HEADER DE NOVO PROTEIN 28-APR-26 13BN TITLE HELLOB-GGFFAA-A6DAB - A DE NOVO PEPTIDE WITH TERTIARY STRUCTURE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: HELLOB-GGFFAA- A6DAB; 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 13BN 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. 1.49 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) : 1.49 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 2204 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.160 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.840 REMARK 3 FREE R VALUE TEST SET COUNT : 382 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 18.1100 - 2.1500 0.98 1175 116 0.1331 0.1809 REMARK 3 2 2.1500 - 1.7100 0.99 1197 141 0.1636 0.2042 REMARK 3 3 1.7100 - 1.4900 0.98 1128 125 0.2584 0.3501 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.953 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.48 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.29 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 : 0.011 139 REMARK 3 ANGLE : 1.500 195 REMARK 3 CHIRALITY : 0.066 14 REMARK 3 PLANARITY : 0.004 23 REMARK 3 DIHEDRAL : 23.581 26 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 13BN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-MAY-26. REMARK 100 THE DEPOSITION ID IS D_1000307565. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-DEC-25 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 : ESRF REMARK 200 BEAMLINE : ID30B 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 PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 2204 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.490 REMARK 200 RESOLUTION RANGE LOW (A) : 18.110 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.4800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 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 (%): 28.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.73 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 18.94450 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 4.56700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 18.94450 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 4.56700 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: 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 ALA A 18 CA - C - N ANGL. DEV. = -17.2 DEGREES REMARK 500 ALA A 18 O - C - N ANGL. DEV. = -20.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL DBREF 13BN A 1 19 PDB 13BN 13BN 1 19 SEQRES 1 A 19 Z7Z ALA AIB LEU AIB DAB 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 DAB A 6 30 HET AIB A 7 13 HET AIB A 9 13 HET AIB A 11 13 HET NH2 A 19 3 HETNAM Z7Z BIPHENYL-4-CARBOXYLIC ACID HETNAM AIB ALPHA-AMINOISOBUTYRIC ACID HETNAM DAB 2,4-DIAMINOBUTYRIC ACID HETNAM NH2 AMINO GROUP FORMUL 1 Z7Z C13 H10 O2 FORMUL 1 AIB 5(C4 H9 N O2) FORMUL 1 DAB C4 H10 N2 O2 FORMUL 1 NH2 H2 N FORMUL 2 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 1.42 LINK C ALA A 2 N AIB A 3 1555 1555 1.32 LINK C AIB A 3 N LEU A 4 1555 1555 1.34 LINK C LEU A 4 N AIB A 5 1555 1555 1.32 LINK C AIB A 5 N ADAB A 6 1555 1555 1.33 LINK C AIB A 5 N BDAB A 6 1555 1555 1.33 LINK C ADAB A 6 N AIB A 7 1555 1555 1.33 LINK C BDAB A 6 N AIB A 7 1555 1555 1.33 LINK C AIB A 7 N LEU A 8 1555 1555 1.32 LINK C LEU A 8 N AIB A 9 1555 1555 1.33 LINK C AIB A 9 N GLN A 10 1555 1555 1.33 LINK C GLN A 10 N AIB A 11 1555 1555 1.32 LINK C AIB A 11 N LEU A 12 1555 1555 1.33 LINK C ALA A 18 N NH2 A 19 1555 1555 1.43 CRYST1 37.889 9.134 39.575 90.00 113.78 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 0.026393 0.000000 0.011630 0.00000 SCALE2 0.000000 0.109481 0.000000 0.00000 SCALE3 0.000000 0.000000 0.027613 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 93 CONECT 80 68 82 94 CONECT 81 79 83 87 95 CONECT 82 80 84 88 96 CONECT 83 81 85 109 CONECT 84 82 86 109 CONECT 85 83 CONECT 86 84 CONECT 87 81 89 97 99 CONECT 88 82 90 98 100 CONECT 89 87 91 101 103 CONECT 90 88 92 102 104 CONECT 91 89 105 107 CONECT 92 90 106 108 CONECT 93 79 CONECT 94 80 CONECT 95 81 CONECT 96 82 CONECT 97 87 CONECT 98 88 CONECT 99 87 CONECT 100 88 CONECT 101 89 CONECT 102 90 CONECT 103 89 CONECT 104 90 CONECT 105 91 CONECT 106 92 CONECT 107 91 CONECT 108 92 CONECT 109 83 84 110 115 CONECT 110 109 111 113 114 CONECT 111 110 112 122 CONECT 112 111 CONECT 113 110 116 117 118 CONECT 114 110 119 120 121 CONECT 115 109 CONECT 116 113 CONECT 117 113 CONECT 118 113 CONECT 119 114 CONECT 120 114 CONECT 121 114 CONECT 122 111 CONECT 124 141 CONECT 141 124 142 147 CONECT 142 141 143 145 146 CONECT 143 142 144 154 CONECT 144 143 CONECT 145 142 148 149 150 CONECT 146 142 151 152 153 CONECT 147 141 CONECT 148 145 CONECT 149 145 CONECT 150 145 CONECT 151 146 CONECT 152 146 CONECT 153 146 CONECT 154 143 CONECT 156 171 CONECT 171 156 172 177 CONECT 172 171 173 175 176 CONECT 173 172 174 184 CONECT 174 173 CONECT 175 172 178 179 180 CONECT 176 172 181 182 183 CONECT 177 171 CONECT 178 175 CONECT 179 175 CONECT 180 175 CONECT 181 176 CONECT 182 176 CONECT 183 176 CONECT 184 173 CONECT 269 277 CONECT 277 269 278 279 CONECT 278 277 CONECT 279 277 MASTER 209 0 8 1 0 0 0 6 131 1 131 2 END