HEADER ANTIVIRAL PROTEIN 08-MAR-23 8IN8 TITLE CRYO-EM STRUCTURE OF THE TARGET SSDNA-BOUND SIR2-APAZ/AGO-GRNA TITLE 2 QUATERNARY COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIR2 SUPERFAMILY PROTEIN; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PIWI DOMAIN PROTEIN; COMPND 7 CHAIN: C; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: RNA (5'- COMPND 11 R(P*AP*UP*AP*AP*UP*GP*GP*UP*UP*UP*CP*UP*UP*AP*GP*AP*CP*GP*UP*CP*GP*UP COMPND 12 *UP*U)-3'); COMPND 13 CHAIN: I; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 4; COMPND 16 MOLECULE: DNA (5'- COMPND 17 D(P*AP*AP*CP*GP*AP*CP*GP*TP*CP*TP*AP*AP*GP*AP*AP*AP*CP*CP*AP*TP*TP*AP COMPND 18 *A)-3'); COMPND 19 CHAIN: J; COMPND 20 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACTER SULFURREDUCENS (STRAIN ATCC 51573 / SOURCE 3 DSM 12127 / PCA); SOURCE 4 ORGANISM_TAXID: 243231; SOURCE 5 GENE: GSU1360; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: GEOBACTER SULFURREDUCENS (STRAIN ATCC 51573 / SOURCE 10 DSM 12127 / PCA); SOURCE 11 ORGANISM_TAXID: 243231; SOURCE 12 GENE: GSU1361; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: GEOBACTER SULFURREDUCENS (STRAIN ATCC 51573 / SOURCE 17 DSM 12127 / PCA); SOURCE 18 ORGANISM_TAXID: 243231; SOURCE 19 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 20 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 21 MOL_ID: 4; SOURCE 22 ORGANISM_SCIENTIFIC: GEOBACTER SULFURREDUCENS (STRAIN ATCC 51573 / SOURCE 23 DSM 12127 / PCA); SOURCE 24 ORGANISM_TAXID: 243231; SOURCE 25 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 26 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS A PROTEIN, ANTIVIRAL PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR H.ZHANG,Z.LI,G.M.YU,X.Z.LI,X.S.WANG REVDAT 2 13-SEP-23 8IN8 1 JRNL REVDAT 1 05-JUL-23 8IN8 0 JRNL AUTH X.WANG,X.LI,G.YU,L.ZHANG,C.ZHANG,Y.WANG,F.LIAO,Y.WEN,H.YIN, JRNL AUTH 2 X.LIU,Y.WEI,Z.LI,Z.DENG,H.ZHANG JRNL TITL STRUCTURAL INSIGHTS INTO MECHANISMS OF ARGONAUTE JRNL TITL 2 PROTEIN-ASSOCIATED NADASE ACTIVATION IN BACTERIAL IMMUNITY. JRNL REF CELL RES. V. 33 699 2023 JRNL REFN ISSN 1001-0602 JRNL PMID 37311833 JRNL DOI 10.1038/S41422-023-00839-7 REMARK 2 REMARK 2 RESOLUTION. 3.00 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) : 3.000 REMARK 3 NUMBER OF PARTICLES : 380948 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING ONLY REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8IN8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 14-MAR-23. REMARK 100 THE DEPOSITION ID IS D_1300036106. 