KEGG   PATHWAY: dre04110
Entry
dre04110                    Pathway                                
Name
Cell cycle - Danio rerio (zebrafish)
Description
Mitotic cell cycle progression is accomplished through a reproducible sequence of events, DNA replication (S phase) and mitosis (M phase) separated temporally by gaps known as G1 and G2 phases. Cyclin-dependent kinases (CDKs) are key regulatory enzymes, each consisting of a catalytic CDK subunit and an activating cyclin subunit. CDKs regulate the cell's progression through the phases of the cell cycle by modulating the activity of key substrates. Downstream targets of CDKs include transcription factor E2F and its regulator Rb. Precise activation and inactivation of CDKs at specific points in the cell cycle are required for orderly cell division. Cyclin-CDK inhibitors (CKIs), such as p16Ink4a, p15Ink4b, p27Kip1, and p21Cip1, are involved in the negative regulation of CDK activities, thus providing a pathway through which the cell cycle is negatively regulated.
 Eukaryotic cells respond to DNA damage by activating signaling pathways that promote cell cycle arrest and DNA repair. In response to DNA damage, the checkpoint kinase ATM phosphorylates and activates Chk2, which in turn directly phosphorylates and activates p53 tumor suppressor protein. p53 and its transcriptional targets play an important role in both G1 and G2 checkpoints. ATR-Chk1-mediated protein degradation of Cdc25A protein phosphatase is also a mechanism conferring intra-S-phase checkpoint activation.
Class
Cellular Processes; Cell growth and death
Pathway map
dre04110  Cell cycle
dre04110

Other DBs
GO: 0000278
Organism
Danio rerio (zebrafish) [GN:dre]
Gene
30222  ccnd1; G1/S-specific cyclin-D1 [KO:K04503]
799608  ccnd2a; G1/S-specific cyclin-D2a [KO:K10151]
565038  ccnd2b; G1/S-specific cyclin-D2b [KO:K10151]
449996  ccnd3; G1/S-specific cyclin-D3 [KO:K10152]
777730  cdk4; cyclin-dependent kinase 4 [KO:K02089] [EC:2.7.11.22]
100034507  cdk6; cyclin-dependent kinase 6 [KO:K02091] [EC:2.7.11.22]
569515  cdk21; cyclin-dependent kinase 6-like [KO:K02091] [EC:2.7.11.22]
777733  rb1; retinoblastoma-associated protein [KO:K06618]
795522  rbl1; retinoblastoma-like protein 1 [KO:K04681]
100331892  rbl2; retinoblastoma-like protein 2 isoform X1 [KO:K16332]
100000720  abl1; tyrosine-protein kinase ABL1 isoform X1 [KO:K06619] [EC:2.7.10.2]
192302  hdac1; histone deacetylase 1 [KO:K06067] [EC:3.5.1.98]
101885420  e2f1; transcription factor E2F1 [KO:K17454]
568846  si:ch211-160f23.5; transcription factor E2F2 [KO:K09389]
791146  e2f3; transcription factor E2F3 [KO:K06620]
406741  e2f4; transcription factor E2F4 [KO:K04682]
402908  e2f5; transcription factor E2F5 isoform 1 [KO:K04682]
406813  tfdp1a; transcription factor Dp-1a [KO:K04683]
393749  tfdp1b; transcription factor Dp-1b [KO:K04683]
338204  tfdp2; transcription factor Dp-2 [KO:K09392]
30654  gsk3ba; glycogen synthase kinase-3 beta [KO:K03083] [EC:2.7.11.26]
557882  gsk3bb; glycogen synthase kinase 3 beta, genome duplicate b [KO:K03083] [EC:2.7.11.26]
359834  tgfb1a; transforming growth factor, beta 1a precursor [KO:K13375]
563884  tgfb1b; transforming growth factor beta-1 [KO:K13375]
369194  tgfb2; transforming growth factor beta-2 proprotein precursor [KO:K13376]
