HEADER DE NOVO PROTEIN 12-JAN-26 10CF TITLE HELLOB-GGNNQQ - DE NOVO PEPTIDE WITH TERTIARY STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HELLOB-GGNNQQ POROUS PEPTIDE; 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 P.GANATRA REVDAT 1 28-OCT-26 10CF 0 JRNL AUTH P.GANATRA,D.F.WANG,S.NICHOLS,V.T.DANG,J.S.BRUNZELLE,P.JANA, JRNL AUTH 2 A.I.NGUYEN JRNL TITL POROUS FRAMEWORK ASSEMBLY CREATES FUNCTIONAL TERTIARY FOLDS JRNL TITL 2 IN SMALL PEPTIDES JRNL REF J.AM.CHEM.SOC. 2026 JRNL REFN ESSN 1520-5126 REMARK 2 REMARK 2 RESOLUTION. 1.04 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) : 1.04 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.59 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 5950 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.020 REMARK 3 FREE R VALUE TEST SET COUNT : 1073 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 17.5900 - 2.0800 0.97 1228 135 0.1188 0.1763 REMARK 3 2 2.0800 - 1.6500 0.97 1225 134 0.1355 0.1910 REMARK 3 3 1.6500 - 1.4400 0.97 1210 133 0.1584 0.1799 REMARK 3 4 1.4400 - 1.3100 0.98 1201 132 0.1881 0.2087 REMARK 3 5 1.3100 - 1.2200 0.93 1183 137 0.1859 0.2129 REMARK 3 6 1.2200 - 1.1400 0.96 1178 131 0.2084 0.2283 REMARK 3 7 1.1400 - 1.0900 0.93 1184 128 0.2125 0.2681 REMARK 3 8 1.0900 - 1.0400 0.98 1231 143 0.2826 0.3291 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) : 0.091 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.971 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 8.83 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.29 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 : 0.008 184 REMARK 3 ANGLE : 1.519 254 REMARK 3 CHIRALITY : 0.072 19 REMARK 3 PLANARITY : 0.006 34 REMARK 3 DIHEDRAL : 23.020 58 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 10CF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JAN-26. REMARK 100 THE DEPOSITION ID IS D_1000304136. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-SEP-23 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 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 5950 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.040 REMARK 200 RESOLUTION RANGE LOW (A) : 17.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.8500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.04 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.08 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 (%): 24.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: METHANOL, WATER, SLOW COOLING, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 19.02800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 4.53600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 19.02800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 4.53600 REMARK 290 SMTRY3 4 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 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 DBREF 10CF A 1 19 PDB 10CF 10CF 1 19 SEQRES 1 A 19 Z7Z ALA AIB LEU AIB ALA AIB LEU AIB GLN AIB LEU GLY SEQRES 2 A 19 GLY ASN ASN GLN GLN NH2 HET Z7Z A 1 46 HET AIB A 3 13 HET AIB A 5 13 HET AIB A 7 13 HET AIB A 9 13 HET AIB A 11 13 HET NH2 A 19 3 HET MOH A 101 18 HET MOH A 102 6 HETNAM Z7Z BIPHENYL-4-CARBOXYLIC ACID HETNAM AIB ALPHA-AMINOISOBUTYRIC ACID HETNAM NH2 AMINO GROUP HETNAM MOH METHANOL FORMUL 1 Z7Z C13 H10 O2 FORMUL 1 AIB 5(C4 H9 N O2) FORMUL 1 NH2 H2 N FORMUL 2 MOH 2(C H4 O) FORMUL 4 HOH *6(H2 O) HELIX 1 AA1 ALA A 2 LEU A 12 1 11 LINK C1 AZ7Z A 1 N ALA A 2 1555 1555 1.43 LINK C1 BZ7Z A 1 N ALA A 2 1555 1555 1.42 LINK C ALA A 2 N AIB A 3 1555 1555 1.33 LINK C