Loading
PDBj
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help

9GD7

DNA-PK Ku80 mediated dimer bound to DNA polymerase Lambda and DNA ligase 4/XRCC4

Functional Information from GO Data
ChainGOidnamespacecontents
A0000724biological_processdouble-strand break repair via homologous recombination
A0003677molecular_functionDNA binding
A0003887molecular_functionDNA-directed DNA polymerase activity
A0005515molecular_functionprotein binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005694cellular_componentchromosome
A0006260biological_processDNA replication
A0006281biological_processDNA repair
A0006287biological_processbase-excision repair, gap-filling
A0006289biological_processnucleotide-excision repair
A0006303biological_processdouble-strand break repair via nonhomologous end joining
A0006974biological_processDNA damage response
A0016446biological_processsomatic hypermutation of immunoglobulin genes
A0016740molecular_functiontransferase activity
A0016779molecular_functionnucleotidyltransferase activity
A0016829molecular_functionlyase activity
A0034061molecular_functionDNA polymerase activity
A0035861cellular_componentsite of double-strand break
A0046872molecular_functionmetal ion binding
A0051575molecular_function5'-deoxyribose-5-phosphate lyase activity
A0071897biological_processDNA biosynthetic process
E0000012biological_processsingle strand break repair
E0000166molecular_functionnucleotide binding
E0000287molecular_functionmagnesium ion binding
E0000781cellular_componentchromosome, telomeric region
E0000793cellular_componentcondensed chromosome
E0001701biological_processin utero embryonic development
E0002328biological_processpro-B cell differentiation
E0003677molecular_functionDNA binding
E0003909molecular_functionDNA ligase activity
E0003910molecular_functionDNA ligase (ATP) activity
E0005515molecular_functionprotein binding
E0005524molecular_functionATP binding
E0005634cellular_componentnucleus
E0005654cellular_componentnucleoplasm
E0005958cellular_componentDNA-dependent protein kinase-DNA ligase 4 complex
E0006281biological_processDNA repair
E0006284biological_processbase-excision repair
E0006297biological_processnucleotide-excision repair, DNA gap filling
E0006302biological_processdouble-strand break repair
E0006303biological_processdouble-strand break repair via nonhomologous end joining
E0006310biological_processDNA recombination
E0006974biological_processDNA damage response
E0007417biological_processcentral nervous system development
E0008283biological_processcell population proliferation
E0010165biological_processresponse to X-ray
E0010212biological_processresponse to ionizing radiation
E0010332biological_processresponse to gamma radiation
E0016874molecular_functionligase activity
E0032807cellular_componentDNA ligase IV complex
E0033077biological_processT cell differentiation in thymus
E0033151biological_processV(D)J recombination
E0033152biological_processimmunoglobulin V(D)J recombination
E0033153biological_processT cell receptor V(D)J recombination
E0035019biological_processsomatic stem cell population maintenance
E0043524biological_processnegative regulation of neuron apoptotic process
E0045190biological_processisotype switching
E0046872molecular_functionmetal ion binding
E0048146biological_processpositive regulation of fibroblast proliferation
E0050769biological_processpositive regulation of neurogenesis
E0051276biological_processchromosome organization
E0051301biological_processcell division
E0051402biological_processneuron apoptotic process
E0070419cellular_componentnonhomologous end joining complex
E0071479biological_processcellular response to ionizing radiation
E0075713biological_processestablishment of integrated proviral latency
E0097680biological_processdouble-strand break repair via classical nonhomologous end joining
E2001252biological_processpositive regulation of chromosome organization
L0000166molecular_functionnucleotide binding
L0000723biological_processtelomere maintenance
L0000725biological_processrecombinational repair
L0000781cellular_componentchromosome, telomeric region
L0000783cellular_componentnuclear telomere cap complex
L0000976molecular_functiontranscription cis-regulatory region binding
L0002218biological_processactivation of innate immune response
L0002376biological_processimmune system process
L0003677molecular_functionDNA binding
L0003678molecular_functionDNA helicase activity
L0003690molecular_functiondouble-stranded DNA binding
L0003691molecular_functiondouble-stranded telomeric DNA binding