559723  tgfb2l; transforming growth factor beta-2-like [KO:K13376]
369195  tgfb3; transforming growth factor beta-3 proprotein precursor [KO:K13377]
30639  smad2; mothers against decapentaplegic homolog 2 [KO:K04500]
326283  smad3b; mothers against decapentaplegic homolog 3b [KO:K23605]
58092  smad3a; mothers against decapentaplegic homolog 3a [KO:K23605]
560317  smad10a; uncharacterized protein LOC560317 isoform 2 [KO:K04501]
559111  smad4a; mothers against decapentaplegic homolog 4a [KO:K04501]
100151181  si:dkey-239n17.4; mothers against decapentaplegic homolog 4-like [KO:K04501]
794669  gb:cr929477; mothers against decapentaplegic homolog 4 isoform X1 [KO:K04501]
393141  mycb; transcriptional regulator Myc-B [KO:K04377]
30686  myca; transcriptional regulator Myc-A [KO:K04377]
564967  zbtb17; zinc finger and BTB domain-containing protein 17 isoform X1 [KO:K10500]
555797  cdkn2c; cyclin-dependent kinase 4 inhibitor C [KO:K06622]
100333252  cdkn2d; cyclin-dependent kinase 4 inhibitor D [KO:K06623]
368329  cdkn1bb; cyclin dependent kinase inhibitor 1Bb [KO:K06624]
402862  cdkn1ba; cyclin-dependent kinase inhibitor 1Ba [KO:K06624]
399483  cdkn1ca; cyclin dependent kinase inhibitor 1Ca [KO:K09993]
100004175  cdkn1cb; cyclin-dependent kinase inhibitor 1C-like [KO:K09993]
100151416  cdkn1a; cyclin-dependent kinase inhibitor 1 [KO:K06625]
100151464  cdkn1d; cyclin-dependent kinase inhibitor 1D [KO:K06625]
415165  ccne2; G1/S-specific cyclin-E2 [KO:K06626]
30188  ccne1; G1/S-specific cyclin-E1 [KO:K06626]
406715  cdk2; cyclin-dependent kinase 2 [KO:K02206] [EC:2.7.11.22]
393716  skp1; S-phase kinase-associated protein 1 [KO:K03094]
323883  cul1a; cullin-1a [KO:K03347]
406816  cul1b; cullin-1b [KO:K03347]
449846  rbx1; E3 ubiquitin-protein ligase RBX1 [KO:K03868] [EC:2.3.2.32]
563708  skp2; S-phase kinase-associated protein 2 [KO:K03875]
192295  ccna2; cyclin-A2 [KO:K06627]
404206  ccna1; cyclin-A1 [KO:K06627]
402825  cdc6; cell division control protein 6 homolog [KO:K02213]
566787  cdt1; DNA replication factor Cdt1 isoform X2 [KO:K10727]
554509  orc1; origin recognition complex subunit 1 [KO:K02603]
768161  orc2; origin recognition complex subunit 2 [KO:K02604]
334315  orc3; origin recognition complex subunit 3 [KO:K02605]
406462  orc4; origin recognition complex subunit 4 [KO:K02606]
406479  orc5; origin recognition complex subunit 5 [KO:K02607]
324256  orc6; origin recognition complex subunit 6 [KO:K02608]
192338  mcm2; DNA replication licensing factor MCM2 [KO:K02540] [EC:5.6.2.3]
192323  mcm3; DNA replication licensing factor MCM3 [KO:K02541] [EC:5.6.2.3]
100147915  mcm3l; MCM3 minichromosome maintenance deficient 3 (S. cerevisiae), like [KO:K02541] [EC:5.6.2.3]
337598  mcm4; DNA replication licensing factor MCM4 [KO:K02212] [EC:5.6.2.3]
286747  mcm5; DNA replication licensing factor MCM5 [KO:K02209] [EC:5.6.2.3]
566409  mcm6; DNA replication licensing factor MCM6 [KO:K02542] [EC:5.6.2.3]
564982  mcm6l; MCM6 minichromosome maintenance deficient 6, like [KO:K02542] [EC:5.6.2.3]
192333  mcm7; DNA replication licensing factor MCM7 [KO:K02210] [EC:5.6.2.3]
406695  cdc45; cell division control protein 45 homolog [KO:K06628]
445411  ticrr; treslin [KO:K26117]
100534898  mtbp; mdm2-binding protein [KO:K26116]
492768  cdc7; cell division cycle 7-related protein kinase [KO:K02214] [EC:2.7.11.1]
