HEADER RNA BINDING PROTEIN 18-OCT-24 9K2Z TITLE CRYO-EM STRUCTURE OF THE HFMISCB-OMEGA RNA-TARGET DNA COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: HFMISCB; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: OMEGA RNA; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: TARGET DNA STRAND; COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: NON-TARGET DNA STRAND; COMPND 15 CHAIN: D; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METAGENOME; SOURCE 3 ORGANISM_TAXID: 256318; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: METAGENOME; SOURCE 8 ORGANISM_TAXID: 256318; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 MOL_ID: 4; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630 KEYWDS RNA-GUIDED DNA NUCLEASE, RNA BINDING PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR N.NAGAHATA,S.YAMADA,K.YAMASHITA,H.NISHIMASU REVDAT 1 04-FEB-26 9K2Z 0 JRNL AUTH N.NAGAHATA JRNL TITL CRYO-EM STRUCTURE OF THE OAVVISCB-OMEGA RNA-TARGET DNA JRNL TITL 2 COMPLEX JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.78 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, CRYOSPARC, SERVALCAT, REMARK 3 CRYOSPARC, CRYOSPARC, CRYOSPARC, REMARK 3 CRYOSPARC 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) : 2.780 REMARK 3 NUMBER OF PARTICLES : 689275 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 9K2Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-OCT-24. REMARK 100 THE DEPOSITION ID IS D_1300052730. 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 : CRYO-EM STRUCTURE OF THE REMARK 245 OAVVISCB-OMEGA RNA-TARGET DNA REMARK 245 COMPLEX 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 : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 800.00 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) : 5100.00 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 MET A -128 REMARK 465 ALA A -127 REMARK 465 ASP A -126 REMARK 465 LEU A -125 REMARK 465 SER A -124 REMARK 465 LYS A -123 REMARK 465 HIS A -122 REMARK 465 HIS A -121 REMARK 465 HIS A -120 REMARK 465 HIS A -119 REMARK 465 SER A -118 REMARK 465 GLY A -117 REMARK 465 HIS A -116 REMARK 465 HIS A -115 REMARK 465 HIS A -114 REMARK 465 THR A -113 REMARK 465 GLY A -112 REMARK 465 HIS A -111 REMARK 465 HIS A -110 REMARK 465 HIS A -109 REMARK 465 HIS A -108 REMARK 465 SER A -107 REMARK 465 GLY A -106 REMARK 465 SER A -105 REMARK 465 HIS A -104 REMARK 465 HIS A -103 REMARK 465 HIS A -102 REMARK 465 THR A -101 REMARK 465 GLY A -100 REMARK 465 SER A -99 REMARK 465 ALA A -98 REMARK 