Protein Info for H281DRAFT_00864 in Paraburkholderia bryophila 376MFSha3.1

Annotation: ATP-dependent DNA ligase LigD phosphoesterase module/ATP-dependent DNA ligase LigD polymerase module

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 1006 TIGR02777: DNA ligase D, 3'-phosphoesterase domain" amino acids 6 to 175 (170 residues), 213.9 bits, see alignment E=2e-67 PF13298: LigD_N" amino acids 48 to 156 (109 residues), 151.1 bits, see alignment E=2.7e-48 TIGR02779: DNA ligase D, ligase domain" amino acids 276 to 581 (306 residues), 343.9 bits, see alignment E=1.5e-106 PF01068: DNA_ligase_A_M" amino acids 288 to 461 (174 residues), 84.2 bits, see alignment E=2.6e-27 PF04679: DNA_ligase_A_C" amino acids 480 to 575 (96 residues), 98.1 bits, see alignment E=8.2e-32 TIGR02776: DNA ligase D" amino acids 693 to 990 (298 residues), 376.5 bits, see alignment E=6e-116 TIGR02778: DNA ligase D, polymerase domain" amino acids 717 to 960 (244 residues), 298 bits, see alignment E=1.2e-92 PF21686: LigD_Prim-Pol" amino acids 734 to 985 (252 residues), 312.1 bits, see alignment E=7.9e-97 PF01896: DNA_primase_S" amino acids 835 to 956 (122 residues), 31.9 bits, see alignment E=4.3e-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 (1006 amino acids)

>H281DRAFT_00864 ATP-dependent DNA ligase LigD phosphoesterase module/ATP-dependent DNA ligase LigD polymerase module (Paraburkholderia bryophila 376MFSha3.1)
MNDRLDLYNRKRRFDETPEPAGNKATRKRVGRNAARPGPDEGLSYVIQEHHARRLHYDFR
LELNGALLSWAVPKGPSLDPSVKRLAVHVEDHPVEYGSFEGEIPPGNYGAGTVIVWDRGT
WEPVGGAAEAVRAYRAGKLKFHLHGEKLHGGWTLVRSHMRGNADKEQWLLIKERDDEARP
ESEYDVLAEQPGSVLGAAPASNGKGGKQASKQTSKQTSKPKDKQVAAKRTTAAPVRGDSK
RPDIVATRSSESLRELAAAPAIEGAVAAKLPATLKPQLATLVDATPPGDDWSYEIKFDGY
RVLARIDASGKGRDVQVFTRAGNDWTAKFGKQVKAFEQLGVESAWLDGEAVVLDENGVPN
FQALQNAFDSNRPQDIVVYLFDVPFLNGYDLRGVPLQQRRAILRALLEPVDDSVLRFSND
FEFSADDLLKSACDMALEGIIGKRRDSGYSSGRSATWIKLKCRRRQEFVIGGYSEPSGSR
AAFGALLLGVYDSKGKLQYAGRVGTGFDAALLRSVKKELDAHETKRMPFASPPRERSRTP
VHWVEPVLVAECNFAEWTSDGIVRQASFVSLRSDKPARQIVKEAPRKGDDVQQQTDIEAQ
SDTAPKKRSGRRAGAEADDDVPTSGAKKKRSAGKAVAGEATDNDTEKDVKTTAKAPAKTT
AKTTAKTAGEATTTTPAAKTASKPAAKTATLKDEAADTKPVASRSKKSASPAEVAGVRVS
HPDRVIDKSTGARKIDLVQYYESVARWMLPHLADRPVSLVRAPEDIGGELFFQKHSQKLS
IPNITQHPGLDPGHPPLITVESVKALVGAAQMGTIEFHTWNGVASNIEKPDRVVFDLDPD
PSLGWDRMIEAAQLTRSLLDELGLTSFCKTSGGKGFHVVVPLSKHAGWDEVKEFSQAVAQ
HMASTLPKYFSAKMGAQNRKQKIFVDYLRNNRGSSTVAAFSARARPGLGVSVPLAWDEVA
STTGGDQWNIGNLHERLANLKSDPWADYSKTRQRITAAMRKRLNGA