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 TARGET REMARK 245 SSDNA-BOUND SIR2-APAZ/AGO-GRNA REMARK 245 QUATERNARY 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 : 7.50 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 K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 500.00 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 : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 4000.00 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 APPLY THE FOLLOWING TO CHAINS: B, C, I, J 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 B 1 REMARK 465 ASP B 2 REMARK 465 VAL B 3 REMARK 465 LEU B 4 REMARK 465 THR B 5 REMARK 465 ASP B 6 REMARK 465 ASN B 7 REMARK 465 GLU B 8 REMARK 465 PHE B 9 REMARK 465 TYR B 10 REMARK 465 GLN B 11 REMARK 465 HIS B 12 REMARK 465 TYR B 13 REMARK 465 LEU B 14 REMARK 465 GLN B 15 REMARK 465 ASN B 16 REMARK 465 SER B 17 REMARK 465 GLN B 18 REMARK 465 HIS B 19 REMARK 465 MET B 20 REMARK 465 MET B 21 REMARK 465 TRP B 22 REMARK 465 PHE B 23 REMARK 465 LEU B 24 REMARK 465 GLY B 25 REMARK 465 ALA B 26 REMARK 465 GLY B 27 REMARK 465 THR B 28 REMARK 465 SER B 29 REMARK 465 ARG B 30 REMARK 465 SER B 31 REMARK 465 ALA B 32 REMARK 465 GLY B 33 REMARK 465 LEU B 34 REMARK 465 PRO B 35 REMARK 465 THR B 36 REMARK 465 ALA B 37 REMARK 465 SER B 38 REMARK 465 ASP B 39 REMARK 465 ILE B 40 REMARK 465 ILE B 41 REMARK 465 TRP B 42 REMARK 465 ASP B 43 REMARK 465 LEU B 44 REMARK 465 LYS B 45 REMARK 465 HIS B 46 REMARK 465 ARG B 47 REMARK 465 TYR B 48 REMARK 465 TYR B 49 REMARK 465 CYS B 50 REMARK 465 LEU B 51 REMARK 465 HIS B 52 REMARK 465 GLU B 53 REMARK 465 ASN B 54 REMARK 465 GLN B 55 REMARK 465 ASP B 56 REMARK 465 TYR B 57 REMARK 465 GLN B 58 REMARK 465 LYS B 59 REMARK 465 HIS B 60 REMARK 465 ASP B 61 REMARK 465 ILE B 62 REMARK 465 ASN B 63 REMARK 465 ASN B 64 REMARK 465 HIS B 65 REMARK 465 ALA B 66 REMARK 465 ILE B 67 REMARK 465 LYS B 68 REMARK 465 SER B 69 REMARK 465 LYS B 70 REMARK 465 ILE B 71 REMARK 465 GLN B 72 REMARK 465 SER B 73 REMARK 465 TYR B 74 REMARK 465 MET B 75 REMARK 465 ASP B 76 REMARK 465 SER B 77 REMARK 465 LYS B 78 REMARK 465 GLY B 79 REMARK 465 PHE B 80 REMARK 465 PRO B 81 REMARK 465 LEU B 82 REMARK 465 GLN B 83 REMARK 465 TRP B 84 REMARK 465 SER B 85 REMARK 465 PRO B 86 REMARK 465 GLU B 87 REMARK 465 GLU B 88 REMARK 465 TYR B 89 REMARK 465 SER B 90 REMARK 465 PHE B 91 REMARK 465 TYR B 92 REMARK 465 PHE B 93 REMARK 465 GLU B 94 REMARK 465 LEU B 95 REMARK 465 VAL B 96 REMARK 465 PHE B 97 REMARK 465 ARG B 98 REMARK 465 ASP B 99 REMARK 465 ASP B 100 REMARK 465 TYR B 101 REMARK 465 GLU B 102 REMARK 465 ALA B 103 REMARK 465 GLN B 104 REMARK 465 ARG B 105 REMARK 465 LYS B 106 REMARK 465 TYR B 107 REMARK 465 LEU B 108 REMARK 465 LEU B 109 REMARK 465 GLU B 110 REMARK 465 ALA B 111 REMARK 465 LEU B 112 REMARK 