HEADER SIGNALING PROTEIN 03-DEC-99 1BY6 TITLE PEPTIDE OF HUMAN APOLIPOPROTEIN C-II COMPND MOL_ID: 1; COMPND 2 MOLECULE: APOLIPOPROTEIN C-II; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 44-79; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_COMMON: HUMAN; SOURCE 5 ORGANISM_TAXID: 9606; SOURCE 6 OTHER_DETAILS: THIS PEPTIDE WAS CHEMICALLY SYNTHESIZED ON AN ABI SOURCE 7 430A SYNTHESIZER (PE APPLIED BIOSYSTEMS, FOSTER CITY, CA, USA) BY SOURCE 8 THE SOLID PHASE METHOD USING T-BOC/BENZYL PROTECTING GROUPS AND A SOURCE 9 PHENYL-ACETAMIDOMETHYL-POLYSTYRENE SUPPORT WITH FAST HBTU/HOBT SOURCE 10 COUPLING. AFTER SYNTHESIS THE PEPTIDE WAS DEPROTECTED AND CLEAVED SOURCE 11 FROM THE RESIN WITH TMSBR. KEYWDS APOLIPOPROTEIN, AMPHIPATHIC HELIX, LIPID ASSOCIATION, LPL ACTIVATION, KEYWDS 2 SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 19 AUTHOR R.STORJOHANN,A.ROZEK,J.T.SPARROW,R.J.CUSHLEY REVDAT 4 10-APR-24 1BY6 1 REMARK REVDAT 3 14-MAR-18 1BY6 1 SOURCE REMARK REVDAT 2 24-FEB-09 1BY6 1 VERSN REVDAT 1 15-NOV-00 1BY6 0 JRNL AUTH R.STORJOHANN,A.ROZEK,J.T.SPARROW,R.J.CUSHLEY JRNL TITL STRUCTURE OF A BIOLOGICALLY ACTIVE FRAGMENT OF HUMAN SERUM JRNL TITL 2 APOLIPOPROTEIN C-II IN THE PRESENCE OF SODIUM DODECYL JRNL TITL 3 SULFATE AND DODECYLPHOSPHOCHOLINE. JRNL REF BIOCHIM.BIOPHYS.ACTA V.1486 253 2000 JRNL REFN ISSN 0006-3002 JRNL PMID 10903476 JRNL DOI 10.1016/S1388-1981(00)00062-7 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE OF APOC-II(44-79) IN THE REMARK 3 PRESENCE OF SODIUM DODECYL SULFATE WAS REFINED USING A REMARK 3 RELAXATION MATRIX REFINEMENT PROTOCOL BASED ON 241 NOESY CROSS- REMARK 3 PEAK INTENSITIES MEASURED AT SEVEN DIFFERENT NOESY MIXING TIMES REMARK 3 BETWEEN 75 MS AND 300 MS. NO DIHEDRAL RESTRAINTS WERE USED. THIS REMARK 3 ENTRY CONTAINS 19 ACCEPTED STRUCTURES. ONE CALCULATED STRUCTURE REMARK 3 WAS REJECTED BECAUSE OF HIGH COVALENT ENERGY. STRUCTURE REMARK 3 CALCULATIONS WERE PERFORMED WITH THE PROGRAM X-PLOR (AXEL REMARK 3 BRUNGER) INCLUDING DISTANCE GEOMETRY CALCULATIONS, SIMULATED REMARK 3 ANNEALING (BOTH UNDER THE ISOLATED SPIN PAIR APPROXIMATION AND REMARK 3 COMPLETE RELAXATION MATRIX CALCULATIONS) AS WELL AS ENERGY REMARK 3 MINIMIZATION WITH A CONJUGATED GRADIENT. THE CHARMM FORCEFIELD REMARK 3 WAS USED. FOR DETAILS ON STRUCTURE CALCULATION PLEASE SEE REMARK 3 REFERENCE CITED UNDER "JRNL". REMARK 4 REMARK 4 1BY6 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-DEC-99. REMARK 100 THE DEPOSITION ID IS D_1000010133. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 4.1 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : PERDEUTERATED SODIUM DODECYL REMARK 210 SULFATE (SDS) IN 160 FOLD MOLAR REMARK 210 EXCESS RELATIVE TO PEPTIDE REMARK 210 CONCENTRATION REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 2D-TOCSY; DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX 600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR REMARK 210 METHOD USED : DISTANCE GEOMETRY/SIMULATED REMARK 210 ANNEALING/RELAXATION