HEADER HYDROLASE/HYDROLASE INHIBITOR 16-MAY-02 1LS5 TITLE CRYSTAL STRUCTURE OF PLASMEPSIN IV FROM P. FALCIPARUM IN COMPLEX WITH TITLE 2 PEPSTATIN A COMPND MOL_ID: 1; COMPND 2 MOLECULE: PLASMEPSIN IV; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PEPSTATIN; COMPND 7 CHAIN: C, D; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_COMMON: MALARIA PARASITE P. FALCIPARUM; SOURCE 4 ORGANISM_TAXID: 5833; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: STREPTOMYCES ARGENTEOLUS SUBSP. TOYONAKENSIS; SOURCE 10 ORGANISM_TAXID: 285516 KEYWDS EUKARYOTIC ASPARTIC PROTEINASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR O.A.ASOJO,S.V.GULNIK,E.AFONINA,B.YU,J.A.ELLMAN,T.S.HAQUE,A.M.SILVA REVDAT 5 30-OCT-24 1LS5 1 LINK REVDAT 4 13-JUL-11 1LS5 1 VERSN REVDAT 3 24-FEB-09 1LS5 1 VERSN REVDAT 2 09-NOV-04 1LS5 1 AUTHOR JRNL REMARK REVDAT 1 12-JUN-02 1LS5 0 SPRSDE 12-JUN-02 1LS5 1JGF JRNL AUTH O.A.ASOJO,S.V.GULNIK,E.AFONINA,B.YU,J.A.ELLMAN,T.S.HAQUE, JRNL AUTH 2 A.M.SILVA JRNL TITL NOVEL UNCOMPLEXED AND COMPLEXED STRUCTURES OF PLASMEPSIN II, JRNL TITL 2 AN ASPARTIC PROTEASE FROM PLASMODIUM FALCIPARUM. JRNL REF J.MOL.BIOL. V. 327 173 2003 JRNL REFN ISSN 0022-2836 JRNL PMID 12614616 JRNL DOI 10.1016/S0022-2836(03)00036-6 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 12147 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 650 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5314 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 28 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.016 REMARK 3 BOND ANGLES (DEGREES) : 2.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 27.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.900 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1LS5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-MAY-02. REMARK 100 THE DEPOSITION ID IS D_1000016236. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-00 REMARK 200 TEMPERATURE (KELVIN) : 90.0 REMARK 200 PH : 5.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : DOUBLE FOCUSING MIRROR SYSTEM REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15253 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 79.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : 0.08300 REMARK 200 FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: AMORE REMARK 200 STARTING MODEL: PLASMEPSIN II, PDB ENTRY 1SME REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 5.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 41.12967 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 82.25933 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 82.25933 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 41.12967 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14230 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 49190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -93.