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9D0W

Cryo-EM structure of CDK2/CyclinE1 in complex with CRBN/DDB1 and Cpd 4

This is a non-PDB format compatible entry.
Functional Information from GO Data
ChainGOidnamespacecontents
A0000781cellular_componentchromosome, telomeric region
A0003677molecular_functionDNA binding
A0003684molecular_functiondamaged DNA binding
A0005515molecular_functionprotein binding
A0005615cellular_componentextracellular space
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005730cellular_componentnucleolus
A0005737cellular_componentcytoplasm
A0006281biological_processDNA repair
A0006289biological_processnucleotide-excision repair
A0006511biological_processubiquitin-dependent protein catabolic process
A0006915biological_processapoptotic process
A0006974biological_processDNA damage response
A0007056biological_processspindle assembly involved in female meiosis
A0010498biological_processproteasomal protein catabolic process
A0016055biological_processWnt signaling pathway
A0016567biological_processprotein ubiquitination
A0019076biological_processviral release from host cell
A0030674molecular_functionprotein-macromolecule adaptor activity
A0031464cellular_componentCul4A-RING E3 ubiquitin ligase complex
A0031465cellular_componentCul4B-RING E3 ubiquitin ligase complex
A0032991cellular_componentprotein-containing complex
A0034644biological_processcellular response to UV
A0035234biological_processectopic germ cell programmed cell death
A0035861cellular_componentsite of double-strand break
A0042752biological_processregulation of circadian rhythm
A0043066biological_processnegative regulation 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
A0046726biological_processpositive regulation by virus of viral protein levels in host cell
A0048511biological_processrhythmic process
A0051093biological_processnegative regulation of developmental process
A0051702biological_processbiological process involved in interaction with symbiont
A0051898biological_processnegative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction
A0060337biological_processtype I interferon-mediated signaling pathway
A0070062cellular_componentextracellular exosome
A0070914biological_processUV-damage excision repair
A0071987molecular_functionWD40-repeat domain binding
A0080008cellular_componentCul4-RING E3 ubiquitin ligase complex
A0097510biological_processbase-excision repair, AP site formation via deaminated base removal
A0097602molecular_functioncullin family protein binding
A0160072molecular_functionubiquitin ligase complex scaffold activity
A1901990biological_processregulation of mitotic cell cycle phase transition
A2000242biological_processnegative regulation of reproductive process
B0005515molecular_functionprotein binding
B0005634cellular_componentnucleus
B0005737cellular_componentcytoplasm
B0005829cellular_componentcytosol
B0016020cellular_componentmembrane
B0016567biological_processprotein ubiquitination
B0030177biological_processpositive regulation of Wnt signaling pathway
B0031333biological_processnegative regulation of protein-containing complex assembly
B0031334biological_processpositive regulation of protein-containing complex assembly
B0031464cellular_componentCul4A-RING E3 ubiquitin ligase complex
B0034766biological_processnegative regulation of monoatomic ion transmembrane transport
B0035641biological_processlocomotory exploration behavior
B0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
B0044325molecular_functiontransmembrane transporter binding
B0046872molecular_functionmetal ion binding
B0048471cellular_componentperinuclear region of cytoplasm
B0060173biological_processlimb development
C0000082biological_processG1/S transition of mitotic cell cycle
C0000086biological_processG2/M transition of mitotic cell cycle
C0000122biological_processnegative regulation of transcription by RNA polymerase II
C0000166molecular_functionnucleotide binding
C0000287molecular_functionmagnesium ion binding
C0000307cellular_componentcyclin-dependent protein kinase holoenzyme complex
C0000723biological_processtelomere maintenance
C0000781cellular_componentchromosome, telomeric region
C0000793cellular_componentcondensed chromosome
C0000805cellular_componentX chromosome
C0000806cellular_componentY chromosome
C0001673cellular_componentmale germ cell nucleus
C0004672molecular_functionprotein kinase activity
C0004674molecular_functionprotein serine/threonine kinase activity
C0004693molecular_functioncyclin-dependent protein serine/threonine kinase activity
C0005515molecular_functionprotein binding
C0005524molecular_functionATP binding
C0005634cellular_componentnucleus
C0005635cellular_componentnuclear envelope
C0005654cellular_componentnucleoplasm
C0005667cellular_componenttranscription regulator complex
C0005737cellular_componentcytoplasm
C0005768cellular_componentendosome
C0005813cellular_componentcentrosome
C0005829cellular_componentcytosol
C0005856cellular_componentcytoskeleton
C0006260biological_processDNA replication
C0006281biological_processDNA repair
C0006338biological_processchromatin remodeling
C0006351biological_processDNA-templated transcription
C0006468biological_processprotein phosphorylation
C0006813biological_processpotassium ion transport
C0006974biological_processDNA damage response
C0007099biological_processcentriole replication
C0007165biological_processsignal transduction
C0007265biological_processRas protein signal transduction
C0007346biological_processregulation of mitotic cell cycle
C0008284biological_processpositive regulation of cell population proliferation
C0010389biological_processregulation of G2/M transition of mitotic cell cycle
C0010468biological_processregulation of gene expression
C0015030cellular_componentCajal body
C0016301molecular_functionkinase activity
C0016740molecular_functiontransferase activity
C0018105biological_processpeptidyl-serine phosphorylation
C0019904molecular_functionprotein domain specific binding
C0030332molecular_functioncyclin binding
C0031453biological_processpositive regulation of heterochromatin formation
C0031571biological_processmitotic G1 DNA damage checkpoint signaling
C0031848biological_processprotection from non-homologous end joining at telomere
C0032298biological_processpositive regulation of DNA-templated DNA replication initiation
C0035173molecular_functionhistone kinase activity
C0043247biological_processtelomere maintenance in response to DNA damage
C0043687biological_processpost-translational protein modification
C0045740biological_processpositive regulation of DNA replication
C0045893biological_processpositive regulation of DNA-templated transcription
C0046872molecular_functionmetal ion binding
C0051298biological_processcentrosome duplication
C0051301biological_processcell division
C0051321biological_processmeiotic cell cycle
C0071732biological_processcellular response to nitric oxide
C0090398biological_processcellular senescence
C0097123cellular_componentcyclin A1-CDK2 complex
C0097124cellular_componentcyclin A2-CDK2 complex
C0097134cellular_componentcyclin E1-CDK2 complex
C0097135cellular_componentcyclin E2-CDK2 complex
C0097472molecular_functioncyclin-dependent protein kinase activity
C0106310molecular_functionprotein serine kinase activity
C1905784biological_processregulation of anaphase-promoting complex-dependent catabolic process
Functional Information from PROSITE/UniProt
site_idPS00107
Number of Residues24
DetailsPROTEIN_KINASE_ATP Protein kinases ATP-binding region signature. IGEGTYGVVYkArnkltgev..........VALK
ChainResidueDetails
CILE10-LYS33