MATRIX REMARK 210 REFINEMENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 19 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 19 REMARK 210 REMARK 210 REMARK: USING WATERGATE FOR WATER SUPPRESSION 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 VAL A 45 77.58 -117.75 REMARK 500 1 LYS A 48 -50.80 -135.63 REMARK 500 1 ARG A 50 117.06 56.87 REMARK 500 1 LYS A 55 -37.92 -177.49 REMARK 500 1 ALA A 59 45.97 72.52 REMARK 500 1 SER A 61 25.69 44.90 REMARK 500 1 TYR A 63 70.02 -102.25 REMARK 500 1 ILE A 66 61.27 -178.90 REMARK 500 1 ASP A 69 176.89 52.75 REMARK 500 1 GLN A 70 -92.58 45.33 REMARK 500 1 SER A 73 40.10 -149.40 REMARK 500 1 GLU A 78 36.87 -178.77 REMARK 500 2 ASP A 46 56.19 -160.77 REMARK 500 2 GLU A 47 106.73 64.62 REMARK 500 2 LEU A 49 -172.44 50.66 REMARK 500 2 ASP A 51 -39.02 -137.53 REMARK 500 2 SER A 54 37.58 -91.11 REMARK 500 2 LYS A 55 -150.23 -77.82 REMARK 500 2 MET A 60 74.99 -175.80 REMARK 500 2 SER A 61 73.65 40.76 REMARK 500 2 ILE A 66 57.23 -151.37 REMARK 500 2 ASP A 69 -57.40 67.63 REMARK 500 2 GLN A 70 -76.02 -20.38 REMARK 500 2 VAL A 74 -48.73 -132.56 REMARK 500 2 LYS A 76 47.61 -144.20 REMARK 500 2 GLU A 78 21.99 -140.46 REMARK 500 3 LYS A 48 83.39 63.64 REMARK 500 3 SER A 56 -53.65 -134.60 REMARK 500 3 MET A 60 95.24 -41.72 REMARK 500 3 SER A 61 -92.12 52.35 REMARK 500 3 THR A 64 -60.35 -95.02 REMARK 500 3 ILE A 66 85.92 -156.66 REMARK 500 3 THR A 68 69.55 63.75 REMARK 500 3 ASP A 69 -28.20 -35.39 REMARK 500 3 SER A 73 32.60 -152.01 REMARK 500 3 LEU A 75 45.32 -85.90 REMARK 500 3 GLU A 78 115.46 65.98 REMARK 500 4 GLU A 47 78.89 -176.84 REMARK 500 4 LYS A 48 -82.91 -100.52 REMARK 500 4 ARG A 50 119.64 54.33 REMARK 500 4 ASP A 51 50.06 -98.70 REMARK 500 4 LYS A 55 -47.44 174.98 REMARK 500 4 SER A 56 -172.86 -171.46 REMARK 500 4 THR A 57 -54.03 64.22 REMARK 500 4 ALA A 58 -24.48 -39.95 REMARK 500 4 ALA A 59 49.94 77.01 REMARK 500 4 MET A 60 -72.36 -143.89 REMARK 500 4 SER A 61 -75.78 -42.70 REMARK 500 4 TYR A 63 110.73 175.77 REMARK 500 4 THR A 64 -51.01 -162.19 REMARK 500 REMARK 500 THIS ENTRY HAS 288 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 2 ARG A 50 0.28 SIDE CHAIN REMARK 500 3 ARG A 50 0.08 SIDE CHAIN REMARK 500 4 ARG A 50 0.08 SIDE CHAIN REMARK 500 5 ARG A 50 0.19 SIDE CHAIN REMARK 500 7 ARG A 50 0.09 SIDE CHAIN REMARK 500 8 ARG A 50 0.15 SIDE CHAIN REMARK 500 10 ARG A 50 0.11 SIDE CHAIN REMARK 500 13 ARG A 50 0.18 SIDE CHAIN REMARK 500 14 ARG A 50 0.13 SIDE CHAIN REMARK 500 15 ARG A 50 0.27 SIDE CHAIN REMARK 500 16 ARG A 50 0.10 SIDE CHAIN REMARK 500 17 ARG A 50 0.19 SIDE CHAIN REMARK 500 18 ARG A 50 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1BY6 A 44 79 UNP P02655 APOC2_HUMAN 66 101 SEQRES 1 A 36 ALA VAL ASP GLU LYS LEU ARG ASP LEU TYR SER LYS SER SEQRES 2 A 36 THR ALA ALA MET SER THR TYR THR GLY ILE PHE THR ASP SEQRES 3 A 36 GLN VAL LEU SER VAL LEU LYS GLY GLU GLU HELIX 1 1 ASP A 69 SER A 73 5 5 HELIX 2 2 VAL A 74 GLU A 78 5 5 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