HEADER DE NOVO PROTEIN 24-MAY-24 9C05 TITLE UIC-1 SOAKED IN EQUIMOLAR BENZENE, TOLUENE, ISOPROPYLBENZENE, AND TITLE 2 ORTHO-XYLENE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UIC-1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630 KEYWDS SYNTHETIC CONSTRUCT, DE NOVO PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.L.HEINZ-KUNERT REVDAT 1 26-NOV-25 9C05 0 JRNL AUTH S.L.HEINZ-KUNERT,A.I.NGUYEN JRNL TITL EVOLVABLE CONFORMATIONAL DIVERSITY IN ASSEMBLIES OF SHORT JRNL TITL 2 PEPTIDES JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 0.97 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 12.09 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 6310 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.099 REMARK 3 R VALUE (WORKING SET) : 0.097 REMARK 3 FREE R VALUE : 0.111 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.810 REMARK 3 FREE R VALUE TEST SET COUNT : 1165 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 12.0900 - 1.9400 0.97 1303 153 0.0869 0.1101 REMARK 3 2 1.9400 - 1.5400 0.95 1306 148 0.0950 0.0842 REMARK 3 3 1.5400 - 1.3400 0.99 1359 146 0.1010 0.1114 REMARK 3 4 1.3400 - 1.2200 0.97 1336 140 0.0000 0.0985 REMARK 3 5 1.2200 - 1.1300 0.99 1353 144 0.0923 0.1261 REMARK 3 6 1.1300 - 1.0700 0.99 1335 152 0.1081 0.1083 REMARK 3 7 1.0700 - 1.0100 0.99 1371 137 0.1185 0.1502 REMARK 3 8 1.0100 - 0.9700 0.97 1350 145 0.1501 0.1949 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.056 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.781 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 7.63 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 196 REMARK 3 ANGLE : 1.983 261 REMARK 3 CHIRALITY : 0.048 10 REMARK 3 PLANARITY : 0.007 30 REMARK 3 DIHEDRAL : 39.319 30 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9C05 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAY-24. REMARK 100 THE DEPOSITION ID IS D_1000284381. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAY-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX IV REMARK 200 BEAMLINE : BIOMAX REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.688801 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6310 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.970 REMARK 200 RESOLUTION RANGE LOW (A) : 12.090 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.3300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.97 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.01 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 17.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: ACETONITRILE, WATER, SLOW COOLING, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 6.66500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 N LEU A 2 O01 I6W A 102 2.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 IPB A 105 DBREF 9C05 A 2 10 PDB 9C05 9C05 2 10 SEQRES 1 A 9 LEU AIB ALA AIB LEU AIB GLN AIB LEU HET AIB A 3 13 HET AIB A 5 13 HET AIB A 7 13 HET AIB A 9 13 HET I77 A 101 58 HET I6W A 102 60 HET PYJ A 103 18 HET BNZ A 104 12 HET IPB A 105 21 HET PYJ A 106 18 HET OXE A 107 36 HETNAM AIB ALPHA-AMINOISOBUTYRIC ACID HETNAM I77 5'-(HYDRAZINECARBONYL)[2,2'-BIPYRIDINE]-5-CARBOXAMIDE HETNAM I6W ETHYL 5'-FORMYL[2,2'-BIPYRIDINE]-5-CARBOXYLATE