L0003723molecular_functionRNA binding
L0004386molecular_functionhelicase activity
L0005515molecular_functionprotein binding
L0005524molecular_functionATP binding
L0005576cellular_componentextracellular region
L0005634cellular_componentnucleus
L0005654cellular_componentnucleoplasm
L0005694cellular_componentchromosome
L0005730cellular_componentnucleolus
L0005737cellular_componentcytoplasm
L0005829cellular_componentcytosol
L0005958cellular_componentDNA-dependent protein kinase-DNA ligase 4 complex
L0006281biological_processDNA repair
L0006302biological_processdouble-strand break repair
L0006303biological_processdouble-strand break repair via nonhomologous end joining
L0006310biological_processDNA recombination
L0006351biological_processDNA-templated transcription
L0006974biological_processDNA damage response
L0007004biological_processtelomere maintenance via telomerase
L0008047molecular_functionenzyme activator activity
L0008094molecular_functionATP-dependent activity, acting on DNA
L0016020cellular_componentmembrane
L0016787molecular_functionhydrolase activity
L0016829molecular_functionlyase activity
L0016853molecular_functionisomerase activity
L0016887molecular_functionATP hydrolysis activity
L0031625molecular_functionubiquitin protein ligase binding
L0032040cellular_componentsmall-subunit processome
L0032204biological_processregulation of telomere maintenance
L0032991cellular_componentprotein-containing complex
L0032993cellular_componentprotein-DNA complex
L0034462biological_processsmall-subunit processome assembly
L0034511molecular_functionU3 snoRNA binding
L0034774cellular_componentsecretory granule lumen
L0042162molecular_functiontelomeric DNA binding
L0042254biological_processribosome biogenesis
L0043138molecular_function3'-5' DNA helicase activity
L0043564cellular_componentKu70:Ku80 complex
L0044877molecular_functionprotein-containing complex binding
L0045027molecular_functionDNA end binding
L0045087biological_processinnate immune response
L0045892biological_processnegative regulation of DNA-templated transcription
L0048660biological_processregulation of smooth muscle cell proliferation
L0051575molecular_function5'-deoxyribose-5-phosphate lyase activity
L0070198biological_processprotein localization to chromosome, telomeric region
L0070419cellular_componentnonhomologous end joining complex
L0071480biological_processcellular response to gamma radiation
L0090734cellular_componentsite of DNA damage
L0140078molecular_functionclass I DNA-(apurinic or apyrimidinic site) endonuclease activity
L1904430biological_processnegative regulation of t-circle formation
L1990904cellular_componentribonucleoprotein complex
M0005515molecular_functionprotein binding
M0005634cellular_componentnucleus
M0005654cellular_componentnucleoplasm
M0005694cellular_componentchromosome
M0005737cellular_componentcytoplasm
M0006281biological_processDNA repair
M0006303biological_processdouble-strand break repair via nonhomologous end joining
M0006974biological_processDNA damage response
M0035861cellular_componentsite of double-strand break
M0042803molecular_functionprotein homodimerization activity
M0043564cellular_componentKu70:Ku80 complex
M0060090molecular_functionmolecular adaptor activity
M0070182molecular_functionDNA polymerase binding
M0070419cellular_componentnonhomologous end joining complex
P0000793cellular_componentcondensed chromosome
P0003677molecular_functionDNA binding
P0005515molecular_functionprotein binding
P0005634cellular_componentnucleus
P0005654cellular_componentnucleoplasm
P0005694cellular_componentchromosome
P0005737cellular_componentcytoplasm
P0005829cellular_componentcytosol
P0005958cellular_componentDNA-dependent protein kinase-DNA ligase 4 complex
P0006281biological_processDNA repair
P0006284biological_processbase-excision repair
P0006302biological_processdouble-strand break repair
P0006303biological_processdouble-strand break repair via nonhomologous end joining
P0006310biological_processDNA recombination
P0006974biological_processDNA damage response
P0010165biological_processresponse to X-ray
P0016874molecular_functionligase activity
P0019899molecular_functionenzyme binding
P0030674molecular_functionprotein-macromolecule adaptor activity
P0032807cellular_componentDNA ligase IV complex
P0033152biological_processimmunoglobulin V(D)J recombination
P0035861cellular_componentsite of double-strand break
P0042802molecular_functionidentical protein binding
P0051351biological_processpositive regulation of ligase activity
P0070419cellular_componentnonhomologous end joining complex
