HEADER ANTIBIOTIC 25-SEP-06 2IH0 TITLE NMR STRUCTURE DETERMINATION OF A SYNTHETIC ANALOGUE OF THE ITURINIC TITLE 2 ANTIBIOTIC BACILLOMYCIN LC COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACILLOMYCIN L-3; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: SYNTHETIC ANALOGUE OF BACILLOMYCIN LC, WITH BETA COMPND 6 ALANINE AND ASP AT POSITIONS 1 AND 2, RESPECTIVELY. SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 4 ORGANISM_TAXID: 1423 KEYWDS ITURINS, ANTIFUNGAL, CYCLOPEPTIDE, LIPOPEPTIDE, SURFACTANT KEYWDS 2 BACILLOMYCIN, ANTIBIOTIC EXPDTA SOLUTION NMR NUMMDL 31 AUTHOR L.VOLPON,P.TSAN,F.BESSON,J.LANCELIN REVDAT 6 30-OCT-24 2IH0 1 REMARK SEQADV LINK REVDAT 5 27-JUL-11 2IH0 1 HETATM REMARK REVDAT 4 13-JUL-11 2IH0 1 VERSN REVDAT 3 24-FEB-09 2IH0 1 VERSN REVDAT 2 14-AUG-07 2IH0 1 JRNL REVDAT 1 03-OCT-06 2IH0 0 JRNL AUTH L.VOLPON,P.TSAN,Z.MAJER,E.VASS,M.HOLLOSI,V.NOGUERA, JRNL AUTH 2 J.M.LANCELIN,F.BESSON JRNL TITL NMR STRUCTURE DETERMINATION OF A SYNTHETIC ANALOGUE OF JRNL TITL 2 BACILLOMYCIN LC REVEALS THE STRATEGIC ROLE OF L-ASN1 IN THE JRNL TITL 3 NATURAL ITURINIC ANTIBIOTICS. JRNL REF SPECTROCHIM ACTA A V. 67 1374 2007 JRNL REF 2 MOL.BIOMOL.SPECTROSC. JRNL PMID 17129757 JRNL DOI 10.1016/J.SAA.2006.10.027 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.VOLPON,F.BESSON,J.M.LANCELIN REMARK 1 TITL NMR STRUCTURE OF ACTIVE AND INACTIVE FORMS OF THE REMARK 1 TITL 2 STEROL-DEPENDENT ANTIFUNGAL ANTIBIOTIC BACILLOMYCIN L REMARK 1 REF EUR.J.BIOCHEM. V. 264 200 1999 REMARK 1 REFN ISSN 0014-2956 REMARK 1 PMID 10447689 REMARK 1 DOI 10.1046/J.1432-1327.1999.00605.X REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851, CHARMM 22 REMARK 3 AUTHORS : (X-PLOR), (CHARMM) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 62 RESTRAINTS, 60 ARE NOE-DERIVED DISTANCE CONSTRAINTS, 2 REMARK 3 DIHEDRAL ANGLE RESTRAINTS. THE 31 STRUCTURES WERE DIVIDED INTO REMARK 3 TWO FAMILIES OF SIMILAR ENERGY WHICH ESSENTIALLY DIFFER IN THE REMARK 3 NUMBER AND TYPE OF TURNS. THE TWO FAMILIES ARE S'1 (STRUCTURES 1- REMARK 3 14) AND S'2 (STRUCTURES 15-31). REMARK 4 REMARK 4 2IH0 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1000039559. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 292 REMARK 210 PH : NULL REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 6MM SYNTHETIC CYCLOPEPTIDE IN REMARK 210 100% DMSO-D6 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : DQF-COSY; 2D NOESY; 2D-TOCSY REMARK 210 (HOHAHA); 2D-ROESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR, GIFA 4.0, MOLMOL REMARK 210 METHOD USED : DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 31 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, STRUCTURES REMARK 210 WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES 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 400 REMARK 400 COMPOUND REMARK 400 BACILLOMYCIN L-3 IS A CYCLIC HEPTA-LIPOPEPTIDE. REMARK 400 HERE, BACILLOMYCIN ANALOGUE IS REPRESENTED BY THE SEQUENCE (SEQRES) REMARK 400 REMARK 400 THE BACILLOMYCIN L-3 IS POLYPEPTIDE, A MEMBER OF ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: BACILLOMYCIN L-3 REMARK 400 CHAIN: A REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: BACILLOMYCIN ANALOGUE IS A CYCLIC HEPTA-LIPOPEPTIDE REMARK 400 WITH 8 AMINO-ACIDS OF CONFIGURATION LLDDLLDL THE REMARK 400 BETA-ALANINE IS LINKED VIA A PEPTIDE BOND TO BOTH REMARK 400 RESIDUES 2 AND 8. 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 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 GLN A 6 N - CA - C ANGL. DEV. = -16.7 DEGREES REMARK 500 4 GLN A 6 N - CA - C ANGL. DEV. = -16.5 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 ASP A 2 -161.16 63.11 REMARK 500 2 ASP A 2 -156.52 61.24 REMARK 500 3 ASP A 2 -151.34 57.17 REMARK 500 3 DTY A 3 -35.90 88.01 REMARK 500 4 ASP A 2 -155.42 60.18 REMARK 500 4 DSG A 4 53.56 131.93 REMARK 500 5 ASP A 2 -154.06 60.63 REMARK 500 5 DTY A 3 -41.47 85.67 REMARK 500 6 ASP A 2 -158.28 54.52 REMARK 500 7 ASP A 2 -157.70 55.71 REMARK 500 8 ASP A 2 -146.64 64.49 REMARK 500 9 ASP A 2 -159.67 73.41 REMARK 500 10 ASP A 2 -147.62 62.08 REMARK 500 10 DTY A 3 -41.72 89.37 REMARK 500 11 ASP A 2 -158.35 56.21 REMARK 500 12 ASP A 2 -149.27 58.46 REMARK 500 12 DTY A 3 -49.97 84.82 REMARK 500 13 ASP A 2 -155.43 65.53 REMARK 500 13 DSG A 4 34.67 131.66 REMARK 500 14 ASP A 2 -159.60 64.01 REMARK 500 16 DSG A 4 -78.25 100.64 REMARK 500 17 DTY A 3 -56.95 157.53 REMARK 500 19 DTY A 3 -16.13 145.09 REMARK 500 20 DTY A 3 6.38 140.18 REMARK 500 21 DTY A 3 -24.18 149.41 REMARK 500 24 SER A 5 -51.58 -178.07 REMARK 500 25 DTY A 3 -34.21 141.08 REMARK 500 25 SER A 5 -56.91 -175.68 REMARK 500 26 SER A 5 -73.23 -90.08 REMARK 500 28 DTY A 3 -33.28 145.46 REMARK 500 28 SER A 5 -54.25 -174.65 REMARK 500 29 DTY A 3 -40.06 159.94 REMARK 500 30 DTY A 3 -30.52 152.29 REMARK 500 30 GLN A 6 -156.59 -142.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 DSN A 7 THR A 8 30 145.25 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7295 RELATED DB: BMRB REMARK 900 ANALOGUE OF BACILLOMYCIN LC REMARK 900 RELATED ID: 7294 RELATED DB: BMRB REMARK 900 BACILLOMYCIN LC REMARK 900 RELATED ID: 2IGZ RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE STEROL-DEPENDENT ANTIFUNGAL ANTIBIOTIC REMARK 900 BACILLOMYCIN LC DBREF 2IH0 A 1 8 NOR NOR00781 NOR00781 1 8 SEQADV 2IH0 BAL A 1 NOR NOR00781 AFC 1 ENGINEERED MUTATION SEQADV 2IH0 ASP A 2 NOR NOR00781 ASN 2 ENGINEERED MUTATION SEQADV 2IH0 GLN A 6 NOR NOR00781 GLY 6 ENGINEERED MUTATION SEQRES 1 A 8 BAL ASP DTY DSG SER GLN DSN THR HET BAL A 1 10 HET DTY A 3 21 HET DSG A 4 14 HET DSN A 7 11 HETNAM BAL BETA-ALANINE HETNAM DTY D-TYROSINE HETNAM DSG D-ASPARAGINE HETNAM DSN D-SERINE FORMUL 1 BAL C3 H7 N O2 FORMUL 1 DTY C9 H11 N O3 FORMUL 1 DSG C4 H8 N2 O3 FORMUL 1 DSN C3 H7 N O3 LINK C BAL A 1 N ASP A 2 1555 1555 1.35 LINK N BAL A 1 C THR A 8 1555 1555 1.35 LINK C ASP A 2 N DTY A 3 1555 1555 1.35 LINK C DTY A 3 N DSG A 4 1555 1555 1.34 LINK C DSG A 4 N SER A 5 1555 1555 1.35 LINK C GLN A 6 N DSN A 7 1555 1555 1.35 LINK C DSN A 7 N THR A 8 1555 1555 1.34 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 HETATM 1 N BAL A 1 0.226 1.341 2.613 1.00 0.00 N HETATM 2 CB BAL A 1 1.634 1.048 2.739 1.00 0.00 C HETATM 3 CA BAL A 1 2.613 2.219 2.416 1.00 0.00 C HETATM 4 C BAL A 1 2.749 2.502 0.950 1.00 0.00 C HETATM 5 O BAL A 1 3.856 2.741 0.472 1.00 0.00 O HETATM 6 H BAL A 1 -0.285 0.833 1.913 1.00 0.00 H HETATM 7 HB3 BAL A 1 1.814 0.231 2.061 1.00 0.00 H HETATM 8 HB2 BAL A 1 1.776 0.762 3.773 1.00 0.00 H HETATM 9 HA1 BAL A 1 3.618 1.942 2.803 1.00 0.00 H HETATM 10 HA2 BAL A 1 2.290 3.140 2.947 1.00 0.00 H