HEADER DE NOVO PROTEIN 19-MAR-21 7NY0 TITLE SOLUTION STRUCTURE OF BOSKAR4; A DE NOVO DESIGNED G-CSF AGONIST COMPND MOL_ID: 1; COMPND 2 MOLECULE: BOSKAR4; 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; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN DESIGN, G-CSF AGONIST, FOUR-HELIX BUNDLE, DE NOVO PROTEIN EXPDTA SOLUTION NMR NUMMDL 17 AUTHOR M.ELGAMACY,M.COLES REVDAT 2 08-JUN-22 7NY0 1 JRNL REVDAT 1 06-OCT-21 7NY0 0 JRNL AUTH J.SKOKOWA,B.HERNANDEZ ALVAREZ,M.COLES,M.RITTER,M.NASRI, JRNL AUTH 2 J.HAAF,N.AGHAALLAEI,Y.XU,P.MIR,A.C.KRAHL,K.W.ROGERS, JRNL AUTH 3 K.MAKSYMENKO,B.BAJOGHLI,K.WELTE,A.N.LUPAS,P.MULLER, JRNL AUTH 4 M.ELGAMACY JRNL TITL A TOPOLOGICAL REFACTORING DESIGN STRATEGY YIELDS HIGHLY JRNL TITL 2 STABLE GRANULOPOIETIC PROTEINS. JRNL REF NAT COMMUN V. 13 2948 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 35618709 JRNL DOI 10.1038/S41467-022-30157-2 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.ELGAMACY,M.RISS,H.ZHU,V.TRUFFAUT,M.COLES REMARK 1 TITL MAPPING LOCAL CONFORMATIONAL LANDSCAPES OF PROTEINS IN REMARK 1 TITL 2 SOLUTION REMARK 1 REF STRUCTURE V. 27 853 2019 REMARK 1 REFN ISSN 0969-2126 REMARK 1 DOI 10.1016/J.STR.2019.03.005 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : COMAND REMARK 3 AUTHORS : ELGAMACY, RISS, ZHU, TRUFFAULT, MURRAY, COLES REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7NY0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1292114738. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 450 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 500 UM [U-100% 15N] BOSKAR4, 150 REMARK 210 MM SODIUM PHOSPHATE, 95% H2O/5% REMARK 210 D2O; 500 UM [U-100% 13C; U-100% REMARK 210 15N] BOSKAR4, 150 MM SODIUM REMARK 210 PHOSPHATE, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCO; 3D HNCA; 3D C(CCO)NH; REMARK 210 3D HNCACB; 3D CCH-TOCSY; 3D-CNH- REMARK 210 NOESY; 13C-HSQC-NOESY; 2D-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, SPARKY REMARK 210 METHOD USED : NA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1080 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 17 REMARK 210 CONFORMERS, SELECTION CRITERIA : BACK CALCULATED DATA AGREE WITH REMARK 210 EXPERIMENTAL NOESY SPECTRUM 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 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 2 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 LEU A 29 36.74 -88.07 REMARK 500 2 ALA A 2 -69.18 68.68 REMARK 500 2 GLU A 23 0.45 -66.11 REMARK 500 2 ALA A 32 -71.87 -63.07 REMARK 500 3 ASP A 56 -63.61 -94.11 REMARK 500 4 ALA A 2 -47.46 -146.65 REMARK 500 5 GLU A 23 20.00 -71.14 REMARK 500 5 LEU A 29 38.90 -88.45 REMARK 500 6 ALA A 2 -47.17 -145.94 REMARK 500 7 GLU A 23 5.55 -66.93 REMARK 500 7 LEU A 29 44.48 -89.12 REMARK 500 8 ALA A 2 -46.58 -153.40 REMARK 500 8 GLU A 23 7.60 -66.91 REMARK 500 8 LEU A 29 42.03 -89.45 REMARK 500 9 SER A 26 73.84 59.93 REMARK 500 10 ALA A 2 42.67 -156.52 REMARK 500 10 ILE A 25 -67.12 -94.49 REMARK 500 11 GLU A 23 -74.51 -139.17 REMARK 500 12 GLU A 23 3.60 -66.68 REMARK 500 12 ASP A 56 -63.53 -94.19 REMARK 500 13 GLU A 23 20.24 -78.74 REMARK 500 14 SER A 26 73.74 56.94 REMARK 500 15 SER A 26 73.62 59.11 REMARK 500 15 LEU A 29 47.83 -90.01 REMARK 500 16 ALA A 2 -46.70 -152.83 REMARK 500 16 GLU A 23 9.94 -68.72 REMARK 500 16 LEU A 29 44.27 -88.09 REMARK 500 17 ILE A 25 -68.78 -94.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34613 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF BOSKAR4; A DE NOVO DESIGNED G-CSF AGONIST DBREF 7NY0 A 1 121 PDB 7NY0 7NY0 1 121 SEQRES 1 A 121 LEU ALA ALA ALA LEU ALA GLU ILE TYR LYS GLY LEU ALA SEQRES 2 A 121 GLU TYR GLN ALA ARG LEU LYS SER LEU GLU GLY ILE SER SEQRES 3 A 121 PRO GLU LEU GLY PRO ALA LEU ASP ALA LEU ARG LEU ASP SEQRES 4 A 121 MET ALA ASP PHE ALA THR THR MET ALA GLN ALA MET GLU SEQRES 5 A 121 GLU GLY LEU ASP SER LEU PRO GLN SER PHE LEU LEU LYS SEQRES 6 A 121 ALA LEU GLU GLN ILE ARG LYS ILE GLN ALA ASP ALA ALA SEQRES 7 A 121 ALA LEU ARG GLU LYS LEU ALA ALA THR TYR LYS GLY ASN SEQRES 8 A 121 ASP ARG ALA ALA ALA ALA VAL GLU ILE ALA ALA GLN LEU SEQRES 9 A 121 GLU ALA PHE LEU GLU LYS ALA TYR GLN ILE LEU ARG HIS SEQRES 10 A 121 LEU ALA ALA ALA HELIX 1 AA1 LEU A 1 LEU A 22 1 22 HELIX 2 AA2 SER A 26 GLU A 28 5 3 HELIX 3 AA3 LEU A 29 GLY A 54 1 26 HELIX 4 AA4 PRO A 59 TYR A 88 1 30 HELIX 5 AA5 ASN A 91 ALA A 120 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