465 ALA A -97 REMARK 465 GLY A -96 REMARK 465 GLY A -95 REMARK 465 GLU A -94 REMARK 465 GLU A -93 REMARK 465 ASP A -92 REMARK 465 LYS A -91 REMARK 465 LYS A -90 REMARK 465 PRO A -89 REMARK 465 ALA A -88 REMARK 465 GLY A -87 REMARK 465 GLY A -86 REMARK 465 GLU A -85 REMARK 465 GLY A -84 REMARK 465 GLY A -83 REMARK 465 GLY A -82 REMARK 465 ALA A -81 REMARK 465 HIS A -80 REMARK 465 ILE A -79 REMARK 465 ASN A -78 REMARK 465 LEU A -77 REMARK 465 LYS A -76 REMARK 465 VAL A -75 REMARK 465 LYS A -74 REMARK 465 GLY A -73 REMARK 465 GLN A -72 REMARK 465 ASP A -71 REMARK 465 GLY A -70 REMARK 465 ASN A -69 REMARK 465 GLU A -68 REMARK 465 VAL A -67 REMARK 465 PHE A -66 REMARK 465 PHE A -65 REMARK 465 ARG A -64 REMARK 465 ILE A -63 REMARK 465 LYS A -62 REMARK 465 ARG A -61 REMARK 465 SER A -60 REMARK 465 THR A -59 REMARK 465 GLN A -58 REMARK 465 LEU A -57 REMARK 465 LYS A -56 REMARK 465 LYS A -55 REMARK 465 LEU A -54 REMARK 465 MET A -53 REMARK 465 ASN A -52 REMARK 465 ALA A -51 REMARK 465 TYR A -50 REMARK 465 CYS A -49 REMARK 465 ASP A -48 REMARK 465 ARG A -47 REMARK 465 GLN A -46 REMARK 465 SER A -45 REMARK 465 VAL A -44 REMARK 465 ASP A -43 REMARK 465 MET A -42 REMARK 465 THR A -41 REMARK 465 ALA A -40 REMARK 465 ILE A -39 REMARK 465 ALA A -38 REMARK 465 PHE A -37 REMARK 465 LEU A -36 REMARK 465 PHE A -35 REMARK 465 ASP A -34 REMARK 465 GLY A -33 REMARK 465 ARG A -32 REMARK 465 ARG A -31 REMARK 465 LEU A -30 REMARK 465 ARG A -29 REMARK 465 ALA A -28 REMARK 465 GLU A -27 REMARK 465 GLN A -26 REMARK 465 THR A -25 REMARK 465 PRO A -24 REMARK 465 ASP A -23 REMARK 465 GLU A -22 REMARK 465 LEU A -21 REMARK 465 GLU A -20 REMARK 465 MET A -19 REMARK 465 GLU A -18 REMARK 465 ASP A -17 REMARK 465 GLY A -16 REMARK 465 ASP A -15 REMARK 465 GLU A -14 REMARK 465 ILE A -13 REMARK 465 ASP A -12 REMARK 465 ALA A -11 REMARK 465 MET A -10 REMARK 465 LEU A -9 REMARK 465 HIS A -8 REMARK 465 GLN A -7 REMARK 465 THR A -6 REMARK 465 GLY A -5 REMARK 465 GLY A -4 REMARK 465 SER A -3 REMARK 465 SER A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 GLU A 161 REMARK 465 ASP A 162 REMARK 465 VAL A 163 REMARK 465 CYS A 164 REMARK 465 MET A 165 REMARK 465 ASP A 166 REMARK 465 ILE A 167 REMARK 465 ARG A 168 REMARK 465 ALA A 169 REMARK 465 MET A 170 REMARK 465 THR A 171 REMARK 465 ASP A 172 REMARK 465 GLY A 173 REMARK 465 TYR A 174 REMARK 465 LYS A 175 REMARK 465 PRO A 176 REMARK 465 TYR A 177 REMARK 465 ARG A 178 REMARK 465 TRP A 179 REMARK 465 GLN A 180 REMARK 465 TYR A 181 REMARK 465 GLN A 182 REMARK 465 