HEADER DE NOVO PROTEIN 01-MAY-26 13DN TITLE HELLOB-GGFFAA- A6DPP-PFOA - A DE NOVO PEPTIDE WITH TERTIARY STRUCTURE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: HELLOB-GGFFAA-A6DPP+PFOA; 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 13DN 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. 1.18 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) : 1.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.27 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.430 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.0 REMARK 3 NUMBER OF REFLECTIONS : 3972 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.153 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.990 REMARK 3 FREE R VALUE TEST SET COUNT : 704 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 17.2700 - 2.0200 0.93 1299 146 0.1438 0.1860 REMARK 3 2 2.0200 - 1.6000 0.93 1281 139 0.1635 0.1739 REMARK 3 3 1.6000 - 1.4000 0.92 1252 141 0.1808 0.1905 REMARK 3 4 1.4000 - 1.2700 0.91 1274 145 0.1518 0.1991 REMARK 3 5 1.2700 - 1.1800 0.91 1237 133 0.1510 0.1794 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) : 0.047 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.211 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.39 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.61 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 : 0.015 171 REMARK 3 ANGLE : 1.950 253 REMARK 3 CHIRALITY : 0.109 15 REMARK 3 PLANARITY : 0.007 27 REMARK 3 DIHEDRAL : 33.607 33 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 13DN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAY-26. REMARK 100 THE DEPOSITION ID IS D_1000307736. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-26 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 : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 3972 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.180 REMARK 200 RESOLUTION RANGE LOW (A) : 17.270 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.4100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.22 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 (%): 26.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.68 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: 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 18.85500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 4.62500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 18.85500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 4.62500 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 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 O ALA A 2 HG1 DPP A 6 1.57 REMARK 500 O09 8PF A 101 O HOH A 201 2.18 REMARK 500 REMARK 500 REMARK: NULL DBREF 13DN A 1 19 PDB 13DN 13DN 1 19 SEQRES 1 A 19 Z7Z ALA AIB LEU AIB DPP AIB LEU AIB GLN AIB LEU GLY SEQRES 2 A 19 GLY PHE PHE ALA ALA NH2 HET Z7Z A 1 23 HET AIB A 3 13 HET AIB A 5 13 HET DPP A 6 24 HET AIB A 7 13 HET AIB A 9 13 HET AIB A 11 13 HET NH2 A 19 3 HET 8PF A 101 25 HETNAM Z7Z BIPHENYL-4-CARBOXYLIC ACID HETNAM AIB ALPHA-AMINOISOBUTYRIC ACID HETNAM DPP DIAMINOPROPANOIC ACID HETNAM NH2 AMINO GROUP HETNAM 8PF PENTADECAFLUOROOCTANOIC ACID FORMUL 1 Z7Z C13 H10 O2 FORMUL 1 AIB 5(C4 H9 N O2) FORMUL 1 DPP C3 H8 N2 O2 FORMUL 1 NH2 H2 N FORMUL 2 8PF C8 H F15 O2 FORMUL 3 HOH *(H2 O) HELIX 1 AA1 ALA A 2 LEU A 12 1 11 