HEADER ANTIBIOTIC 31-OCT-03 1R9U TITLE REFINED STRUCTURE OF PEPTAIBOL ZERVAMICIN IIB IN METHANOL SOLUTION TITLE 2 FROM TRANS-HYDROGEN BOND J COUPLINGS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ZERVAMICIN IIB; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EMERICELLOPSIS SALMOSYNNEMATA; SOURCE 3 ORGANISM_TAXID: 118885; SOURCE 4 STRAIN: 336 IMI 58330 KEYWDS ZREVAMICIN, BIFURCATED HYDROGEN BOND, PEPTAIBOL, ANTIBACTERIAL, KEYWDS 2 ANTIFUNGAL, ANTIBIOTIC, BENT HELIX EXPDTA SOLUTION NMR NUMMDL 24 AUTHOR Z.O.SHENKAREV,T.A.BALASHOVA,Z.A.YAKIMENKO,T.V.OVCHINNIKOVA, AUTHOR 2 A.S.ARSENIEV REVDAT 5 10-OCT-18 1R9U 1 JRNL REMARK HETSYN CRYST1 REVDAT 4 27-JUL-11 1R9U 1 REMARK REVDAT 3 13-JUL-11 1R9U 1 VERSN REVDAT 2 24-FEB-09 1R9U 1 VERSN REVDAT 1 09-NOV-04 1R9U 0 JRNL AUTH T.V.OVCHINNIKOVA,Z.O.SHENKAREV,Z.A.YAKIMENKO,N.V.SVISHCHEVA, JRNL AUTH 2 A.A.TAGAEV,D.A.SKLADNEV,A.S.ARSENIEV JRNL TITL BIOSYNTHETIC UNIFORM 13C,15N-LABELLING OF ZERVAMICIN IIB. JRNL TITL 2 COMPLETE 13C AND 15N NMR ASSIGNMENT. JRNL REF J.PEPT.SCI. V. 9 817 2003 JRNL REFN ISSN 1075-2617 JRNL PMID 14658801 JRNL DOI 10.1002/PSC.499 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.A.BALASHOVA,Z.O.SHENKAREV,A.A.TAGAEV,T.V.OVCHINNIKOVA, REMARK 1 AUTH 2 J.RAAP,A.S.ARSENIEV REMARK 1 TITL NMR STRUCTURE OF THE CHANNEL-FORMER ZERVAMICIN IIB IN REMARK 1 TITL 2 ISOTROPIC SOLVENTS REMARK 1 REF FEBS LETT. V. 466 333 2000 REMARK 1 REFN ISSN 0014-5793 REMARK 1 DOI 10.1016/S0014-5793(99)01707-X REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FANTOM 4.0 REMARK 3 AUTHORS : VON FREYBERG REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE WAS REFINED USING ADDITIONAL REMARK 3 22/22 (UPPER/LOWER) RESTRAINTS FOR HYDROGEN BONDS. REFINEMENT REMARK 3 WAS DONE IN ECEPP/2 FORCE FIELD USING IMPLICIT SOLVENT MODEL REMARK 4 REMARK 4 1R9U COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-NOV-03. REMARK 100 THE DEPOSITION ID IS D_1000020616. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 305 REMARK 210 PH : 6.2 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 4MM U-15N-13C ZRV-IIB, METHANOL REMARK 210 (CD3OH) PH 6.2 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : LONG RANGE 2D-HNCO REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.6, XEASY X, DYANA 1.5 REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS, ENERGY REMARK 210 MINIMISATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1000 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 24 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, STRUCTURES REMARK 210 WITH THE LOWEST ENERGY,TARGET REMARK 210 FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE IS A REFINED STRUCTURE OF PREVIOUS REMARK 210 DEPOSITION (1DLZ) ON THE BASIS OF HYDROGEN BOND RESTRAINTS, REMARK 210 DETERMINED EXPERIMENTALY. INCLUDING RESTRAINTS FOR OBSERVED REMARK 210 BIFURCATED HYDROGEN BOND. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 ZERVAMICIN IIB IS LINEAR PEPTIDE, A MEMBER OF THE PEPTAIBOL REMARK 400 FAMILY OF MEMBRANE CHANNEL FORMING PEPTIDES. REMARK 400 HERE, ZERVAMICIN IS REPRESENTED BY THE SEQUENCE (SEQRES) REMARK 400 REMARK 400 THE ZERVAMICIN IIB IS PEPTAIBOL, A MEMBER OF ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: ZERVAMICIN IIB REMARK 400 CHAIN: A REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: ZERVAMICIN IS A HEXADECAMERIC HELICAL PEPTIDE. THE N- REMARK 400 TERM IS ACETYLATED (RESIDUE 0) REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1M24 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE PEPTAIBOL TRICHOTOXIN_A50E REMARK 900 RELATED ID: 1DLZ RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE PEPTIABOL ZERVAMICIN IIB REMARK 900 RELATED ID: 1IH9 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE PEPTAIBOL ZERVAMICIN IIB BOUND TO DPC REMARK 900 MICELLES REMARK 900 RELATED ID: 1GQ0 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE PEPTAIBOL ANTIAMOEBIN I REMARK 900 RELATED ID: 1JOH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE PEPTAIBOL ANTIAMOEBIN I REMARK 900 RELATED ID: 1AMT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE PEPTAIBOL ALAMETHICIN REMARK 900 RELATED ID: 1EE7 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE PEPTAIBOL CHRYSOSPERMIN C BOUND TO DPC REMARK 900 MICELLES REMARK 900 RELATED ID: 1OB7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE PEPTAIBOL CEPHAIBOL C REMARK 900 RELATED ID: 1OB6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE PEPTAIBOL CEPHAIBOL B REMARK 900 RELATED ID: 1OB4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE PEPTAIBOL CEPHAIBOL A DBREF 1R9U A 0 16 NOR NOR01092 NOR01092 0 16 SEQRES 1 A 17 ACE TRP ILE GLN DIV ILE THR AIB LEU AIB HYP GLN AIB SEQRES 2 A 17 HYP AIB PRO PHL HET ACE A 0 6 HET DIV A 4 16 HET AIB A 7 13 HET AIB A 9 13 HET HYP A 10 15 HET AIB A 12 13 HET HYP A 13 15 HET AIB A 14 13 HET PHL A 16 23 HETNAM ACE ACETYL GROUP HETNAM DIV D-ISOVALINE HETNAM AIB ALPHA-AMINOISOBUTYRIC ACID HETNAM HYP 4-HYDROXYPROLINE HETNAM PHL L-PHENYLALANINOL HETSYN HYP HYDROXYPROLINE HETSYN PHL BOUND FORM OF PHENYLALANINAL FORMUL 1 ACE C2 H4 O FORMUL 1 DIV C5 H11 N O2 FORMUL 1 AIB 4(C4 H9 N O2) FORMUL 1 HYP 2(C5 H9 N O3) FORMUL 1 PHL C9 H13 N O HELIX 1 1 TRP A 1 HYP A 13 1 13 LINK C ACE A 0 N TRP A 1 1555 1555 1.33 LINK C GLN A 3 N DIV A 4 1555 1555 1.33 LINK C DIV A 4 N ILE A 5 1555 1555 1.33 LINK C THR A 6 N AIB A 7 1555 1555 1.33 LINK C AIB A 7 N LEU A 8 1555 1555 1.33 LINK C LEU A 8 N AIB A 9 1555 1555 1.33 LINK C AIB A 9 N HYP A 10 1555 1555 1.36 LINK C HYP A 10 N GLN A 11 1555 1555 1.32 LINK C GLN A 11 N AIB A 12 1555 1555 1.32 LINK C AIB A 12 N HYP A 13 1555 1555 1.36 LINK C HYP A 13 N AIB A 14 1555 1555 1.33 LINK C AIB A 14 N PRO A 15 1555 1555 1.36 LINK C PRO A 15 N PHL A 16 1555 1555 1.33 CRYST1 P 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 C ACE A 0 -9.617 2.852 4.049 1.00 0.00 C HETATM 2 O ACE A 0 -9.098 2.233 3.121 1.00 0.00 O HETATM 3 CH3 ACE A 0 -11.005 2.533 4.489 1.00 0.00 C HETATM 4 H1 ACE A 0 -10.990 2.195 5.525 1.00 0.00 H HETATM 5 H2 ACE A 0 -11.626 3.425 4.407 1.00 0.00 H HETATM 6 H3 ACE A 0 -11.415 1.746 3.856 1.00 0.00 H