799015  dbf4; protein DBF4 homolog A [KO:K06629]
566753  dbf4b; uncharacterized protein dbf4b [KO:K06629]
80973  cdk1; cyclin-dependent kinase 1 [KO:K02087] [EC:2.7.11.22 2.7.11.23]
58025  ccnb1; G2/mitotic-specific cyclin-B1 [KO:K05868]
447870  ccnb1l; cyclin B1, like [KO:K05868]
368316  ccnb2; G2/mitotic-specific cyclin-B2 [KO:K21770]
767751  ccnb3; G2/mitotic-specific cyclin-B3 [KO:K21771]
57925  cdc25b; M-phase inducer phosphatase 2 [KO:K05866] [EC:3.1.3.48]
406419  ywhabb; 14-3-3 protein beta/alpha-B [KO:K16197]
335195  ywhaqb; tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide b [KO:K16197]
323055  ywhaba; 14-3-3 protein beta/alpha-A [KO:K16197]
399487  ywhaqa; tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide a [KO:K16197]
321729  ywhabl; tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide like [KO:K16197]
336610  ywhaz; 14-3-3 protein zeta/delta [KO:K16197]
322060  ywhae1; tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide 1 [KO:K06630]
503763  ywhae2; tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide 2 [KO:K06630]
117604  ywhag1; 14-3-3 protein gamma-1 [KO:K16198]
560560  ywhag2; 14-3-3 protein gamma-1 [KO:K16198]
406443  ywhah; 14-3-3 protein eta [KO:K16198]
280649  plk1; serine/threonine-protein kinase PLK1 [KO:K06631] [EC:2.7.11.21]
327060  wee1; wee1-like protein kinase [KO:K06632] [EC:2.7.11.1]
327471  wee2; wee1-like protein kinase 2 isoform 2 [KO:K06632] [EC:2.7.11.1]
100049158  pkmyt1; membrane-associated tyrosine- and threonine-specific cdc2-inhibitory kinase [KO:K06633] [EC:2.7.11.1]
541325  ccnh; cyclin-H [KO:K06634]
405897  cdk7; cyclin-dependent kinase 7 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
568795  anapc1; anaphase-promoting complex subunit 1 isoform X2 [KO:K03348]
100318335  anapc2; anaphase-promoting complex subunit 2 [KO:K03349]
30450  cdc27; cell division cycle protein 27 homolog [KO:K03350]
494046  anapc4; anaphase-promoting complex subunit 4 [KO:K03351]
322854  anapc5; anaphase-promoting complex subunit 5 [KO:K03352]
562014  cdc16; cell division cycle protein 16 homolog [KO:K03353]
558402  anapc7; anaphase-promoting complex subunit 7 [KO:K03354]
393907  cdc23; cell division cycle protein 23 homolog [KO:K03355]
798352  anapc10; anaphase-promoting complex subunit 10 [KO:K03357]
768140  anapc11; anaphase-promoting complex subunit 11 [KO:K03358]
445501  cdc26; anaphase-promoting complex subunit CDC26 [KO:K03359]
569473  anapc13; anaphase-promoting complex subunit 13 [KO:K12456]
751740  anapc15; anaphase-promoting complex subunit 15 [KO:K25228]
550576  anapc16; anaphase-promoting complex subunit 16 [KO:K25229]
406353  cdc20; cell division cycle protein 20 homolog [KO:K03363]
100307086  pttg1; securin [KO:K06635]
797406  espl1; separin isoform X1 [KO:K02365] [EC:3.4.22.49]
797354  smc1b; structural maintenance of chromosomes protein 1B [KO:K06636]
559665  smc1a; structural maintenance of chromosomes protein 1A [KO:K06636]
403060  smc1al; structural maintenance of chromosomes 1A, like [KO:K06636]
324475  smc3; structural maintenance of chromosomes protein 3 [KO:K06669]
322275  rad21a; double-strand-break repair protein rad21 homolog A [KO:K06670]
566831  rad21b; RAD21 cohesin complex component b [KO:K06670]