LYS A 183 REMARK 465 SER A 184 REMARK 465 SER A 185 REMARK 465 ARG A 186 REMARK 465 LEU A 187 REMARK 465 ASP A 188 REMARK 465 GLU A 189 REMARK 465 ASN A 190 REMARK 465 LEU A 191 REMARK 465 ARG A 192 REMARK 465 LYS A 193 REMARK 465 ALA A 194 REMARK 465 ALA A 195 REMARK 465 ILE A 196 REMARK 465 ILE A 197 REMARK 465 ARG A 198 REMARK 465 ASP A 199 REMARK 465 GLY A 200 REMARK 465 CYS A 201 REMARK 465 LYS A 202 REMARK 465 CYS A 203 REMARK 465 GLN A 204 REMARK 465 GLU A 205 REMARK 465 CYS A 206 REMARK 465 GLY A 207 REMARK 465 ARG A 208 REMARK 465 SER A 209 REMARK 465 ASN A 210 REMARK 465 CYS A 211 REMARK 465 VAL A 212 REMARK 465 LEU A 213 REMARK 465 GLU A 214 REMARK 465 VAL A 215 REMARK 465 ALA A 216 REMARK 465 HIS A 217 REMARK 465 ILE A 218 REMARK 465 LYS A 219 REMARK 465 ALA A 220 REMARK 465 ARG A 221 REMARK 465 LYS A 222 REMARK 465 TYR A 223 REMARK 465 GLY A 224 REMARK 465 GLY A 225 REMARK 465 ALA A 226 REMARK 465 ASP A 227 REMARK 465 THR A 228 REMARK 465 ILE A 229 REMARK 465 GLY A 230 REMARK 465 ASN A 231 REMARK 465 LEU A 232 REMARK 465 ILE A 233 REMARK 465 THR A 234 REMARK 465 LEU A 235 REMARK 465 CYS A 236 REMARK 465 SER A 237 REMARK 465 GLY A 238 REMARK 465 CYS A 239 REMARK 465 HIS A 240 REMARK 465 GLN A 241 REMARK 465 LYS A 242 REMARK 465 THR A 243 REMARK 465 GLU A 244 REMARK 465 GLY A 245 REMARK 465 ARG A 246 REMARK 465 GLU A 247 REMARK 465 ARG A 248 REMARK 465 GLU A 249 REMARK 465 PHE A 250 REMARK 465 GLU A 251 REMARK 465 ASP A 252 REMARK 465 ARG A 253 REMARK 465 TYR A 254 REMARK 465 PHE A 255 REMARK 465 LYS A 256 REMARK 465 ILE A 257 REMARK 465 ILE A 258 REMARK 465 GLY A 259 REMARK 465 SER A 260 REMARK 465 LYS A 261 REMARK 465 PRO A 262 REMARK 465 LYS A 263 REMARK 465 ARG A 264 REMARK 465 PHE A 265 REMARK 465 ASP A 266 REMARK 465 TYR A 267 REMARK 465 ALA A 268 REMARK 465 MET A 269 REMARK 465 HIS A 270 REMARK 465 VAL A 271 REMARK 465 MET A 272 REMARK 465 ASN A 292 REMARK 465 GLY A 293 REMARK 465 GLY A 294 REMARK 465 GLU A 295 REMARK 465 THR A 296 REMARK 465 ALA A 297 REMARK 465 ASN A 298 REMARK 465 LYS A 299 REMARK 465 ARG A 300 REMARK 465 ILE A 301 REMARK 465 GLU A 302 REMARK 465 TRP A 303 REMARK 465 ASN A 304 REMARK 465 ILE A 305 REMARK 465 VAL A 306 REMARK 465 LYS A 307 REMARK 465 SER A 308 REMARK 465 HIS A 309 REMARK 465 SER A 310 REMARK 465 ASN A 311 REMARK 465 ASP A 312 REMARK 465 ALA A 313 REMARK 465 ILE A 314 REMARK 465 CYS A 315 REMARK 465 ILE A 316 REMARK 465 THR A 317 REMARK 465 ASP A 318 REMARK 465 CYS A 319 REMARK 465 ILE A 320 REMARK 465 SER A 321 REMARK 