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 41.12967 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 REMARK 400 THE PEPSTATIN IS OLIGOPEPTIDE, A MEMBER OF ENZYME INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: PEPSTATIN REMARK 400 CHAIN: C, D REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O LYS A 326 N LEU A 328 2.13 REMARK 500 O LEU B 14 OG SER B 218 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OD2 ASP A 198 NH2 ARG B 232 3454 1.23 REMARK 500 NE2 GLN A 207 O ASP B 233 3454 1.59 REMARK 500 CG ASP A 198 NH2 ARG B 232 3454 1.64 REMARK 500 CE LYS A 145 NZ LYS B 163 5665 1.97 REMARK 500 CA GLY A 134 CB PRO B 282 5665 2.01 REMARK 500 O LYS A 68 O LYS B 64 2665 2.15 REMARK 500 NZ LYS A 72 OG1 THR A 248 5665 2.17 REMARK 500 OD2 ASP A 198 CZ ARG B 232 3454 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 PRO A 181 C - N - CA ANGL. DEV. = 13.9 DEGREES REMARK 500 PRO A 181 C - N - CD ANGL. DEV. = -12.9 DEGREES REMARK 500 PRO A 255 C - N - CA ANGL. DEV. = 9.9 DEGREES REMARK 500 LEU B 242 N - CA - C ANGL. DEV. = 16.9 DEGREES REMARK 500 VAL C 2 CG1 - CB - CG2 ANGL. DEV. = -13.1 DEGREES REMARK 500 STA C 4 CA - C - N ANGL. DEV. = 24.5 DEGREES REMARK 500 VAL D 350 CG1 - CB - CG2 ANGL. DEV. = -13.7 DEGREES REMARK 500 STA D 352 CA - C - N ANGL. DEV. = 19.8 DEGREES 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 ASN A 3 -143.50 -159.35 REMARK 500 ASP A 4 109.61 -168.19 REMARK 500 ASP A 10 150.70 -35.36 REMARK 500 ALA A 12 19.33 50.22 REMARK 500 ASN A 13 14.16 59.78 REMARK 500 MET A 15 141.10 158.15 REMARK 500 ASN A 25 10.24 -64.77 REMARK 500 SER A 61 -7.65 -48.26 REMARK 500 ASP A 69 -83.63 -139.47 REMARK 500 ILE A 114 -70.45 -52.92 REMARK 500 LEU A 126 11.88 -162.17 REMARK 500 GLN A 146 21.93 -68.39 REMARK 500 ASN A 147 70.73 37.75 REMARK 500 ASP A 150 -55.10 -27.45 REMARK 500 HIS A 161 -45.51 63.54 REMARK 500 ASP A 162 -124.04 -170.04 REMARK 500 LYS A 163 -65.30 78.80 REMARK 500 VAL A 165 -160.85 -78.09 REMARK 500 PRO A 181 153.06 -16.22 REMARK 500 LYS A 186 -125.55 -52.77 REMARK 500 LEU A 187 -8.55 -162.12 REMARK 500 ASN A 188 -70.38 66.04 REMARK 500 ASP A 190 65.60 -108.22 REMARK 500 LEU A 191 -98.08 -123.64 REMARK 500 TRP A 193 95.30 -62.61 REMARK 500 ASP A 196 78.35 -106.30 REMARK 500 HIS A 200 164.72 178.90 REMARK 500 PHE A 201 -61.95 -146.61 REMARK 500 TYR A 204 75.18 -105.94 REMARK 500 ASP A 233 -162.47 -161.39 REMARK 500 MET A 234 96.73 60.35 REMARK 500 VAL A 239 152.22 -48.96 REMARK 500 PRO A 240 156.63 -43.35 REMARK 500 PHE A 241 134.54 -23.24 REMARK 500 LEU A 242 132.97 66.63 REMARK 500 LEU A 244 179.10 171.13 REMARK 500 ASN A 251 179.77 -58.07 REMARK 500 ASP A 252 15.54 -146.38 REMARK 500 TYR A 273 42.91 -106.65 REMARK 500 ASP A 275 170.81 47.33 REMARK 500 PRO A 276 -87.83 -78.79 REMARK 500 LEU A 277 38.57 70.56 REMARK 500 SER A 278 -74.99 -82.29 REMARK 500 ASP A 279 -38.50 -35.87 REMARK 500 ASP A 281 105.07 52.37 REMARK 500 PRO A 282 13.84 -65.80 REMARK 500 ILE A 294 -137.63 -99.97 REMARK 500 ASP A 296 -134.92 80.60 REMARK 500 ASN A 297 43.53 -109.95 REMARK 500 ALA A 323 135.35 176.57 REMARK 500 REMARK 500 THIS ENTRY HAS 97 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 STA C 4 ALA C 5 -117.25 REMARK 500 STA D 352 ALA D 353 -120.