Protein Info for Sama_1516 in Shewanella amazonensis SB2B

Annotation: DNA ligase (NAD(+)) (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 50 100 150 200 250 300 350 400 450 500 550 600 650 681 PF01653: DNA_ligase_aden" amino acids 13 to 330 (318 residues), 423 bits, see alignment E=2.6e-130 TIGR00575: DNA ligase, NAD-dependent" amino acids 21 to 674 (654 residues), 851.3 bits, see alignment E=2.5e-260 PF03120: DNA_ligase_OB" amino acids 334 to 410 (77 residues), 116.2 bits, see alignment E=1.7e-37 PF03119: DNA_ligase_ZBD" amino acids 419 to 446 (28 residues), 40.2 bits, see alignment (E = 8.9e-14) PF14520: HHH_5" amino acids 463 to 513 (51 residues), 24.8 bits, see alignment 8.7e-09 amino acids 523 to 570 (48 residues), 29.1 bits, see alignment 4e-10 PF12826: HHH_2" amino acids 522 to 585 (64 residues), 81.2 bits, see alignment E=1.7e-26 PF00533: BRCT" amino acids 607 to 679 (73 residues), 52.2 bits, see alignment E=2.1e-17 PF12738: PTCB-BRCT" amino acids 624 to 670 (47 residues), 23.1 bits, see alignment 2.1e-08

Best Hits

Swiss-Prot: 100% identical to DNLJ_SHEAM: DNA ligase (ligA) from Shewanella amazonensis (strain ATCC BAA-1098 / SB2B)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 100% identity to saz:Sama_1516)

MetaCyc: 60% 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)

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

See A1S5R7 at UniProt or InterPro

Protein Sequence (681 amino acids)

>Sama_1516 DNA ligase (NAD(+)) (RefSeq) (Shewanella amazonensis SB2B)
MSGPAHFQGTIMQVKAEIQRLTAEINRHNIAYYVQDAPSIPDAEYDRLMNQLKALEAEYP
QFAEPDSPTQRVGGAALNKFEQVSHLKPMLSLDNAFNEEDFVAFDKRLTDKVGSQVYCAE
PKLDGLAVSLIYRNGVLERAATRGDGAVGEDISVNMRTIKSVPLRLQGDDIPALVEVRGE
VFMPRAAFEALNDRARAKGDKLFVNPRNAAAGSLRQLDSKITAERSLAFYAYALGVVQDD
NGADLVLAPTHKGQLERLTAFGLPVSKEVKLCEGLAEVMAYYADILKRRDELAFEIDGVV
IKVNDIEAQQQLGFVARAPRWAIAFKFPAQEEMTVLEGVDFQVGRTGAVTPVARLKPVFV
GGVTVSNATLHNGDEIARLGVKIGDTVIIRRAGDVIPQIVAVVPERRPDEAQDILFPDNC
PVCGSLVERIEGEAVARCSGGLFCEAQRREAIKHFASRKAMYIDGMGDKVVEQLIDKELV
ESPADLFKLNVSKLTMLERMGTKSATNLVAAIEEAKTTTLPKFLYALGIREVGEATAANL
AKHFRSLEAIRDADVDALIQVEDVGTVVAQHVAHFFAQPHNLEVIDALIAAGVNWPAIEK
PSADAQPLLGQTWVLTGTLTSLGRTEAKAKLEALGAKVAGSVSKNTHCVVAGEAAGSKLA
KAQELGIPVLDEAGLIELIGL