465 ASP A 322 REMARK 465 THR A 323 REMARK 465 CYS A 324 REMARK 465 ASP A 325 REMARK 465 CYS A 410 REMARK 465 VAL A 411 REMARK 465 G B -26 REMARK 465 G B -25 REMARK 465 A B -24 REMARK 465 A B -23 REMARK 465 U B -22 REMARK 465 U B -21 REMARK 465 G B -20 REMARK 465 U B -19 REMARK 465 G B -18 REMARK 465 A B -17 REMARK 465 G B -16 REMARK 465 G B 19 REMARK 465 U B 20 REMARK 465 C B 21 REMARK 465 U B 22 REMARK 465 A B 23 REMARK 465 A B 24 REMARK 465 U B 25 REMARK 465 A B 26 REMARK 465 U B 27 REMARK 465 A B 28 REMARK 465 U B 29 REMARK 465 A B 30 REMARK 465 G B 31 REMARK 465 A B 32 REMARK 465 C B 33 REMARK 465 G B 58 REMARK 465 U B 59 REMARK 465 A B 60 REMARK 465 U B 61 REMARK 465 A B 62 REMARK 465 A B 63 REMARK 465 U B 64 REMARK 465 U B 65 REMARK 465 A B 66 REMARK 465 C B 67 REMARK 465 G B 323 REMARK 465 A B 324 REMARK 465 A B 325 REMARK 465 A B 326 REMARK 465 A B 327 REMARK 465 U B 328 REMARK 465 G B 329 REMARK 465 A B 330 REMARK 465 A B 331 REMARK 465 DG C -14 REMARK 465 DA C -13 REMARK 465 DA C -12 REMARK 465 DT C -11 REMARK 465 DC C -1 REMARK 465 DC C 16 REMARK 465 DT C 17 REMARK 465 DC C 18 REMARK 465 DA C 19 REMARK 465 DC C 20 REMARK 465 DA C 21 REMARK 465 DA C 22 REMARK 465 DT C 23 REMARK 465 DT C 24 REMARK 465 DC C 25 REMARK 465 DC C 26 REMARK 465 DT C 27 REMARK 465 DT C 28 REMARK 465 DA C 29 REMARK 465 DG C 30 REMARK 465 DA C 31 REMARK 465 DA C 32 REMARK 465 DA C 33 REMARK 465 DA C 34 REMARK 465 DG D 1 REMARK 465 DA D 11 REMARK 465 DT D 12 REMARK 465 DT D 13 REMARK 465 DC D 14 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 A B 34 P A B 34 OP2 0.160 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DT C 7 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 121 73.72 -156.58 REMARK 500 LYS A 339 30.71 -90.74 REMARK 500 ARG A 351 30.45 71.20 REMARK 500 THR A 384 -72.83 -118.77 REMARK 500 LYS A 388 -142.05 -91.89 REMARK 500 LYS A 403 -24.40 86.28 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A B 146 OP2 REMARK 620 2 A B 147 OP2 87.4 REMARK 620 3 HOH B 504 O 92.1 175.6 REMARK 620 4 HOH B 507 O 88.3 91.9 92.5 REMARK 620 5 HOH B 508 O 90.6 88.1 87.5 178.9 REMARK 620 6 HOH B 511 O 174.8 90.9 89.9 86.8 94.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 404 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B 166 OP1 REMARK 620 2 A B 168 OP2 86.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 501 O REMARK 620 2 HOH B 509 O 90.0 REMARK 620 3 HOH B 512 O 91.6 91.4 REMARK 620 4 HOH B 514 O 176.4 93.1 90.3 REMARK 620 5 HOH B 516 O 90.4 87.5 177.7 87.7 REMARK 620 6 HOH B 517 O 87.0 176.7 87.4 90.0 93.