571082  rad21l1; double-strand-break repair protein rad21-like protein 1 [KO:K06670]
564533  stag1a; cohesin subunit SA-1a [KO:K06671]
560751  stag2b; cohesin subunit SA-2 isoform X1 [KO:K06671]
567168  stag2a; cohesin subunit SA-2a [KO:K06671]
563669  stag1b; cohesin subunit SA-1 [KO:K06671]
100537961  si:ch211-269e2.1; cohesin subunit SA-2 [KO:K06671]
323299  atrx; transcriptional regulator ATRX [KO:K10779]
492353  ddx11; ATP-dependent DNA helicase DDX11 [KO:K11273] [EC:5.6.2.7]
570900  nipbla; nipped-B-like protein A [KO:K06672]
794108  nipblb; nipped-B-like protein B [KO:K06672]
794129  mau2; MAU2 chromatid cohesion factor homolog [KO:K11266]
406740  hdac8; histone deacetylase 8 [KO:K11405] [EC:3.5.1.98]
445395  esco2; N-acetyltransferase ESCO2 [KO:K11268] [EC:2.3.1.-]
100333282  esco1; N-acetyltransferase ESCO1 isoform X2 [KO:K11268] [EC:2.3.1.-]
393967  pds5a; sister chromatid cohesion protein PDS5 homolog A [KO:K11267]
565592  pds5b; sister chromatid cohesion protein PDS5 homolog B [KO:K11267]
100141368  waplb; wings apart-like protein homolog [KO:K25163]
553345  wapla; wings apart-like protein homolog [KO:K25163]
559398  cdca5; sororin [KO:K17390]
791894  aurkb; aurora kinase B [KO:K11479] [EC:2.7.11.1]
791138  sgo1; shugoshin 1 [KO:K11580]
393885  ppp2cab; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
406582  ppp2cb; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
550585  ppp2caa; protein phosphatase 2 catalytic subunit alpha a [KO:K04382] [EC:3.1.3.16]
406685  ppp2r1ba; protein phosphatase 2, regulatory subunit A, beta a [KO:K03456]
449548  ppp2r1bb; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
562460  ppp2r5a; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
562282  ppp2r5b; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
557208  ppp2r5cb; protein phosphatase 2, regulatory subunit B', gamma b isoform 1 [KO:K11584]
406610  ppp2r5d; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584]
373878  ppp2r5eb; protein phosphatase 2, regulatory subunit B', epsilon isoform b [KO:K11584]
373881  ppp2r5ea; protein phosphatase 2, regulatory subunit B', epsilon isoform a [KO:K11584]
100005981  ppp2r5ca; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform [KO:K11584]
445386  ndc80; kinetochore protein NDC80 homolog [KO:K11547]
327226  casc5; kinetochore scaffold 1 isoform X1 [KO:K11542]
317763  ttk; dual specificity protein kinase Ttk [KO:K08866] [EC:2.7.12.1]
393886  mad1l1; mitotic spindle assembly checkpoint protein MAD1 [KO:K06679]
550434  mad2l1; mitotic spindle assembly checkpoint protein MAD2A [KO:K02537]
550258  mad2l2; mitotic spindle assembly checkpoint protein MAD2B [KO:K13728]
567006  bub1bb; mitotic checkpoint serine/threonine-protein kinase BUB1 beta [KO:K06637] [EC:2.7.11.1]
403012  bub3; mitotic checkpoint protein BUB3 [KO:K02180]
100307076  bub1; mitotic checkpoint serine/threonine-protein kinase BUB1 isoform X1 [KO:K02178] [EC:2.7.11.1]
393554  trip13; pachytene checkpoint protein 2 homolog [KO:K22399]
101886806  mad2l1bp; MAD2L1-binding protein [KO:K26093]
393223  fzr1a; fizzy/cell division cycle 20 related 1a [KO:K03364]
100148604  fzr1b; fizzy-related protein homolog isoform X1 [KO:K03364]
445392  fbxo5; F-box only protein 5 [KO:K10292]
393148  cdc14b; dual specificity protein phosphatase CDC14B [KO:K06639] [EC:3.1.3.16 3.1.3.48]
