Protein Info for LRK55_RS03085 in Rhodanobacter denitrificans MT42

Annotation: DNA polymerase III subunit alpha

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 1000 1100 1179 TIGR00594: DNA polymerase III, alpha subunit" amino acids 5 to 1046 (1042 residues), 1242.1 bits, see alignment E=0 PF02811: PHP" amino acids 7 to 170 (164 residues), 132.5 bits, see alignment E=6e-42 PF07733: DNA_pol3_alpha" amino acids 290 to 566 (277 residues), 337.2 bits, see alignment E=2.4e-104 PF17657: DNA_pol3_finger" amino acids 569 to 735 (167 residues), 224.4 bits, see alignment E=1.7e-70 PF14579: HHH_6" amino acids 809 to 898 (90 residues), 100.3 bits, see alignment 1.8e-32 PF01336: tRNA_anti-codon" amino acids 1013 to 1084 (72 residues), 39.7 bits, see alignment 1.2e-13 PF20914: DNA_pol_IIIA_C" amino acids 1114 to 1164 (51 residues), 24.2 bits, see alignment (E = 7.1e-09)

Best Hits

Swiss-Prot: 64% identical to DPO3A_XYLFT: DNA polymerase III subunit alpha (dnaE) from Xylella fastidiosa (strain Temecula1 / ATCC 700964)

KEGG orthology group: K02337, DNA polymerase III subunit alpha [EC: 2.7.7.7] (inferred from 66% identity to psu:Psesu_2214)

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 (1179 amino acids)

>LRK55_RS03085 DNA polymerase III subunit alpha (Rhodanobacter denitrificans MT42)
MTVRYTHLHLHSEYSLVDSTIRIKALVAACVRDGIPALALTDDSNMFALVKFYKACSAAG
IKPIGGCDLWMAAPDDPRPWRLTLLCQHRAGYLNLSRLVSRAWQEGQHGGRALVEAGWLS
VDASDGLIALLGRESEVGRLALNQGNEAALAKLRPLAQLFPERLYLELTRCGREGEEAWN
TAALALAAELGLPVLASNDVRFLTQNDFGAHEARVCIQQGRVLADPKRPRDYSDQQYLKT
PEEMAALFADLPEALENTVELAKRCTLELKFGTYYLPDFPVPAGHDLDSHIRELARQGLK
ERLANAPLAADHTLADYQARLERELDVIVKMGFPGYFLIVADFINWGKQNGIPVGPGRGS
GAGSLVAWALKITDLDPLQFNLLFERFLNPERVSMPDFDIDFCMDRRDEVIDYVARKYGR
DRVSQIITYGSMAAKAVLRDSGRVLGFGYTQVDRIAKLIPARPLDLTLSCALGRSEKAKK
EPERVVKEFCELYEQDEEARALIDLALKLENLTRNAGKHAGGVVIAPSPLTDFAPLYCEA
GGGGVVTQYDKDDVEAVGLVKFDFLGLRTLTIIDWAVKAINARRAKAGEALLDISALPLD
DPASYELLKKAQTVAVFQLESSGMQRMLKDAKPDRFEDIIALVALYRPGPMDLIPSFVAR
KHGREDVEYPDPRVEPILKETYGIMVYQEQVMQMAQIVGGYSLGGADLLRRAMGKKKLEE
MAKERAKFREGAAKDGLSGEKADSIFDLMEKFAGYGFNKSHAAAYALVSYQTAWLKAHYP
AEFMAATISSDMDNTDKVVTFLDESRAIGIAVQPPDVNASEYMFVAVEPKVIQYGLGAIK
GVGQGACEAIVAERANGRYADLADFCRRVDPTRLNRRVLEALILSGALDALAANRASLML
QLPDAIKAAEQHLRDRQSGQNDMFGAAMGNATPVLKIELPTVPEWPLEQKLQGERDTLGH
YLSGHPTDPWKDELAQLSSCPLGEIADRYQPPKPRKNDHDDGNRFRRGPDTPWTVAGMVT
AVRKRGDSDAFVRLEDGSGIIEVSFFGELYQQMAPLLTRDEMLVVDGGLRIDDFSGGGFQ
LRARSACSLADACRRHARLLQLKLNGIGPGFVGQLQQALAGYRGGRTSVTLHGYRNRHAQ
ADLELGEAWRVEAIPELLRTVRALPGVQAARLRIVKQQD