HEADER RNA 31-MAR-23 8SA5 TITLE ADENOSYLCOBALAMIN-BOUND RIBOSWITCH DIMER, FORM 4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENOSYLCOBALAMIN RIBOSWITCH FORM 4; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: CALDANAEROBACTER SUBTERRANEUS SUBSP. SOURCE 4 TENGCONGENSIS; SOURCE 5 ORGANISM_TAXID: 119072 KEYWDS RNA COBALAMIN RIBOSWITCH, RNA EXPDTA ELECTRON MICROSCOPY AUTHOR J.DING,J.C.DEME,J.R.STAGNO,P.YU,S.M.LEA,Y.X.WANG REVDAT 3 25-OCT-23 8SA5 1 JRNL REVDAT 2 16-AUG-23 8SA5 1 JRNL REVDAT 1 26-JUL-23 8SA5 0 JRNL AUTH J.DING,J.C.DEME,J.R.STAGNO,P.YU,S.M.LEA,Y.X.WANG JRNL TITL CAPTURING HETEROGENEOUS CONFORMERS OF COBALAMIN RIBOSWITCH JRNL TITL 2 BY CRYO-EM. JRNL REF NUCLEIC ACIDS RES. V. 51 9952 2023 JRNL REFN ESSN 1362-4962 JRNL PMID 37534568 JRNL DOI 10.1093/NAR/GKAD651 REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL 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) : 3.500 REMARK 3 NUMBER OF PARTICLES : 199375 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 8SA5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-23. REMARK 100 THE DEPOSITION ID IS D_1000273243. 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 : HOLODIMER 4 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 6.00 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 : TFS KRIOS REMARK 245 DETECTOR TYPE : FEI FALCON IV (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 500.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 5450.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 U B 21 REMARK 465 A B 22 REMARK 465 C B 23 REMARK 465 C B 24 REMARK 465 A B 25 REMARK 465 U B 26 REMARK 465 U B 27 REMARK 465 G B 28 REMARK 465 C B 29 REMARK 465 A B 30 REMARK 465 C B 31 REMARK 465 U B 32 REMARK 465 C B 33 REMARK 465 C B 34 REMARK 465 G B 35 REMARK 465 G B 36 REMARK 465 U B 37 REMARK 465 A B 38 REMARK 465 G B 39 REMARK 465 C B 40 REMARK 465 G B 41 REMARK 465 C B 97 REMARK 465 G B 98 REMARK 465 A B 99 REMARK 465 A B 100 REMARK 465 G B 101 REMARK 465 C B 102 REMARK 465 C B 103 REMARK 465 C B 104 REMARK 465 U B 105 REMARK 465 A B 106 REMARK 465 G B 107 REMARK 465 U B 108 REMARK 465 A B 109 REMARK 465 A B 110 REMARK 465 G B 111 REMARK 465 C B 112 REMARK 465 C B 113 REMARK 465 A B 114 REMARK 465 C B 115 REMARK 465 U B 116 REMARK 465 G B 117 REMARK 465 C B 118 REMARK 465 C B 119 REMARK 465 G B 120 REMARK 465 A B 121 REMARK 465 A B 122 REMARK 465 A B 123 REMARK 465 G B 124 REMARK 465 G B 125 REMARK 465 U B 126 REMARK 465 G B 127 REMARK 465 G B 128 REMARK 465 G B 129 REMARK 465 A B 130 REMARK 465 A B 131 REMARK 465 G B 132 REMARK 465 G B 133 REMARK 465 C B 134 REMARK 465 A B 135 REMARK 465 G B 136 REMARK 465 G B 137 REMARK 465 G B 138 REMARK 465 U B 139 REMARK 465 G B 140 REMARK 465 G B 141 REMARK 465 A B 142 REMARK 465 G B 143 REMARK 465 G B 144 REMARK 465 A B 145 REMARK 465 U B 146 REMARK 465 G B 147 REMARK 465 A B 148 REMARK 465 G B 149 REMARK 465 U B 150 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-40265 RELATED DB: EMDB REMARK 900 ADENOSYLCOBALAMIN-BOUND RIBOSWITCH DIMER, FORM 4 DBREF 8SA5 A 1 210 PDB 8SA5 8SA5 1 210 DBREF 8SA5 B 1 210 PDB 8SA5 8SA5 1 210 SEQRES 1 A 210 G G U U A A A G C C U U A SEQRES 2 A 210 U G G U C G C U A C C A U SEQRES 3 A 210 U G C A C U C C G G U A G SEQRES 4 A 210 C G U U A A A A G G G A A SEQRES 5 A 210 G A C G G G U G A G A A U SEQRES 6 A 210 C C C G C G C A G C C C C SEQRES 7 A 210 C G C U A C U G U G A G G SEQRES 8 A 210 G A G G A C G A A G C C C SEQRES 9 A 210 U A G U A A G C C A C U G SEQRES 10 A 210 C C G A A A G G U G G G A SEQRES 11 A 210 A G G C A G G G U G G A G SEQRES 12 A 210 G A U G A G U C C C G A G SEQRES 13 A 210 C C A G G A G A C C U G C SEQRES 14 A 210 C A U A A G G U U U U A G SEQRES 15 A 210 A A G U U C G C C U U C G SEQRES 16 A 210 G G G G G A A G G U G A A SEQRES 17 A 210 C A SEQRES 1 B 210 G G U U A A A G C C U U A SEQRES 2 B 210 U G G U C G C U A C C A U SEQRES 3 B 210 U G C A C U C C G G U A G SEQRES 4 B 210 C G U U A A A A G G G A A SEQRES 5 B 210 G A C G G G U G A G A A U SEQRES 6 B 210 C C C G C G C A G C C C C SEQRES 7 B 210 C G C U A C U G U G A G G SEQRES 8 B 210 G A G G A C G A A G C C C SEQRES 9 B 210 U A G U A A G C C A C U G SEQRES 10 B 210 C C G A A A G G U G G G A SEQRES 11 B 210 A G G C A G G G U G G A G SEQRES 12 B 210 G A U G A G U C C C G A G SEQRES 13 B 210 C C A G G A G A C C U G C SEQRES 14 B 210 C A U A A G G U U U U A G SEQRES 15 B 210 A A G U U C G C C U U C G SEQRES 16 B 210 G G G G G A A G G U G A A SEQRES 17 B 210 C A HET B1Z A 301 109 HET B1Z B 301 109 HETNAM B1Z ADENOSYLCOBALAMIN HETSYN B1Z COBAMAMIDE FORMUL 3 B1Z 2(C72 H101 CO N18 O17 P) 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