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 STA C 4 33.15 REMARK 500 STA D 352 29.66 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 CHAIN C OF PEPSTATIN REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN D OF PEPSTATIN REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1SME RELATED DB: PDB REMARK 900 PLASMEPSIN II, A HEMOGLOBIN-DEGRADING ENZYME FROM PLASMODIUM REMARK 900 FALCIPARUM, IN COMPLEX WITH PEPSTATIN A DBREF 1LS5 A 1 328 UNP Q8IM16 Q8IM16_PLAF7 122 449 DBREF 1LS5 B 1 328 UNP Q8IM16 Q8IM16_PLAF7 122 449 DBREF 1LS5 C 1 6 PDB 1LS5 1LS5 1 6 DBREF 1LS5 D 349 354 PDB 1LS5 1LS5 349 354 SEQRES 1 A 328 SER GLU ASN ASP SER ILE GLU LEU ASP ASP VAL ALA ASN SEQRES 2 A 328 LEU MET PHE TYR GLY GLU GLY GLN ILE GLY THR ASN LYS SEQRES 3 A 328 GLN PRO PHE MET PHE ILE PHE ASP THR GLY SER ALA ASN SEQRES 4 A 328 LEU TRP VAL PRO SER VAL ASN CYS ASP SER ILE GLY CYS SEQRES 5 A 328 SER THR LYS HIS LEU TYR ASP ALA SER ALA SER LYS SER SEQRES 6 A 328 TYR GLU LYS ASP GLY THR LYS VAL GLU ILE SER TYR GLY SEQRES 7 A 328 SER GLY THR VAL ARG GLY TYR PHE SER LYS ASP VAL ILE SEQRES 8 A 328 SER LEU GLY ASP LEU SER LEU PRO TYR LYS PHE ILE GLU SEQRES 9 A 328 VAL THR ASP ALA ASP ASP LEU GLU PRO ILE TYR SER GLY SEQRES 10 A 328 SER GLU PHE ASP GLY ILE LEU GLY LEU GLY TRP LYS ASP SEQRES 11 A 328 LEU SER ILE GLY SER ILE ASP PRO VAL VAL VAL GLU LEU SEQRES 12 A 328 LYS LYS GLN ASN LYS ILE ASP ASN ALA LEU PHE THR PHE SEQRES 13 A 328 TYR LEU PRO VAL HIS ASP LYS HIS VAL GLY TYR LEU THR SEQRES 14 A 328 ILE GLY GLY ILE GLU SER ASP PHE TYR GLU GLY PRO LEU SEQRES 15 A 328 THR TYR GLU LYS LEU ASN HIS ASP LEU TYR TRP GLN ILE SEQRES 16 A 328 ASP LEU ASP ILE HIS PHE GLY LYS TYR VAL MET GLN LYS SEQRES 17 A 328 ALA ASN ALA VAL VAL ASP SER GLY THR SER THR ILE THR SEQRES 18 A 328 ALA PRO THR SER PHE LEU ASN LYS PHE PHE ARG ASP MET SEQRES 19 A 328 ASN VAL ILE LYS VAL PRO PHE LEU PRO LEU TYR VAL THR SEQRES 20 A 328 THR CYS ASP ASN ASP ASP LEU PRO THR LEU GLU PHE HIS SEQRES 21 A 328 SER ARG ASN ASN LYS TYR THR LEU GLU PRO GLU PHE TYR SEQRES 22 A 328 MET ASP PRO LEU SER ASP ILE ASP PRO ALA LEU CYS MET SEQRES 23 A 328 LEU TYR ILE LEU PRO VAL ASP ILE ASP ASP ASN THR PHE SEQRES 24 A 328 ILE LEU GLY ASP PRO PHE MET ARG LYS TYR PHE THR VAL SEQRES 25 A 328 PHE ASP TYR GLU LYS GLU SER VAL GLY PHE ALA VAL ALA SEQRES 26 A 328 LYS ASN LEU SEQRES 1 B 328 SER GLU ASN ASP SER ILE GLU LEU ASP ASP VAL ALA ASN SEQRES 2 B 328 LEU MET PHE TYR GLY GLU GLY GLN ILE GLY THR ASN LYS SEQRES 3 B 328 GLN PRO PHE MET PHE ILE PHE ASP THR GLY SER ALA ASN SEQRES 4 B 328 LEU TRP VAL PRO SER VAL ASN CYS ASP SER ILE GLY CYS SEQRES 5 B 328 SER THR LYS HIS LEU TYR ASP ALA SER ALA SER LYS SER SEQRES 6 B 328 TYR GLU LYS ASP GLY THR LYS VAL GLU ILE SER TYR GLY SEQRES 7 B 328 SER GLY THR VAL ARG GLY TYR PHE SER LYS ASP VAL ILE SEQRES 8 B 328 SER LEU GLY ASP LEU SER LEU PRO TYR LYS PHE ILE GLU SEQRES 9 B 328 VAL THR ASP ALA ASP ASP LEU GLU PRO ILE TYR SER GLY SEQRES 10 B 328 SER GLU PHE ASP GLY ILE LEU GLY LEU GLY TRP LYS ASP SEQRES 11 B 328 LEU SER ILE GLY SER ILE ASP PRO VAL VAL VAL GLU LEU SEQRES 12 B 328 LYS LYS GLN ASN LYS ILE ASP ASN ALA LEU PHE THR PHE