Protein Info for LRK54_RS00235 in Rhodanobacter denitrificans FW104-10B01

Annotation: error-prone DNA polymerase

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

1 100 200 300 400 500 600 700 800 900 1026 TIGR00594: DNA polymerase III, alpha subunit" amino acids 5 to 971 (967 residues), 528.6 bits, see alignment E=1.8e-162 PF02811: PHP" amino acids 6 to 102 (97 residues), 64.8 bits, see alignment E=3.1e-21 PF07733: DNA_pol3_alpha" amino acids 268 to 523 (256 residues), 278.4 bits, see alignment E=1.7e-86 PF17657: DNA_pol3_finger" amino acids 526 to 692 (167 residues), 197.1 bits, see alignment E=3.3e-62 PF14579: HHH_6" amino acids 766 to 857 (92 residues), 66.7 bits, see alignment E=4.4e-22 PF01336: tRNA_anti-codon" amino acids 936 to 1010 (75 residues), 35.9 bits, see alignment 1.4e-12

Best Hits

Swiss-Prot: 66% identical to DNAE2_PSEMY: Error-prone DNA polymerase (dnaE2) from Pseudomonas mendocina (strain ymp)

KEGG orthology group: K14162, error-prone DNA polymerase [EC: 2.7.7.7] (inferred from 66% identity to pap:PSPA7_4841)

Predicted SEED Role

"DNA polymerase III alpha subunit (EC 2.7.7.7)" in subsystem DNA-replication (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)

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 (1026 amino acids)

>LRK54_RS00235 error-prone DNA polymerase (Rhodanobacter denitrificans FW104-10B01)
MNDYAELHCLSDFSFGRGASSAAELFERARACGYRALAITDECSLAGIVRAYQASNETGL
KLIVGAEFQLADGPKLVLLCGNRQGYAGLCRLITRGRRASEKGRYRLACADLHGGLPGTL
ALWMPAPQPDIAHGRWLRETFGDRAWLAVELHRGPDDAARLRELQALGRAVGLPLVASGD
VHMHVRRRLALQHTLTAIRHRVPVAEAGALIFRNGERHLRRCDVLAGIYPEALLQESVRI
AERCTFQLDELAYRYPTELVPPGHTPTSWLRQLAEEGLRWRWPQGASDKVRRLVKEELAL
IASKQYEAFFLTVHDIVRFARGQGILCQGRGSAANSAVCFALGVTEVDPEVNHLLVARFI
SEDRDEPPDIDVDFEHERREEVIQYVYRKYGRERAALAATVICYRGRSAVRDVAWALGLP
PDQVGRLSDVFARGWGDSKADERLREQGFDPDSPLIRRVLKLTGELLGMPRHLSQHVGGF
VISDAPLSEMVPVENAAMPGRTVIQWDKDDLDCMRMLKIDCLALGMLTCLRKCFALLEST
HGVTRTIATIEPDDAATYAMIRRADTVGVFQIESRAQMAMLPRHRPANFYDLVIQVAIVR
PGPIQGDMVHPYLRRRNGEEPVDYPSPAFRDVLERTLGVPLFQEQVMKLAMVAADFTDGE
ADQLRRSMAAWKRHGGLEPHREKLVQGMLRNGYTAAFAARIFEQIKGFGSYGFPESHAAS
FANLVYASCWLKCHYPAAFACALLNAQPMGFYGPSQIVQDVRRHCVAVRPVDVRFSDWDC
TLGPDPRGHAEARAIRLGLRMVRGCSEAAALRLMAARRQQPFADVTDLCVRSGLDRRHQE
LLADAAALRGLAGHRHRARWTVAGVEAQLPLFGNTSPAEWAVTLPLPTQAEDTLADYARV
GLSLGVHPLRQIRARLDAARCIDGKVLRRQPHHSHVRVAGLVTSRQQPQTASGIIFVTLE
DEHGLINVIVWRQVAETQRRALLQARLLAVEGQWENVEGVRHLVAHRLQDLTPLLGTLDA
RSRDFH