1AXC

HUMAN PCNA

> Summary

Summary for 1AXC

DescriptorPCNA, P21/WAF1
Functional Keywordsdna, replication, processivity, oncogene, waf1, cip1, complex (dna-binding protein-dna), complex (dna-binding protein-dna) complex, complex (dna-binding protein/dna)
Biological sourceHomo sapiens (human)
Cellular locationNucleus P12004
Cytoplasm P38936
Total number of polymer chains6
Total molecular weight94725.46
Authors
Gulbis, J.M.,Kuriyan, J. (deposition date: 1997-10-14, release date: 1998-01-28, modification date: 2009-02-24)
Primary citation
Gulbis, J.M.,Kelman, Z.,Hurwitz, J.,O'Donnell, M.,Kuriyan, J.
Structure of the C-terminal region of p21(WAF1/CIP1) complexed with human PCNA.
Cell(Cambridge,Mass.), 87:297-306, 1996
PubMed: 8861913
DOI: 10.1016/S0092-8674(00)81347-1
MImport into Mendeley
Experimental method
X-RAY DIFFRACTION (2.6 Å)
NMR Information
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Structure validation

RfreeClashscoreRamachandran outliersSidechain outliersRSRZ outliers0.293140.1%1.0%1.5%MetricValuePercentile RanksWorseBetterPercentile relative to all X-ray structuresPercentile relative to X-ray structures of similar resolution

More Asymmetric unit images

Molmil generated image of 1axc
no rotation
Molmil generated image of 1axc
rotated about x axis by 90°
Molmil generated image of 1axc
rotated about y axis by 90°

> Structural details

Sequence viewer

Contents of the asymmetric unit

PolymersNumber of chains6
Total molecular weight94725.5
Non-Polymers*Number of molecules0
Total molecular weight0.0
All*Total molecular weight94725.5
*Water molecules are not included.

> Experimental details

Refinement Statistics

Experimental method:X-RAY DIFFRACTION (2.6 Å)

Cell axes83.50083.500233.900
Cell angles90.0090.00120.00
SpacegroupP 32 2 1
Resolution limits15.00 - 2.60
the highest resolution shell value -
R-factor0.192
R-work0.19200 (0.00000*)
R-free0.28900
RMSD bond length0.008
RMSD bond angle1.400

Data Collection Statistics

Resolution limits15.00 - 2.60
the highest resolution shell value -
Number of reflections33552
Number of measurements130418*
Rmerge_l_obs0.073
the highest resolution shell value0.278*
Completeness96.0
the highest resolution shell value96.4*
Redundancy3.9

Crystallization Conditions

crystal IDmethodpHpH rangetemperatureunit
1Vapor diffusion, hanging drop*5.6*4**

Crystallization Reagents

IDcrystal IDsolution IDreagent nameconcentrationdetails
Crystallization Reagents in Literatures*
IDcrystal IDsolutionreagent nameconcentration (unit)details
11dropspermine1 (M)
21reservoirsodium citrate100 (mM)
31reservoirMPD30 (%(v/v))
41reservoirsodium/potassium phosphate200 (mM)
Annotated Information is extracted from Literature Info*

> Functional details

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Functional Information from GO Data