LINK C1 Z7Z A 1 N ALA A 2 1555 1555 1.41 LINK C ALA A 2 N AIB A 3 1555 1555 1.32 LINK C AIB A 3 N LEU A 4 1555 1555 1.33 LINK C LEU A 4 N AIB A 5 1555 1555 1.33 LINK C AIB A 5 N ADPP A 6 1555 1555 1.32 LINK C AIB A 5 N BDPP A 6 1555 1555 1.33 LINK C ADPP A 6 N AIB A 7 1555 1555 1.32 LINK C BDPP A 6 N AIB A 7 1555 1555 1.33 LINK C AIB A 7 N LEU A 8 1555 1555 1.34 LINK C LEU A 8 N AIB A 9 1555 1555 1.32 LINK C AIB A 9 N AGLN A 10 1555 1555 1.33 LINK C AIB A 9 N BGLN A 10 1555 1555 1.35 LINK C AGLN A 10 N AIB A 11 1555 1555 1.33 LINK C BGLN 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 ALA A 18 N NH2 A 19 1555 1555 1.42 CRYST1 37.710 9.250 36.740 90.00 109.97 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 0.026518 0.000000 0.009636 0.00000 SCALE2 0.000000 0.108108 0.000000 0.00000 SCALE3 0.000000 0.000000 0.028960 0.00000 CONECT 1 2 CONECT 2 1 3 24 CONECT 3 2 4 6 CONECT 4 3 5 15 CONECT 5 4 8 16 CONECT 6 3 7 17 CONECT 7 6 8 18 CONECT 8 5 7 9 CONECT 9 8 10 11 CONECT 10 9 12 19 CONECT 11 9 13 20 CONECT 12 10 14 21 CONECT 13 11 14 22 CONECT 14 12 13 23 CONECT 15 4 CONECT 16 5 CONECT 17 6 CONECT 18 7 CONECT 19 10 CONECT 20 11 CONECT 21 12 CONECT 22 13 CONECT 23 14 CONECT 24 2 CONECT 26 34 CONECT 34 26 35 40 CONECT 35 34 36 38 39 CONECT 36 35 37 47 CONECT 37 36 CONECT 38 35 41 42 43 CONECT 39 35 44 45 46 CONECT 40 34 CONECT 41 38 CONECT 42 38 CONECT 43 38 CONECT 44 39 CONECT 45 39 CONECT 46 39 CONECT 47 36 CONECT 49 66 CONECT 66 49 67 72 CONECT 67 66 68 70 71 CONECT 68 67 69 79 80 CONECT 69 68 CONECT 70 67 73 74 75 CONECT 71 67 76 77 78 CONECT 72 66 CONECT 73 70 CONECT 74 70 CONECT 75 70 CONECT 76 71 CONECT 77 71 CONECT 78 71 CONECT 79 68 81 91 CONECT 80 68 82 92 CONECT 81 79 83 87 93 CONECT 82 80 84 88 94 CONECT 83 81 85 103 CONECT 84 82 86 103 CONECT 85 83 CONECT 86 84 CONECT 87 81 89 95 97 CONECT 88 82 90 96 98 CONECT 89 87 99 101 CONECT 90 88 100 102 CONECT 91 79 CONECT 92 80 CONECT 93 81 CONECT 94 82 CONECT 95 87 CONECT 96 88 CONECT 97 87 CONECT 98 88 CONECT 99 89 CONECT 100 90 CONECT 101 89 CONECT 102 90 CONECT 103 83 84 104 109 CONECT 104 103 105 107 108 CONECT 105 104 106 116 CONECT 106 105 CONECT 107 104 110 111 112 CONECT 108 104 113 114 115 CONECT 109 103 CONECT 110 107 CONECT 111 107 CONECT 112 107 CONECT 113 108 CONECT 114 108 CONECT 115 108 CONECT 116 105 CONECT 118 135 CONECT 135 118 136 141 CONECT 136 135 137 139 140 CONECT 137 136 138 148 149 CONECT 138 137 CONECT 139 136 142 143 144 CONECT 140 136 145 146 147 CONECT 141 135 CONECT 142 139 CONECT 143 139 CONECT 144 139 CONECT 145 140 CONECT 146 140 CONECT 147 140 CONECT 148 137 CONECT 149 137 CONECT 152 182 CONECT 153 182 CONECT 182 152 153 183 188 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 280 288 CONECT 288 280 289 290 CONECT 289 288 CONECT 290 288 CONECT 292 293 295 308 309 CONECT 293 292 294 310 311 CONECT 294 293 296 312 313 CONECT 295 292 298 306 307 CONECT 296 294 314 315 316 CONECT 297 298 CONECT 298 295 297 299 300 CONECT 299 298 CONECT 300 298 301 302 303 CONECT 301 300 CONECT 302 300 CONECT 303 300 304 305 CONECT 304 303 CONECT 305 303 CONECT 306 295 CONECT 307 295 CONECT 308 292 CONECT 309 292 CONECT 310 293 CONECT 311 293 CONECT 312 294 CONECT 313 294 CONECT 314 296 CONECT 315 296 CONECT 316 296 MASTER 202 0 9 1 0 0 0 6 155 1 152 2 END