465 ALA B 113 REMARK 465 SER B 114 REMARK 465 ARG B 115 REMARK 465 LYS B 116 REMARK 465 VAL B 117 REMARK 465 SER B 118 REMARK 465 LEU B 119 REMARK 465 ASN B 120 REMARK 465 ILE B 121 REMARK 465 GLY B 122 REMARK 465 HIS B 123 REMARK 465 ARG B 124 REMARK 465 VAL B 125 REMARK 465 LEU B 126 REMARK 465 ALA B 127 REMARK 465 ALA B 128 REMARK 465 LEU B 129 REMARK 465 LEU B 130 REMARK 465 GLU B 131 REMARK 465 MET B 132 REMARK 465 ASN B 133 REMARK 465 GLN B 134 REMARK 465 THR B 135 REMARK 465 LYS B 136 REMARK 465 VAL B 137 REMARK 465 VAL B 138 REMARK 465 PHE B 139 REMARK 465 THR B 140 REMARK 465 THR B 141 REMARK 465 ASN B 142 REMARK 465 PHE B 143 REMARK 465 ASP B 144 REMARK 465 ASP B 145 REMARK 465 VAL B 146 REMARK 465 ILE B 147 REMARK 465 GLU B 148 REMARK 465 THR B 149 REMARK 465 ALA B 150 REMARK 465 PHE B 151 REMARK 465 SER B 152 REMARK 465 ASP B 153 REMARK 465 ILE B 154 REMARK 465 SER B 155 REMARK 465 GLY B 156 REMARK 465 LYS B 157 REMARK 465 HIS B 158 REMARK 465 LEU B 159 REMARK 465 SER B 160 REMARK 465 VAL B 161 REMARK 465 TYR B 162 REMARK 465 HIS B 163 REMARK 465 LEU B 164 REMARK 465 GLU B 165 REMARK 465 GLY B 166 REMARK 465 SER B 167 REMARK 465 TYR B 168 REMARK 465 ALA B 169 REMARK 465 ALA B 170 REMARK 465 LEU B 171 REMARK 465 SER B 172 REMARK 465 ALA B 173 REMARK 465 LEU B 174 REMARK 465 ASN B 175 REMARK 465 THR B 176 REMARK 465 GLU B 177 REMARK 465 ALA B 178 REMARK 465 PHE B 179 REMARK 465 PRO B 180 REMARK 465 ILE B 181 REMARK 465 TYR B 182 REMARK 465 ALA B 183 REMARK 465 LYS B 184 REMARK 465 ILE B 185 REMARK 465 HIS B 186 REMARK 465 GLY B 187 REMARK 465 ASP B 188 REMARK 465 PHE B 189 REMARK 465 ARG B 190 REMARK 465 TYR B 191 REMARK 465 GLN B 192 REMARK 465 LYS B 193 REMARK 465 ILE B 194 REMARK 465 LYS B 195 REMARK 465 ASN B 196 REMARK 465 LEU B 197 REMARK 465 THR B 198 REMARK 465 PRO B 199 REMARK 465 ASP B 200 REMARK 465 LEU B 201 REMARK 465 GLN B 202 REMARK 465 THR B 203 REMARK 465 ASN B 204 REMARK 465 ASP B 205 REMARK 465 ARG B 206 REMARK 465 GLU B 207 REMARK 465 ILE B 208 REMARK 465 HIS B 209 REMARK 465 LYS B 210 REMARK 465 CYS B 211 REMARK 465 PHE B 212 REMARK 465 LEU B 213 REMARK 465 ALA B 214 REMARK 465 ALA B 215 REMARK 465 ALA B 216 REMARK 465 ILE B 217 REMARK 465 ARG B 218 REMARK 465 PHE B 219 REMARK 465 GLY B 220 REMARK 465 LEU B 221 REMARK 465 VAL B 222 REMARK 465 VAL B 223 REMARK 465 SER B 224 REMARK 465 GLY B 225 REMARK 465 TYR B 226 REMARK 465 SER B 227 REMARK 465 GLY B 228 REMARK 465 ARG B 229 REMARK 465 ASP B 230 REMARK 465 GLU B 231 REMARK 465 ASN B 232 REMARK 465 VAL B 233 REMARK 465 MET B 234 REMARK 465 THR B 235 REMARK 465 MET B 236 REMARK 465 LEU B 237 REMARK 465 ARG B 238 REMARK 465 ALA B 239 REMARK 