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- SASDCW6: Chd1-12N12, chromatin remodeler--nucleosome complex, in 60% sucro... -

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Entry
Database: SASBDB / ID: SASDCW6
SampleChd1-12N12, chromatin remodeler--nucleosome complex, in 60% sucrose with AMP-PNP
  • Chromodomain-helicase-DNA-binding protein 1 (protein), Chd1, Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
  • 169 bp DNA (145 bp Widom 601, flanked by 12bp DNA) (DNA), DNA
  • Histone H2A type 1 (protein), H2A, Xenopus laevis
  • Histone H2B 1.1 (protein), H2B, Xenopus laevis
  • Histone H3.2 (protein), H3, Xenopus laevis
  • Histone H4 (protein), H4, Xenopus laevis
Biological speciesSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Xenopus laevis (African clawed frog)

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Sample

SampleName: Chd1-12N12, chromatin remodeler--nucleosome complex, in 60% sucrose with AMP-PNP
Specimen concentration: 1.88 mg/ml / Entity id: 768 / 769 / 770 / 771 / 772 / 773
BufferName: 10 mM Tris, 100 mM NaCl, 2 mM MgCl2, 0.1 mM EDTA, 1 mM DTT, 60% (w/v) sucrose, 0.5 mM AMP-PNP
pH: 7.8
Entity #768Name: Chd1 / Type: protein / Description: Chromodomain-helicase-DNA-binding protein 1 / Formula weight: 133.115 / Num. of mol.: 2
Source: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Sequence: GPQSTVKIPT RFSNRQNKTV NYNIDYSDDD LLESEDDYGS EEALSEENVH EASANPQPED FHGIDIVINH RLKTSLEEGK VLEKTVPDLN NCKENYEFLI KWTDESHLHN TWETYESIGQ VRGLKRLDNY CKQFIIEDQQ VRLDPYVTAE DIEIMDMERE RRLDEFEEFH ...Sequence:
GPQSTVKIPT RFSNRQNKTV NYNIDYSDDD LLESEDDYGS EEALSEENVH EASANPQPED FHGIDIVINH RLKTSLEEGK VLEKTVPDLN NCKENYEFLI KWTDESHLHN TWETYESIGQ VRGLKRLDNY CKQFIIEDQQ VRLDPYVTAE DIEIMDMERE RRLDEFEEFH VPERIIDSQR ASLEDGTSQL QYLVKWRRLN YDEATWENAT DIVKLAPEQV KHFQNRENSK ILPQYSSNYT SQRPRFEKLS VQPPFIKGGE LRDFQLTGIN WMAFLWSKGD NGILADEMGL GKTVQTVAFI SWLIFARRQN GPHIIVVPLS TMPAWLDTFE KWAPDLNCIC YMGNQKSRDT IREYEFYTNP RAKGKKTMKF NVLLTTYEYI LKDRAELGSI KWQFMAVDEA HRLKNAESSL YESLNSFKVA NRMLITGTPL QNNIKELAAL VNFLMPGRFT IDQEIDFENQ DEEQEEYIHD LHRRIQPFIL RRLKKDVEKS LPSKTERILR VELSDVQTEY YKNILTKNYS ALTAGAKGGH FSLLNIMNEL KKASNHPYLF DNAEERVLQK FGDGKMTREN VLRGLIMSSG KMVLLDQLLT RLKKDGHRVL IFSQMVRMLD ILGDYLSIKG INFQRLDGTV PSAQRRISID HFNSPDSNDF VFLLSTRAGG LGINLMTADT VVIFDSDWNP QADLQAMARA HRIGQKNHVM VYRLVSKDTV EEEVLERARK KMILEYAIIS LGVTDGNKYT KKNEPNAGEL SAILKFGAGN MFTATDNQKK LEDLNLDDVL NHAEDHVTTP DLGESHLGGE EFLKQFEVTD YKADIDWDDI IPEEELKKLQ DEEQKRKDEE YVKEQLEMMN RRDNALKKIK NSVNGDGTAA NSDSDDDSTS RSSRRRARAN DMDSIGESEV RALYKAILKF GNLKEILDEL IADGTLPVKS FEKYGETYDE MMEAAKDCVH EEEKNRKEIL EKLEKHATAY RAKLKSGEIK AENQPKDNPL TRLSLKKREK KAVLFNFKGV KSLNAESLLS RVEDLKYLKN LINSNYKDDP LKFSLGNNTP KPVQNWSSNW TKEEDEKLLI GVFKYGYGSW TQIRDDPFLG ITDKIFLNEV HNPVAKKSAS SSDTTPTPSK KGKGITGSSK KVPGAIHLGR RVDYLLSFLR GGLNTKSPS
Entity #769Name: DNA / Type: DNA
Description: 169 bp DNA (145 bp Widom 601, flanked by 12bp DNA)
Formula weight: 52.468 / Num. of mol.: 1
Sequence:
CTTTCAGCTG ATATCGATGT ATATATCTGA CACGTGCCTG GAGACTAGGG AGTAATCCCC TTGGCGGTTA AAACGCGGGG GACAGCGCGT ACGTGCGTTT AAGCGGTGCT AGAGCTGTCT ACGACCAATT GAGCGGCCTC GGCACCGGGA TCTTGATATC AGCTGAAAG
Entity #770Name: H2A / Type: protein / Description: Histone H2A type 1 / Formula weight: 13.966 / Num. of mol.: 1 / Source: Xenopus laevis
Sequence:
MSGRGKQGGK TRAKAKTRSS RAGLQFPVGR VHRLLRKGNY AERVGAGAPV YLAAVLEYLT AEILELAGNA ARDNKKTRII PRHLQLAVRN DEELNKLLGG VTIAQGGVLP NIQSVLLPKK TESAKSAKSK
Entity #771Name: H2B / Type: protein / Description: Histone H2B 1.1 / Formula weight: 13.934 / Num. of mol.: 1 / Source: Xenopus laevis
Sequence:
MPEPAKSAPA PKKGSKKAVT KTQKKDGKKR RKSRKESYAI YVYKVLKQVH PDTGISSKAM SIMNSFVNDV FERIAGEASR LAHYNKRSTI TSREIQTAVR LLLPGELAKH AVSEGTKAVT KYTSAK
Entity #772Name: H3 / Type: protein / Description: Histone H3.2 / Formula weight: 15.388 / Num. of mol.: 1 / Source: Xenopus laevis
Sequence:
MARTKQTARK STGGKAPRKQ LATKAARKSA PATGGVKKPH RYRPGTVALR EIRRYQKSTE LLIRKLPFQR LVREIAQDFK TDLRFQSSAV MALQEASEAY LVGLFEDTNL CAIHAKRVTI MPKDIQLARR IRGERA
Entity #773Name: H4 / Type: protein / Description: Histone H4 / Formula weight: 11.367 / Num. of mol.: 1 / Source: Xenopus laevis
Sequence:
MSGRGKGGKG LGKGGAKRHR KVLRDNIQGI TKPAIRRLAR RGGVKRISGL IYEETRGVLK VFLENVIRDA VTYTEHAKRK TVTAMDVVYA LKRQGRTLYG FGG

