HEADER DNA 14-FEB-22 7YWL TITLE SIX DNA HELIX BUNDLE NANOPORE - STATE 3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (50-MER); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (50-MER); COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA (50-MER); COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: DNA (50-MER); COMPND 15 CHAIN: D; COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 5; COMPND 18 MOLECULE: DNA (50-MER); COMPND 19 CHAIN: E; COMPND 20 ENGINEERED: YES; COMPND 21 MOL_ID: 6; COMPND 22 MOLECULE: DNA (50-MER); COMPND 23 CHAIN: F; COMPND 24 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: DNA MOLECULE; SOURCE 4 ORGANISM_TAXID: 2853804; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: DNA MOLECULE; SOURCE 8 ORGANISM_TAXID: 2853804; SOURCE 9 MOL_ID: 3; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: DNA MOLECULE; SOURCE 12 ORGANISM_TAXID: 2853804; SOURCE 13 MOL_ID: 4; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: DNA MOLECULE; SOURCE 16 ORGANISM_TAXID: 2853804; SOURCE 17 MOL_ID: 5; SOURCE 18 SYNTHETIC: YES; SOURCE 19 ORGANISM_SCIENTIFIC: DNA MOLECULE; SOURCE 20 ORGANISM_TAXID: 2853804; SOURCE 21 MOL_ID: 6; SOURCE 22 SYNTHETIC: YES; SOURCE 23 ORGANISM_SCIENTIFIC: DNA MOLECULE; SOURCE 24 ORGANISM_TAXID: 2853804 KEYWDS DNA ORIGAMI, NANOPORE., DNA EXPDTA ELECTRON MICROSCOPY AUTHOR A.JAVED,K.AHMAD,C.LANPHERE,P.COVENEY,S.HOWORKA,E.V.ORLOVA REVDAT 2 05-JUL-23 7YWL 1 JRNL REVDAT 1 24-MAY-23 7YWL 0 JRNL AUTH K.AHMAD,A.JAVED,C.LANPHERE,P.V.COVENEY,E.V.ORLOVA,S.HOWORKA JRNL TITL STRUCTURE AND DYNAMICS OF AN ARCHETYPAL DNA NANOARCHITECTURE JRNL TITL 2 REVEALED VIA CRYO-EM AND MOLECULAR DYNAMICS SIMULATIONS. JRNL REF NAT COMMUN V. 14 3630 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 37336895 JRNL DOI 10.1038/S41467-023-38681-5 REMARK 2 REMARK 2 RESOLUTION. 8.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION, EPU, CTFFIND, IMODFIT, ISOLDE, REMARK 3 CRYOSPARC, CRYOSPARC, CRYOSPARC, REMARK 3 CRYOSPARC, ISOLDE REMARK 3 RECONSTRUCTION SCHEMA : FOURIER SPACE REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : FLEXIBLE FIT REMARK 3 REFINEMENT TARGET : CROSS-CORRELATION REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 8.000 REMARK 3 NUMBER OF PARTICLES : 24318 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 7YWL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-FEB-22. REMARK 100 THE DEPOSITION ID IS D_1292120859. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : SIX DNA HELIX BUNDLE DNA REMARK 245 NANOPORE REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 1.00 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.40 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1200.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2500.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.70 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 120.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : 47000 REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: HEXAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7YWH RELATED DB: PDB REMARK 900 RELATED ID: EMD-14344 RELATED DB: EMDB REMARK 900 SIX DNA HELIX BUNDLE NANOPORE - STATE 3 DBREF 7YWL A 1 50 PDB 7YWL 7YWL 1 50 DBREF 7YWL B 1 50 PDB 7YWL 7YWL 1 50 DBREF 7YWL C 1 50 PDB 7YWL 7YWL 1 50 DBREF 7YWL D 1 50 PDB 7YWL 7YWL 1 50 DBREF 7YWL E 1 50 PDB 7YWL 7YWL 1 50 DBREF 7YWL F 1 50 PDB 7YWL 7YWL 1 50 SEQRES 1 A 50 DA DG DC DG DA DA DC DG DT DG DG DA DT SEQRES 2 A 50 DT DT DT DG DT DC DC DG DA DC DA DT DC SEQRES 3 A 50 DG DG DC DA DA DG DC DT DC DC DC DT DT SEQRES 4 A 50 DT DT DT DC DG DA DC DT DA DT DT SEQRES 1 B 50 DC DC DG DA DT DG DT DC DG DG DA DC DT SEQRES 2 B 50 DT DT DT DA DC DA DC DG DA DT DC DT DT SEQRES 3 B 50 DC DG DC DC DT DG DC DT DG DG DG DT DT SEQRES 4 B 50 DT DT DG DG DG DA DG DC DT DT DG SEQRES 1 C 50 DC DG DA DA DG DA DT DC DG DT DG DT DT SEQRES 2 C 50 DT DT DT DC DC DA DC DA DG DT DT DG DA SEQRES 3 C 50 DT DT DG DC DC DC DT DT DC DA DC DT DT SEQRES 4 C 50 DT DT DC DC DC DA DG DC DA DG DG SEQRES 1 D 50 DA DA DT DC DA DA DC DT DG DT DG DG DT SEQRES 2 D 50 DT DT DT DT DC DT DC DA DC DT DG DG DT SEQRES 3 D 50 DG DA DT DT DA DG DA DA DT DG DC DT DT SEQRES 4 D 50 DT DT DG DT DG DA DA DG DG DG DC SEQRES 1 E 50 DT DC DA DC DC DA DG DT DG DA DG DA DT SEQRES 2 E 50 DT DT DT DT DG DT DC DG DT DA DC DC DA SEQRES 3 E 50 DG DG DT DG DC DA DT DG DG DA DT DT DT SEQRES 4 E 50 DT DT DG DC DA DT DT DC DT DA DA SEQRES 1 F 50 DC DC DT DG DG DT DA DC DG DA DC DA DT SEQRES 2 F 50 DT DT DT DT DC DC DA DC DG DT DT DC DG SEQRES 3 F 50 DC DT DA DA DT DA DG DT DC DG DA DT DT SEQRES 4 F 50 DT DT DA DT DC DC DA DT DG DC DA CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000