HEADER ANTIMICROBIAL PEPTIDE 21-NOV-03 1RKK TITLE POLYPHEMUSIN I NMR SOLUTION STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYPHEMUSIN I; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED USING FMOC SOURCE 6 SOLID STATE SYNTHESIS. THE SEQUENCE OF THE PEPTIDE IS NATURALLY SOURCE 7 FOUND IN TACHYPLEUS POLYPHEMUS (AMERICAN HORESHOE CRAB). KEYWDS POLYPHEMUSIN, BETA HAIRPIN, DISULFIDE BRIDGE, ANTI-MICROBIAL PEPTIDE, KEYWDS 2 ANTIMICROBIAL PEPTIDE EXPDTA SOLUTION NMR NUMMDL 17 AUTHOR J.P.S.POWERS,A.ROZEK,R.E.W.HANCOCK REVDAT 3 24-JUN-20 1RKK 1 SOURCE REMARK DBREF LINK REVDAT 2 24-FEB-09 1RKK 1 VERSN REVDAT 1 31-AUG-04 1RKK 0 JRNL AUTH J.P.S.POWERS,A.ROZEK,R.E.W.HANCOCK JRNL TITL STRUCTURE-ACTIVITY RELATIONSHIPS FOR THE BETA-HAIRPIN JRNL TITL 2 CATIONIC ANTIMICROBIAL PEPTIDE POLYPHEMUSIN I. JRNL REF BIOCHIM.BIOPHYS.ACTA V.1698 239 2004 JRNL REFN ISSN 0006-3002 JRNL PMID 15134657 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH 2.9.0 REMARK 3 AUTHORS : SCHWIETERS,KUSZEWSKI,TJANDRA,CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1RKK COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-NOV-03. REMARK 100 THE DEPOSITION ID IS D_1000020839. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 4.0 REMARK 210 IONIC STRENGTH : NO SALT REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2 MM POLYPHEMUSIN I REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 2D TOCSY; DQF-COSY 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 : NMRVIEW 5.0.3 REMARK 210 METHOD USED : DISTANCE GEOMETRY WITH SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 17 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: 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 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: 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: 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 ARG A 2 136.63 62.92 REMARK 500 1 TRP A 3 93.07 39.67 REMARK 500 1 CYS A 4 133.69 60.73 REMARK 500 1 ARG A 6 105.72 57.86 REMARK 500 1 TYR A 9 44.06 -98.79 REMARK 500 1 ARG A 15 79.02 -175.34 REMARK 500 2 CYS A 4 141.26 -176.89 REMARK 500 2 PHE A 5 -167.58 43.29 REMARK 500 2 TYR A 9 47.88 -88.74 REMARK 500 2 LYS A 16 130.30 177.83 REMARK 500 3 ARG A 2 148.46 -178.15 REMARK 500 3 TRP A 3 85.15 43.89 REMARK 500 3 CYS A 4 141.22 -171.86 REMARK 500 3 PHE A 5 18.27 55.51 REMARK 500 3 ARG A 6 102.14 -177.79 REMARK 500 3 TYR A 9 43.33 -90.39 REMARK 500 3 TYR A 14 -160.97 -128.71 REMARK 500 3 LYS A 16 133.91 -170.60 REMARK 500 4 TRP A 3 118.82 53.59 REMARK 500 5 ARG A 2 111.61 -173.17 REMARK 500 5 PHE A 5 -164.11 56.66 REMARK 500 5 ARG A 6 103.93 -48.87 REMARK 500 6 TRP A 3 115.01 59.34 REMARK 500 6 CYS A 4 113.36 56.79 REMARK 500 6 PHE A 5 -69.14 -92.93 REMARK 500 6 ARG A 6 81.97 62.56 REMARK 500 6 TYR A 9 49.49 -94.24 REMARK 500 6 LYS A 16 128.56 170.75 REMARK 500 7 ARG A 2 144.38 -172.92 REMARK 500 7 TRP A 3 87.86 57.14 REMARK 500 7 CYS A 4 134.44 178.71 REMARK 500 7 TYR A 9 52.14 -90.88 REMARK 500 8 TRP A 3 84.78 38.41 REMARK 500 8 PHE A 5 171.36 71.21 REMARK 500 8 ARG A 6 -37.70 -154.09 REMARK 500 8 TYR A 9 52.01 -101.40 REMARK 500 8 CYS A 17 142.78 178.23 REMARK 500 9 TRP A 3 79.56 -58.95 REMARK 500 9 TYR A 9 45.63 -101.57 REMARK 500 9 ARG A 15 145.95 -178.50 REMARK 500 9 LYS A 16 122.17 -176.44 REMARK 500 10 TRP A 3 123.80 63.26 REMARK 500 10 CYS A 4 138.66 66.77 REMARK 500 10 PHE A 5 -150.22 -113.73 REMARK 500 10 ARG A 6 101.02 -176.98 REMARK 500 10 TYR A 9 43.96 -97.68 REMARK 500 10 ARG A 15 76.07 -150.99 REMARK 500 10 CYS A 17 149.57 178.68 REMARK 500 11 TRP A 3 82.71 40.94 REMARK 500 11 TYR A 9 40.70 -96.55 REMARK 500 REMARK 500 THIS ENTRY HAS 73 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 1 0.31 SIDE CHAIN REMARK 500 1 ARG A 2 0.21 SIDE CHAIN REMARK 500 1 ARG A 6 0.30 SIDE CHAIN REMARK 500 1 ARG A 10 0.16 SIDE CHAIN REMARK 500 1 ARG A 15 0.25 SIDE CHAIN REMARK 500 1 ARG A 18 0.24 SIDE CHAIN REMARK 500 2 ARG A 1 0.29 SIDE CHAIN REMARK 500 2 ARG A 2 0.28 SIDE CHAIN REMARK 500 2 ARG A 6 0.29 SIDE CHAIN REMARK 500 2 ARG A 10 0.20 SIDE CHAIN REMARK 500 2 ARG A 15 0.21 SIDE CHAIN REMARK 500 2 ARG A 18 0.29 SIDE CHAIN REMARK 500 3 ARG A 1 0.31 SIDE CHAIN REMARK 500 3 ARG A 2 0.24 SIDE CHAIN REMARK 500 3 ARG A 6 0.30 SIDE CHAIN REMARK 500 3 ARG A 10 0.19 SIDE CHAIN REMARK 500 3 ARG A 15 0.16 SIDE CHAIN REMARK 500 3 ARG A 18 0.21 SIDE CHAIN REMARK 500 4 ARG A 1 0.31 SIDE CHAIN REMARK 500 4 ARG A 2 0.14 SIDE CHAIN REMARK 500 4 ARG A 6 0.29 SIDE CHAIN REMARK 500 4 ARG A 10 0.25 SIDE CHAIN REMARK 500 4 ARG A 15 0.25 SIDE CHAIN REMARK 500 4 ARG A 18 0.17 SIDE CHAIN REMARK 500 5 ARG A 1 0.28 SIDE CHAIN REMARK 500 5 ARG A 2 0.30 SIDE CHAIN REMARK 500 5 ARG A 10 0.21 SIDE CHAIN REMARK 500 5 ARG A 15 0.21 SIDE CHAIN REMARK 500 5 ARG A 18 0.12 SIDE CHAIN REMARK 500 6 ARG A 1 0.24 SIDE CHAIN REMARK 500 6 ARG A 2 0.26 SIDE CHAIN REMARK 500 6 ARG A 6 0.27 SIDE CHAIN REMARK 500 6 ARG A 10 0.25 SIDE CHAIN REMARK 500 6 ARG A 15 0.25 SIDE CHAIN REMARK 500 6 ARG A 18 0.11 SIDE CHAIN REMARK 500 7 ARG A 1 0.32 SIDE CHAIN REMARK 500 7 ARG A 2 0.29 SIDE CHAIN REMARK 500 7 ARG A 6 0.15 SIDE CHAIN REMARK 500 7 ARG A 10 0.17 SIDE CHAIN REMARK 500 7 ARG A 15 0.27 SIDE CHAIN REMARK 500 7 ARG A 18 0.31 SIDE CHAIN REMARK 500 8 ARG A 1 0.23 SIDE CHAIN REMARK 500 8 ARG A 2 0.31 SIDE CHAIN REMARK 500 8 ARG A 6 0.09 SIDE CHAIN REMARK 500 8 ARG A 10 0.21 SIDE CHAIN REMARK 500 8 ARG A 15 0.32 SIDE CHAIN REMARK 500 8 ARG A 18 0.31 SIDE CHAIN REMARK 500 9 ARG A 1 0.32 SIDE CHAIN REMARK 500 9 ARG A 2 0.25 SIDE CHAIN REMARK 500 9 ARG A 6 0.32 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 100 PLANE DEVIATIONS. 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 19 REMARK 999 REMARK 999 SEQUENCE REMARK 999 AT THE TIME OF PROCESSING, NO REFERENCE REMARK 999 SEQUENCE WAS PRESENT IN THE SEQUENCE REMARK 999 DATABASE FOR THIS SPECIES, TACHYPLEUS POLYPHEMUS REMARK 999 (AMERICAN HORESHOE CRAB). DBREF 1RKK A 1 19 PDB 1RKK 1RKK 1 19 SEQRES 1 A 19 ARG ARG TRP CYS PHE ARG VAL CYS TYR ARG GLY PHE CYS SEQRES 2 A 19 TYR ARG LYS CYS ARG NH2 HET NH2 A 19 3 HETNAM NH2 AMINO GROUP FORMUL 1 NH2 H2 N SHEET 1 A 2 VAL A 7 CYS A 8 0 SHEET 2 A 2 CYS A 13 TYR A 14 -1 O TYR A 14 N VAL A 7 SSBOND 1 CYS A 4 CYS A 17 1555 1555 2.02 SSBOND 2 CYS A 8 CYS A 13 1555 1555 2.02 LINK C ARG A 18 N NH2 A 19 1555 1555 1.31 SITE 1 AC1 1 ARG A 18 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