site_idPS00108
Number of Residues13
DetailsPROTEIN_KINASE_ST Serine/Threonine protein kinases active-site signature. VlHrDLKpqNLLI
ChainResidueDetails
CVAL123-ILE135

site_idPS00292
Number of Residues32
DetailsCYCLINS Cyclins signature. RaiLldWLmevcevykLhretFylAQdFFDRY
ChainResidueDetails
DARG145-TYR176

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues1
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:18691976, ECO:0007744|PubMed:19369195, ECO:0007744|PubMed:23186163
ChainResidueDetails
DSER103
BCYS326
BHIS378
BTRP380
BTRP386
BCYS391
BCYS394

site_idSWS_FT_FI2
Number of Residues5
DetailsBINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU00159, ECO:0000269|PubMed:17095507, ECO:0000269|PubMed:21565702
ChainResidueDetails
CILE10
CLYS33
CGLU81
CASP86
CLYS129

site_idSWS_FT_FI3
Number of Residues2
DetailsBINDING: BINDING => ECO:0000269|PubMed:21565702
ChainResidueDetails
CASN132
CASP145

site_idSWS_FT_FI4
Number of Residues3
DetailsSITE: CDK7 binding => ECO:0000269|PubMed:17373709
ChainResidueDetails
CLYS9
CLYS88
CLEU166

site_idSWS_FT_FI5
Number of Residues1
DetailsMOD_RES: N-acetylmethionine => ECO:0007744|PubMed:22814378
ChainResidueDetails
CMET1

site_idSWS_FT_FI6
Number of Residues1
DetailsMOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861
ChainResidueDetails
CLYS6

site_idSWS_FT_FI7
Number of Residues1
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:1396589, ECO:0000269|PubMed:17095507
ChainResidueDetails
CTHR14

site_idSWS_FT_FI8
Number of Residues1
DetailsMOD_RES: Phosphotyrosine; by WEE1 => ECO:0000269|PubMed:1396589, ECO:0000269|PubMed:17095507, ECO:0007744|PubMed:19690332
ChainResidueDetails
CTYR15

site_idSWS_FT_FI9
Number of Residues1
DetailsMOD_RES: Phosphotyrosine => ECO:0007744|PubMed:19369195
ChainResidueDetails
CTYR19

site_idSWS_FT_FI10
Number of Residues1
DetailsMOD_RES: Phosphothreonine; by CAK and CCRK => ECO:0000269|PubMed:1396589, ECO:0000269|PubMed:14597612, ECO:0000269|PubMed:16325401, ECO:0000269|PubMed:17095507, ECO:0000269|PubMed:17570665, ECO:0000269|PubMed:20147522, ECO:0000269|PubMed:20360007, ECO:0000269|PubMed:21565702, ECO:0000305|PubMed:28666995
ChainResidueDetails
CTPO160

237735

PDB entries from 2025-06-18

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