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 503 O REMARK 620 2 HOH B 505 O 85.1 REMARK 620 3 HOH B 506 O 89.5 93.1 REMARK 620 4 HOH B 510 O 95.3 179.5 87.2 REMARK 620 5 HOH B 513 O 91.6 89.7 177.2 90.1 REMARK 620 6 HOH B 515 O 177.3 92.3 91.5 87.2 87.6 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-62001 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF THE OAVVISCB-OMEGA RNA-TARGET DNA COMPLEX DBREF 9K2Z A -128 411 PDB 9K2Z 9K2Z -128 411 DBREF 9K2Z B -26 331 PDB 9K2Z 9K2Z -26 331 DBREF 9K2Z C -14 34 PDB 9K2Z 9K2Z -14 34 DBREF 9K2Z D 1 14 PDB 9K2Z 9K2Z 1 14 SEQRES 1 A 540 MET ALA ASP LEU SER LYS HIS HIS HIS HIS SER GLY HIS SEQRES 2 A 540 HIS HIS THR GLY HIS HIS HIS HIS SER GLY SER HIS HIS SEQRES 3 A 540 HIS THR GLY SER ALA ALA GLY GLY GLU GLU ASP LYS LYS SEQRES 4 A 540 PRO ALA GLY GLY GLU GLY GLY GLY ALA HIS ILE ASN LEU SEQRES 5 A 540 LYS VAL LYS GLY GLN ASP GLY ASN GLU VAL PHE PHE ARG SEQRES 6 A 540 ILE LYS ARG SER THR GLN LEU LYS LYS LEU MET ASN ALA SEQRES 7 A 540 TYR CYS ASP ARG GLN SER VAL ASP MET THR ALA ILE ALA SEQRES 8 A 540 PHE LEU PHE ASP GLY ARG ARG LEU ARG ALA GLU GLN THR SEQRES 9 A 540 PRO ASP GLU LEU GLU MET GLU ASP GLY ASP GLU ILE ASP SEQRES 10 A 540 ALA MET LEU HIS GLN THR GLY GLY SER SER GLY SER MET SEQRES 11 A 540 ALA TYR CYS PHE VAL VAL ASP LYS ASN ASN ARG PRO LEU SEQRES 12 A 540 ALA PRO THR LYS VAL ASN LYS GLY TRP TYR LEU VAL ARG SEQRES 13 A 540 LYS GLY ARG ALA LYS ILE LYS SER ARG TYR PRO MET VAL SEQRES 14 A 540 ILE GLN LEU GLU LYS GLU VAL GLU PRO ASP LYS TYR ASP SEQRES 15 A 540 GLU SER ARG VAL VAL VAL GLY ILE ASP ASP GLY SER ALA SEQRES 16 A 540 HIS VAL GLY LEU ALA ILE VAL GLN LYS CYS PRO THR LYS SEQRES 17 A 540 ASN LYS VAL VAL PHE LYS GLY THR ILE GLU GLN ARG GLN SEQRES 18 A 540 ASP VAL LYS HIS LEU MET ASP VAL ARG ARG GLY TYR ARG SEQRES 19 A 540 ARG TYR HIS ARG TYR HIS LYS ARG TYR ARG GLN ALA ARG SEQRES 20 A 540 PHE ASN ASN ARG HIS SER SER LYS ARG SER GLY ARG LEU SEQRES 21 A 540 ALA PRO SER ILE LYS GLN LYS LYS ASP ALA VAL LEU ARG SEQRES 22 A 540 VAL LEU TYR GLN LEU ASN ARG TRP ILE ASN ILE GLN GLU SEQRES 23 A 540 TYR TYR LEU GLU ASP VAL CYS MET ASP ILE ARG ALA MET SEQRES 24 A 540 THR ASP GLY TYR LYS PRO TYR ARG TRP GLN TYR GLN LYS SEQRES 25 A 540 SER SER ARG LEU ASP GLU ASN LEU ARG LYS ALA ALA ILE SEQRES 26 A 540 ILE ARG ASP GLY CYS LYS CYS GLN GLU CYS GLY ARG SER SEQRES 27 A 540 ASN CYS VAL LEU GLU VAL ALA HIS ILE LYS ALA ARG LYS SEQRES 28 A 540 TYR GLY GLY ALA ASP THR ILE GLY