HEADER DE NOVO PROTEIN 16-DEC-09 3L36 TITLE PIE12 D-PEPTIDE AGAINST HIV ENTRY COMPND MOL_ID: 1; COMPND 2 MOLECULE: GP41 N-PEPTIDE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HIV ENTRY INHIBITOR PIE12; COMPND 7 CHAIN: H; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: L-PEPTIDE WITH N-TERMINAL ACETYL GROUP AND C-TERMINAL SOURCE 4 AMIDE GROUP; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 OTHER_DETAILS: D-PEPTIDE WITH N-TERMINAL ACETYL GROUP AND C-TERMINAL SOURCE 8 AMIDE GROUP KEYWDS COILED-COIL, D-PEPTIDE INHIBITOR, DE NOVO PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR B.D.WELCH,J.S.REDMAN,S.PAUL,F.G.WHITBY,M.T.WEINSTOCK,J.D.REEVES, AUTHOR 2 Y.S.LIE,D.M.ECKERT,C.P.HILL,M.J.ROOT,M.S.KAY REVDAT 1 03-NOV-10 3L36 0 JRNL AUTH B.D.WELCH,J.N.FRANCIS,J.S.REDMAN,S.PAUL,M.T.WEINSTOCK, JRNL AUTH 2 J.D.REEVES,Y.S.LIE,F.G.WHITBY,D.M.ECKERT,C.P.HILL,M.J.ROOT, JRNL AUTH 3 M.S.KAY JRNL TITL DESIGN OF A POTENT D-PEPTIDE HIV-1 ENTRY INHIBITOR WITH A JRNL TITL 2 STRONG BARRIER TO RESISTANCE. JRNL REF J.VIROL. V. 84 11235 2010 JRNL REFN ISSN 0022-538X JRNL PMID 20719956 JRNL DOI 10.1128/JVI.01339-10 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0062 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.64 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 13620 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.246 REMARK 3 R VALUE (WORKING SET) : 0.243 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1136 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 933 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.2990 REMARK 3 BIN FREE R VALUE SET COUNT : 85 REMARK 3 BIN FREE R VALUE : 0.3500 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 524 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 49 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.82000 REMARK 3 B22 (A**2) : 0.82000 REMARK 3 B33 (A**2) : -1.24000 REMARK 3 B12 (A**2) : 0.41000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.083 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.086 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.045 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.122 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 548 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 717 ; 1.530 ; 2.133 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 55 ; 2.895 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 17 ;32.634 ;25.882 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 98 ;18.092 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 3 ;19.831 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 78 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 355 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 309 ; 0.904 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 487 ; 1.770 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 238 ; 2.842 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 230 ; 4.916 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 3L36 COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JAN-10. REMARK 100 THE RCSB ID CODE IS RCSB056774. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 10.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97945 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14802 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 12.600 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.6440 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.23500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.12 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M CAPS PH 10.5, 40% MPD, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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 300 REMARK: BIOMOLECULE: 1, 2 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 300 REMARK 300 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 300 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 300 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 300 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 300 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 AUTHOR DETERMINED BIOLOGICAL UNIT: HEXAMERIC REMARK 300 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 300 SOFTWARE USED: PISA REMARK 300 TOTAL BURIED SURFACE AREA: 12270 ANGSTROM**2 REMARK 300 SURFACE AREA OF THE COMPLEX: 10770 ANGSTROM**2 REMARK 300 CHANGE IN SOLVENT FREE ENERGY: -110.0 KCAL/MOL REMARK 300 APPLY THE FOLLOWING TO CHAINS: A, H REMARK 300 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 300 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 300 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 300 BIOMT1 2 -0.500000 -0.866025 0.000000 20.55850 REMARK 300 BIOMT2 2 0.866025 -0.500000 0.000000 -35.60837 REMARK 300 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 300 BIOMT1 3 -0.500000 0.866025 0.000000 41.11700 REMARK 300 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 300 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 300 REMARK 300 BIOMOLECULE: 2 REMARK 300 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 300 SOFTWARE USED: PISA REMARK 300 TOTAL BURIED SURFACE AREA: 1570 ANGSTROM**2 REMARK 300 SURFACE AREA OF THE COMPLEX: 6110 ANGSTROM**2 REMARK 300 CHANGE IN SOLVENT FREE ENERGY: -16.0 KCAL/MOL REMARK 300 APPLY THE FOLLOWING TO CHAINS: A, H REMARK 300 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 300 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 300 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -71.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, H 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 20.55850 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -35.60837 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 41.11700 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 47 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 52 LIES ON A SPECIAL POSITION. 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 DTY H 7 CB - CG - CD1 ANGL. DEV. = -3.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 DGN H 11 -34.9 EXPECTING PLANAR REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 50 DISTANCE = 5.00 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CXS H 18 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2R5D RELATED DB: PDB REMARK 900 PIE7 IS A RELATED D-PEPTIDE INHIBITOR REMARK 900 RELATED ID: 3L34 RELATED DB: PDB REMARK 900 PIE12-IQN17 IN ANOTHER CRYSTAL FORM REMARK 900 RELATED ID: 3L36 RELATED DB: PDB REMARK 900 PIE12-IQN17 IN ANOTHER CRYSTAL FORM DBREF 3L36 A 0 46 PDB 3L36 3L36 0 46 DBREF 3L36 H 1 17 PDB 3L36 3L36 1 17 SEQRES 1 A 47 ACE ARG MET LYS GLN ILE GLU ASP LYS ILE GLU GLU ILE SEQRES 2 A 47 GLU SER LYS GLN LYS LYS ILE GLU ASN GLU ILE ALA ARG SEQRES 3 A 47 ILE LYS LYS LEU LEU GLN LEU THR VAL TRP GLY ILE LYS SEQRES 4 A 47 GLN LEU GLN ALA ARG ILE LEU NH2 SEQRES 1 H 17 ACE DLY DHI DPR DCY DAS DTY DPR DGL DTR DGN DTR DLE SEQRES 2 H 17 DCY DGL DLE NH2 HET ACE A 0 3 HET NH2 A 46 1 HET ACE H 1 3 HET DLY H 2 9 HET DHI H 3 10 HET DPR H 4 7 HET DCY H 5 6 HET DAS H 6 8 HET DTY H 7 12 HET DPR H 8 7 HET DGL H 9 9 HET DTR H 10 14 HET DGN H 11 9 HET DTR H 12 14 HET DLE H 13 8 HET DCY H 14 6 HET DGL H 15 9 HET DLE H 16 8 HET NH2 H 17 1 HET CXS H 18 14 HETNAM ACE ACETYL GROUP HETNAM NH2 AMINO GROUP HETNAM DLY D-LYSINE HETNAM DHI D-HISTIDINE HETNAM DPR D-PROLINE HETNAM DCY D-CYSTEINE HETNAM DAS D-ASPARTIC ACID HETNAM DTY D-TYROSINE HETNAM DGL D-GLUTAMIC ACID HETNAM DTR D-TRYPTOPHAN HETNAM DGN D-GLUTAMINE HETNAM DLE D-LEUCINE HETNAM CXS 3-CYCLOHEXYL-1-PROPYLSULFONIC ACID FORMUL 1 ACE 2(C2 H4 O) FORMUL 1 NH2 2(H2 N) FORMUL 2 DLY C6 H14 N2 O2 FORMUL 2 DHI C6 H10 N3 O2 1+ FORMUL 2 DPR 2(C5 H9 N O2) FORMUL 2 DCY 2(C3 H7 N O2 S) FORMUL 2 DAS C4 H7 N O4 FORMUL 2 DTY C9 H11 N O3 FORMUL 2 DGL 2(C5 H9 N O4) FORMUL 2 DTR 2(C11 H12 N2 O2) FORMUL 2 DGN C5 H10 N2 O3 FORMUL 2 DLE 2(C6 H13 N O2) FORMUL 3 CXS C9 H19 N O3 S FORMUL 4 HOH *49(H2 O) HELIX 1 1 ARG A 1 LEU A 45 1 45 HELIX 2 2 DHI H 3 DGL H 9 5 7 HELIX 3 3 DTR H 10 DGL H 15 1 6 SSBOND 1 DCY H 5 DCY H 14 1555 1555 2.06 LINK C ACE A 0 N ARG A 1 1555 1555 1.33 LINK C LEU A 45 N NH2 A 46 1555 1555 1.33 LINK C ACE H 1 N DLY H 2 1555 1555 1.34 LINK C DLY H 2 N DHI H 3 1555 1555 1.32 LINK C DHI H 3 N DPR H 4 1555 1555 1.35 LINK C DPR H 4 N DCY H 5 1555 1555 1.33 LINK C DCY H 5 N DAS H 6 1555 1555 1.34 LINK C DAS H 6 N DTY H 7 1555 1555 1.34 LINK C DTY H 7 N DPR H 8 1555 1555 1.34 LINK C DPR H 8 N DGL H 9 1555 1555 1.34 LINK C DGL H 9 N DTR H 10 1555 1555 1.33 LINK C DTR H 10 N DGN H 11 1555 1555 1.33 LINK C DGN H 11 N DTR H 12 1555 1555 1.33 LINK C DTR H 12 N DLE H 13 1555 1555 1.32 LINK C DLE H 13 N DCY H 14 1555 1555 1.33 LINK C DCY H 14 N DGL H 15 1555 1555 1.34 LINK C DGL H 15 N DLE H 16 1555 1555 1.34 LINK C DLE H 16 N NH2 H 17 1555 1555 1.34 SITE 1 AC1 9 ACE A 0 ARG A 1 MET A 2 HOH A 56 SITE 2 AC1 9 HOH A 62 DCY H 5 DAS H 6 DGN H 11 SITE 3 AC1 9 DCY H 14 CRYST1 41.117 41.117 81.731 90.00 90.00 120.00 P 3 2 1 6 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 0.024321 0.014042 0.000000 0.00000 SCALE2 0.000000 0.028083 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012235 0.00000 HETATM 1 C ACE A 0 12.709 -7.987 63.045 1.00 28.28 C HETATM 2 O ACE A 0 12.421 -8.119 61.873 1.00 27.61 O HETATM 3 CH3 ACE A 0 11.626 -8.016 64.084 1.00 28.31 C