1VM3 - Header Asymmetric Unit

HEADER ANTIBIOTIC 31-AUG-04 1VM3

TITLE SOLUTION STRUCTURE OF A MEMBRANE-TARGETING PEPTIDE DESIGNED TITLE 2 BASED ON THE N-TERMINAL SEQUENCE OF E. COLI ENZYME IIA TITLE 3 (GLUCOSE)

COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE A3; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THE PEPTIDE WAS SYNTHESIZED USING THE SOLID- SOURCE 4 PHASE METHOD AND PURIFIED BY HPLC.

KEYWDS AMPHIPATHIC HELIX, ANTIMICROBIAL PEPTIDE, BACTERIAL KEYWDS 2 MEMBRANE ANCHOR, MEMBRANE BINDING, ANTIBIOTIC

EXPDTA SOLUTION NMR

NUMMDL 5

AUTHOR G.WANG,X.LI

REVDAT 3 17-FEB-09 1VM3 1 AUTHOR VERSN REVDAT 2 01-MAR-05 1VM3 1 JRNL REVDAT 1 07-DEC-04 1VM3 0

JRNL AUTH G.WANG,Y.LI,X.LI JRNL TITL CORRELATION OF THREE-DIMENSIONAL STRUCTURES WITH JRNL TITL 2 THE ANTIBACTERIAL ACTIVITY OF A GROUP OF PEPTIDES JRNL TITL 3 DESIGNED BASED ON A NONTOXIC BACTERIAL MEMBRANE JRNL TITL 4 ANCHOR. JRNL REF J.BIOL.CHEM. V. 280 5803 2005 JRNL REFN ISSN 0021-9258 JRNL PMID 15572363 JRNL DOI 10.1074/JBC.M410116200

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH 1.06 REMARK 3 AUTHORS : SCHWIETERS, C.D., KUSZEWSKI, J., TJANDRA, N, REMARK 3 CLORE, G.M. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON 104 REMARK 3 DISTANCES DERIVED FROM THE NOESY SPECTRA, 20 BACKBONE DIHEDRAL REMARK 3 ANGLES DERIVED FROM A SET OF CHEMICAL SHIFTS USING THE NMR REMARK 3 PROGRAM TALOS, AND 5 CHI1 ANGLE RESTRAINTS.

REMARK 4 REMARK 4 1VM3 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-SEP-04. REMARK 100 THE RCSB ID CODE IS RCSB001999.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.4 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2MM PEPTIDE, 80MM SODIUM REMARK 210 DODECYLSULFATE, 90% H2O AND REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, TOCSY, DQF-COSY, REMARK 210 (1H,15N)HSQC, (1H,13C)HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE/NMRDRAW 2.1, PIPP REMARK 210 1.0, MOLMOL 2K.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 5 REMARK 210 CONFORMERS, SELECTION CRITERIA : NO NOE VIOLATIONS GREATER REMARK 210 THAN 0.50 A, RMS DIFFERENCE REMARK 210 FOR BOND DEVIATIONS FROM REMARK 210 IDEALITY LESS THAN 0.01 A, RMS REMARK 210 DIFFERENCE FOR ANGLE REMARK 210 DEVIATIONS FROM IDEALITY LESS REMARK 210 THAN 5 DEGREES, STRUCTURES REMARK 210 WITH THE LOWEREST ENERGIES IN REMARK 210 THE ENSEMBLE. 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 NMR TECHNIQUES, PLUS THE USE OF BACKBONE ANGLE REMARK 210 RESTRAINTS DERIVED FROM A SET OF HETERONUCLEAR CHEMICAL SHIFTS REMARK 210 MEASURED ON THE NATURAL ABUNDANCE PEPTIDE BOUND TO MICELLES.

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 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 12 -87.59 -87.57 REMARK 500 2 LEU A 2 -19.19 -44.90 REMARK 500 2 ASP A 12 -79.01 -89.97 REMARK 500 3 ASP A 12 -74.50 -89.84 REMARK 500 4 ASP A 12 -84.30 -90.71 REMARK 500 5 ASP A 12 -83.53 -90.94 REMARK 500 REMARK 500 REMARK: NULL

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH2 A 14

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1O53 RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE MEMBRANE ANCHOR REMARK 900 RELATED ID: 1VM2 RELATED DB: PDB REMARK 900 RELATED ID: 1VM4 RELATED DB: PDB REMARK 900 RELATED ID: 1VM5 RELATED DB: PDB

SEQRES 1 A 14 GLY LEU PHE ASP ILE VAL LYS SER LEU VAL SER ASP PHE SEQRES 2 A 14 NH2

HET NH2 A 14 3

HETNAM NH2 AMINO GROUP

FORMUL 1 NH2 H2 N

HELIX 1 1 LEU A 2 VAL A 10 1 9

LINK C PHE A 13 N NH2 A 14 1555 1555 1.31

SITE 1 AC1 3 VAL A 10 ASP A 12 PHE A 13

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