ASN LEU ILE THR LEU SEQRES 29 A 540 CYS SER GLY CYS HIS GLN LYS THR GLU GLY ARG GLU ARG SEQRES 30 A 540 GLU PHE GLU ASP ARG TYR PHE LYS ILE ILE GLY SER LYS SEQRES 31 A 540 PRO LYS ARG PHE ASP TYR ALA MET HIS VAL MET GLN GLY SEQRES 32 A 540 LYS ASN TYR LEU ARG GLU ARG ILE SER GLU LEU GLY PRO SEQRES 33 A 540 LEU HIS LEU THR ASN GLY GLY GLU THR ALA ASN LYS ARG SEQRES 34 A 540 ILE GLU TRP ASN ILE VAL LYS SER HIS SER ASN ASP ALA SEQRES 35 A 540 ILE CYS ILE THR ASP CYS ILE SER ASP THR CYS ASP VAL SEQRES 36 A 540 LYS GLU TRP ILE ILE LYS PRO MET ARG ARG LYS SER LYS SEQRES 37 A 540 ALA LYS THR ASP ASN VAL LEU GLY ILE ARG HIS ARG ASP SEQRES 38 A 540 LEU VAL SER TYR THR TYR LYS ASN GLY GLU ILE HIS THR SEQRES 39 A 540 GLY TYR VAL THR ALA LEU TYR PRO GLU LEU LEU ALA LEU SEQRES 40 A 540 ASN PHE GLN SER LYS THR LYS HIS CYS LYS LYS VAL ASN SEQRES 41 A 540 ALA GLN LYS CYS ARG LEU LEU TRP LYS PHE ASP LYS ILE SEQRES 42 A 540 TYR TRP LEU GLU GLN CYS VAL SEQRES 1 B 358 G G A A U U G U G A G C G SEQRES 2 B 358 G A U A A C A A U U C C C SEQRES 3 B 358 C A G G A C U A A U U A U SEQRES 4 B 358 U A A G C A G U C U A A U SEQRES 5 B 358 A U A U A G A C A A A A G SEQRES 6 B 358 U G U A A A C A A G U G G SEQRES 7 B 358 A C A A G U G U A U A A U SEQRES 8 B 358 U A C A U U U C U U G U U SEQRES 9 B 358 U A C A C U U G C U U A A SEQRES 10 B 358 C A A U A G G U U U C A A SEQRES 11 B 358 G C C U U A G U G A C U G SEQRES 12 B 358 C U A C U A U C G A A A G SEQRES 13 B 358 A U A U G U U G C A G A U SEQRES 14 B 358 A C G A A C U A C G U U A SEQRES 15 B 358 G G G A A A A G G U U A A SEQRES 16 B 358 A G A C A C A C C U U U A SEQRES 17 B 358 G A U G U A C U C G U C A SEQRES 18 B 358 G U C U G A A G C U C U G SEQRES 19 B 358 U G A G U G C C A A U C A SEQRES 20 B 358 A G A A A C U G U G C U A SEQRES 21 B 358 A U G U C C U G U A C A G SEQRES 22 B 358 A U A A C A G A G A A A C SEQRES 23 B 358 A C A U A U A C C U U C C SEQRES 24 B 358 C C G A C A U U G G C A A SEQRES 25 B 358 G A C G A A G A U U A C U SEQRES 26 B 358 C C G A A A G G A A G G U SEQRES 27 B 358 A U C C A G A G A U G G A SEQRES 28 B 358 A A A U G A A SEQRES 1 C 49 DG DA DA DT DG DG DT DT DC DC DT DC DC SEQRES 2 C 49 DC DG DG DG DG DA DA DT DT DG DT DT DA SEQRES 3 C 49 DT DC DC DG DC DT DC DA DC DA DA DT DT SEQRES 4 C 49 DC DC DT DT DA DG DA DA DA DA SEQRES 1 D 14 DG DG DG DA DG DG DA DA DC DC DA DT DT SEQRES 2 D 14 DC HET MG B 401 1 HET MG B 402 1 HET MG B 403 1 HET MG B 404 1 HETNAM MG MAGNESIUM ION FORMUL 5 MG 4(MG 2+) FORMUL 9 HOH *17(H2 O) HELIX 1 