HETNAM PYJ PHENYLETHANE HETNAM BNZ BENZENE HETNAM IPB 5-METHYL-2-(1-METHYLETHYL)PHENOL HETNAM OXE ORTHO-XYLENE FORMUL 1 AIB 4(C4 H9 N O2) FORMUL 2 I77 C12 H11 N5 O2 FORMUL 3 I6W C14 H12 N2 O4 FORMUL 4 PYJ 2(C8 H10) FORMUL 5 BNZ C6 H6 FORMUL 6 IPB C10 H14 O FORMUL 8 OXE C8 H10 FORMUL 9 HOH *2(H2 O) HELIX 1 AA1 LEU A 2 GLN A 8 1 7 LINK C LEU A 2 N AIB A 3 1555 1555 1.33 LINK N LEU A 2 C02AI6W A 102 1555 1555 1.42 LINK N LEU A 2 C02BI6W A 102 1555 1555 1.43 LINK C AIB A 3 N ALA A 4 1555 1555 1.33 LINK C ALA A 4 N AIB A 5 1555 1555 1.33 LINK C AIB A 5 N LEU A 6 1555 1555 1.34 LINK C LEU A 6 N AIB A 7 1555 1555 1.34 LINK C AIB A 7 N GLN A 8 1555 1555 1.33 LINK C GLN A 8 N AIB A 9 1555 1555 1.33 LINK C AIB A 9 N ALEU A 10 1555 1555 1.34 LINK C AIB A 9 N BLEU A 10 1555 1555 1.33 LINK C ALEU A 10 N15AI77 A 101 1555 1555 1.42 LINK C BLEU A 10 N15BI77 A 101 1555 1555 1.42 CRYST1 13.853 13.330 28.670 90.00 90.73 90.00 P 1 21 1 2 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 0.072187 0.000000 0.000920 0.00000 SCALE2 0.000000 0.075019 0.000000 0.00000 SCALE3 0.000000 0.000000 0.034882 0.00000 CONECT 1 223 224 CONECT 3 20 CONECT 20 3 21 26 CONECT 21 20 22 24 25 CONECT 22 21 23 33 CONECT 23 22 CONECT 24 21 27 28 29 CONECT 25 21 30 31 32 CONECT 26 20 CONECT 27 24 CONECT 28 24 CONECT 29 24 CONECT 30 25 CONECT 31 25 CONECT 32 25 CONECT 33 22 CONECT 35 43 CONECT 43 35 44 49 CONECT 44 43 45 47 48 CONECT 45 44 46 56 CONECT 46 45 CONECT 47 44 50 51 52 CONECT 48 44 53 54 55 CONECT 49 43 CONECT 50 47 CONECT 51 47 CONECT 52 47 CONECT 53 48 CONECT 54 48 CONECT 55 48 CONECT 56 45 CONECT 58 75 CONECT 75 58 76 81 CONECT 76 75 77 79 80 CONECT 77 76 78 88 CONECT 78 77 CONECT 79 76 82 83 84 CONECT 80 76 85 86 87 CONECT 81 75 CONECT 82 79 CONECT 83 79 CONECT 84 79 CONECT 85 80 CONECT 86 80 CONECT 87 80 CONECT 88 77 CONECT 90 105 CONECT 105 90 106 111 CONECT 106 105 107 109 110 CONECT 107 106 108 118 119 CONECT 108 107 CONECT 109 106 112 113 114 CONECT 110 106 115 116 117 CONECT 111 105 CONECT 112 109 CONECT 113 109 CONECT 114 109 CONECT 115 110 CONECT 116 110 CONECT 117 110 CONECT 118 107 CONECT 119 107 CONECT 122 189 CONECT 123 190 CONECT 157 159 185 195 CONECT 158 160 186 196 CONECT 159 157 161 163 CONECT 160 158 162 164 CONECT 161 159 187 191 CONECT 162 160 188 192 CONECT 163 159 165 197 CONECT 164 160 166 198 CONECT 165 163 179 199 CONECT 166 164 180 200 CONECT 167 169 181 193 CONECT 168 170 182 194 CONECT 169 167 171 175 CONECT 170 168 172 176 CONECT 171 169 173 201 CONECT 172 170 174 202 CONECT 173 171 177 203 CONECT 174 172 178 204 CONECT 175 169 183 205 CONECT 176 170 184 206 CONECT 177 173 179 183 CONECT 178 174 180 184 CONECT 179 165 177 185 CONECT 180 166 178 186 CONECT 181 167 207 209 CONECT 182 168 208 210 CONECT 183 175 177 CONECT 184 176 178 CONECT 185 157 179 CONECT 186 158 180 CONECT 187 161 189 211 CONECT 188 162 190 212 CONECT 189 122 187 213 CONECT 190 123 188 214 CONECT 191 161 CONECT 192 162 CONECT 193 167 CONECT 194 168 CONECT 195 157 CONECT 196 158 CONECT 197 163 CONECT 198 164 CONECT 199 165 CONECT 200 166 CONECT 201 171 CONECT 202 172 CONECT 203 173 CONECT 204 174 CONECT 205 175 CONECT 206 176 CONECT 207 181 CONECT 208 182 CONECT 209 181 CONECT 210 182 