394124  cdc14aa; cell division cycle 14Aa [KO:K06639] [EC:3.1.3.16 3.1.3.48]
565969  cdc14ab; dual specificity protein phosphatase CDC14AB [KO:K06639] [EC:3.1.3.16 3.1.3.48]
559273  ep300a; histone acetyltransferase p300 isoform X1 [KO:K04498] [EC:2.3.1.48]
565612  ep300b; histone acetyltransferase p300 isoform X1 [KO:K04498] [EC:2.3.1.48]
566841  crebbpa; CREB-binding protein isoform X1 [KO:K04498] [EC:2.3.1.48]
567111  crebbpb; CREB binding protein b [KO:K04498] [EC:2.3.1.48]
562283  prkdc; DNA-dependent protein kinase catalytic subunit [KO:K06642] [EC:2.7.11.1]
567770  atr; serine/threonine-protein kinase ATR isoform X2 [KO:K06640] [EC:2.7.11.1]
403064  atm; serine-protein kinase ATM [KO:K04728] [EC:2.7.11.1]
30637  mdm2; E3 ubiquitin-protein ligase Mdm2 isoform 1 [KO:K06643] [EC:2.3.2.27]
30590  tp53; cellular tumor antigen p53 isoform 2 [KO:K04451]
393548  gadd45aa; growth arrest and DNA-damage-inducible, alpha, a [KO:K04402]
402991  gadd45ga; growth arrest and DNA-damage-inducible, gamma a [KO:K04402]
431763  gadd45ab; growth arrest and DNA-damage-inducible, alpha, b [KO:K04402]
406304  gadd45ba; growth arrest and DNA-damage-inducible, beta a [KO:K04402]
497646  gadd45bb; growth arrest and DNA-damage-inducible, beta b [KO:K04402]
406507  gadd45gb.1; growth arrest and DNA-damage-inducible, gamma b, tandem duplicate 1 [KO:K04402]
30678  pcna; proliferating cell nuclear antigen [KO:K04802]
393162  chek1; serine/threonine-protein kinase Chk1 [KO:K02216] [EC:2.7.11.1]
336998  chek2; serine/threonine-protein kinase Chk2 [KO:K06641] [EC:2.7.11.1]
Reference
PMID:7908906
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  Title
D-type cyclin-binding regions of proliferating cell nuclear antigen.
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J Biol Chem 269:11030-6 (1994)
Reference
PMID:8242749
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Welch PJ, Wang JY
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A C-terminal protein-binding domain in the retinoblastoma protein regulates nuclear c-Abl tyrosine kinase in the cell cycle.
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Cell 75:779-90 (1993)
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Reference
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Rb family proteins as modulators of gene expression and new aspects regarding the interaction with chromatin remodeling enzymes.
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Oncogene 25:5263-7 (2006)
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Reference
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Pocket proteins and cell cycle control.
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Oncogene 24:2796-809 (2005)
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Reference
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Boutros R, Lobjois V, Ducommun B
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CDC25 phosphatases in cancer cells: key players? Good targets?
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Nat Rev Cancer 7:495-507 (2007)
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Reference
PMID:9832503
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Glycogen synthase kinase-3beta regulates cyclin D1 proteolysis and subcellular localization.