P0070975molecular_functionFHA domain binding
P1990166biological_processprotein localization to site of double-strand break
P1990683biological_processDNA double-strand break attachment to nuclear envelope
Q0000793cellular_componentcondensed chromosome
Q0003677molecular_functionDNA binding
Q0005515molecular_functionprotein binding
Q0005634cellular_componentnucleus
Q0005654cellular_componentnucleoplasm
Q0005694cellular_componentchromosome
Q0005737cellular_componentcytoplasm
Q0005829cellular_componentcytosol
Q0005958cellular_componentDNA-dependent protein kinase-DNA ligase 4 complex
Q0006281biological_processDNA repair
Q0006284biological_processbase-excision repair
Q0006302biological_processdouble-strand break repair
Q0006303biological_processdouble-strand break repair via nonhomologous end joining
Q0006310biological_processDNA recombination
Q0006974biological_processDNA damage response
Q0010165biological_processresponse to X-ray
Q0016874molecular_functionligase activity
Q0019899molecular_functionenzyme binding
Q0030674molecular_functionprotein-macromolecule adaptor activity
Q0032807cellular_componentDNA ligase IV complex
Q0033152biological_processimmunoglobulin V(D)J recombination
Q0035861cellular_componentsite of double-strand break
Q0042802molecular_functionidentical protein binding
Q0051351biological_processpositive regulation of ligase activity
Q0070419cellular_componentnonhomologous end joining complex
Q0070975molecular_functionFHA domain binding
Q1990166biological_processprotein localization to site of double-strand break
Q1990683biological_processDNA double-strand break attachment to nuclear envelope
S0000166molecular_functionnucleotide binding
S0000460biological_processmaturation of 5.8S rRNA
S0000723biological_processtelomere maintenance
S0000781cellular_componentchromosome, telomeric region
S0000785cellular_componentchromatin
S0001933biological_processnegative regulation of protein phosphorylation
S0002218biological_processactivation of innate immune response
S0002376biological_processimmune system process
S0003677molecular_functionDNA binding
S0003690molecular_functiondouble-stranded DNA binding
S0003723molecular_functionRNA binding
S0004672molecular_functionprotein kinase activity
S0004674molecular_functionprotein serine/threonine kinase activity
S0004677molecular_functionDNA-dependent protein kinase activity
S0005515molecular_functionprotein binding
S0005524molecular_functionATP binding
S0005634cellular_componentnucleus
S0005654cellular_componentnucleoplasm
S0005667cellular_componenttranscription regulator complex
S0005730cellular_componentnucleolus
S0005829cellular_componentcytosol
S0005958cellular_componentDNA-dependent protein kinase-DNA ligase 4 complex
S0006281biological_processDNA repair
S0006302biological_processdouble-strand break repair
S0006303biological_processdouble-strand break repair via nonhomologous end joining
S0006310biological_processDNA recombination
S0006338biological_processchromatin remodeling
S0006468biological_processprotein phosphorylation
S0006974biological_processDNA damage response
S0008630biological_processintrinsic apoptotic signaling pathway in response to DNA damage
S0016020cellular_componentmembrane
S0016233biological_processtelomere capping
S0016301molecular_functionkinase activity
S0016740molecular_functiontransferase activity
S0018105biological_processpeptidyl-serine phosphorylation
S0018107biological_processpeptidyl-threonine phosphorylation
S0019899molecular_functionenzyme binding
S0019904molecular_functionprotein domain specific binding
S0031571biological_processmitotic G1 DNA damage checkpoint signaling
S0032040cellular_componentsmall-subunit processome
S0032869biological_processcellular response to insulin stimulus
S0032991cellular_componentprotein-containing complex
S0032993cellular_componentprotein-DNA complex
S0033152biological_processimmunoglobulin V(D)J recombination
S0034462biological_processsmall-subunit processome assembly
S0034511molecular_functionU3 snoRNA binding
S0035979molecular_functionhistone H2AXS139 kinase activity
S0036211biological_processprotein modification process
S0042254biological_processribosome biogenesis
S0042752biological_processregulation of circadian rhythm
S0043066biological_processnegative regulation of apoptotic process
S0045087biological_processinnate immune response
S0045621biological_processpositive regulation of lymphocyte differentiation
S0045648biological_processpositive regulation of erythrocyte differentiation
S0045727biological_processpositive regulation of translation
