Protein Info for GFF4000 in Variovorax sp. SCN45

Annotation: ATP-dependent DNA helicase UvrD/PcrA (EC 3.6.4.12)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 813 transmembrane" amino acids 58 to 76 (19 residues), see Phobius details PF00580: UvrD-helicase" amino acids 24 to 294 (271 residues), 280.6 bits, see alignment E=4.3e-87 PF13245: AAA_19" amino acids 28 to 280 (253 residues), 80.5 bits, see alignment E=3.3e-26 PF13361: UvrD_C" amino acids 300 to 670 (371 residues), 266.9 bits, see alignment E=8.7e-83 PF13538: UvrD_C_2" amino acids 610 to 666 (57 residues), 42.3 bits, see alignment 1.4e-14 PF21196: PcrA_UvrD_tudor" amino acids 766 to 808 (43 residues), 31 bits, see alignment 4.9e-11

Best Hits

KEGG orthology group: K03657, DNA helicase II / ATP-dependent DNA helicase PcrA [EC: 3.6.4.12] (inferred from 94% identity to vpe:Varpa_1676)

Predicted SEED Role

"ATP-dependent DNA helicase UvrD/PcrA" in subsystem DNA repair, bacterial UvrD and related helicases

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.12

Use Curated BLAST to search for 3.6.4.12

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 (813 amino acids)

>GFF4000 ATP-dependent DNA helicase UvrD/PcrA (EC 3.6.4.12) (Variovorax sp. SCN45)
MLFNDPAADAPFPNPSDLPLLKNLNAEQLAAVTLPAGNALILAGAGSGKTRVLTTRIAWL
LQTGQVSAGGILAVTFTNKAAKEMMTRLTAILPVNVRGMWIGTFHGLCNRLLRAHWKLAN
LPSTFQILDTQDQLSAIKRLMKQFNVDDERFPAKQTQWFIAGAKEDGLRPGDIEVRSDDD
RKKVELYQLYEEQCQREGVVDFGELMLRSYELLRDNAPVREHYQRRFRHILIDEFQDTNR
LQYAWIKMLAGNTVGGQFEPGRDNSVIAVGDDDQSIYAFRGARVGNMTDFVREFDVRHQI
KLEQNYRSYSNILDSANELISHNKKRLGKNLRTDQGPGEPVRVYESTTDLAEAQWMVEEM
RQLARDGFDRKEMAVLYRSNAQSRVIETALFNASVPYRVYGGLRFFERAEIKHALAYLRL
LENKDDDTSFLRVVNFPPRGIGARTLETLQDAARAAGRSLHDAVSVVGGKAGANLTGFVA
KIDVLREQTQGVSLREIIELVLDHSGLVEHYKADREGADRIENLDELVNAAESFVTQEGF
GRDAVALPVDELRQSPASQGIDLTRPVIDEPLAPDAETGETLSPLAAFLTHAALESGDNQ
AQAGQDAVQLMTVHAAKGLEFDCVFITGMEEGLFPHENSMSDFESLEEERRLMYVAITRA
RKRLYLSHSQTRMLHGQTRYNVKSRFFEELPQGALKWLTPKNQGFGGGTSAFGYGGGYGS
TRGGAGGGGGYGGGSSYGGGSRDKDTFASPPVPPQKTAPSHGLRSGMQVFHNKFGEGTVT
ALEGTGDDARAQVKFARHGVKWLALSVAKLTPI