2020-04-15 REL PDBj PDBj PDBj 2019-05-06 2020-04-15 2020-04-15 2020-04-15 National Natural Science Foundation of China 31770794 China Ministry of Science and Technology (China) 2017YFA0504700 China Chinese Academy of Sciences XDB08030202 China Helical Reconstruction of S-OPA1 At Nucleotide-free State Zhang D Zhang Y Sun F Zhang D Zhang Y Ma J Zhu C Niu T Chen W Pang X Zhai Y Sun F Cryo-EM structures of S-OPA1 reveal its interactions with membrane and changes upon nucleotide binding. Elife US 9 2020 32228866 doi:10.7554/eLife.50294 2050-084X EMD-9901 associated EM volume truncated S-OPA1(253-960) coated liposomal tube truncated S-OPA1(253-960) coated liposomal tube 0 1
1mg/ml S-OPA1(253-960) was incubated with 1mg/ml liposome at room temperature for 30 min.
Homo sapiens Mitochondrion Mitochondrion inner membrane Escherichia coli Rosetta (DE3) pET32M-3C Dynamin-like 120 kDa protein, mitochondrial, short form for isoform 1; Optic atrophy protein 1 (OPA1), short form for isoform 1 Homo sapiens Escherichia coli LEVO GPGSDKGIHHRKLKKSLIDMYSEVLDVLSDYDASYNTQDHLPRVVVVGDQSAGKTSVLEMIAQARIFPRGSGEMMTRSPVKVTLSEGPHHVALFKDSSREFDLTKEEDLAALRHEIELRMRKNVKEGCTVSPETISLNVKGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAERSIVTDLVSQMDPHGRRTIFVLTKVDLAEKNVASPSRIQQIIEGKLFPMKALGYFAVVTGKGNSSESIEAIREYEEEFFQNSKLLKTSMLKAHQVTTRNLSLAVSDCFWKMVRESVEQQADSFKATRFNLETEWKNNYPRLRELDRNELFEKAKNEILDEVISLSQVTPKHWEEILQQSLWERVSTHVIENIYLPAAQTMNSGTFNTTVDIKLKQWTDKQLPNKAVEVAWETLQEEFSRFMTEPKGKEHDDIFDKLKEAVKEESIKRHKWNDFAEDSLRVIQHNALEDRSISDKQQWDAAIYFMEEALQARLKDTENAIENMVGPDWKKRWLYWKNRTQEQCVHNETKNELEKMLKCNEEHPAYLASDEITTVRKNLESRGVEVDPSLIKDTWHQVYRRHFLKTALNHCNLCRRGFYYYQRHFVDSELECNDVVLFWRIQRMLAITANTLRQQLTNTEVRRLEKNVKEVLEDFAEDGEKKIKLLTGKRVQLAEDLKKVREIQEKLDAFIEALHQEK helical helicalArray 1 8 20.0 Tris Tris(hydroxymethyl)aminomethane 1.0 MgCl2 magnesium chloride 1.0 EGTA EGTA Quantifoil R2/1 COPPER 300 CARBON HOLEY ARRAY GLOW DISCHARGE OTHER ETHANE 100 289 FEI VITROBOT MARK IV
The grid was blotted 3s with a force 1 before plunging.
FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 2.0 4.0 59000.0 98591.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 77.0 82.0 FEI FALCON III (4k x 4k) INTEGRATING 4096 4096 14.0 2112 2.0 25.0 1 1 27.0 20.87 C6 BACK PROJECTION 15.0 FSC 0.143 CUT-OFF SPIDER spiderweb.24.08 5437 Gctf 1.18 6644 SPIDER spiderweb.24.08 a spider script with operation command wi was used to cut the tubes into segments
Tubes were boxed out using the tool e2helixboxer.py of EMAN2. Diameter classification were performed for all the boxed tubes. Then 6644 segments of particles were cutting out with an overlap of 94% for the main diameter class 53nm.
A cylinder was generated by SPIDER with diameter same as the main diameter class 53nm of S-OPA1 and used as starting model to avoid model bias.
 NOT APPLICABLE SPIDER spiderweb.24.08
Final angles were determined by projection matching calculation.
 emd_9901.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 -192 -192 -192 384 384 384 545.27997 545.27997 545.27997 90.0 90.0 90.0 X Y Z -0.02275986 0.04268268 0.008421425 0.010727704 1.42 1.42 1.42 0.027 AUTHOR This is the map by helical reconstruction using IHRSR for SOPA-1 of the nucleotide free state. The resolution is about 15 angstrom by FSC 0.143 criterion. 3SNH A RIGID BODY FIT Cross correlation REAL 1000