465 ALA B 240 REMARK 465 ILE B 241 REMARK 465 ASP B 242 REMARK 465 GLN B 243 REMARK 465 ASN B 244 REMARK 465 ASN B 245 REMARK 465 ALA B 246 REMARK 465 PHE B 247 REMARK 465 PRO B 248 REMARK 465 HIS B 249 REMARK 465 GLY B 250 REMARK 465 LEU B 251 REMARK 465 TYR B 252 REMARK 465 TRP B 253 REMARK 465 THR B 254 REMARK 465 VAL B 255 REMARK 465 PRO B 256 REMARK 465 SER B 257 REMARK 465 ILE B 258 REMARK 465 SER B 259 REMARK 465 LYS B 260 REMARK 465 SER B 261 REMARK 465 GLU B 262 REMARK 465 PRO B 263 REMARK 465 ALA B 264 REMARK 465 VAL B 265 REMARK 465 GLN B 266 REMARK 465 ASP B 267 REMARK 465 LEU B 268 REMARK 465 ILE B 269 REMARK 465 THR B 270 REMARK 465 TYR B 271 REMARK 465 ALA B 272 REMARK 465 GLN B 273 REMARK 465 GLY B 274 REMARK 465 LYS B 275 REMARK 465 GLY B 276 REMARK 465 VAL B 277 REMARK 465 ARG B 278 REMARK 465 ALA B 279 REMARK 465 TYR B 280 REMARK 465 LEU B 281 REMARK 465 VAL B 282 REMARK 465 GLU B 283 REMARK 465 THR B 284 REMARK 465 GLY B 285 REMARK 465 THR B 286 REMARK 465 PHE B 287 REMARK 465 ASP B 288 REMARK 465 GLU B 289 REMARK 465 MET B 290 REMARK 465 LEU B 291 REMARK 465 SER B 292 REMARK 465 LYS B 293 REMARK 465 ILE B 294 REMARK 465 TRP B 295 REMARK 465 ARG B 296 REMARK 465 GLN B 297 REMARK 465 VAL B 298 REMARK 465 LYS B 299 REMARK 465 ASP B 300 REMARK 465 LYS B 301 REMARK 465 PRO B 302 REMARK 465 ALA B 303 REMARK 465 ALA B 304 REMARK 465 ILE B 305 REMARK 465 ASP B 306 REMARK 465 ALA B 307 REMARK 465 LYS B 308 REMARK 465 VAL B 309 REMARK 465 ARG B 310 REMARK 465 THR B 311 REMARK 465 ALA B 312 REMARK 465 ARG B 313 REMARK 465 VAL B 314 REMARK 465 CYS B 315 REMARK 465 PRO B 316 REMARK 465 VAL B 317 REMARK 465 SER B 318 REMARK 465 ILE B 319 REMARK 465 PRO B 320 REMARK 465 LEU B 321 REMARK 465 PRO B 322 REMARK 465 GLY B 323 REMARK 465 PRO B 324 REMARK 465 GLY B 325 REMARK 465 LYS B 326 REMARK 465 ALA B 351 REMARK 465 SER B 352 REMARK 465 PRO B 353 REMARK 465 ILE B 354 REMARK 465 TYR B 585 REMARK 465 GLY B 586 REMARK 465 ARG B 587 REMARK 465 MET C 1 REMARK 465 ALA C 2 REMARK 465 ASP C 3 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG B 344 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 366 CG CD CE NZ REMARK 470 ARG B 442 CG CD NE CZ NH1 NH2 REMARK 470 ASN C 234 CG OD1 ND2 REMARK 470 GLU C 236 CG CD OE1 OE2 REMARK 470 GLN C 238 CG CD OE1 NE2 REMARK 470 GLN C 246 CG CD OE1 NE2 REMARK 470 PHE C 257 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU C 264 CG CD OE1 OE2 REMARK 470 PHE C 265 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ILE C 266 CG1 CG2 CD1 REMARK 470 THR C 267 OG1 CG2 REMARK 470 ASP C 268 CG OD1 OD2 REMARK 470 ARG C 269 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 