ChainGOidnamespacecontents
B0000307cellular_componentcyclin-dependent protein kinase holoenzyme complex
B0005829cellular_componentcytosol
B0005730cellular_componentnucleolus
B0005654cellular_componentnucleoplasm
B0005634cellular_componentnucleus
B0070557cellular_componentPCNA-p21 complex
B0048471cellular_componentperinuclear region of cytoplasm
B0043234cellular_componentprotein complex
B0019912molecular_functioncyclin-dependent protein kinase activating kinase activity
B0004861molecular_functioncyclin-dependent protein serine/threonine kinase inhibitor activity
B0046872molecular_functionmetal ion binding
B0031625molecular_functionubiquitin protein ligase binding
B0031100biological_processanimal organ regeneration
B0007050biological_processcell cycle arrest
B0034198biological_processcellular response to amino acid starvation
B0006974biological_processcellular response to DNA damage stimulus
B0031668biological_processcellular response to extracellular stimulus
B0034605biological_processcellular response to heat
B0071479biological_processcellular response to ionizing radiation
B0071493biological_processcellular response to UV-B
B0090398biological_processcellular senescence
B0006977biological_processDNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest
B0000082biological_processG1/S transition of mitotic cell cycle
B0000086biological_processG2/M transition of mitotic cell cycle
B0060574biological_processintestinal epithelial cell maturation
B0097193biological_processintrinsic apoptotic signaling pathway
B0042771biological_processintrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator
B0071850biological_processmitotic cell cycle arrest
B0043066biological_processnegative regulation of apoptotic process
B0030308biological_processnegative regulation of cell growth
B0008285biological_processnegative regulation of cell proliferation
B0045736biological_processnegative regulation of cyclin-dependent protein serine/threonine kinase activity
B2000134biological_processnegative regulation of G1/S transition of mitotic cell cycle
B0010629biological_processnegative regulation of gene expression
B0042326biological_processnegative regulation of phosphorylation
B0030890biological_processpositive regulation of B cell proliferation
B0048146biological_processpositive regulation of fibroblast proliferation
B0043068biological_processpositive regulation of programmed cell death
B0045860biological_processpositive regulation of protein kinase activity
B2000379biological_processpositive regulation of reactive oxygen species metabolic process
B0050821biological_processprotein stabilization
B0007265biological_processRas protein signal transduction
B0000079biological_processregulation of cyclin-dependent protein serine/threonine kinase activity
B2000278biological_processregulation of DNA biosynthetic process
B0033158biological_processregulation of protein import into nucleus, translocation
B0090399biological_processreplicative senescence
B0046685biological_processresponse to arsenic-containing substance
B0051412biological_processresponse to corticosterone
B0042493biological_processresponse to drug
B0055093biological_processresponse to hyperoxia
B0010243biological_processresponse to organonitrogen compound
B0009636biological_processresponse to toxic substance
B0010165biological_processresponse to X-ray
B0090400biological_processstress-induced premature senescence
D0000307cellular_componentcyclin-dependent protein kinase holoenzyme complex
D0005829cellular_componentcytosol
D0005730cellular_componentnucleolus
D0005654cellular_componentnucleoplasm
D0005634cellular_componentnucleus
D0070557cellular_componentPCNA-p21 complex
D0048471cellular_componentperinuclear region of cytoplasm
D0043234cellular_componentprotein complex
D0019912molecular_functioncyclin-dependent protein kinase activating kinase activity
D0004861molecular_functioncyclin-dependent protein serine/threonine kinase inhibitor activity
D0046872molecular_functionmetal ion binding
D0031625molecular_functionubiquitin protein ligase binding
D0031100biological_processanimal organ regeneration
D0007050biological_processcell cycle arrest
D0034198biological_processcellular response to amino acid starvation
D0006974biological_processcellular response to DNA damage stimulus
D0031668biological_processcellular response to extracellular stimulus
D0034605biological_processcellular response to heat
D0071479biological_processcellular response to ionizing radiation
D0071493biological_processcellular response to UV-B
D0090398biological_processcellular senescence
D0006977biological_processDNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest
D0000082biological_processG1/S transition of mitotic cell cycle
D0000086biological_processG2/M transition of mitotic cell cycle
D0060574biological_processintestinal epithelial cell maturation
D0097193biological_processintrinsic apoptotic signaling pathway
D0042771biological_processintrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator
D0071850biological_processmitotic cell cycle arrest
D0043066biological_processnegative regulation of apoptotic process
