Q9JHY8

PR
Gene name
Lig1
Protein name
DNA ligase 1
Names
DNA ligase I, Polydeoxyribonucleotide synthase [ATP] 1
Species
Rattus norvegicus (Rat)
KEGG Pathway
EC number
6.5.1.1: Forming phosphoric ester bonds
Protein Class

Descriptions

The autoinhibited protein was predicted that may have potential autoinhibitory elements via cis-regPred.

Autoinhibitory domains (AIDs)

1-318 (Predicted disordered autoinhibitory region) PR

Target domain

Relief mechanism

Assay

cis-regPred

Accessory elements

No accessory elements

References

Autoinhibited structure

Activated structure

1 structures for Q9JHY8

Entry ID Method Resolution Chain Position Source
AF-Q9JHY8-F1 Predicted AlphaFoldDB

No variants for Q9JHY8

Variant ID(s) Position Change Description Diseaes Association Provenance
No variants for Q9JHY8

No associated diseases with Q9JHY8

4 regional properties for Q9JHY8

Type Name Position InterPro Accession
domain DNA ligase, ATP-dependent, N-terminal 288 - 464 IPR012308
domain DNA ligase, ATP-dependent, C-terminal 773 - 882 IPR012309
domain DNA ligase, ATP-dependent, central 542 - 784 IPR012310
conserved_site DNA ligase, ATP-dependent, conserved site 720 - 746 IPR016059

Functions

Description
EC Number 6.5.1.1 Forming phosphoric ester bonds
Subcellular Localization
  • Nucleus
PANTHER Family
PANTHER Subfamily
PANTHER Protein Class
PANTHER Pathway Category No pathway information available

3 GO annotations of cellular component

Name Definition
cytoplasm The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
mitochondrion A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
nucleus A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

5 GO annotations of molecular function

Name Definition
ATP binding Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
DNA binding Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
DNA ligase (ATP) activity Catalysis of the reaction: ATP + deoxyribonucleotide(n) + deoxyribonucleotide(m) = AMP + diphosphate + deoxyribonucleotide(n+m).
DNA ligase activity Catalysis of the formation of a phosphodiester bond between the 3'-hydroxyl group at the end of one DNA chain and the 5'-phosphate group at the end of another. This reaction requires an energy source such as ATP or NAD+.
metal ion binding Binding to a metal ion.

11 GO annotations of biological process

Name Definition
base-excision repair In base excision repair, an altered base is removed by a DNA glycosylase enzyme, followed by excision of the resulting sugar phosphate. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase.
cell division The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
DNA biosynthetic process The biosynthetic process resulting in the formation of DNA.
DNA ligation The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase.
DNA recombination Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.
DNA repair The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
DNA replication The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
double-strand break repair via nonhomologous end joining The repair of a double-strand break in DNA in which the two broken ends are rejoined with little or no sequence complementarity. Information at the DNA ends may be lost due to the modification of broken DNA ends. This term covers instances of separate pathways, called classical (or canonical) and alternative nonhomologous end joining (C-NHEJ and A-NHEJ). These in turn may further branch into sub-pathways, but evidence is still unclear.
lagging strand elongation The process in which an existing DNA strand is extended in a net 3' to 5' direction by activities including the addition of nucleotides to the 3' end of the strand, complementary to an existing template, as part of DNA replication. Lagging strand DNA elongation proceeds by discontinuous synthesis of short stretches of DNA, known as Okazaki fragments, from RNA primers; these fragments are then joined by DNA ligase. Although each segment of nascent DNA is synthesized in the 5' to 3' direction, the overall direction of lagging strand synthesis is 3' to 5', mirroring the progress of the replication fork.
Okazaki fragment processing involved in mitotic DNA replication Any DNA replication, Okazaki fragment processing that is involved in mitotic cell cycle DNA replication.
response to hydrogen peroxide Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a hydrogen peroxide (H2O2) stimulus.

4 homologous proteins in AiPD

UniProt AC Gene Name Protein Name Species Evidence Code
P04819 CDC9 DNA ligase 1 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) PR
Q9W1H4 DNAlig1 DNA ligase 1 Drosophila melanogaster (Fruit fly) PR
P18858 LIG1 DNA ligase 1 Homo sapiens (Human) PR
P37913 Lig1 DNA ligase 1 Mus musculus (Mouse) PR
10 20 30 40 50 60
MQRSIMSFFQ PTTTEGKAKK PEKEIPSSIR EKEPPPKVAL KERNRAVPES DSPVKRPGRK
70 80 90 100 110 120
VAQVLSSEGE DEDEAPGTPQ VQKPVSDSKQ SSPPSPDSCP ENSPVFNCSP SMDISPSGFP
130 140 150 160 170 180
KRRTARKQLP KRTIQDTLEE PNEDKAKAVK KRKKEDPQTP PESLTEAEEV NQKEEQVEDQ
190 200 210 220 230 240
PTVPPEPTES PESVTLTKTE NIPMCKAGVK QKPQEEEQSK PPARGAKPLS SFFTPRKPAV
250 260 270 280 290 300
KTEVKQEESD TPRKEETKGA PDPTNYNPSK SNYHPIEDAC WKHGQKVPFL AVARTFEKIE
310 320 330 340 350 360
EVSARLKMVE TLSNLLRSVV ALSPTDLLPV LYLSLNRLGP PQQGLELGVG DGVLLKAVAQ
370 380 390 400 410 420
ATGRQLESIR AEVAEKGDVG LVAENSRSTQ RLMLPSPPLT VSGVFTKFCD IARLTGSASM
430 440 450 460 470 480
AKKMDIIKGL FVACRYSEAR FIARSLSGRL RLGLAEQSVL AALAQAGSLT PPGQEFPTVV
490 500 510 520 530 540
VDAGKGKTAE ARKMWLEEQG MILKQTFCEV PDLDRIIPVL LEHGLESLPE HCKLSPGVPL
550 560 570 580 590 600
KPMLAHPTRG VREVLKRFEE VDFTCEYKYY GQRAQIHVLE GGEVKIFSRN QEDNSGKYPD
610 620 630 640 650 660
IISRIPKIKH PSVTSFILDT EAVAWDREKK QIQPFQVLTT RKRKEVDASE IQVQVCLYAF
670 680 690 700 710 720
DLIYLNGESL ARQPLSRRRQ LLRENFVETE GEFVFATSLD TKDIEQIAEF LEQSVKDSCE
730 740 750 760 770 780
GLMVKTLDVD ATYEIAKRSH NWLKLKKDYL EGVGDTLDLV VIGAYLGRGK RPGRYGGFLL
790 800 810 820 830 840
AAYDEESEEL AAICKLGTGF SDEELEEHHQ NMQALLLPTP RPYVRIDGAV APNHWLDPSI
850 860 870 880 890 900
VWEVKCADLT LSPIYRAARG MVDKEKGISL RFPRFIRVRE DKQPEQATTS DQVASLYRKQ
910
SQIQNQQSSD LDSDVEDY