CONECT 211 187 CONECT 212 188 CONECT 213 189 CONECT 214 190 CONECT 215 217 227 253 CONECT 216 218 228 254 CONECT 217 215 219 245 CONECT 218 216 220 246 CONECT 219 217 221 243 CONECT 220 218 222 244 CONECT 221 219 231 CONECT 222 220 232 CONECT 223 1 225 247 CONECT 224 1 226 248 CONECT 225 223 227 229 CONECT 226 224 228 230 CONECT 227 215 225 255 CONECT 228 216 226 256 CONECT 229 225 245 257 CONECT 230 226 246 258 CONECT 231 221 233 259 CONECT 232 222 234 260 CONECT 233 231 235 241 CONECT 234 232 236 242 CONECT 235 233 249 251 CONECT 236 234 250 252 CONECT 237 239 249 261 263 CONECT 238 240 250 262 264 CONECT 239 237 265 267 269 CONECT 240 238 266 268 270 CONECT 241 233 243 271 CONECT 242 234 244 272 CONECT 243 219 241 273 CONECT 244 220 242 274 CONECT 245 217 229 CONECT 246 218 230 CONECT 247 223 CONECT 248 224 CONECT 249 235 237 CONECT 250 236 238 CONECT 251 235 CONECT 252 236 CONECT 253 215 CONECT 254 216 CONECT 255 227 CONECT 256 228 CONECT 257 229 CONECT 258 230 CONECT 259 231 CONECT 260 232 CONECT 261 237 CONECT 262 238 CONECT 263 237 CONECT 264 238 CONECT 265 239 CONECT 266 240 CONECT 267 239 CONECT 268 240 CONECT 269 239 CONECT 270 240 CONECT 271 241 CONECT 272 242 CONECT 273 243 CONECT 274 244 CONECT 275 276 277 283 284 CONECT 276 275 285 286 287 CONECT 277 275 278 279 CONECT 278 277 280 288 CONECT 279 277 281 289 CONECT 280 278 282 290 CONECT 281 279 282 291 CONECT 282 280 281 292 CONECT 283 275 CONECT 284 275 CONECT 285 276 CONECT 286 276 CONECT 287 276 CONECT 288 278 CONECT 289 279 CONECT 290 280 CONECT 291 281 CONECT 292 282 CONECT 293 294 298 299 CONECT 294 293 295 300 CONECT 295 294 296 301 CONECT 296 295 297 302 CONECT 297 296 298 303 CONECT 298 293 297 304 CONECT 299 293 CONECT 300 294 CONECT 301 295 CONECT 302 296 CONECT 303 297 CONECT 304 298 CONECT 305 306 310 311 CONECT 306 305 307 314 CONECT 307 306 308 315 CONECT 308 307 309 CONECT 309 308 310 316 CONECT 310 305 309 CONECT 311 305 312 313 317 CONECT 312 311 318 319 320 CONECT 313 311 321 322 323 CONECT 314 306 CONECT 315 307 CONECT 316 309 CONECT 317 311 CONECT 318 312 CONECT 319 312 CONECT 320 312 CONECT 321 313 CONECT 322 313 CONECT 323 313 CONECT 326 327 328 334 335 CONECT 327 326 336 337 338 CONECT 328 326 329 330 CONECT 329 328 331 339 CONECT 330 328 332 340 CONECT 331 329 333 341 CONECT 332 330 333 342 CONECT 333 331 332 343 CONECT 334 326 CONECT 335 326 CONECT 336 327 CONECT 337 327 CONECT 338 327 CONECT 339 329 CONECT 340 330 CONECT 341 331 CONECT 342 332 CONECT 343 333 CONECT 344 346 354 356 CONECT 345 347 355 357 CONECT 346 344 348 358 CONECT 347 345 349 359 CONECT 348 346 350 360 CONECT 349 347 351 361 CONECT 350 348 352 362 CONECT 351 349 353 363 CONECT 352 350 354 364 CONECT 353 351 355 365 CONECT 354 344 352 366 CONECT 355 345 353 367 CONECT 356 344 368 370 372 CONECT 357 345 369 371 373 CONECT 358 346 374 376 378 CONECT 359 347 375 377 379 CONECT 360 348 CONECT 361 349 CONECT 362 350 CONECT 363 351 CONECT 364 352 CONECT 365 353 CONECT 366 354 CONECT 367 355 CONECT 368 356 CONECT 369 357 CONECT 370 356 CONECT 371 357 CONECT 372 356 CONECT 373 357 CONECT 374 358 CONECT 375 359 CONECT 376 358 CONECT 377 359 CONECT 378 358 CONECT 379 359 MASTER 205 0 11 1 0 0 0 6 141 1 285 1 END