S0045944biological_processpositive regulation of transcription by RNA polymerase II
S0048511biological_processrhythmic process
S0048660biological_processregulation of smooth muscle cell proliferation
S0050678biological_processregulation of epithelial cell proliferation
S0061629molecular_functionRNA polymerase II-specific DNA-binding transcription factor binding
S0070419cellular_componentnonhomologous end joining complex
S0080135biological_processregulation of cellular response to stress
S0097681biological_processdouble-strand break repair via alternative nonhomologous end joining
S0106310molecular_functionprotein serine kinase activity
S0160049biological_processnegative regulation of cGAS/STING signaling pathway
S1902036biological_processregulation of hematopoietic stem cell differentiation
S1905221biological_processpositive regulation of platelet formation
S2001034biological_processpositive regulation of double-strand break repair via nonhomologous end joining
T0000166molecular_functionnucleotide binding
T0000723biological_processtelomere maintenance
T0000725biological_processrecombinational repair
T0000781cellular_componentchromosome, telomeric region
T0000783cellular_componentnuclear telomere cap complex
T0000976molecular_functiontranscription cis-regulatory region binding
T0002218biological_processactivation of innate immune response
T0002376biological_processimmune system process
T0002684biological_processpositive regulation of immune system process
T0003677molecular_functionDNA binding
T0003678molecular_functionDNA helicase activity
T0003690molecular_functiondouble-stranded DNA binding
T0003691molecular_functiondouble-stranded telomeric DNA binding
T0003723molecular_functionRNA binding
T0003824molecular_functioncatalytic activity
T0004386molecular_functionhelicase activity
T0005515molecular_functionprotein binding
T0005524molecular_functionATP binding
T0005576cellular_componentextracellular region
T0005634cellular_componentnucleus
T0005654cellular_componentnucleoplasm
T0005667cellular_componenttranscription regulator complex
T0005694cellular_componentchromosome
T0005730cellular_componentnucleolus
T0005737cellular_componentcytoplasm
T0005829cellular_componentcytosol
T0005958cellular_componentDNA-dependent protein kinase-DNA ligase 4 complex
T0006281biological_processDNA repair
T0006303biological_processdouble-strand break repair via nonhomologous end joining
T0006310biological_processDNA recombination
T0006351biological_processDNA-templated transcription
T0006974biological_processDNA damage response
T0008094molecular_functionATP-dependent activity, acting on DNA
T0010212biological_processresponse to ionizing radiation
T0016020cellular_componentmembrane
T0016787molecular_functionhydrolase activity
T0016829molecular_functionlyase activity
T0016853molecular_functionisomerase activity
T0016887molecular_functionATP hydrolysis activity
T0030332molecular_functioncyclin binding
T0032991cellular_componentprotein-containing complex
T0032993cellular_componentprotein-DNA complex
T0034774cellular_componentsecretory granule lumen
T0042162molecular_functiontelomeric DNA binding
T0043138molecular_function3'-5' DNA helicase activity
T0043564cellular_componentKu70:Ku80 complex
T0044877molecular_functionprotein-containing complex binding
T0045027molecular_functionDNA end binding
T0045087biological_processinnate immune response
T0045621biological_processpositive regulation of lymphocyte differentiation
T0045892biological_processnegative regulation of DNA-templated transcription
T0045893biological_processpositive regulation of DNA-templated transcription
T0045944biological_processpositive regulation of transcription by RNA polymerase II
T0048660biological_processregulation of smooth muscle cell proliferation
T0051575molecular_function5'-deoxyribose-5-phosphate lyase activity
T0070419cellular_componentnonhomologous end joining complex
T0071475biological_processcellular hyperosmotic salinity response
T0071480biological_processcellular response to gamma radiation
T0071481biological_processcellular response to X-ray
T0097110molecular_functionscaffold protein binding
T0097680biological_processdouble-strand break repair via classical nonhomologous end joining
T0140078molecular_functionclass I DNA-(apurinic or apyrimidinic site) endonuclease activity
T1904813cellular_componentficolin-1-rich granule lumen
Functional Information from PROSITE/UniProt
site_idPS00333
Number of Residues25
DetailsDNA_LIGASE_A2 ATP-dependent DNA ligase signature 2. EGIMVKqplsi...YKpdk...RgegwlKIK
ChainResidueDetails
EGLU427-LYS451