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Genes Dev 12:3499-511 (1998)
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Transcriptional regulation of the cyclin D1 gene at a glance.
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J Cell Sci 121:3853-7 (2008)
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CDK inhibitors: positive and negative regulators of G1-phase progression.
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Genes Dev 13:1501-12 (1999)
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Shi Y, Massague J.
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Mechanisms of TGF-beta signaling from cell membrane to the nucleus.
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Cell 113:685-700 (2003)
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Kamura T, Hara T, Kotoshiba S, Yada M, Ishida N, Imaki H, Hatakeyama S, Nakayama K, Nakayama KI
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Degradation of p57Kip2 mediated by SCFSkp2-dependent ubiquitylation.
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Proc Natl Acad Sci U S A 100:10231-6 (2003)
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Bond M, Sala-Newby GB, Wu YJ, Newby AC
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Biphasic effect of p21Cip1 on smooth muscle cell proliferation: role of PI 3-kinase and Skp2-mediated degradation.
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Cardiovasc Res 69:198-206 (2006)
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Harris SL, Levine AJ.
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The p53 pathway: positive and negative feedback loops.
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Oncogene 24:2899-908 (2005)
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Surfing the p53 network.
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Nature 408:307-10 (2000)
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PMID:7973727
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Interaction of the p53-regulated protein Gadd45 with proliferating cell nuclear antigen.
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Science 266:1376-80 (1994)
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Reference
PMID:9889196
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Phosphorylation of mammalian CDC6 by cyclin A/CDK2 regulates its subcellular localization.
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EMBO J 18:396-410 (1999)
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Reference
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Sheu YJ, Stillman B
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Cdc7-Dbf4 phosphorylates MCM proteins via a docking site-mediated mechanism to promote S phase progression.
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Mol Cell 24:101-13 (2006)
DOI:10.1016/j.molcel.2006.07.033
Reference
PMID:9029154
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Martinez AM, Afshar M, Martin F, Cavadore JC, Labbe JC, Doree M
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Dual phosphorylation of the T-loop in cdk7: its role in controlling cyclin H binding and CAK activity.
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EMBO J 16:343-54 (1997)
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Reference
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Lolli G, Johnson LN
  Title
CAK-Cyclin-dependent Activating Kinase: a key kinase in cell cycle control and a target for drugs?
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Cell Cycle 4:572-7 (2005)
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Reference
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Musacchio A, Salmon ED
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The spindle-assembly checkpoint in space and time.
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Nat Rev Mol Cell Biol 8:379-93 (2007)
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Reference
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Chromosome cohesion and separation: from men and molecules.
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Curr Biol 13:R104-14 (2003)
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Reference
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Stegmeier F, Amon A
  Title
Closing mitosis: the functions of the Cdc14 phosphatase and its regulation.
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Annu Rev Genet 38:203-32 (2004)
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Reference
PMID:9618481
  Authors
Moustakas A, Kardassis D
  Title
Regulation of the human p21/WAF1/Cip1 promoter in hepatic cells by functional interactions between Sp1 and Smad family members.
  Journal
Proc Natl Acad Sci U S A 95:6733-8 (1998)
DOI:10.1073/pnas.95.12.6733
Reference
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de Boer HR, Guerrero Llobet S, van Vugt MA
  Title
Controlling the response to DNA damage by the APC/C-Cdh1.
  Journal
Cell Mol Life Sci 73:949-60 (2016)
DOI:10.1007/s00018-015-2096-7
Reference
  Authors
Qiao X, Zhang L, Gamper AM, Fujita T, Wan Y
  Title
APC/C-Cdh1: from cell cycle to cellular differentiation and genomic integrity.
  Journal
Cell Cycle 9:3904-12 (2010)
DOI:10.4161/cc.9.19.13585
Related
pathway
dre03030  DNA replication
dre04010  MAPK signaling pathway
dre04120  Ubiquitin mediated proteolysis
dre04210  Apoptosis
KO pathway
ko04110   
LinkDB

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