Protein Info for GFF2337 in Sphingobium sp. HT1-2

Annotation: DNA ligase (NAD(+)) (EC 6.5.1.2)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 703 TIGR00575: DNA ligase, NAD-dependent" amino acids 19 to 695 (677 residues), 756.8 bits, see alignment E=9.6e-232 PF01653: DNA_ligase_aden" amino acids 76 to 332 (257 residues), 307.4 bits, see alignment E=2e-95 PF03120: DNA_ligase_OB" amino acids 335 to 408 (74 residues), 103.3 bits, see alignment E=1.3e-33 PF03119: DNA_ligase_ZBD" amino acids 419 to 446 (28 residues), 45.7 bits, see alignment (E = 1.1e-15) PF12826: HHH_2" amino acids 524 to 555 (32 residues), 32.2 bits, see alignment (E = 2.5e-11) PF00533: BRCT" amino acids 629 to 697 (69 residues), 42.2 bits, see alignment E=2e-14

Best Hits

Swiss-Prot: 69% identical to DNLJ_SPHWW: DNA ligase (ligA) from Sphingomonas wittichii (strain RW1 / DSM 6014 / JCM 10273)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 88% identity to sch:Sphch_1243)

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

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

Find the best match in UniProt

Protein Sequence (703 amino acids)

>GFF2337 DNA ligase (NAD(+)) (EC 6.5.1.2) (Sphingobium sp. HT1-2)
MTDPTQITEAEAANRLMRLAREVAKHNRLYHDQDAPEISDADYDALIRENNALEAAFPHL
IRADSPNAQVGATATSALKKVPHAVRMMSLDNGFADEDIAEFAARVRRFLALAEDAPVAM
TAEPKIDGLSCSLRYEQGELVLAATRGDGTTGEDVTANVRTIADIPQRLTGEVIPDLFEV
RGEVYMAKADFVALNQRLLDEAEDADKARQFANPRNAAAGSLRQKDASVTASRPLRFLAH
GWGAHSALPADTQLGVMQAIAGWGLPVSDMLVCVDSIDAILAHYRAIERARADLPFDIDG
VVYKVDRLDWQQRLGFVAKAPRWAIAHKFPAERAQTTLEAIDIQVGRTGKLTPVGRLTPV
TVGGVVVSNVTLHNADEIERLGVRPGDRVVVQRAGDVIPQVVDNLTRDEVREPFPFPTHC
PVCGSEAVREEEEVDYRCTGGLICAAQRFERLRHFVSRAALDIEGLGEKTIEEFLDLGWI
KEPADIFRLRTHAGELLGREGWKEKSVDNLLAAIEAKRAPDAAKLLFGLGIRHVGAVTAR
DLLKRYTTLPALRTLADEIIALRDQAYETQAKKDKAIAEHIGVENVGAAVGHALADFFHE
PHNVEAWDDLLSEVSPPDYVVETTASAVTGKIVVFTGKLETMSRDEAKAQAERLGAKAAG
SVSAKTDLVVAGPGAGSKLKQATALGIEVISEQDWADIVRAAG