2024-07-17 REL PDBe PDBe PDBe 2021-12-06 2022-06-15 2022-06-15 2024-07-17 European Research Council (ERC) 681365 European Union S.c. Condensin peripheral Ycg1 subcomplex bound to DNA Lecomte L Hassler M Haering C Eustermann S SMC-motor protein, DNA BINDING PROTEIN Shaltiel IA Datta S Lecomte L Hassler M Kschonsak M Bravo S Stober C Ormanns J Eustermann S Haering CH A hold-and-feed mechanism drives directional DNA loop extrusion by condensin. Science US 376 1087 1094 2022 35653469 doi:10.1126/science.abm4012 1095-9203 0038 SCIEAS 7qfw FULLOVERLAP S.c. Condensin peripheral Ycg1 complex bound to DNA S.c. Condensin peripheral Ycg1 complex bound to DNA 0 1 2 3 4 Saccharomyces cerevisiae 0.707 Condensin complex subunit 3 Saccharomyces cerevisiae S288C ATCC 204508 / S288c 0.11798099999999999 1 Saccharomyces cerevisiae W303 LEVO MQDPDGIDINTKIFNSVAEVFQKAQGSYAGHRKHIAVLKKIQSKAVEQGYEDAFNFWFDKLVTKILPLKKNEIIGDRIVK LVAAFIASLERELILAKKQNYKLTNDEEGIFSRFVDQFIRHVLRGVESPDKNVRFRVLQLLAVIMDNIGEIDESLFNLLI LSLNKRIYDREPTVRIQAVFCLTKFQDEEQTEHLTELSDNEENFEATRTLVASIQNDPSAEVRRAAMLNLINDNNTRPYI LERARDVNIVNRRLVYSRILKSMGRKCFDDIEPHIFDQLIEWGLEDRELSVRNACKRLIAHDWLNALDGDLIELLEKLDV SRSSVCVKAIEALFQSRPDILSKIKFPESIWKDFTVEIAFLFRAIYLYCLDNNITEMLEENFPEASKLSEHLNHYILLRY HHNDISNDSQSHFDYNTLEFIIEQLSIAAERYDYSDEVGRRSMLTVVRNMLALTTLSEPLIKIGIRVMKSLSINEKDFVT MAIEIINDIRDDDIEKQEQEEKIKSKKINRRNETSVDEEDENGTHNDEVNEDEEDDNISSFHSAVENLVQGNGNVSESDI INNLPPEKEASSATIVLCLTRSSYMLELVNTPLTENILIASLMDTLITPAVRNTAPNIRELGVKNLGLCCLLDVKLAIDN MYILGMCVSKGNASLKYIALQVIVDIFSVHGNTVVDGEGKVDSISLHKIFYKVLKNNGLPECQVIAAEGLCKLFLADVFT DDDLFETLVLSYFSPINSSNEALVQAFAFCIPVYCFSHPAHQQRMSRTAADILLRLCVLWDDLQSSVIPEVDREAMLKPN IIFQQLLFWTDPRNLVNQTGSTKKDTVQLTFLIDVLKIYAQIEKKEIKKMIITNINAIFLSSEQDYSTLKELLEYSDDIA ENDNLDNVSKNALDKLRNNLNSLIEEINERSETQTKDENNTANDQYSSILGNSFNKSSNDTIEHAADITDGNNTELTKTT VNISAVDNTTEQSNSRKRTRSEAEQIDTSKNLENMSIQDTSTVAKNVSFVLPDEKSDAMSIDEEDKDSESFSEVC Q06680 Condensin complex subunit 2 Saccharomyces cerevisiae S288C ATCC 204508 / S288c 0.092721219 1 Saccharomyces cerevisiae LEVO MTTQLRYENNDDDERVEYNLFTNRSTMMANFEEWIKMATDNKINSRNSWNFALIDYFYDLDVLKDGENNINFQKASATLD GCIKIYSSRVDSVTTETGKLLSGLAQRKTNGASNGDDSNGGNGEGLGGDSDEANIEIDPLTGMPISNDPDVNNTRRRVYN RVLETTLVEFETIKMKELDQELIIDPLFKKALVDFDEGGAKSLLLNTLNIDNTARVIFDASIKDTQNVGQGKLQRKEEEL IERDSLVDDENEPSQSLISTRNDSTVNDSVISAPSMEDEILSLGMDFIKFDQIAVCEISGSIEQLRNVVEDINQAKDFIE NVNNRFDNFLTEEELQAAVPDNAEDDSDGFDMGMQQELCYPDENHDNTSHDEQDDDNVNSTTGSIFEKDLMAYFDENLNR NWRGREHWKVRNFKKANLVNKESDLLEETRTTIGDTTDKNTTDDKSMDTKKKHKQKKVLEIDFFKTDDSFEDKVFASKGR TKIDMPIKNRKNDTHYLLPDDFHFSTDRITRLFIKPAQKMSLFSHRKHTRGDVSSGLFEKSTVSANHSNNDIPTIADEHF WADNYERKEQEEKEKEQSKEVGDVVGGALDNPFEDDMDGVDFNQAFEGTDDNEEASVKLDLQDDEDHKFPIRENKVTYSR VSKKVDVRRLKKNVWRSINNLIQEHDSRKNREQSSNDSETHTEDESTKELKFSDIIQGISKMYSDDTLKDISTSFCFICL LHLANEHGLQITHTENYNDLIVNYEDLATTQAASLVGGGHHRPHHGGHHHHHHGGRIFYPYDVPDYAGYPYDVPDYAGSY PYDVPNYAAGH P38170 Synthetic DNA ligand synthetic construct 0.015615376