270 CG CD CE NZ REMARK 470 DA J 19 N9 C8 N7 C5 C6 N6 N1 REMARK 470 DA J 19 C2 N3 C4 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 I 1 P A I 1 OP3 -0.129 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 LYS B 369 59.45 -92.00 REMARK 500 THR B 375 -159.64 -149.25 REMARK 500 LEU B 430 31.97 -94.97 REMARK 500 LYS B 468 -132.22 59.81 REMARK 500 PHE B 532 -164.67 -79.70 REMARK 500 PRO B 563 45.28 -85.82 REMARK 500 ASP B 564 24.25 -140.35 REMARK 500 GLU C 16 142.41 -175.11 REMARK 500 PRO C 57 -175.52 -64.73 REMARK 500 GLN C 139 53.91 -92.68 REMARK 500 CYS C 157 33.19 -96.46 REMARK 500 ASP C 161 47.70 35.82 REMARK 500 ASN C 177 91.61 -69.89 REMARK 500 GLU C 236 49.95 -92.19 REMARK 500 ASP C 251 -155.42 55.41 REMARK 500 THR C 267 -99.82 63.10 REMARK 500 PRO C 273 52.85 -67.59 REMARK 500 PRO C 360 -178.61 -65.91 REMARK 500 GLN C 388 -164.67 -79.91 REMARK 500 ASN C 389 122.00 -37.66 REMARK 500 GLU C 461 53.90 -92.67 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 I 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET C 473 O REMARK 620 2 A I 1 OP3 134.6 REMARK 620 3 A I 1 OP1 131.3 74.3 REMARK 620 N 1 2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-35592 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF THE TARGET SSDNA-BOUND SIR2-APAZ/AGO-GRNA REMARK 900 QUATERNARY COMPLEX DBREF 8IN8 B 1 587 UNP Q74DF6 Q74DF6_GEOSL 1 587 DBREF 8IN8 C 1 473 UNP Q74DF5 Q74DF5_GEOSL 1 473 DBREF 8IN8 I 1 24 PDB 8IN8 8IN8 1 24 DBREF 8IN8 J -3 19 PDB 8IN8 8IN8 -3 19 SEQRES 1 B 587 MET ASP VAL LEU THR ASP ASN GLU PHE TYR GLN HIS TYR SEQRES 2 B 587 LEU GLN ASN SER GLN HIS MET MET TRP PHE LEU GLY ALA SEQRES 3 B 587 GLY THR SER ARG SER ALA GLY LEU PRO THR ALA SER ASP SEQRES 4 B 587 ILE ILE TRP ASP LEU LYS HIS ARG TYR TYR CYS LEU HIS SEQRES 5 B 587 GLU ASN GLN ASP TYR GLN LYS HIS ASP ILE ASN ASN HIS SEQRES 6 B 587 ALA ILE LYS SER LYS ILE GLN SER TYR MET ASP SER LYS SEQRES 7 B 587 GLY PHE PRO LEU GLN TRP SER PRO GLU GLU TYR SER PHE SEQRES 8 B 587 TYR PHE GLU LEU VAL PHE ARG ASP ASP TYR GLU ALA GLN SEQRES 9 B 587 ARG LYS TYR LEU LEU GLU ALA LEU ALA SER ARG LYS VAL SEQRES 10 B 587 SER LEU ASN ILE GLY HIS ARG VAL LEU ALA ALA LEU LEU SEQRES 11 B 587 GLU MET ASN GLN THR LYS VAL VAL PHE THR THR ASN PHE SEQRES 12 B 587 ASP ASP VAL ILE GLU THR ALA PHE SER ASP ILE SER GLY SEQRES 13 B 587 LYS HIS LEU SER VAL TYR HIS LEU GLU GLY SER TYR ALA SEQRES 14 B 587 ALA LEU SER ALA LEU ASN THR GLU ALA PHE PRO ILE TYR SEQRES 15 B 587 ALA LYS ILE HIS GLY ASP PHE ARG TYR GLN LYS ILE LYS SEQRES 16 B 587 ASN LEU THR PRO ASP LEU GLN THR ASN ASP ARG GLU ILE SEQRES 17 B 587 HIS LYS CYS PHE LEU ALA ALA ALA ILE ARG PHE GLY LEU SEQRES 18 B 587 VAL VAL