HEADER RNA 27-SEP-21 7PTS TITLE RNA ORIGAMI 5-HELIX TILE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5HT-B; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: IN VITRO TRANSCRIBED RNA SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630 KEYWDS RNA, ORIGAMI, NANOSTRUCTURE EXPDTA ELECTRON MICROSCOPY AUTHOR E.K.S.MCRAE,E.S.ANDERSEN REVDAT 3 02-AUG-23 7PTS 1 JRNL REVDAT 2 29-MAR-23 7PTS 1 JRNL REVDAT 1 05-OCT-22 7PTS 0 JRNL AUTH E.K.S.MCRAE,H.O.RASMUSSEN,J.LIU,A.BOGGILD,M.T.A.NGUYEN, JRNL AUTH 2 N.SAMPEDRO VALLINA,T.BOESEN,J.S.PEDERSEN,G.REN,C.GEARY, JRNL AUTH 3 E.S.ANDERSEN JRNL TITL STRUCTURE, FOLDING AND FLEXIBILITY OF CO-TRANSCRIPTIONAL RNA JRNL TITL 2 ORIGAMI. JRNL REF NAT NANOTECHNOL V. 18 808 2023 JRNL REFN ESSN 1748-3395 JRNL PMID 36849548 JRNL DOI 10.1038/S41565-023-01321-6 REMARK 2 REMARK 2 RESOLUTION. 5.71 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, EPU, CRYOSPARC, UCSF REMARK 3 CHIMERAX, ISOLDE, CRYOSPARC, CRYOSPARC, REMARK 3 CRYOSPARC, CRYOSPARC, PHENIX REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 2D1B REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : FLEXIBLE FIT REMARK 3 REFINEMENT TARGET : CORRELATION COEFFICIENT REMARK 3 OVERALL ANISOTROPIC B VALUE : 306.000 REMARK 3 REMARK 3 FITTING PROCEDURE : HELICAL TEMPLATES AND TETRALOOPS WERE REMARK 3 GENERATED IN RNABUILD. KISSING LOOPS WERE MODELLING BASED ON THE REMARK 3 PDB:2D1B STRUCTURE. A COMBINATION OF PHENIX RSR AND ISOLDE WERE REMARK 3 USED TO ARRIVE AT THE FINAL STRUCTURE. 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) : 5.710 REMARK 3 NUMBER OF PARTICLES : 54260 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 7PTS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-SEP-21. REMARK 100 THE DEPOSITION ID IS D_1292118361. 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 : 5 HELIX TILE B REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 3.50 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : 3 MICROLITRE DROPLET, 4 SECOND REMARK 245 DELAY BEFORE BLOTTING, 6 SECOND REMARK 245 BLOT, 0 SECOND DELAY BEFORE REMARK 245 PLUNGING. REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 8.00 REMARK 245 SAMPLE DETAILS : IN VITRO TRANSCRIBED RNA REMARK 245 PURIFIED BY SEC. REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : 1331 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 750.00 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) : 6000.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 130000 REMARK 245 CALIBRATED MAGNIFICATION : NULL 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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: EMD-13636 RELATED DB: EMDB REMARK 900 RNA ORIGAMI 5-HELIX TILE DBREF 7PTS A 1 558 PDB 7PTS 7PTS 1 558 SEQRES 1 A 558 G G A A C U U A U U C A U SEQRES 2 A 558 U A U A C C C C U C A U U SEQRES 3 A 558 U U C G A G U G A G G C G SEQRES 4 A 558 G A U U A G A U U C G U C SEQRES 5 A 558 U G A U C G U A G U G G U SEQRES 6 A 558 G G U G G C U U G C U U C SEQRES 7 A 558 G G C G A G C C C G G C A SEQRES 8 A 558 G G C C U U C G G G C U U SEQRES 9 A 558 G C U C A G G G G U U C G SEQRES 10 A 558 C U C C U G A G A U U A U SEQRES 11 A 558 C A U C C A A C C U C C A SEQRES 12 A 558 A G G A U G G U A A U C C SEQRES 13 A 558 G G C G U C G A U U G U A SEQRES 14 A 558 A G G U C U A A A C A A U SEQRES 15 A 558 U G A C G C A C C A C U A SEQRES 16 A 558 C U A C A G U C C C A A C SEQRES 17 A 558 G A C U G A G G G A C U C SEQRES 18 A 558 G U C G A C U C G G U U A SEQRES 19 A 558 A G A U C G G A A A C C G SEQRES 20 A 558 G G U C G A G G U A U A G SEQRES 21 A 558 U G A A U G A G U U C C A SEQRES 22 A 558 A U U C U C C A U U U A C SEQRES 23 A 558 G G C A U C U U G U G C G SEQRES 24 A 558 A A C C G A U C A C G C A SEQRES 25 A 558 C G A G A U G G U C C U U SEQRES 26 A 558 A C G G G G U G U C C C A SEQRES 27 A 558 A C A G U C G A G G G G C SEQRES 28 A 558 A C G C A G G A U G C C U SEQRES 29 A 558 A G A A U A G A C C A C U SEQRES 30 A 558 A G G U A U C C U C A G U SEQRES 31 A 558 G C G C C A U G C A A U G SEQRES 32 A 558 G A G G A G C A U G G U G SEQRES 33 A 558 C A C U G C A G G G C U C SEQRES 34 A 558 C U G A A A A G G A G U C SEQRES 35 A 558 C U G G C A G A A G G G U SEQRES 36 A 558 U C G C C U U U C U C C C SEQRES 37 A 558 G U A G G G A C G A C U U SEQRES 38 A 558 U C U U U G A A A A A A G SEQRES 39 A 558 G A A G U C C C A G U U U SEQRES 40 A 558 G C U U C G G C G A A C U SEQRES 41 A 558 C C G A C U C U A G G A A SEQRES 42 A 558 A C U A G G G U C G G G U SEQRES 43 A 558 A G A U G G A G A A U U CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 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