AA1 VAL A 19 LYS A 28 1 10 HELIX 2 AA2 ASP A 93 TYR A 110 1 18 HELIX 3 AA3 ARG A 122 ARG A 127 1 6 HELIX 4 AA4 ALA A 132 ASN A 150 1 19 HELIX 5 AA5 GLY A 274 GLY A 286 1 13 SHEET 1 AA1 4 THR A 17 LYS A 18 0 SHEET 2 AA1 4 TYR A 3 VAL A 7 -1 N CYS A 4 O THR A 17 SHEET 3 AA1 4 VAL A 40 LEU A 43 1 O ILE A 41 N VAL A 7 SHEET 4 AA1 4 ALA A 31 SER A 35 -1 N LYS A 34 O VAL A 40 SHEET 1 AA2 6 GLU A 157 TYR A 158 0 SHEET 2 AA2 6 ARG A 56 ASP A 62 1 O VAL A 57 N GLU A 157 SHEET 3 AA2 6 HIS A 67 LYS A 75 -1 O LYS A 75 N ARG A 56 SHEET 4 AA2 6 ASN A 80 GLU A 89 -1 O GLY A 86 N LEU A 70 SHEET 5 AA2 6 GLU A 328 PRO A 333 1 O ILE A 331 N THR A 87 SHEET 6 AA2 6 ILE A 404 GLU A 408 -1 O LEU A 407 N ILE A 330 SHEET 1 AA3 5 VAL A 390 ASN A 391 0 SHEET 2 AA3 5 ALA A 377 SER A 382 -1 N LEU A 378 O VAL A 390 SHEET 3 AA3 5 ILE A 363 TYR A 372 -1 N THR A 369 O ASN A 379 SHEET 4 AA3 5 ASP A 352 THR A 357 -1 N VAL A 354 O GLY A 366 SHEET 5 AA3 5 ARG A 396 LYS A 400 -1 O TRP A 399 N LEU A 353 LINK OP2 A B 146 MG MG B 401 1555 1555 2.03 LINK OP2 A B 147 MG MG B 401 1555 1555 2.04 LINK OP1 U B 166 MG MG B 404 1555 1555 1.90 LINK OP2 A B 168 MG MG B 404 1555 1555 2.48 LINK MG MG B 401 O HOH B 504 1555 1555 2.01 LINK MG MG B 401 O HOH B 507 1555 1555 2.12 LINK MG MG B 401 O HOH B 508 1555 1555 2.02 LINK MG MG B 401 O HOH B 511 1555 1555 2.05 LINK MG MG B 402 O HOH B 501 1555 1555 2.08 LINK MG MG B 402 O HOH B 509 1555 1555 2.08 LINK MG MG B 402 O HOH B 512 1555 1555 2.04 LINK MG MG B 402 O HOH B 514 1555 1555 2.04 LINK MG MG B 402 O HOH B 516 1555 1555 2.08 LINK MG MG B 402 O HOH B 517 1555 1555 2.09 LINK MG MG B 403 O HOH B 503 1555 1555 2.10 LINK MG MG B 403 O HOH B 505 1555 1555 2.06 LINK MG MG B 403 O HOH B 506 1555 1555 2.18 LINK MG MG B 403 O HOH B 510 1555 1555 2.02 LINK MG MG B 403 O HOH B 513 1555 1555 2.08 LINK MG MG B 403 O HOH B 515 1555 1555 2.07 CISPEP 1 TYR A 37 PRO A 38 0 -8.66 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 CONECT 5096 9580 CONECT 5118 9580 CONECT 5529 9583 CONECT 5572 9583 CONECT 9580 5096 5118 9587 9590 CONECT 9580 9591 9594 CONECT 9581 9584 9592 9595 9597 CONECT 9581 9599 9600 CONECT 9582 9586 9588 9589 9593 CONECT 9582 9596 9598 CONECT 9583 5529 5572 CONECT 9584 9581 CONECT 9586 9582 CONECT 9587 9580 CONECT 9588 9582 CONECT 9589 9582 CONECT 9590 9580 CONECT 9591 9580 CONECT 9592 9581 CONECT 9593 9582 CONECT 9594 9580 CONECT 9595 9581 CONECT 9596 9582 CONECT 9597 9581 CONECT 9598 9582 CONECT 9599 9581 CONECT 9600 9581 MASTER 568 0 4 5 15 0 0 6 9596 4 27 76 END