AIB A 3 N ALEU A 4 1555 1555 1.32 LINK C AIB A 3 N BLEU A 4 1555 1555 1.33 LINK C ALEU A 4 N AIB A 5 1555 1555 1.34 LINK C BLEU A 4 N AIB A 5 1555 1555 1.33 LINK C AIB A 5 N ALA A 6 1555 1555 1.34 LINK C ALA A 6 N AIB A 7 1555 1555 1.32 LINK C AIB A 7 N ALEU A 8 1555 1555 1.33 LINK C AIB A 7 N BLEU A 8 1555 1555 1.32 LINK C ALEU A 8 N AIB A 9 1555 1555 1.33 LINK C BLEU A 8 N AIB A 9 1555 1555 1.33 LINK C AIB A 9 N GLN A 10 1555 1555 1.34 LINK C GLN A 10 N AIB A 11 1555 1555 1.33 LINK C AIB A 11 N LEU A 12 1555 1555 1.33 LINK C AGLN A 18 N NH2 A 19 1555 1555 1.43 LINK C BGLN A 18 N NH2 A 19 1555 1555 1.43 CRYST1 38.056 9.072 37.423 90.00 112.41 90.00 C 1 2 1 4 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 0.026277 0.000000 0.010836 0.00000 SCALE2 0.000000 0.110229 0.000000 0.00000 SCALE3 0.000000 0.000000 0.028904 0.00000 CONECT 1 3 CONECT 2 4 CONECT 3 1 5 47 CONECT 4 2 6 47 CONECT 5 3 7 11 CONECT 6 4 8 12 CONECT 7 5 9 29 CONECT 8 6 10 30 CONECT 9 7 15 31 CONECT 10 8 16 32 CONECT 11 5 13 33 CONECT 12 6 14 34 CONECT 13 11 15 35 CONECT 14 12 16 36 CONECT 15 9 13 17 CONECT 16 10 14 18 CONECT 17 15 19 21 CONECT 18 16 20 22 CONECT 19 17 23 37 CONECT 20 18 24 38 CONECT 21 17 25 39 CONECT 22 18 26 40 CONECT 23 19 27 41 CONECT 24 20 28 42 CONECT 25 21 27 43 CONECT 26 22 28 44 CONECT 27 23 25 45 CONECT 28 24 26 46 CONECT 29 7 CONECT 30 8 CONECT 31 9 CONECT 32 10 CONECT 33 11 CONECT 34 12 CONECT 35 13 CONECT 36 14 CONECT 37 19 CONECT 38 20 CONECT 39 21 CONECT 40 22 CONECT 41 23 CONECT 42 24 CONECT 43 25 CONECT 44 26 CONECT 45 27 CONECT 46 28 CONECT 47 3 4 CONECT 49 57 CONECT 57 49 58 63 CONECT 58 57 59 61 62 CONECT 59 58 60 70 71 CONECT 60 59 CONECT 61 58 64 65 66 CONECT 62 58 67 68 69 CONECT 63 57 CONECT 64 61 CONECT 65 61 CONECT 66 61 CONECT 67 62 CONECT 68 62 CONECT 69 62 CONECT 70 59 CONECT 71 59 CONECT 74 108 CONECT 75 108 CONECT 108 74 75 109 114 CONECT 109 108 110 112 113 CONECT 110 109 111 121 CONECT 111 110 CONECT 112 109 115 116 117 CONECT 113 109 118 119 120 CONECT 114 108 CONECT 115 112 CONECT 116 112 CONECT 117 112 CONECT 118 113 CONECT 119 113 CONECT 120 113 CONECT 121 110 CONECT 123 131 CONECT 131 123 132 137 CONECT 132 131 133 135 136 CONECT 133 132 134 144 145 CONECT 134 133 CONECT 135 132 138 139 140 CONECT 136 132 141 142 143 CONECT 137 131 CONECT 138 135 CONECT 139 135 CONECT 140 135 CONECT 141 136 CONECT 142 136 CONECT 143 136 CONECT 144 133 CONECT 145 133 CONECT 148 182 CONECT 149 182 CONECT 182 148 149 183 188 CONECT 183 182 184 186 187 CONECT 184 183 185 195 CONECT 185 184 CONECT 186 183 189 190 191 CONECT 187 183 192 193 194 CONECT 188 182 CONECT 189 186 CONECT 190 186 CONECT 191 186 CONECT 192 187 CONECT 193 187 CONECT 194 187 CONECT 195 184 CONECT 197 212 CONECT 212 197 213 218 CONECT 213 212 214 216 217 CONECT 214 213 215 225 CONECT 215 214 CONECT 216 213 219 220 221 CONECT 217 213 222 223 224 CONECT 218 212 CONECT 219 216 CONECT 220 216 CONECT 221 216 CONECT 222 217 CONECT 223 217 CONECT 224 217 CONECT 225 214 CONECT 321 351 CONECT 322 351 CONECT 351 321 322 352 353 CONECT 352 351 CONECT 353 351 CONECT 355 358 361 364 367 CONECT 356 359 362 365 368 CONECT 357 360 363 366 369 CONECT 358 355 370 CONECT 359 356 371 CONECT 360 357 372 CONECT 361 355 CONECT 362 356 CONECT 363 357 CONECT 364 355 CONECT 365 356 CONECT 366 357 CONECT 367 355 CONECT 368 356 CONECT 369 357 CONECT 370 358 CONECT 371 359 CONECT 372 360 CONECT 373 374 375 376 377 CONECT 374 373 378 CONECT 375 373 CONECT 376 373 CONECT 377 373 CONECT 378 374 MASTER 194 0 9 1 0 0 0 6 140 1 155 2 END