2024-07-10 REL PDBe PDBe PDBe 2021-02-25 2021-04-21 2021-04-21 2024-07-10 Austrian Science Fund P31445 Austria National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) R01AI147890 United States National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) R01AI150454 United States National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) R35GM136258 United States European Union (EU) Horizon 2020, iNEXT (PID4246) , Grant number 653706 European Union Structure of the mature RSV CA lattice: hexamer derived from tubes (C2-symmetric) Obr M Ricana CL Retrovirus, Rous sarcoma virus, capsid protein, IP6, VIRAL PROTEIN Obr M Ricana CL Nikulin N Feathers JR Klanschnig M Thader A Johnson MC Vogt VM Schur FKM Dick RA Structure of the mature Rous sarcoma virus lattice reveals a role for IP6 in the formation of the capsid hexamer. Nat Commun UK 12 3226 3226 2021 34050170 doi:10.1038/s41467-021-23506-0 2041-1723 7no2 FULLOVERLAP Rous sarcoma virus - Prague C Rous sarcoma virus - Prague C 0 1 Rous sarcoma virus - Prague C unidentified CANC tubes VIRUS-LIKE PARTICLE OTHER false true Capsid protein p27, alternate cleaved 1 Rous sarcoma virus (strain Prague C) Prague C 0.024773594 3 Escherichia coli BL21(DE3) LEVO PVVIKTEGPAWTPLEPKLITRLADTVRTKGLRSPITMAEVEALMSSPLLPHDVTNLMRVILGPAPYALWMDAWGVQLQTV IAAATRDPRHPANGQGRGERTNLNRLKGLADGMVGNPQGQAALLRPGELVAITASALQAFREVARLAEPAGPWADIMQGP SESFVDFANRLIKAVEGSDLPPSARAPVIIDCFRQKSQPDIQQLIRTAPSTLTTPGEIIKYVLDRQKTA P03322 subtomogramAveraging particle 6.2 20.0 MES 2-(N-morpholino)ethanesulfonic acid 100.0 NaCl sodium chloride 2.0 TCEP tris(2-carboxyethyl)phosphine 100.0 IP6 inositol hexakisphosphate C-flat-2/2 COPPER 200 CARBON HOLEY GLOW DISCHARGE AIR ETHANE 100 277 FEI VITROBOT MARK IV
2.5 seconds blotting time.
FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 100.0 2.7 1.5 4.0 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Quantum LS 20
Areas of interest for high-resolution data collection were identified in low magnification montages. Prior to tomogram acquisition, gain references were acquired and the filter was fully tuned. Microscope tuning was performed using the FEI AutoCTF software. The ilumination mode used during acquisition was nanoprobe.
GATAN K2 QUANTUM (4k x 4k) COUNTING 3708 3838 1-10 1 1.4 3.5 1 C2 BACK PROJECTION 4.3 FSC 0.143 CUT-OFF Dynamo 1.1.333 AV3 amplitude reweighting using AV3 40962 44 45088 MATLAB R2018b IMOD 4.9 Dynamo 1.1.333 MATLAB R2018b OTHER Dynamo 1.1.333
Subtomogram alignment using Dynamo alignment project.
 emd_12487.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 224 224 224 0 0 0 224 224 224 297.42722 297.42722 297.42722 90.0 90.0 90.0 X Y Z -3.074159 3.9029899 0.0013400964 0.26123595 1.3278 1.3278 1.3278 0.88 AUTHOR RSV CA lattice: hexamer derived from tubes 3TIR A 10-226 PDB experimental model AB INITIO MODEL
Three copies of CA monomer were rigid body-fitted into the EM density to accommodate the 3 symmetry independent CA copies. The fit was further refined in Coot. The symmetry independent copies were expanded according to the C2 symmetry, and an additional ring of CTDs adjacent to the CA hexamer was added to account for the continuous lattice during the refinement. The model was refined by iterating between automatic real space refinement in Phenix and manual model inspection/editing in Coot.
Correlation coefficient REAL