50bp synthetic DNA ligand with the sequence: 5'-GTTGACAGTG TCGCAACCTG CACAGGCAAG CTGCTGAGTC TGGTGTAGAC-3' The DNA ligand was modelled as poly(dA) as the register could not be determined by cryoEM density.
1 (DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA) (DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA) (DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA) DNA synthetic DNA ligand synthetic construct 0.015164683
50bp synthetic DNA ligand with the sequence: 5'-GTCTACACCAGACTCAGCAGCTTGCCTGTGCAGGTTGCGACACTGTCAAC-3' The DNA ligand was modelled as poly(dT) as the register could not be determined by cryoEM density.
1 (DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT) (DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT) (DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT) DNA singleParticle particle 0.707 7.5 50.0 NaCl Sodium Chloride 20.0 Hepes Hepes 1.0 DTT Dithiothreitol 5.0 MgCl2 Magnesium Chloride Quantifoil R2/2 GOLD 200 PLASMA CLEANING OTHER ETHANE 100 281 FEI VITROBOT MARK IV FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 1.0 1.0 2.0 2.0 130000.0 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 20 GATAN K2 QUANTUM (4k x 4k) COUNTING 3838 3710 1-40 1 6544 8.0 1.0 1 91522 1 C1 3.86 FSC 0.143 CUT-OFF RELION 3.1.3 27701 MAXIMUM LIKELIHOOD RELION 3.1.3 MAXIMUM LIKELIHOOD RELION 3.1.3 3 95000.0 RELION 3.1.3 emd_13950.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 266.24 266.24 266.24 90.0 90.0 90.0 X Y Z -0.029856963 2.2384748 0.0011120869 0.025230687 1.04 1.04 1.04 0.028 AUTHOR cryoEM half map 1 of S.c. condensin peripheral Ycg1 complex bound to DNA 5OQN PDB experimental model AB INITIO MODEL REAL emd_13950_msk_1.map emd_13950_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 266.24 266.24 266.24 90.0 90.0 90.0 X Y Z -0.026718585 0.06001366 0.000022746906 0.0017979897 1.04 1.04 1.04 AUTHOR unsharpened cryoEM map of S.c. condensin peripheral Ycg1 complex bound to DNA emd_13950_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 266.24 266.24 266.24 90.0 90.0 90.0 X Y Z -0.21032105 0.30802304 0.000022841607 0.00543183 1.04 1.04 1.04 AUTHOR cryoEM map of S.c. condensin peripheral Ycg1 complex bound to DNA local-resolution filtered and postprocessed cryo map emd_13950_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 266.24 266.24 266.24 90.0 90.0 90.0 X Y Z -0.051446166 0.08943546 0.000019703557 0.0039714645 1.04 1.04 1.04 AUTHOR cryoEM half map 2 of S.c. condensin peripheral Ycg1 complex bound to DNA emd_13950_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 266.24 266.24 266.24 90.0 90.0 90.0 X Y Z -0.05445432 0.08334037 0.000025960964 0.0041430313 1.04 1.04 1.04 AUTHOR cryoEM half map 2 of S.c. condensin peripheral Ycg1 complex bound to DNA