HEADER DE NOVO PROTEIN 11-JAN-24 8VL3 TITLE SOLUTION NMR STRUCTURE OF DE NOVO DESIGNED PROTEIN F3 PARENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: DE NOVO DESIGNED PROTEIN F3 PARENT; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS DE NOVO DESIGN, MACHINE LEARNING, FOLD-SWITCHING, DE NOVO PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR A.C.MCSHAN,M.K.SIMMA REVDAT 1 07-AUG-24 8VL3 0 JRNL AUTH A.C.MCSHAN,M.K.SIMMA JRNL TITL SOLUTION NMR STRUCTURE OF DE NOVO DESIGNED PROTEIN F3 PARENT JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CS-ROSETTA REMARK 3 AUTHORS : SHEN, VERNON, BAKER AND BAX REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8VL3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JAN-24. REMARK 100 THE DEPOSITION ID IS D_1000280461. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310.15 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1056.00 UM [U-13C; U-15N] 312 REMARK 210 PARENT, 100 MM NACL, 20 MM REMARK 210 SODIUM PHOSPHATE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCA; 3D REMARK 210 HNCACB; 3D HNCO; 3D CBCA(CO)NH; REMARK 210 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III HD REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, SPARKY, TALOS-N, CS REMARK 210 -ROSETTA REMARK 210 METHOD USED : NA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 3000 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 GLY A 102 REMARK 465 SER A 103 REMARK 465 HIS A 104 REMARK 465 HIS A 105 REMARK 465 TRP A 106 REMARK 465 GLY A 107 REMARK 465 SER A 108 REMARK 465 HIS A 109 REMARK 465 HIS A 110 REMARK 465 HIS A 111 REMARK 465 HIS A 112 REMARK 465 HIS A 113 REMARK 465 HIS A 114 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 1 ASN A 41 -116.60 58.04 REMARK 500 1 GLU A 51 -106.04 60.86 REMARK 500 2 ASN A 41 -107.95 72.03 REMARK 500 2 GLU A 51 -106.20 60.18 REMARK 500 2 LEU A 69 71.10 -107.09 REMARK 500 3 ASN A 41 -116.96 57.23 REMARK 500 3 GLU A 51 -105.92 60.25 REMARK 500 4 ASN A 41 -107.47 71.82 REMARK 500 4 GLU A 51 -105.80 61.00 REMARK 500 4 ARG A 70 98.82 -66.35 REMARK 500 5 GLU A 38 140.46 -170.37 REMARK 500 5 ASN A 41 -117.11 57.81 REMARK 500 5 GLU A 51 -107.00 60.85 REMARK 500 5 ARG A 70 97.70 -67.34 REMARK 500 6 ASN A 41 -116.90 57.43 REMARK 500 6 GLU A 51 -106.14 59.96 REMARK 500 6 ARG A 70 97.17 -62.59 REMARK 500 7 ASN A 41 -116.69 57.63 REMARK 500 7 GLU A 51 -106.41 60.10 REMARK 500 8 GLU A 38 114.31 -162.22 REMARK 500 8 ASN A 41 -116.54 59.05 REMARK 500 8 GLU A 51 -106.02 61.11 REMARK 500 9 ASN A 41 -116.00 56.15 REMARK 500 9 GLU A 51 -106.38 60.67 REMARK 500 9 ARG A 70 89.20 -46.71 REMARK 500 10 ASN A 41 -116.69 58.58 REMARK 500 10 GLU A 51 -106.21 60.25 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 31136 RELATED DB: BMRB REMARK 900 SOLUTION NMR STRUCTURE OF DE NOVO DESIGNED PROTEIN F3 PARENT DBREF 8VL3 A 1 114 PDB 8VL3 8VL3 1 114 SEQRES 1 A 114 ASP GLU ARG LYS LYS GLU LEU VAL ALA GLN LEU LYS GLU SEQRES 2 A 114 GLU GLY PHE SER GLU ARG ASP ILE ALA GLU ILE LEU GLY SEQRES 3 A 114 LYS ILE SER GLN GLY TYR SER LEU ILE GLU LEU GLU ARG SEQRES 4 A 114 LEU ASN ASN ALA ILE ILE ILE ILE LEU ARG LYS GLU THR SEQRES 5 A 114 GLU ILE ILE ILE LEU VAL ALA LYS GLY GLU LYS LYS ARG SEQRES 6 A 114 ILE LEU SER LEU ARG GLY MET SER LYS LYS GLU ILE LYS SEQRES 7 A 114 LYS LYS LEU ARG GLU ALA GLY LEU ASP GLU LYS GLU ILE SEQRES 8 A 114 GLU LYS VAL LEU ARG LEU LEU GLU LYS GLU GLY SER HIS SEQRES 9 A 114 HIS TRP GLY SER HIS HIS HIS HIS HIS HIS HELIX 1 AA1 ASP A 1 GLY A 15 1 15 HELIX 2 AA2 SER A 17 GLN A 30 1 14 HELIX 3 AA3 SER A 73 GLY A 85 1 13 HELIX 4 AA4 ASP A 87 GLU A 101 1 15 SHEET 1 AA1 4 SER A 33 LEU A 40 0 SHEET 2 AA1 4 ALA A 43 LYS A 50 -1 O ILE A 47 N GLU A 36 SHEET 3 AA1 4 GLU A 53 LYS A 60 -1 O GLU A 53 N LYS A 50 SHEET 4 AA1 4 LYS A 63 SER A 68 -1 O ARG A 65 N VAL A 58 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 MODEL 1