SER GLY TYR SER GLY ARG ASP GLU ASN VAL MET SEQRES 19 B 587 THR MET LEU ARG ALA ALA ILE ASP GLN ASN ASN ALA PHE SEQRES 20 B 587 PRO HIS GLY LEU TYR TRP THR VAL PRO SER ILE SER LYS SEQRES 21 B 587 SER GLU PRO ALA VAL GLN ASP LEU ILE THR TYR ALA GLN SEQRES 22 B 587 GLY LYS GLY VAL ARG ALA TYR LEU VAL GLU THR GLY THR SEQRES 23 B 587 PHE ASP GLU MET LEU SER LYS ILE TRP ARG GLN VAL LYS SEQRES 24 B 587 ASP LYS PRO ALA ALA ILE ASP ALA LYS VAL ARG THR ALA SEQRES 25 B 587 ARG VAL CYS PRO VAL SER ILE PRO LEU PRO GLY PRO GLY SEQRES 26 B 587 LYS SER PHE PRO ALA LEU ARG THR ASN ALA LEU PRO VAL SEQRES 27 B 587 VAL THR GLN SER ILE ARG CYS GLY VAL VAL THR LEU ALA SEQRES 28 B 587 SER PRO ILE THR PHE SER GLU LEU LYS GLU ARG ILE SER SEQRES 29 B 587 GLN LYS SER PRO LYS ALA LEU LEU THR TYR THR GLU LYS SEQRES 30 B 587 VAL LEU PHE LEU GLY GLY GLU PRO GLU ILE ARG LYS ILE SEQRES 31 B 587 PHE SER ASN ASP GLU ILE ASN SER ILE GLY GLN TYR TYR SEQRES 32 B 587 ILE ASP GLU ILE ALA GLN SER VAL ALA ALA SER THR PHE SEQRES 33 B 587 LEU LYS SER PHE VAL GLU GLU ALA ILE LEU THR ALA LEU SEQRES 34 B 587 LEU ARG GLU LYS PRO ILE LEU HIS ARG VAL ARG HIS ARG SEQRES 35 B 587 THR HIS TYR ALA VAL ILE PRO ASN ALA SER ALA LYS ASP SEQRES 36 B 587 ASP ARG PHE LEU ASP LEU ARG LYS ALA VAL GLY PHE LYS SEQRES 37 B 587 GLY ASP LEU GLY TYR ILE THR GLY ASN VAL THR ASN ALA SEQRES 38 B 587 LYS GLU LEU SER TRP ALA GLU ALA VAL SER ILE ARG LEU SEQRES 39 B 587 GLU GLU ARG GLY GLY LYS LEU TRP ILE MET LEU LYS PRO SEQRES 40 B 587 GLU ILE TRP ILE LYS PRO LEU ASP ARG ARG GLU GLU ALA SEQRES 41 B 587 THR ASP PHE ILE ARG SER ARG ARG ARG TYR ARG PHE ASN SEQRES 42 B 587 GLN CYS SER TYR GLN ILE LEU ASP ALA TRP ILE LYS ILE SEQRES 43 B 587 LEU PHE GLY SER ILE GLY GLY GLY GLY THR VAL ASN ILE SEQRES 44 B 587 SER CYS PHE PRO ASP ALA GLU PHE LYS ALA GLU PHE GLU SEQRES 45 B 587 ILE GLY THR ARG THR ALA PHE SER LEU GLY VAL GLY TYR SEQRES 46 B 587 GLY ARG SEQRES 1 C 473 MET ALA ASP ASN LEU SER GLN LEU ALA ALA HIS SER THR SEQRES 2 C 473 ILE PRO GLU PRO LEU LEU LEU PHE LYS ASP ASN ARG THR SEQRES 3 C 473 ASP THR HIS PRO LEU ARG GLY LEU SER GLN TYR GLY PRO SEQRES 4 C 473 TYR SER ALA CYS PHE ASN LEU PRO GLY GLN VAL ARG LEU SEQRES 5 C 473 ALA TYR LEU ALA PRO THR GLU HIS MET ARG LYS LEU ASP SEQRES 6 C 473 ALA ILE VAL ARG GLU LEU GLN ASN PRO ALA THR PRO LYS SEQRES 7 C 473 GLU ALA THR ASN TYR TYR VAL GLU TYR GLY GLY PHE GLU SEQRES 8 C 473 LYS VAL PHE LYS VAL PRO LEU VAL MET PRO GLN GLU HIS SEQRES 9 C 473 LEU ARG CYS LEU ALA LEU ASP GLU CYS HIS GLY VAL ALA SEQRES 10 C 473 ALA ASN GLY ASN GLY LEU ALA LEU ALA ASP LYS ILE VAL SEQRES 11 C 473 GLN SER MET SER GLY LEU PHE ARG GLN LYS HIS ALA PHE SEQRES 12 C 473 ASP