Protein Info for Shew_2377 in Shewanella loihica PV-4

Annotation: DNA ligase, NAD-dependent (RefSeq)

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 50 100 150 200 250 300 350 400 450 500 550 600 669 PF22745: Nlig-Ia" amino acids 1 to 63 (63 residues), 104.2 bits, see alignment E=1.1e-33 TIGR00575: DNA ligase, NAD-dependent" amino acids 11 to 663 (653 residues), 878.4 bits, see alignment E=1.5e-268 PF01653: DNA_ligase_aden" amino acids 68 to 318 (251 residues), 332.8 bits, see alignment E=6.1e-103 PF03120: OB_DNA_ligase" amino acids 322 to 398 (77 residues), 119 bits, see alignment E=2.7e-38 PF03119: DNA_ligase_ZBD" amino acids 407 to 434 (28 residues), 40.8 bits, see alignment (E = 6.1e-14) PF14520: HHH_5" amino acids 448 to 501 (54 residues), 20 bits, see alignment 3.1e-07 amino acids 515 to 561 (47 residues), 21.3 bits, see alignment 1.2e-07 PF12826: HHH_2" amino acids 510 to 573 (64 residues), 72.7 bits, see alignment E=8.5e-24 PF00533: BRCT" amino acids 596 to 666 (71 residues), 51.4 bits, see alignment E=4.3e-17 PF12738: PTCB-BRCT" amino acids 608 to 658 (51 residues), 24.2 bits, see alignment 1.1e-08

Best Hits

Swiss-Prot: 100% identical to DNLJ_SHELP: DNA ligase (ligA) from Shewanella loihica (strain ATCC BAA-1088 / PV-4)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 100% identity to slo:Shew_2377)

MetaCyc: 63% identical to DNA ligase (Escherichia coli K-12 substr. MG1655)
DNA ligase (NAD(+)). [EC: 6.5.1.2, 6.5.1.6]

Predicted SEED Role

"DNA ligase (EC 6.5.1.2)" in subsystem DNA Repair Base Excision (EC 6.5.1.2)

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 6.5.1.2 or 6.5.1.6

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein 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

See A3QFJ5 at UniProt or InterPro

Protein Sequence (669 amino acids)

>Shew_2377 DNA ligase, NAD-dependent (RefSeq) (Shewanella loihica PV-4)
MQAIQDEIKQLTDELNQHNYRYYVDDAPSIPDAEYDRLMRRLQELEAEHPELALADSPTQ
RVGGEALSKFNQVTHLKPMLSLDNVFSEEEFNAFYKRVGDKLPDTPAFCCEPKLDGLAVS
ILYRDGVFERAATRGDGTVGEDITENVRTIKSVPLRLRGSGFPPLLEVRGEVFMPKAAFE
AVNDKARAKGEKLFVNPRNAAAGSLRQLDSKITASRSLAFYAYALGVVEPETWPLAASHF
EQLVQLKEWGCPVSSEVKVCADIPSVLAYYQDILTRRSELAYEIDGVVLKVNDIAQQQTL
GFVAKAPRWATAYKFPAQEEITQLEGVDFQVGRTGAVTPVARLQPVFVGGVTVSNATLHN
ADEIARLGVMIGDSVIIRRAGDVIPQVVAVVPEKRPSDAQAIQFPPQCPVCGSDVERVEG
EAVARCTGGLVCEAQRKEAIKHFASRKALDIDGMGDKVVEQLIDKELVASPADLFKLTAS
AITMLDRMGMKSATNLVNALEAAKQTTFARFLYSLGIREVGEATAANLANYFKTLEHLKQ
ADAETFMKVDDVGVIVAQHLVHFFEQPHNLEVIDGLLQAGVHWPDIEEVAEEALSLKGQT
WVLTGTLTQLNRNDAKAKLQALGAKVAGSVSKNTDCLVAGEAAGSKLTKAQELGVKVIDE
AELLAILGS