Protein Info for ABIE41_RS04575 in Bosea sp. OAE506

Annotation: DNA ligase D

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 893 TIGR02777: DNA ligase D, 3'-phosphoesterase domain" amino acids 5 to 167 (163 residues), 224.8 bits, see alignment E=9e-71 PF13298: LigD_N" amino acids 43 to 148 (106 residues), 145.5 bits, see alignment E=1.5e-46 TIGR02779: DNA ligase D, ligase domain" amino acids 262 to 562 (301 residues), 349 bits, see alignment E=4.3e-108 TIGR02776: DNA ligase D" amino acids 271 to 863 (593 residues), 691.1 bits, see alignment E=3.1e-211 PF01068: DNA_ligase_A_M" amino acids 274 to 445 (172 residues), 77 bits, see alignment E=4.2e-25 PF04679: DNA_ligase_A_C" amino acids 464 to 556 (93 residues), 92.8 bits, see alignment E=3.7e-30 TIGR02778: DNA ligase D, polymerase domain" amino acids 616 to 857 (242 residues), 316.4 bits, see alignment E=2.9e-98 PF21686: LigD_Prim-Pol" amino acids 632 to 869 (238 residues), 296.9 bits, see alignment E=3.5e-92 PF01896: DNA_primase_S" amino acids 732 to 853 (122 residues), 32 bits, see alignment E=4e-11

Best Hits

Predicted SEED Role

"ATP-dependent DNA ligase (EC 6.5.1.1) clustered with Ku protein, LigD" in subsystem DNA Repair Base Excision (EC 6.5.1.1)

Isozymes

Compare fitness of predicted isozymes for: 6.5.1.1

Use Curated BLAST to search for 6.5.1.1

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 (893 amino acids)

>ABIE41_RS04575 DNA ligase D (Bosea sp. OAE506)
MAGLDLYRAKRDFSRTGEPEGARQGKSGKAQARKAHGGAFVVHKHAARRLHYDLRLEHDG
VLWSWAVTRGPSLDPDEKRLAVHVEDHPLEYGSFEGTIPEGQYGAGSVIVWDEGRWVPEG
DPAFGLEKGHLSFMLEGHKLAGQWHLVRLKPRRGEKRDNWLLIKVDDAAARPDGDILETA
PNSVASGLSIEDIAAGKASEPRVWGKTKRPGTNDVSDAGRQPQAKPAPKASRAAKSNTAP
KTARKTTPKAPQRDALPDFVPPCLATLQEKPPAGERWLHEVKFDGYRLQARIENGAVRLL
TRSGLDWTERFGTTLAEGLANLPCETALIDGEVVALGESGVSSFGALQEALSAGRPGVLV
FFAFDLLHLDGQDLRADPLIARKGRLEDLLRGADEAGPLRYSEHFVEPGQTMLRHACRMG
LEGVISKRADAPYRSGRGRDWVKSKCTLRQEFVIAGYVPSKGSGRELGSIVAAYHEGGVL
RPAGRVGTGFTRASAAVLKKRLDALRSETSPFEGAAGREKGIVWVKPELVAEVEFGAWTG
SKTLRHASFLGLREDKPAQEVVAEQPQKATAKAEQAQPREPTRTSKARPTAGQAKAKRLA
AKSTSRPAAPKAATSVKLSSPDKPLWPDIGFTKQDLLDYYATIWPVMAPHVIDRPLSLVR
APNGIGGHSFFQKHAMPGMPEAIHRIRDKDGEELLFIRDFDGLAALVQLGTVEIHLWGAT
IEAVETPDQIIFDLDPDPGVPLERVREAALTVRDRLSEIGFESLLKTSGGKGYHVVMPLK
ARAGWDRVKGFARDFAQALAGSEPSRFTATLSKKARKGKIFVDYLRNGRGSTAIAPYSTR
ARPGAPVAMPIAWDDLATTTPDAFSAGAVLRDGPPADLWAGFFDSARPLTGKG