VAL LEU LEU VAL TYR LEU PRO ALA SER TRP LYS LYS SEQRES 13 C 473 CYS PHE GLU TYR ASP GLY PHE ASP LEU HIS ASP ARG ILE SEQRES 14 C 473 LYS ALA LYS VAL ALA PRO LEU ASN LEU PRO ILE GLN ILE SEQRES 15 C 473 ILE ASN ASP THR ALA LEU THR ARG GLN CYS ARG ALA ASN SEQRES 16 C 473 VAL MET TRP GLY VAL SER VAL ALA LEU TYR ALA LYS ALA SEQRES 17 C 473 GLY GLY ILE PRO TRP LYS LEU ALA ASP TRP ASP LYS ASP SEQRES 18 C 473 GLU ALA TYR ILE GLY LEU SER TYR ALA ILE LYS LYS ASN SEQRES 19 C 473 ALA GLU GLY GLN GLU TYR THR THR CYS CYS SER GLN VAL SEQRES 20 C 473 PHE ASP PRO ASP GLY THR GLY PHE GLU PHE VAL ALA TYR SEQRES 21 C 473 ASP THR ARG GLU PHE ILE THR ASP ARG LYS GLY ASN PRO SEQRES 22 C 473 TYR LEU SER TYR GLN GLU MET GLN SER VAL LEU SER LYS SEQRES 23 C 473 SER LEU HIS LEU TYR GLN SER SER HIS ASN GLY ARG MET SEQRES 24 C 473 PRO ARG LYS ILE PHE ILE HIS LYS THR THR HIS PHE THR SEQRES 25 C 473 GLU ASP GLU ILE GLN GLY ALA PHE ASP SER PHE SER SER SEQRES 26 C 473 SER THR GLU ILE GLU LEU VAL GLN ILE ILE GLN SER THR SEQRES 27 C 473 ASN TRP TYR GLY LEU LYS VAL ASP GLY LYS LYS GLY ASP SEQRES 28 C 473 LYS PRO VAL ALA PRO ALA SER TYR PRO VAL ASP ARG GLY SEQRES 29 C 473 LEU TYR GLN PRO LEU THR GLU SER GLU CYS LEU LEU TRP SEQRES 30 C 473 THR GLN GLY SER VAL MET GLY VAL ASN GLN GLN ASN PRO SEQRES 31 C 473 GLY GLN PRO VAL PHE LYS GLU ALA ALA LEU THR PRO LEU SEQRES 32 C 473 PRO ASN PRO ILE MET LEU ARG ARG PHE SER GLY ASN GLY SEQRES 33 C 473 GLY TRP HIS ALA THR CYS SER SER ILE LEU ALA LEU THR SEQRES 34 C 473 LYS VAL ASP TRP ASN ASN ASN THR LEU TYR LYS LYS LEU SEQRES 35 C 473 PRO VAL THR LEU VAL TYR SER GLN VAL PHE ALA ASP VAL SEQRES 36 C 473 VAL LYS GLN THR PRO GLU ILE VAL ASN GLU ILE TYR ASP SEQRES 37 C 473 TYR ARG PHE PHE MET SEQRES 1 I 24 A U A A U G G U U U C U U SEQRES 2 I 24 A G A C G U C G U U U SEQRES 1 J 23 DA DA DC DG DA DC DG DT DC DT DA DA DG SEQRES 2 J 23 DA DA DA DC DC DA DT DT DA DA HET MG I 101 1 HETNAM MG MAGNESIUM ION FORMUL 5 MG MG 2+ HELIX 1 AA1 PHE B 356 SER B 367 1 12 HELIX 2 AA2 GLY B 383 PHE B 391 1 9 HELIX 3 AA3 GLU B 406 SER B 414 1 9 HELIX 4 AA4 SER B 414 LEU B 430 1 17 HELIX 5 AA5 ASP B 456 PHE B 458 5 3 HELIX 6 AA6 LEU B 459 GLY B 466 1 8 HELIX 7 AA7 PRO B 513 GLU B 519 5 7 HELIX 8 AA8 ALA B 520 ARG B 529 1 10 HELIX 9 AA9 PHE B 532 GLY B 549 1 18 HELIX 10 AB1 HIS C 29 TYR C 37 1 9 HELIX 11 AB2 PRO C 39 CYS C 43 5 5 HELIX 12 AB3 HIS C 60 ASN C 73 1 14 HELIX 13 AB4 GLY C 89 LYS C 95 1 7 HELIX 14 AB5 ASP C 111 GLY C 120 1 10 HELIX 15 AB6 ASN C 121 SER C 134 1 14 HELIX 16 AB7 GLY C 135 PHE C 137 5 3 HELIX 17 AB8 PRO C 151 CYS C 157 5 7 HELIX 18 AB9 LEU C 165 ALA C 174 1 10 HELIX 19 AC1 ASN C 184 ARG C 190 1 7 HELIX 20 AC2 CYS C 192 