALKVPLLAEIGVGPNWDKAH