HEADER TRANSFERASE 21-JUN-22 8A7Z TITLE NMR STRUCTURE OF HOLO-ACP COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYBRID POLYKETIDE SYNTHASE-NON RIBOSOMAL PEPTIDE COMPND 3 SYNTHETASE; 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: VIRA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PBG102 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 8A7Z 1 JRNL REVDAT 1 22-MAR-23 8A7Z 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 8A7Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-JUN-22. REMARK 100 THE DEPOSITION ID IS D_1292123836. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1.0 MM [U-13C; U-15N] ACP5A REMARK 210 -HOLO, 100 MM SODIUM PHOSPHATE, REMARK 210 0.5 MM TCEP, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 H(CCO)NH; 3D C(CO)NH; 3D HCCH- REMARK 210 TOCSY; 3D CCH-TOCSY; 2D (HB) REMARK 210 CB(CGCD)HD; 2D (HB)CB(CGCDCE)HE; REMARK 210 3D 1H-13C NOESY ALIPHATIC; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 AROMATIC; 2D TOCSY H(C12-N14); REMARK 210 2D NOESY H(C12-N14); 2D NOESY H- REMARK 210 H(C12-N14) 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 : NMRFAM-SPARKY 1.470, CYANA, REMARK 210 TOPSPIN 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 LEAST REMARK 210 RESTRAINT VIOLATIONS 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 3 ARG A6734 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 3 ARG A6804 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 4 ARG A6734 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 4 ARG A6744 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 4 ARG A6756 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 7 ARG A6744 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 8 ARG A6734 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 8 ARG A6756 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 9 ARG A6744 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 9 ARG A6804 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 11 ARG A6744 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 12 ARG A6756 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 13 ARG A6744 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 14 ARG A6744 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 16 ARG A6734 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 16 ARG A6744 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 16 ARG A6804 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 18 ARG A6734 NE - CZ - NH2 ANGL. DEV. = 4.1 DEGREES REMARK 500 18 ARG A6744 NE - CZ - NH2 ANGL. DEV. = 4.3 DEGREES REMARK 500 18 ARG A6756 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 19 ARG A6744 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 19 ARG A6756 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 19 ARG A6804 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 20 ARG A6804 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 PRO A6785 39.32 -77.01 REMARK 500 2 PRO A6785 42.44 -78.01 REMARK 500 3 PRO A6785 43.59 -77.86 REMARK 500 4 PRO A6785 39.00 -77.07 REMARK 500 5 SER A -1 46.23 -79.40 REMARK 500 5 PRO A6785 48.85 -78.17 REMARK 500 6 ALA A6732 -77.61 -149.42 REMARK 500 6 PRO A6785 31.55 -67.65 REMARK 500 7 PRO A6785 43.94 -78.93 REMARK 500 8 PRO A6785 41.69 -78.44 REMARK 500 9 PRO A6785 37.91 -77.06 REMARK 500 11 PRO A6785 42.28 -79.03 REMARK 500 12 PRO A6785 47.51 -78.82 REMARK 500 13 PRO A6785 41.70 -77.27 REMARK 500 14 PRO A6785 47.32 -79.21 REMARK 500 15 PRO A6785 45.58 -78.31 REMARK 500 16 PRO A6785 40.73 -78.35 REMARK 500 17 PRO A6785 39.70 -77.02 REMARK 500 18 PRO A6785 43.38 -78.81 REMARK 500 19 PRO A6785 41.57 -77.63 REMARK 500 20 PRO A6785 47.12 -78.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34739 RELATED DB: BMRB REMARK 900 NMR STRUCTURE OF HOLO-ACP DBREF 8A7Z A 6732 6812 UNP A4PHN0 A4PHN0_STRVG 6732 6812 SEQADV 8A7Z GLY A -4 UNP A4PHN0 EXPRESSION TAG SEQADV 8A7Z PRO A -3 UNP A4PHN0 EXPRESSION TAG SEQADV 8A7Z GLY A -2 UNP A4PHN0 EXPRESSION TAG SEQADV 8A7Z SER A -1 UNP A4PHN0 EXPRESSION TAG SEQRES 1 A 85 GLY PRO GLY SER ALA GLY ARG GLN GLU GLU ILE ALA GLU SEQRES 2 A 85 GLU VAL ALA ARG LEU LEU ALA GLY VAL LEU TYR LEU GLU SEQRES 3 A 85 PRO ASP ARG LEU ASP PRO GLU GLU THR PHE LEU THR LEU SEQRES 4 A 85 GLY VAL ASP SER ILE LEU GLY VAL GLU PHE VAL ALA ALA SEQRES 5 A 85 VAL ASN ALA ALA TYR PRO VAL GLY VAL LYS ALA THR ALA SEQRES 6 A 85 LEU TYR ASP HIS PRO THR PRO ALA ALA PHE ALA ARG HIS SEQRES 7 A 85 ILE ALA GLU SER LEU GLY ALA HET PNS A6901 42 HETNAM PNS 4'-PHOSPHOPANTETHEINE FORMUL 2 PNS C11 H23 N2 O7 P S HELIX 1 AA1 GLY A 6733 LEU A 6750 1 18 HELIX 2 AA2 ASP A 6769 TYR A 6784 1 16 HELIX 3 AA3 THR A 6791 HIS A 6796 1 6 HELIX 4 AA4 THR A 6798 LEU A 6810 1 13 LINK OG SER A6770 P24 PNS A6901 1555 1555 1.61 CISPEP 1 GLY A -4 PRO A -3 6 -3.08 CISPEP 2 GLY A 6733 ARG A 6734 10 -8.79 CISPEP 3 GLY A -4 PRO A -3 11 -0.71 CISPEP 4 GLY A -4 PRO A -3 19 -0.60 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