Loading
PDBj
English日本語简体中文繁體中文한국어
✖
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help
SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

2B5L

Crystal Structure of DDB1 In Complex with Simian Virus 5 V Protein

Functional Information from GO Data
ChainGOidnamespacecontents
A0000109cellular_componentnucleotide-excision repair complex
A0000781cellular_componentchromosome, telomeric region
A0003676molecular_functionnucleic acid binding
A0003677molecular_functionDNA binding
A0003684molecular_functiondamaged DNA binding
A0005515molecular_functionprotein binding
A0005576cellular_componentextracellular region
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005730cellular_componentnucleolus
A0005737cellular_componentcytoplasm
A0006281biological_processDNA repair
A0006289biological_processnucleotide-excision repair
A0006511biological_processubiquitin-dependent protein catabolic process
A0006974biological_processDNA damage response
A0007056biological_processspindle assembly involved in female meiosis
A0007283biological_processspermatogenesis
A0008283biological_processcell population proliferation
A0010498biological_processproteasomal protein catabolic process
A0010506biological_processregulation of autophagy
A0016567biological_processprotein ubiquitination
A0019076biological_processviral release from host cell
A0030174biological_processregulation of DNA-templated DNA replication initiation
A0030674molecular_functionprotein-macromolecule adaptor activity
A0031297biological_processreplication fork processing
A0031464cellular_componentCul4A-RING E3 ubiquitin ligase complex
A0031465cellular_componentCul4B-RING E3 ubiquitin ligase complex
A0032814biological_processregulation of natural killer cell activation
A0032991cellular_componentprotein-containing complex
A0034644biological_processcellular response to UV
A0035861cellular_componentsite of double-strand break
A0040029biological_processepigenetic regulation of gene expression
A0042127biological_processregulation of cell population proliferation
A0042752biological_processregulation of circadian rhythm
A0042981biological_processregulation of apoptotic process
A0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
A0044725biological_processepigenetic programming in the zygotic pronuclei
A0044877molecular_functionprotein-containing complex binding
A0045070biological_processpositive regulation of viral genome replication
A0045722biological_processpositive regulation of gluconeogenesis
A0045732biological_processpositive regulation of protein catabolic process
A0045995biological_processregulation of embryonic development
A0046726biological_processpositive regulation by virus of viral protein levels in host cell
A0051702biological_processbiological process involved in interaction with symbiont
A0060964biological_processregulation of miRNA-mediated gene silencing
A0070062cellular_componentextracellular exosome
A0070914biological_processUV-damage excision repair
A0071987molecular_functionWD40-repeat domain binding
A0080008cellular_componentCul4-RING E3 ubiquitin ligase complex
A0080135biological_processregulation of cellular response to stress
A0097602molecular_functioncullin family protein binding
A0160072molecular_functionubiquitin ligase complex scaffold activity
A1901987biological_processregulation of cell cycle phase transition
A1901990biological_processregulation of mitotic cell cycle phase transition
A1902412biological_processregulation of mitotic cytokinesis
A1904178biological_processnegative regulation of adipose tissue development
A2000036biological_processregulation of stem cell population maintenance
B0000109cellular_componentnucleotide-excision repair complex
B0000781cellular_componentchromosome, telomeric region
B0003676molecular_functionnucleic acid binding
B0003677molecular_functionDNA binding
B0003684molecular_functiondamaged DNA binding
B0005515molecular_functionprotein binding
B0005576cellular_componentextracellular region
B0005634cellular_componentnucleus
B0005654cellular_componentnucleoplasm
B0005730cellular_componentnucleolus
B0005737cellular_componentcytoplasm
B0006281biological_processDNA repair
B0006289biological_processnucleotide-excision repair
B0006511biological_processubiquitin-dependent protein catabolic process
B0006974biological_processDNA damage response
B0007056biological_processspindle assembly involved in female meiosis
B0007283biological_processspermatogenesis
B0008283biological_processcell population proliferation
B0010498biological_processproteasomal protein catabolic process
B0010506biological_processregulation of autophagy
B0016567biological_processprotein ubiquitination
B0019076biological_processviral release from host cell
B0030174biological_processregulation of DNA-templated DNA replication initiation
B0030674molecular_functionprotein-macromolecule adaptor activity
B0031297biological_processreplication fork processing
B0031464cellular_componentCul4A-RING E3 ubiquitin ligase complex
B0031465cellular_componentCul4B-RING E3 ubiquitin ligase complex
B0032814biological_processregulation of natural killer cell activation
B0032991cellular_componentprotein-containing complex
B0034644biological_processcellular response to UV
B0035861cellular_componentsite of double-strand break
B0040029biological_processepigenetic regulation of gene expression
B0042127biological_processregulation of cell population proliferation
B0042752biological_processregulation of circadian rhythm
B0042981biological_processregulation of apoptotic process
B0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
B0044725biological_processepigenetic programming in the zygotic pronuclei
B0044877molecular_functionprotein-containing complex binding
B0045070biological_processpositive regulation of viral genome replication
B0045722biological_processpositive regulation of gluconeogenesis
B0045732biological_processpositive regulation of protein catabolic process
B0045995biological_processregulation of embryonic development
B0046726biological_processpositive regulation by virus of viral protein levels in host cell
B0051702biological_processbiological process involved in interaction with symbiont
B0060964biological_processregulation of miRNA-mediated gene silencing
B0070062cellular_componentextracellular exosome
B0070914biological_processUV-damage excision repair
B0071987molecular_functionWD40-repeat domain binding
B0080008cellular_componentCul4-RING E3 ubiquitin ligase complex
B0080135biological_processregulation of cellular response to stress
B0097602molecular_functioncullin family protein binding
B0160072molecular_functionubiquitin ligase complex scaffold activity
B1901987biological_processregulation of cell cycle phase transition
B1901990biological_processregulation of mitotic cell cycle phase transition
B1902412biological_processregulation of mitotic cytokinesis