site_idPS00522
Number of Residues20
DetailsDNA_POLYMERASE_X DNA polymerase family X signature. GSYrRGkatCgDVDVLIthP
ChainResidueDetails
AGLY416-PRO435

site_idPS00697
Number of Residues9
DetailsDNA_LIGASE_A1 ATP-dependent DNA ligase AMP-binding site. ETKLDGERM
ChainResidueDetails
EGLU271-MET279

site_idPS00915
Number of Residues15
DetailsPI3_4_KINASE_1 Phosphatidylinositol 3- and 4-kinases signature 1. VKgg.EDLRQDqrveQ
ChainResidueDetails
SVAL3752-GLN3766

site_idPS00916
Number of Residues21
DetailsPI3_4_KINASE_2 Phosphatidylinositol 3- and 4-kinases signature 2. ShAlicIshWILgIgDRHlnN
ChainResidueDetails
SSER3907-ASN3927

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues89
DetailsDomain: {"description":"BRCT 1","evidences":[{"source":"PROSITE-ProRule","id":"PRU00033","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues199
DetailsDomain: {"description":"Ku","evidences":[{"evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues62
DetailsRegion: {"description":"Leucine-zipper"}
ChainResidueDetails

site_idSWS_FT_FI4
Number of Residues15
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI5
Number of Residues8
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI6
Number of Residues2
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI7
Number of Residues9
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI8
Number of Residues2
DetailsModified residue: {"description":"Phosphoserine; by PRKDC","evidences":[{"source":"PubMed","id":"14599745","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"22228831","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28500754","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI9
Number of Residues35
DetailsRepeat: {"description":"HEAT 1"}
ChainResidueDetails

site_idSWS_FT_FI10
Number of Residues36
DetailsRepeat: {"description":"HEAT 2"}
ChainResidueDetails

site_idSWS_FT_FI11
Number of Residues33
DetailsRepeat: {"description":"TPR 1"}
ChainResidueDetails

site_idSWS_FT_FI12
Number of Residues28
DetailsRepeat: {"description":"TPR 2"}
ChainResidueDetails

site_idSWS_FT_FI13
Number of Residues33
DetailsRepeat: {"description":"TPR 3"}
ChainResidueDetails

site_idSWS_FT_FI14
Number of Residues32
DetailsDomain: {"description":"FATC","evidences":[{"source":"PROSITE-ProRule","id":"PRU00534","evidenceCode":"ECO:0000255"},{"source":"PROSITE-ProRule","id":"PRU00535","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI15
Number of Residues28
DetailsRegion: {"description":"May split the end of the DNA molecule, with the two strands separating around the region","evidences":[{"source":"PubMed","id":"34352203","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI16
Number of Residues6
DetailsRegion: {"description":"G-loop","evidences":[{"source":"PROSITE-ProRule","id":"PRU00269","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI17
Number of Residues8
DetailsRegion: {"description":"Catalytic loop","evidences":[{"source":"PROSITE-ProRule","id":"PRU00269","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI18
Number of Residues25
DetailsRegion: {"description":"Activation loop","evidences":[{"source":"PROSITE-ProRule","id":"PRU00269","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI19
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19369195","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI20
Number of Residues207
DetailsDomain: {"description":"Ku"}
ChainResidueDetails

site_idSWS_FT_FI21
Number of Residues64
DetailsRegion: {"description":"DNA-binding","evidences":[{"source":"PubMed","id":"15023334","evidenceCode":"ECO:0000305"}]}
ChainResidueDetails

site_idSWS_FT_FI22
Number of Residues109
DetailsRegion: {"description":"Interaction with XRCC5","evidences":[{"source":"PubMed","id":"15023334","evidenceCode":"ECO:0000305"}]}
ChainResidueDetails

site_idSWS_FT_FI23
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine; by PRKDC","evidences":[{"source":"PubMed","id":"9362500","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI24
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"15023334","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI25
Number of Residues2
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"15023334","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI26
Number of Residues1
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"21406692","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI27
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI28
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

247536

PDB entries from 2026-01-14

PDB statisticsPDBj update infoContact PDBjnumon