2024-11-06 REL PDBe PDBe PDBe 2022-12-15 2023-06-28 2023-06-28 2024-11-06 Medical Research Council (MRC, United Kingdom) MR/N009738/1 and MR/V029142/1 United Kingdom Cryo-EM structure of CDK2-CyclinA in complex with p27 from the SCFSKP2 E3 ligase Complex Rowland RJ Salamina M Endicott JA Noble ME cell cycle, cyclin-dependent kinase, signalling, ubiquitination Rowland RJ Heath R Maskell D Thompson RF Ranson NA Blaza JN Endicott JA Noble MEM Salamina M Cryo-EM structure of SKP1-SKP2-CKS1 in complex with CDK2-cyclin A-p27KIP1. Sci Rep UK 13 10718 10718 2023 37400515 doi:10.1038/s41598-023-37609-9 2045-2322 EMD-16325 other EM volume
EM map of full hexameric SKP1-SKP2-CKS1-CDK2-CyclinA-p27 complex
 EMD-16327 other EM volume
EM particle subtraction map of SKP1-SKP2-CKS1 from full hexameric SCFSKP2 E3 ligase complex
 8bzo FULLOVERLAP Complex of CDK2-CyclinA-p27(kip1)from the SCFSKP2 E3 ligase complex Complex of CDK2-CyclinA-p27(kip1)from the SCFSKP2 E3 ligase complex 0 1 2 3 Homo sapiens 0.074 Cyclin-dependent kinase 2 Homo sapiens 0.033943311999999996
Thr160 phosphorylated CDK2
1 Escherichia coli BL21(DE3) LEVO MENFQKVEKIGEGTYGVVYKARNKLTGEVVALKKIRLDTETEGVPSTAIREISLLKELNHPNIVKLLDVIHTENKLYLVF EFLHQDLKKFMDASALTGIPLPLIKSYLFQLLQGLAFCHSHRVLHRDLKPQNLLINTEGAIKLADFGLARAFGVPVRTY (TPO)HEVVTLWYRAPEILLGCKYYSTAVDIWSLGCIFAEMVTRRALFPGDSEIDQLFRIFRTLGTPDEVVWPGVTSMPD YKPSFPKWARQDFSKVVPPLDEDGRSLLSQMLHYDPNKRISAKAALAHPFFQDVTKPVPHLR P24941 2.7.11.22 Cyclin-A2 Homo sapiens 0.048609573999999996 1 Escherichia coli BL21(DE3) LEVO MLGNSAPGPATREAGSALLALQQTALQEDQENINPEKAAPVQQPRTRAALAVLKSGNPRGLAQQQRPKTRRVAPLKDLPV NDEHVTVPPWKANSKQPAFTIHVDEAEKEAQKKPAESQKIEREDALAFNSAISLPGPRKPLVPLDYPMDGSFESPHTMDM SIILEDEKPVSVNEVPDYHEDIHTYLREMEVKCKPKVGYMKKQPDITNSMRAILVDWLVEVGEEYKLQNETLHLAVNYID RFLSSMSVLRGKLQLVGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLTFDLAAPTVNQFLTQYFL HQQPANCKVESLAMFLGELSLIDADPYLKYLPSVIAGAAFHLALYTVTGQSWPESLIRKTGYTLESLKPCLMDLHQTYLK APQHAQQSIREKYKNSKYHGVSLLNPPETLNL P20248 Cyclin-dependent kinase inhibitor 1B Homo sapiens 0.017678530999999997 1 Escherichia coli BL21(DE3) LEVO MSNVRVSNGSPSLERMDARQAEHPKPSACRNLFGPVDHEELTRDLEKHCRDMEEASQRKWNFDFQNHKPLEGKYEWQEVE KGSLPEFYYRPPRPPKGACKVPAQESQDGSGSRPAAPLIGAPANSEDTHLVDPKTDPSDSQTGLAEQCAGIRKRPATD O43806 singleParticle particle 0.2 7.8 Quantifoil R1.2/1.3 COPPER 400 CARBON HOLEY GLOW DISCHARGE OTHER ETHANE 95 278.15 FEI VITROBOT MARK IV FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 70.0 2.7 1.0 3.0 130000.0 NITROGEN GATAN K2 SUMMIT (4k x 4k) 9.0 65.0 1 1110356 1JSU C1 3.5 FSC 0.143 CUT-OFF cryoSPARC local refinement 136325 MAXIMUM LIKELIHOOD cryoSPARC homogeneous refinement MAXIMUM LIKELIHOOD cryoSPARC non-uniform refinement cryoSPARC emd_16344.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 321.00003 321.00003 321.00003 90.0 90.0 90.0 X Y Z -1.5772796 1.8392177 -0.00065121794 0.029441096 1.07 1.07 1.07 0.2 AUTHOR full map RIGID BODY FIT
Initial fitting was performed in chimera followed by real space refinement in Phenix
REAL 121.0 emd_16344_msk_1.map emd_16344_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 321.00003 321.00003 321.00003 90.0 90.0 90.0 X Y Z -0.61703265 0.7433878 -0.00015724752 0.04690176 1.07 1.07 1.07 AUTHOR half map B emd_16344_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 321.00003 321.00003 321.00003 90.0 90.0 90.0 X Y Z -0.6494232 0.80022204 -0.00016917384 0.04774336 1.07 1.07 1.07 AUTHOR half map A