ALA C 208 1 17 HELIX 21 AC3 SER C 276 HIS C 295 1 20 HELIX 22 AC4 THR C 312 SER C 322 1 11 HELIX 23 AC5 TRP C 418 LYS C 430 1 13 HELIX 24 AC6 PRO C 443 THR C 459 1 17 HELIX 25 AC7 ARG C 470 MET C 473 5 4 SHEET 1 AA1 4 PHE B 579 LEU B 581 0 SHEET 2 AA1 4 ALA B 330 ARG B 332 -1 N LEU B 331 O SER B 580 SHEET 3 AA1 4 LEU C 343 ASP C 346 -1 O LEU C 343 N ARG B 332 SHEET 4 AA1 4 ALA C 355 PRO C 356 -1 O ALA C 355 N ASP C 346 SHEET 1 AA2 5 ALA B 335 PRO B 337 0 SHEET 2 AA2 5 LEU B 501 LYS B 512 -1 O ILE B 503 N LEU B 336 SHEET 3 AA2 5 SER B 485 GLU B 496 -1 N SER B 491 O LYS B 506 SHEET 4 AA2 5 THR B 443 VAL B 447 -1 N HIS B 444 O ILE B 492 SHEET 5 AA2 5 VAL B 439 ARG B 440 -1 N ARG B 440 O THR B 443 SHEET 1 AA3 4 ALA B 335 PRO B 337 0 SHEET 2 AA3 4 LEU B 501 LYS B 512 -1 O ILE B 503 N LEU B 336 SHEET 3 AA3 4 SER B 485 GLU B 496 -1 N SER B 491 O LYS B 506 SHEET 4 AA3 4 THR B 475 ASN B 477 -1 N GLY B 476 O TRP B 486 SHEET 1 AA4 4 LEU B 371 THR B 373 0 SHEET 2 AA4 4 VAL B 378 LEU B 381 -1 O LEU B 381 N LEU B 371 SHEET 3 AA4 4 ILE B 343 THR B 349 -1 N GLY B 346 O PHE B 380 SHEET 4 AA4 4 SER B 398 ILE B 404 -1 O TYR B 402 N CYS B 345 SHEET 1 AA5 2 THR B 556 CYS B 561 0 SHEET 2 AA5 2 ALA B 569 GLY B 574 -1 O ILE B 573 N VAL B 557 SHEET 1 AA6 5 SER C 12 THR C 13 0 SHEET 2 AA6 5 LEU C 365 PRO C 368 -1 O TYR C 366 N SER C 12 SHEET 3 AA6 5 GLU C 373 LEU C 376 -1 O LEU C 375 N GLN C 367 SHEET 4 AA6 5 ILE C 407 ARG C 410 -1 O ILE C 407 N LEU C 376 SHEET 5 AA6 5 GLN C 333 ILE C 335 -1 N ILE C 335 O MET C 408 SHEET 1 AA7 3 ARG C 25 ASP C 27 0 SHEET 2 AA7 3 LEU C 19 PHE C 21 -1 N LEU C 19 O ASP C 27 SHEET 3 AA7 3 LYS C 214 LEU C 215 -1 O LYS C 214 N LEU C 20 SHEET 1 AA8 4 ARG C 106 LEU C 108 0 SHEET 2 AA8 4 LEU C 52 ALA C 56 1 N ALA C 56 O CYS C 107 SHEET 3 AA8 4 VAL C 145 TYR C 149 1 O LEU C 147 N ALA C 53 SHEET 4 AA8 4 ILE C 180 ILE C 183 1 O GLN C 181 N VAL C 148 SHEET 1 AA9 2 GLU C 159 TYR C 160 0 SHEET 2 AA9 2 PHE C 163 ASP C 164 -1 O PHE C 163 N TYR C 160 SHEET 1 AB1 5 HIS C 306 LYS C 307 0 SHEET 2 AB1 5 TYR C 224 LYS C 233 1 N LEU C 227 O HIS C 306 SHEET 3 AB1 5 GLU C 239 ASP C 249 -1 O THR C 242 N ALA C 230 SHEET 4 AB1 5 GLU C 256 ALA C 259 -1 O GLU C 256 N ASP C 249 SHEET 5 AB1 5 TYR C 467 ASP C 468 -1 O TYR C 467 N ALA C 259 SHEET 1 AB2 2 LYS C 302 ILE C 303 0 SHEET 2 AB2 2 GLU C 328 ILE C 329 1 O GLU C 328 N ILE C 303 SHEET 1 AB3 2 SER C 381 VAL C 382 0 SHEET 2 AB3 2 VAL C 394 PHE C 395 -1 O VAL C 394 N VAL C 382 LINK O MET C 473 MG MG I 101 1555 1555 2.02 LINK OP3 A I 1 MG MG I 101 1555 1555 2.00 LINK OP1 A I 1 MG MG I 101 1555 1555 1.95 CISPEP 1 LYS B 512 PRO B 513 0 2.32 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