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Experimental information

BeamInstrument name: Cornell High Energy Synchrotron Source (CHESS) G1
City: Ithaca, NY / 国: USA / Type of source: X-ray synchrotronSynchrotron / Wavelength: 0.1109 Å / Dist. spec. to detc.: 2.08 mm
DetectorName: Pilatus 200K / Type: Pilatus / Pixsize x: 172 mm
ScanTitle: Chd1-12N12, chromatin remodeler--nucleosome complex, in 60% sucrose with AMP-PNP
Measurement date: Oct 24, 2015 / Storage temperature: 25 °C / Cell temperature: 25 °C / Exposure time: 10 sec. / Number of frames: 40 / Unit: 1/A /
MinMax
Q0.016 0.26
ResultExperimental MW: 105 kDa / Type of curve: single_conc
Comments: 12N12 nucleosomes in the presence of the chromatin remodeler Chd1 in 60% sucrose and AMP-PNP. The complex formed contains two Chd1 proteins bound to each nucleosome. Due to contrast ...Comments: 12N12 nucleosomes in the presence of the chromatin remodeler Chd1 in 60% sucrose and AMP-PNP. The complex formed contains two Chd1 proteins bound to each nucleosome. Due to contrast matching between the solvent and histone proteins, the measured signal is dominated by the DNA component. The models were generated using 3D-DART and custom scripts written in Pymol. The percentage-weighting of each model in the ensemble ('XXXperc') is noted in the following model key/list that sequentially corresponds to models displayed in this entry ordered from top-to-bottom: -------------------------------------------------------------------------------------------------------- --------------SASDCW6_fit1_model1=Chd1_12N12_AMP_01_wrapped_25perc; --------------SASDCW6_fit1_model2=Chd1_12N12_AMP_02_wrapped_01perc; --------------SASDCW6_fit1_model3=Chd1_12N12_AMP_03_wrapped_01perc; --------------SASDCW6_fit1_model4=Chd1_12N12_AMP_04_extreme_02perc; --------------SASDCW6_fit1_model5=Chd1_12N12_AMP_05_extreme_01perc; --------------SASDCW6_fit1_model6=Chd1_12N12_AMP_06_inplane_01perc; --------------SASDCW6_fit1_model7=Chd1_12N12_AMP_07_inplane_11perc; --------------SASDCW6_fit1_model8=Chd1_12N12_AMP_08_inplane_08perc; --------------SASDCW6_fit1_model9=Chd1_12N12_AMP_09_inplane_03perc; --------------SASDCW6_fit1_model10=Chd1_12N12_AMP_10_inplane_12perc; --------------SASDCW6_fit1_model11=Chd1_12N12_AMP_11_inplane_01perc; --------------SASDCW6_fit1_model12=Chd1_12N12_AMP_12_inplane_03perc_dyadfliip; --------------SASDCW6_fit1_model13=Chd1_12N12_AMP_13_inplane_12perc_dyadflip; --------------SASDCW6_fit1_model14=Chd1_12N12_AMP_14_inplane_01perc_dyadflip; --------------SASDCW6_fit1_model15=Chd1_12N12_AMP_15_inplane_01perc_dyadflip; --------------SASDCW6_fit1_model16=Chd1_12N12_AMP_16_inplane_15perc; --------------SASDCW6_fit1_model17=Chd1_12N12_AMP_17_inplane_02perc.
P(R)P(R) errorGuinierGuinier error
Forward scattering, I00.02122 0.00017 0.0216 0.00037
Radius of gyration, Rg5.527 nm0.049 5.619 nm0.119

MinMax
D-16.7
Guinier point1 8

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