HEADER BIOSYNTHETIC PROTEIN 28-JUN-23 8TB1 TITLE SOLUTION NMR STRUCTURE OF A RIPP PROTEUSIN PRECURSOR PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: NHLP LEADER PEPTIDE FAMILY NATURAL PRODUCT, TUMOR HOMING COMPND 3 PEPTIDE 1 (TH1) SUBSTRATE CHIMERA; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: CHIMERA OF MPRE7 GENE + SYNTHETIC TUMOR HOMING PEPTIDE COMPND 7 1 (TH1) SUBSTRATE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHYLOVULUM PSYCHROTOLERANS, SYNTHETIC SOURCE 3 CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 1704499, 32630; SOURCE 5 GENE: AADEFJLK_03368; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS RIPP, PROTEUSIN, NHLP, NITRILE HDYDRATASE-LIKE PROTEIN, BIOSYNTHETIC KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR A.C.MCSHAN,A.VINAYAK,N.A.NGUYEN REVDAT 2 01-MAY-24 8TB1 1 JRNL REVDAT 1 14-FEB-24 8TB1 0 JRNL AUTH N.A.NGUYEN,F.N.U.VIDYA,N.H.YENNAWAR,H.WU,A.C.MCSHAN, JRNL AUTH 2 V.AGARWAL JRNL TITL DISORDERED REGIONS IN PROTEUSIN PEPTIDES GUIDE JRNL TITL 2 POST-TRANSLATIONAL MODIFICATION BY A FLAVIN-DEPENDENT RIPP JRNL TITL 3 BROMINASE. JRNL REF NAT COMMUN V. 15 1265 2024 JRNL REFN ESSN 2041-1723 JRNL PMID 38341413 JRNL DOI 10.1038/S41467-024-45593-5 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 8TB1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUN-23. REMARK 100 THE DEPOSITION ID IS D_1000275578. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298.15 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.4 MM [U-100% 13C; U-100% 15N] REMARK 210 MPRE7-TH1, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D 1H-15N NOESY; REMARK 210 3D HNCACB; 3D CBCA(CO)NH; 3D HNCO REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : BRUKER AVIIIHD-800 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 2000 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 -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 7 PRO A 64 CD PRO A 64 N 0.126 REMARK 500 REMARK 500 REMARK: NULL 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 7 PRO A 64 CA - N - CD ANGL. DEV. = -10.1 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 ASN A 52 43.58 -140.12 REMARK 500 2 ASP A 29 80.58 -150.28 REMARK 500 3 ASP A 29 83.68 -153.76 REMARK 500 3 LEU A 50 -159.31 -102.20 REMARK 500 3 GLU A 51 129.73 -36.38 REMARK 500 3 THR A 53 -167.58 -128.16 REMARK 500 3 THR A 55 -85.59 -115.80 REMARK 500 4 ASP A 29 82.70 -153.85 REMARK 500 4 GLU A 51 126.46 -39.26 REMARK 500 4 GLU A 67 94.18 -69.31 REMARK 500 5 LEU A 50 -164.96 -104.48 REMARK 500 6 ASP A 29 83.77 -151.47 REMARK 500 6 PRO A 86 -169.55 -77.16 REMARK 500 7 ASP A 29 86.12 -156.14 REMARK 500 8 SER A 38 106.56 -50.08 REMARK 500 8 ALA A 40 83.53 -68.42 REMARK 500 9 ASP A 29 82.49 -151.14 REMARK 500 10 ASP A 29 85.42 -150.68 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 31097 RELATED DB: BMRB REMARK 900 SOLUTION NMR STRUCTURE OF A RIPP PROTEUSIN PRECURSOR PROTEIN DBREF1 8TB1 A 1 81 UNP A0A2S5CJC8_9GAMM DBREF2 8TB1 A A0A2S5CJC8 1 81 DBREF 8TB1 A 82 87 PDB 8TB1 8TB1 82 87 SEQADV 8TB1 GLY A -3 UNP A0A2S5CJC EXPRESSION TAG SEQADV 8TB1 SER A -2 UNP A0A2S5CJC EXPRESSION TAG SEQADV 8TB1 HIS A -1 UNP A0A2S5CJC EXPRESSION TAG SEQADV 8TB1 MET A 0 UNP A0A2S5CJC EXPRESSION TAG SEQRES 1 A 91 GLY SER HIS MET MET ASN GLU GLU GLN THR GLN GLN TYR SEQRES 2 A 91 SER GLN ILE VAL ALA LYS CYS TRP ALA ASP ALA GLU PHE SEQRES 3 A 91 LYS ALA LYS LEU ILE ALA ASP PRO LYS ALA THR LEU ALA SEQRES 4 A 91 ALA GLU SER ILE ALA VAL PRO ASP GLY ILE GLU LEU ARG SEQRES 5 A 91 VAL LEU GLU ASN THR ALA THR VAL VAL ASN LEU VAL LEU SEQRES 6 A 91 PRO PRO PRO PRO ALA GLU GLY GLU LEU SER ASP GLU ASP SEQRES 7 A 91 LEU GLY ALA VAL THR GLY GLY LEU THR VAL LEU PRO TRP HELIX 1 AA1 ASN A 2 ASP A 19 1 18 HELIX 2 AA2 ASP A 19 ASP A 29 1 11 HELIX 3 AA3 ASP A 29 GLU A 37 1 9 HELIX 4 AA4 SER A 71 VAL A 78 1 8 SHEET 1 AA1 2 ARG A 48 ASN A 52 0 SHEET 2 AA1 2 VAL A 57 VAL A 60 -1 O VAL A 60 N ARG A 48 CISPEP 1 LEU A 85 PRO A 86 5 12.14 CISPEP 2 LEU A 85 PRO A 86 6 -6.93 CISPEP 3 LEU A 85 PRO A 86 10 14.19 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