HEADER DE NOVO PROTEIN 12-SEP-24 9DM3 TITLE DE NOVO DESIGN OF PROTEINS THAT BIND NAPHTHALENEDIIMIDES, POWERFUL TITLE 2 PHOTOOXIDANTS WITH TUNABLE PHOTOPHYSICAL PROPERTIES COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAPHTHALENEDIIMIDE BINDING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICANA; SOURCE 3 ORGANISM_TAXID: 456393; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NAPHTHALENEDIIMIDES, PHOTOPHYSICAL PROPERTIES, DE NOVO PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR Y.WU,S.I.MANN,W.F.DEGRADO REVDAT 2 19-MAR-25 9DM3 1 JRNL REVDAT 1 05-MAR-25 9DM3 0 JRNL AUTH S.I.MANN,Z.LIN,S.K.TAN,J.ZHU,Z.X.W.WIDEL,I.BAKANAS, JRNL AUTH 2 J.P.MANSERGH,R.LIU,M.J.S.KELLY,Y.WU,J.A.WELLS,M.J.THERIEN, JRNL AUTH 3 W.F.DEGRADO JRNL TITL DE NOVO DESIGN OF PROTEINS THAT BIND NAPHTHALENEDIIMIDES, JRNL TITL 2 POWERFUL PHOTOOXIDANTS WITH TUNABLE PHOTOPHYSICAL JRNL TITL 3 PROPERTIES. JRNL REF J.AM.CHEM.SOC. V. 147 7849 2025 JRNL REFN ESSN 1520-5126 JRNL PMID 39982408 JRNL DOI 10.1021/JACS.4C18151 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 9DM3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1000288354. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 200 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.2 MM [U-100% 13C; U-100% 15N] REMARK 210 PROTEIN 1, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-13C HSQC; 2D 1H-15N HSQC; REMARK 210 3D C(CO)NH; 3D CBCA(CO)NH; 3D REMARK 210 HNCACB; 3D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN REMARK 210 METHOD USED : NA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 10 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED 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 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 8 82.55 -69.60 REMARK 500 2 THR A 73 -61.23 -121.86 REMARK 500 7 ASN A 8 43.66 -107.79 REMARK 500 8 TYR A 10 59.93 -141.08 REMARK 500 9 HIS A 5 50.80 -119.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 52600 RELATED DB: BMRB DBREF 9DM3 A 1 132 PDB 9DM3 9DM3 1 132 SEQRES 1 A 132 HIS HIS HIS HIS HIS HIS GLU ASN LEU TYR PHE GLN SER SEQRES 2 A 132 SER ALA LYS GLN ASP PHE ALA GLU GLY VAL LYS LEU TRP SEQRES 3 A 132 GLN GLU ASN ALA VAL LEU TRP THR ARG LEU VAL GLN ALA SEQRES 4 A 132 PHE GLN SER GLY ASP GLN SER THR VAL ASP SER LEU LEU SEQRES 5 A 132 LYS GLN LEU ASP ALA ASN ALA ALA ARG VAL GLU GLN LEU SEQRES 6 A 132 LEU GLN ARG ILE ILE SER GLU THR GLY ASP GLU LEU ALA SEQRES 7 A 132 ARG LYS GLY GLU SER LEU PHE GLN ARG ASN GLN GLN LEU SEQRES 8 A 132 PHE SER GLN LEU LYS THR LEU PHE SER GLN GLY ASP GLU SEQRES 9 A 132 ASP THR ALA LYS ALA VAL LEU GLU GLU ILE GLN SER ASN SEQRES 10 A 132 LEU ASN GLN ILE GLN GLN ILE ILE THR GLU ALA GLN LYS SEQRES 11 A 132 ARG LEU HELIX 1 AA1 GLN A 12 GLY A 43 1 32 HELIX 2 AA2 ASP A 44 THR A 73 1 30 HELIX 3 AA3 ASP A 75 GLY A 102 1 28 HELIX 4 AA4 ASP A 103 LEU A 132 1 30 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 ENDMDL MODEL 2 ENDMDL MODEL 3 ENDMDL MODEL 4 ENDMDL MODEL 5 ENDMDL MODEL 6 ENDMDL MODEL 7 ENDMDL MODEL 8 ENDMDL MODEL 9 ENDMDL MODEL 10 ENDMDL MASTER 94 0 0 4 0 0 0 6 1073 1 0 11 END