B1904178biological_processnegative regulation of adipose tissue development
B2000036biological_processregulation of stem cell population maintenance
C0003723molecular_functionRNA binding
C0005515molecular_functionprotein binding
C0030430cellular_componenthost cell cytoplasm
C0039502biological_processsymbiont-mediated suppression of host type I interferon-mediated signaling pathway
C0039554biological_processsymbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of MDA-5 activity
C0039563biological_processsymbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT1 activity
C0039564biological_processsymbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT2 activity
C0046872molecular_functionmetal ion binding
C0052031biological_processsymbiont-mediated perturbation of host defense response
C0052170biological_processsymbiont-mediated suppression of host innate immune response
C0060090molecular_functionmolecular adaptor activity
C1990756molecular_functionubiquitin-like ligase-substrate adaptor activity
D0003723molecular_functionRNA binding
D0005515molecular_functionprotein binding
D0030430cellular_componenthost cell cytoplasm
D0039502biological_processsymbiont-mediated suppression of host type I interferon-mediated signaling pathway
D0039554biological_processsymbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of MDA-5 activity
D0039563biological_processsymbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT1 activity
D0039564biological_processsymbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT2 activity
D0046872molecular_functionmetal ion binding
D0052031biological_processsymbiont-mediated perturbation of host defense response
D0052170biological_processsymbiont-mediated suppression of host innate immune response
D0060090molecular_functionmolecular adaptor activity
D1990756molecular_functionubiquitin-like ligase-substrate adaptor activity
Functional Information from PDB Data
site_idAC1
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN C 3001
ChainResidue
CCYS194
CCYS206
CCYS208
CCYS211
site_idAC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN C 3002
ChainResidue
CHIS171
CCYS190
CCYS215
CCYS218
site_idAC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN D 3003
ChainResidue
DCYS206
DCYS208
DCYS211
DCYS194
site_idAC4
Number of Residues3
DetailsBINDING SITE FOR RESIDUE ZN D 3004
ChainResidue
DCYS190
DCYS215
DCYS218
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues92
DetailsRepeat: {"description":"WD 1","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues90
DetailsRepeat: {"description":"WD 2","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues102
DetailsRepeat: {"description":"WD 3","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues104
DetailsRepeat: {"description":"WD 4","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues88
DetailsRepeat: {"description":"WD 5","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues104
DetailsRepeat: {"description":"WD 6","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues92
DetailsRepeat: {"description":"WD 7","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues72
DetailsRepeat: {"description":"WD 8","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues86
DetailsRepeat: {"description":"WD 9","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues92
DetailsRepeat: {"description":"WD 10","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI11
Number of Residues80
DetailsRepeat: {"description":"WD 11","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI12
Number of Residues96
DetailsRepeat: {"description":"WD 12","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI13
Number of Residues98
DetailsRepeat: {"description":"WD 13","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI14
Number of Residues74
DetailsRepeat: {"description":"WD 14","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI15
Number of Residues68
DetailsRepeat: {"description":"WD 15","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9SFM","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI16
Number of Residues120
DetailsRepeat: {"description":"WD 17","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI17
Number of Residues78
DetailsRepeat: {"description":"WD 18","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI18
Number of Residues84
DetailsRepeat: {"description":"WD 19","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI19
Number of Residues102
DetailsRepeat: {"description":"WD 20","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI20
Number of Residues1532
DetailsRegion: {"description":"Interaction with CDT1","evidences":[{"source":"PubMed","id":"15448697","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI21
Number of Residues684
DetailsRegion: {"description":"WD40 beta-propeller A"}
ChainResidueDetails
site_idSWS_FT_FI22
Number of Residues72
DetailsRegion: {"description":"WD40 beta-propeller C"}
ChainResidueDetails
site_idSWS_FT_FI23
Number of Residues606
DetailsRegion: {"description":"WD40 beta-propeller B; Interaction with CUL4A"}
ChainResidueDetails
site_idSWS_FT_FI24
Number of Residues2
DetailsModified residue: {"description":"N-acetylserine","evidences":[{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI25
Number of Residues2
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI26
Number of Residues2
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q9ESW0","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI27
Number of Residues4
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_FI28
Number of Residues40
DetailsRepeat: {"description":"WD 21","evidences":[{"source":"PubMed","id":"41565821","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"9OTY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"9OUL","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI29
Number of Residues2
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"23328395","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4I1S","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI30
Number of Residues10
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"16413485","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16964240","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"23328395","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"2B5L","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2HYE","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4I1S","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI31
Number of Residues4
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"16413485","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"23328395","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"2B5L","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4I1S","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

259693

PDB entries from 2026-09-16

PDB statisticsPDBj update infoContact PDBjnumon