Protein Info for GFF4556 in Hydrogenophaga sp. GW460-11-11-14-LB1

Annotation: DNA ligase (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 50 100 150 200 250 300 350 400 450 500 550 600 650 691 PF01653: DNA_ligase_aden" amino acids 14 to 340 (327 residues), 378.6 bits, see alignment E=8.5e-117 TIGR00575: DNA ligase, NAD-dependent" amino acids 19 to 684 (666 residues), 830.7 bits, see alignment E=4.3e-254 PF03120: DNA_ligase_OB" amino acids 344 to 419 (76 residues), 115.6 bits, see alignment E=2.7e-37 PF03119: DNA_ligase_ZBD" amino acids 429 to 456 (28 residues), 43.9 bits, see alignment (E = 6.2e-15) PF14520: HHH_5" amino acids 472 to 524 (53 residues), 25.3 bits, see alignment 6.1e-09 amino acids 537 to 583 (47 residues), 30.7 bits, see alignment 1.2e-10 PF12826: HHH_2" amino acids 532 to 595 (64 residues), 97 bits, see alignment E=2e-31 PF00533: BRCT" amino acids 615 to 686 (72 residues), 51 bits, see alignment E=5.1e-17 PF12738: PTCB-BRCT" amino acids 629 to 680 (52 residues), 25.5 bits, see alignment 3.7e-09

Best Hits

Swiss-Prot: 81% identical to DNLJ_POLNA: DNA ligase (ligA) from Polaromonas naphthalenivorans (strain CJ2)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 81% identity to pna:Pnap_1816)

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)

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 (691 amino acids)

>GFF4556 DNA ligase (EC 6.5.1.2) (Hydrogenophaga sp. GW460-11-11-14-LB1)
MTADLFAEPPSPAARAAELRAQLHHHAHRYYTLDDPEIPDAEYDRLFRELQAIEAEHPEL
LTPDSPTQRVGGRVLDMFTPVRHAVPMLSINTETDTEPSGARNFDTRVRRALGLTEADPP
VDYVAELKFDGLAMSLRYENGVLVQAATRGDGEVGEDVTTNIRTIPQVPLRLPADAPPVL
EVRGEVYMRRDQFEALNDKQRAKIAAGAKGEKTFVNPRNAAAGAVRQLDSGIAAQRPLSF
FAYGLGDITPPEEGGPVFATHFEMLQQLKAWGFPVAEQTTLATGADELVAFHQRIGASRD
QLPYDIDGVVYKVNALPLQKQLGFVTREPRWAVAHKYPAQEQLTTVLAIDVQVGRTGKLT
PVAKLAPVFVGGVTVTNATLHNEDEARRKDVRVGDTVIVRRAGDVIPEVVSVLADKRVGE
PEPFTMPRTCPVCGSEAVREEGEVDFRCSGGLFCGAQRKQAILHFAQRRAVEIEGLGDKL
VEQLVDTGVVKTLPDLYRLGFTALAGLERMADKSAQNIVDALEKSKRTTLPRFLFGLGIR
HVGEATAKELARHFGQLDRIMDASVEALSEVSDVGPVVAQSIHTFFEQPHNREVVEQLRA
CGLTWEEGEPAARAPQPLAGKTFVLTGTFPTLSRDQAKDLLEAAGAKVAGSVSKKTDYVV
AGAEAGSKLEKAQTLGVAVIDEAAMLAMLGT