D0030308biological_processnegative regulation of cell growth
D0008285biological_processnegative regulation of cell proliferation
D0045736biological_processnegative regulation of cyclin-dependent protein serine/threonine kinase activity
D2000134biological_processnegative regulation of G1/S transition of mitotic cell cycle
D0010629biological_processnegative regulation of gene expression
D0042326biological_processnegative regulation of phosphorylation
D0030890biological_processpositive regulation of B cell proliferation
D0048146biological_processpositive regulation of fibroblast proliferation
D0043068biological_processpositive regulation of programmed cell death
D0045860biological_processpositive regulation of protein kinase activity
D2000379biological_processpositive regulation of reactive oxygen species metabolic process
D0050821biological_processprotein stabilization
D0007265biological_processRas protein signal transduction
D0000079biological_processregulation of cyclin-dependent protein serine/threonine kinase activity
D2000278biological_processregulation of DNA biosynthetic process
D0033158biological_processregulation of protein import into nucleus, translocation
D0090399biological_processreplicative senescence
D0046685biological_processresponse to arsenic-containing substance
D0051412biological_processresponse to corticosterone
D0042493biological_processresponse to drug
D0055093biological_processresponse to hyperoxia
D0010243biological_processresponse to organonitrogen compound
D0009636biological_processresponse to toxic substance
D0010165biological_processresponse to X-ray
D0090400biological_processstress-induced premature senescence
F0000307cellular_componentcyclin-dependent protein kinase holoenzyme complex
F0005829cellular_componentcytosol
F0005730cellular_componentnucleolus
F0005654cellular_componentnucleoplasm
F0005634cellular_componentnucleus
F0070557cellular_componentPCNA-p21 complex
F0048471cellular_componentperinuclear region of cytoplasm
F0043234cellular_componentprotein complex
F0019912molecular_functioncyclin-dependent protein kinase activating kinase activity
F0004861molecular_functioncyclin-dependent protein serine/threonine kinase inhibitor activity
F0046872molecular_functionmetal ion binding
F0031625molecular_functionubiquitin protein ligase binding
F0031100biological_processanimal organ regeneration
F0007050biological_processcell cycle arrest
F0034198biological_processcellular response to amino acid starvation
F0006974biological_processcellular response to DNA damage stimulus
F0031668biological_processcellular response to extracellular stimulus
F0034605biological_processcellular response to heat
F0071479biological_processcellular response to ionizing radiation
F0071493biological_processcellular response to UV-B
F0090398biological_processcellular senescence
F0006977biological_processDNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest
F0000082biological_processG1/S transition of mitotic cell cycle
F0000086biological_processG2/M transition of mitotic cell cycle
F0060574biological_processintestinal epithelial cell maturation
F0097193biological_processintrinsic apoptotic signaling pathway
F0042771biological_processintrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator
F0071850biological_processmitotic cell cycle arrest
F0043066biological_processnegative regulation of apoptotic process
F0030308biological_processnegative regulation of cell growth
F0008285biological_processnegative regulation of cell proliferation
F0045736biological_processnegative regulation of cyclin-dependent protein serine/threonine kinase activity
F2000134biological_processnegative regulation of G1/S transition of mitotic cell cycle
F0010629biological_processnegative regulation of gene expression
F0042326biological_processnegative regulation of phosphorylation
F0030890biological_processpositive regulation of B cell proliferation
F0048146biological_processpositive regulation of fibroblast proliferation
F0043068biological_processpositive regulation of programmed cell death
F0045860biological_processpositive regulation of protein kinase activity
F2000379biological_processpositive regulation of reactive oxygen species metabolic process
F0050821biological_processprotein stabilization
F0007265biological_processRas protein signal transduction
F0000079biological_processregulation of cyclin-dependent protein serine/threonine kinase activity
F2000278biological_processregulation of DNA biosynthetic process
F0033158biological_processregulation of protein import into nucleus, translocation
F0090399biological_processreplicative senescence
F0046685biological_processresponse to arsenic-containing substance
F0051412biological_processresponse to corticosterone
F0042493biological_processresponse to drug
F0055093biological_processresponse to hyperoxia
F0010243biological_processresponse to organonitrogen compound
F0009636biological_processresponse to toxic substance
F0010165biological_processresponse to X-ray
F0090400biological_processstress-induced premature senescence
A0005813cellular_componentcentrosome
