HEADER TRANSFERASE 01-AUG-22 8ALL TITLE NMR STRUCTURE OF HOLO-ACP COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYBRID NON RIBOSOMAL PEPTIDE SYNTHETASE-POLYKETIDE COMPND 3 SYNTHASE; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES VIRGINIAE; SOURCE 3 ORGANISM_TAXID: 1961; SOURCE 4 GENE: VIRG; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ACYL CARRIER PROTEIN, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.COLLIN,K.J.WEISSMAN,B.CHAGOT,A.GRUEZ REVDAT 2 29-MAR-23 8ALL 1 JRNL REVDAT 1 22-MAR-23 8ALL 0 JRNL AUTH S.COLLIN,R.J.COX,C.PARIS,C.JACOB,B.CHAGOT,K.J.WEISSMAN, JRNL AUTH 2 A.GRUEZ JRNL TITL DECRYPTING THE PROGRAMMING OF BETA-METHYLATION IN JRNL TITL 2 VIRGINIAMYCIN M BIOSYNTHESIS. JRNL REF NAT COMMUN V. 14 1327 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 36899003 JRNL DOI 10.1038/S41467-023-36974-3 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8ALL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-AUG-22. REMARK 100 THE DEPOSITION ID IS D_1292124590. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 0.1 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1.6 MM [U-100% 13C; U-100% 15N] REMARK 210 HYBRID POLYKETIDE SYNTHASE-NON REMARK 210 RIBOSOMAL PEPTIDE SYNTHETASE REMARK 210 ACP7, 100 MM SODIUM PHOSPHATE, 1 REMARK 210 MM TCEP, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-13C HSQC; 2D 1H-15N HSQC; REMARK 210 3D HNCO; 3D HNCACB; 3D 1H-15N REMARK 210 NOESY; 3D 1H-13C NOESY; 3D 1H- REMARK 210 13C NOESY AROMATIC; 3D HCCH- REMARK 210 TOCSY; 3D CCH-TOCSY; 3D HNHA; 2D REMARK 210 1H(C12 N14) -1H(C12 N14) TOCSY; REMARK 210 2D 1H-1H(C12 N14) NOESY; 2D REMARK 210 1H(C12 N14)-1H(C12 N14) NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA, NMRFAM-SPARKY REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 TOTAL BURIED SURFACE AREA: 290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 KCAL/MOL 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 1 ARG A1900 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 ARG A1925 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 3 ARG A1900 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 6 ARG A1900 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 7 ARG A1900 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 7 ARG A1925 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 8 ARG A1900 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 8 ARG A1922 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 9 ARG A1883 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 9 ARG A1900 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 9 ARG A1925 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 11 ARG A1900 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 11 ARG A1925 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 13 ARG A1900 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 14 ARG A1883 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 14 ARG A1900 NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 14 ARG A1922 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 14 ARG A1925 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 15 ARG A1900 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 15 ARG A1922 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 16 ARG A1925 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 17 ARG A1922 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 17 ARG A1925 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 17 ARG A1948 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 19 ARG A1948 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 20 ARG A1883 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 20 ARG A1900 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 20 ARG A1948 NE - CZ - NH1 ANGL. DEV. = 3.3 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 ALA A1892 0.04 -65.89 REMARK 500 2 SER A -3 -4.00 62.55 REMARK 500 2 ALA A1892 11.08 -66.21 REMARK 500 3 TYR A -1 69.74 -100.77 REMARK 500 3 ALA A1892 7.15 -66.89 REMARK 500 3 ALA A1946 14.33 55.99 REMARK 500 4 ALA A1892 2.55 -66.21 REMARK 500 5 ALA A1892 42.66 -73.42 REMARK 500 5 THR A1926 128.27 65.17 REMARK 500 6 GLU A1875 167.23 60.79 REMARK 500 6 ALA A1892 31.27 -71.20 REMARK 500 7 GLU A1875 143.19 64.73 REMARK 500 8 SER A -3 52.35 -147.87 REMARK 500 8 ALA A1892 39.44 -73.27 REMARK 500 8 ALA A1946 38.27 -74.42 REMARK 500 9 ALA A1892 29.24 -69.84 REMARK 500 9 ALA A1949 27.09 -146.79 REMARK 500 11 MET A -2 -7.32 56.94 REMARK 500 11 ALA A1892 7.37 -68.29 REMARK 500 12 ALA A1892 37.54 -72.72 REMARK 500 13 ALA A1892 41.94 -73.09 REMARK 500 13 ALA A1946 153.41 62.93 REMARK 500 14 ALA A1892 8.64 -65.78 REMARK 500 14 ALA A1949 47.27 -80.68 REMARK 500 15 ALA A1892 27.01 -70.11 REMARK 500 15 ARG A1948 -25.28 59.93 REMARK 500 16 ALA A1892 26.90 -71.24 REMARK 500 17 ALA A1892 26.27 -68.54 REMARK 500 17 ASP A1947 151.12 -48.68 REMARK 500 18 ALA A1892 -39.82 60.51 REMARK 500 19 ALA A1892 28.07 -71.24 REMARK 500 19 SER A1945 37.55 -82.02 REMARK 500 20 SER A -3 167.68 60.62 REMARK 500 20 ALA A1892 37.33 -72.65 REMARK 500 20 ALA A1949 44.66 -74.61 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34744 RELATED DB: BMRB REMARK 900 NMR STRUCTURE OF HOLO-ACP DBREF 8ALL A 1874 1950 UNP A4PHM4 A4PHM4_STRVG 1128 1204 SEQADV 8ALL GLY A -6 UNP A4PHM4 EXPRESSION TAG SEQADV 8ALL PRO A -5 UNP A4PHM4 EXPRESSION TAG SEQADV 8ALL GLY A -4 UNP A4PHM4 EXPRESSION TAG SEQADV 8ALL SER A -3 UNP A4PHM4 EXPRESSION TAG SEQADV 8ALL MET A -2 UNP A4PHM4 EXPRESSION TAG SEQADV 8ALL TYR A -1 UNP A4PHM4 EXPRESSION TAG SEQRES 1 A 83 GLY PRO GLY SER MET TYR GLY GLU ALA VAL THR GLU GLN SEQRES 2 A 83 LEU SER ARG LEU VAL ALA GLY PHE VAL PRO ASP ALA ALA SEQRES 3 A 83 GLY SER VAL ASP PRO ASP ARG THR LEU LEU GLU HIS GLY SEQRES 4 A 83 ILE ASP SER ILE ASN LEU MET ASN LEU ARG PHE GLU ILE SEQRES 5 A 83 THR GLU ARG PHE GLY ARG THR LEU PRO LEU GLN LEU LEU SEQRES 6 A 83 SER GLU SER THR VAL PRO VAL LEU ALA ALA HIS LEU SER SEQRES 7 A 83 ALA ASP ARG ALA HIS HET PNS A2001 42 HETNAM PNS 4'-PHOSPHOPANTETHEINE FORMUL 2 PNS C11 H23 N2 O7 P S HELIX 1 AA1 ALA A 1876 ALA A 1886 1 11 HELIX 2 AA2 ASP A 1908 GLY A 1924 1 17 HELIX 3 AA3 PRO A 1928 SER A 1935 1 8 HELIX 4 AA4 THR A 1936 SER A 1945 1 10 LINK OG SER A1909 P24 PNS A2001 1555 1555 1.60 CISPEP 1 ARG A 1948 ALA A 1949 12 -4.78 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