A0005737cellular_componentcytoplasm
A0005663cellular_componentDNA replication factor C complex
A0070062cellular_componentextracellular exosome
A0000784cellular_componentnuclear chromosome, telomeric region
A0043596cellular_componentnuclear replication fork
A0005654cellular_componentnucleoplasm
A0005634cellular_componentnucleus
A0043626cellular_componentPCNA complex
A0070557cellular_componentPCNA-p21 complex
A0030894cellular_componentreplisome
A0003682molecular_functionchromatin binding
A0003684molecular_functiondamaged DNA binding
A0032139molecular_functiondinucleotide insertion or deletion binding
A0070182molecular_functionDNA polymerase binding
A0030337molecular_functionDNA polymerase processivity factor activity
A0019899molecular_functionenzyme binding
A0035035molecular_functionhistone acetyltransferase binding
A0042802molecular_functionidentical protein binding
A0032405molecular_functionMutLalpha complex binding
A0000701molecular_functionpurine-specific mismatch base pair DNA N-glycosylase activity
A0030971molecular_functionreceptor tyrosine kinase binding
A0008283biological_processcell proliferation
A0070301biological_processcellular response to hydrogen peroxide
A0034644biological_processcellular response to UV
A0042769biological_processDNA damage response, detection of DNA damage
A0006977biological_processDNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest
A0006271biological_processDNA strand elongation involved in DNA replication
A0030855biological_processepithelial cell differentiation
A0070987biological_processerror-free translesion synthesis
A0042276biological_processerror-prone translesion synthesis
A0044849biological_processestrous cycle
A0000082biological_processG1/S transition of mitotic cell cycle
A0007507biological_processheart development
A0006272biological_processleading strand elongation
A0097421biological_processliver regeneration
A0006298biological_processmismatch repair
A1902990biological_processmitotic telomere maintenance via semi-conservative replication
A0006297biological_processnucleotide-excision repair, DNA gap filling
A0033683biological_processnucleotide-excision repair, DNA incision
A0006296biological_processnucleotide-excision repair, DNA incision, 5'-to lesion
A0032077biological_processpositive regulation of deoxyribonuclease activity
A0045739biological_processpositive regulation of DNA repair
A0045740biological_processpositive regulation of DNA replication
A0016925biological_processprotein sumoylation
A0000083biological_processregulation of transcription involved in G1/S transition of mitotic cell cycle
A0031297biological_processreplication fork processing
A0046686biological_processresponse to cadmium ion
A0071548biological_processresponse to dexamethasone
A0032355biological_processresponse to estradiol
A1902065biological_processresponse to L-glutamate
A0000723biological_processtelomere maintenance
A0000722biological_processtelomere maintenance via recombination
A0006283biological_processtranscription-coupled nucleotide-excision repair
A0019985biological_processtranslesion synthesis
C0005813cellular_componentcentrosome
C0005737cellular_componentcytoplasm
C0005663cellular_componentDNA replication factor C complex
C0070062cellular_componentextracellular exosome
C0000784cellular_componentnuclear chromosome, telomeric region
C0043596cellular_componentnuclear replication fork
C0005654cellular_componentnucleoplasm
C0005634cellular_componentnucleus
C0043626cellular_componentPCNA complex
C0070557cellular_componentPCNA-p21 complex
C0030894cellular_componentreplisome
C0003682molecular_functionchromatin binding
C0003684molecular_functiondamaged DNA binding
C0032139molecular_functiondinucleotide insertion or deletion binding
C0070182molecular_functionDNA polymerase binding
C0030337molecular_functionDNA polymerase processivity factor activity
C0019899molecular_functionenzyme binding
C0035035molecular_functionhistone acetyltransferase binding
C0042802molecular_functionidentical protein binding
C0032405molecular_functionMutLalpha complex binding
C0000701molecular_functionpurine-specific mismatch base pair DNA N-glycosylase activity
C0030971molecular_functionreceptor tyrosine kinase binding
C0008283biological_processcell proliferation
C0070301biological_processcellular response to hydrogen peroxide
C0034644biological_processcellular response to UV
C0042769biological_processDNA damage response, detection of DNA damage
C0006977biological_processDNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest
C0006271biological_processDNA strand elongation involved in DNA replication
C0030855biological_processepithelial cell differentiation
C0070987biological_processerror-free translesion synthesis
C0042276biological_processerror-prone translesion synthesis
C0044849biological_processestrous cycle
C0000082biological_processG1/S transition of mitotic cell cycle
C0007507biological_processheart development
C0006272biological_processleading strand elongation
C0097421biological_processliver regeneration
C0006298biological_processmismatch repair
C1902990biological_processmitotic telomere maintenance via semi-conservative replication
C0006297biological_processnucleotide-excision repair, DNA gap filling
C0033683biological_processnucleotide-excision repair, DNA incision
C0006296biological_processnucleotide-excision repair, DNA incision, 5'-to lesion
C0032077biological_processpositive regulation of deoxyribonuclease activity
C0045739biological_processpositive regulation of DNA repair
C0045740biological_processpositive regulation of DNA replication
C0016925biological_processprotein sumoylation
C0000083biological_processregulation of transcription involved in G1/S transition of mitotic cell cycle
C0031297biological_processreplication fork processing
C0046686biological_processresponse to cadmium ion
C0071548biological_processresponse to dexamethasone
C0032355biological_processresponse to estradiol
C1902065biological_processresponse to L-glutamate
C0000723biological_processtelomere maintenance
C0000722biological_processtelomere maintenance via recombination
C0006283biological_processtranscription-coupled nucleotide-excision repair
C0019985biological_processtranslesion synthesis
E0005813cellular_componentcentrosome
E0005737cellular_componentcytoplasm
E0005663cellular_componentDNA replication factor C complex
E0070062cellular_componentextracellular exosome
E0000784cellular_componentnuclear chromosome, telomeric region
E0043596cellular_componentnuclear replication fork
E0005654cellular_componentnucleoplasm
E0005634cellular_componentnucleus
E0043626cellular_componentPCNA complex
E0070557cellular_componentPCNA-p21 complex
E0030894cellular_componentreplisome
E0003682molecular_functionchromatin binding
E0003684molecular_functiondamaged DNA binding
E0032139molecular_functiondinucleotide insertion or deletion binding
E0070182molecular_functionDNA polymerase binding
E0030337molecular_functionDNA polymerase processivity factor activity
E0019899molecular_functionenzyme binding
E0035035molecular_functionhistone acetyltransferase binding
E0042802molecular_functionidentical protein binding
E0032405molecular_functionMutLalpha complex binding
E0000701molecular_functionpurine-specific mismatch base pair DNA N-glycosylase activity
E0030971molecular_functionreceptor tyrosine kinase binding
E0008283biological_processcell proliferation
E0070301biological_processcellular response to hydrogen peroxide
E0034644biological_processcellular response to UV
E0042769biological_processDNA damage response, detection of DNA damage
E0006977biological_processDNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest
E0006271biological_processDNA strand elongation involved in DNA replication
E0030855biological_processepithelial cell differentiation
E0070987biological_processerror-free translesion synthesis
E0042276biological_processerror-prone translesion synthesis
E0044849biological_processestrous cycle
E0000082biological_processG1/S transition of mitotic cell cycle
E0007507biological_processheart development
E0006272biological_processleading strand elongation
E0097421biological_processliver regeneration
E0006298biological_processmismatch repair
E1902990biological_processmitotic telomere maintenance via semi-conservative replication
E0006297biological_processnucleotide-excision repair, DNA gap filling
E0033683biological_processnucleotide-excision repair, DNA incision
E0006296biological_processnucleotide-excision repair, DNA incision, 5'-to lesion
E0032077biological_processpositive regulation of deoxyribonuclease activity
E0045739biological_processpositive regulation of DNA repair
E0045740biological_processpositive regulation of DNA replication
E0016925biological_processprotein sumoylation
E0000083biological_processregulation of transcription involved in G1/S transition of mitotic cell cycle
E0031297biological_processreplication fork processing
E0046686biological_processresponse to cadmium ion
E0071548biological_processresponse to dexamethasone
E0032355biological_processresponse to estradiol
E1902065biological_processresponse to L-glutamate
E0000723biological_processtelomere maintenance
E0000722biological_processtelomere maintenance via recombination
E0006283biological_processtranscription-coupled nucleotide-excision repair
E0019985biological_processtranslesion synthesis
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Functional Information from PDB Data

site_idNumber of ResiduesDetails
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Functional Information from PDB atom coordinates for the "HETATM" binding sites

site_idNumber of ResiduesDetails
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Functional Information from PROSITE/UniProt

site_idNumber of ResiduesDetails
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Functional Information from SwissProt/UniProt

site_idNumber of ResiduesDetails
SWS_FT_FI11Potential.
ChainResidueDetails
ANA*

SWS_FT_FI21Potential.
ChainResidueDetails
CNA*

SWS_FT_FI31Potential.
ChainResidueDetails
ENA*

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Catalytic Information from CSA

site_idNumber of ResiduesDetails

> Sequence Neighbor

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