SEQRES 13 B 328 TYR LEU PRO VAL HIS ASP LYS HIS VAL GLY TYR LEU THR SEQRES 14 B 328 ILE GLY GLY ILE GLU SER ASP PHE TYR GLU GLY PRO LEU SEQRES 15 B 328 THR TYR GLU LYS LEU ASN HIS ASP LEU TYR TRP GLN ILE SEQRES 16 B 328 ASP LEU ASP ILE HIS PHE GLY LYS TYR VAL MET GLN LYS SEQRES 17 B 328 ALA ASN ALA VAL VAL ASP SER GLY THR SER THR ILE THR SEQRES 18 B 328 ALA PRO THR SER PHE LEU ASN LYS PHE PHE ARG ASP MET SEQRES 19 B 328 ASN VAL ILE LYS VAL PRO PHE LEU PRO LEU TYR VAL THR SEQRES 20 B 328 THR CYS ASP ASN ASP ASP LEU PRO THR LEU GLU PHE HIS SEQRES 21 B 328 SER ARG ASN ASN LYS TYR THR LEU GLU PRO GLU PHE TYR SEQRES 22 B 328 MET ASP PRO LEU SER ASP ILE ASP PRO ALA LEU CYS MET SEQRES 23 B 328 LEU TYR ILE LEU PRO VAL ASP ILE ASP ASP ASN THR PHE SEQRES 24 B 328 ILE LEU GLY ASP PRO PHE MET ARG LYS TYR PHE THR VAL SEQRES 25 B 328 PHE ASP TYR GLU LYS GLU SER VAL GLY PHE ALA VAL ALA SEQRES 26 B 328 LYS ASN LEU SEQRES 1 C 6 IVA VAL VAL STA ALA STA SEQRES 1 D 6 IVA VAL VAL STA ALA STA HET IVA C 1 6 HET STA C 4 11 HET STA C 6 12 HET IVA D 349 6 HET STA D 352 11 HET STA D 354 12 HETNAM IVA ISOVALERIC ACID HETNAM STA STATINE FORMUL 3 IVA 2(C5 H10 O2) FORMUL 3 STA 4(C8 H17 N O3) FORMUL 5 HOH *28(H2 O) HELIX 1 1 ASP A 59 SER A 63 5 5 HELIX 2 2 ALA A 108 GLU A 112 5 5 HELIX 3 3 PRO A 113 SER A 118 1 6 HELIX 4 4 TRP A 128 SER A 132 5 5 HELIX 5 5 PRO A 138 GLN A 146 1 9 HELIX 6 6 GLU A 174 TYR A 178 5 5 HELIX 7 7 PRO A 223 LYS A 229 1 7 HELIX 8 8 PHE A 230 ARG A 232 5 3 HELIX 9 9 GLU A 269 MET A 274 5 6 HELIX 10 10 GLY A 302 ARG A 307 1 6 HELIX 11 11 ALA B 108 GLU B 112 5 5 HELIX 12 12 PRO B 113 SER B 118 1 6 HELIX 13 13 PRO B 138 GLN B 146 1 9 HELIX 14 14 GLU B 174 TYR B 178 5 5 HELIX 15 15 PRO B 223 ARG B 232 1 10 HELIX 16 16 GLU B 269 TYR B 273 5 5 HELIX 17 17 GLY B 302 ARG B 307 1 6 SHEET 1 A1 4 LEU A 96 TYR A 100 0 SHEET 2 A1 4 ASP A 89 LEU A 93 -1 O ASP A 89 N TYR A 100 SHEET 3 A1 4 GLY A 20 ILE A 22 -1 O GLN A 21 N SER A 92 SHEET 4 A1 4 GLN A 27 PHE A 29 -1 N GLN A 27 O ILE A 22 SHEET 1 A2 5 LYS A 72 TYR A 77 0 SHEET 2 A2 5 GLY A 80 PHE A 86 -1 O GLY A 80 N TYR A 77 SHEET 3 A2 5 ILE A 103 ASP A 107 -1 N GLU A 104 O TYR A 85 SHEET 4 A2 5 LEU A 40 PRO A 43 1 N VAL A 42 O ILE A 103 SHEET 5 A2 5 ILE A 123 LEU A 124 -1 O ILE A 123 N TRP A 41 SHEET 1 A3 2 ILE A 220 ALA A 222 0 SHEET 2 A3 2 ILE A 289 PRO A 291 1 N LEU A 290 O ILE A 220 SHEET 1 A4 3 ILE A 237 LYS A 238 0 SHEET 2 A4 3 TYR A 245 THR A 248 -1 O VAL A 246 N ILE A 237 SHEET 3 A4 3 LEU A 284 MET A 286 -1 O CYS A 285 N THR A 247 SHEET 1 A5 5 LYS A 265 LEU A 268 0 SHEET 2 A5 5 LEU A 257 HIS A 260 -1 O LEU A 257 N LEU A 268 SHEET 3 A5 5 GLN A 194 HIS A 200 -1 N ASP A 198 O HIS A 260 SHEET 4 A5 5 MET A 206 VAL A 213 -1 N MET A 206 O ILE A 199 SHEET 5 A5 5 PHE A 299 LEU A 301 1 O PHE A 299 N VAL A 212 SHEET 1 A6 6 SER A 319 VAL A 324 0 SHEET 2 A6 6 TYR A 309 ASP A 314 -1 N PHE A 310 O ALA A 323 SHEET 3 A6 6 PHE A 154 TYR A 157 -1 O PHE A 154 N PHE A 313 SHEET 4 A6 6 GLY A 166 ILE A 170 -1 N TYR A 167 O TYR A 157 SHEET 5 A6 6 SER A 5 ASP A 10 -1 N ILE A 6 O LEU A 168 SHEET 6 A6 6 PHE A 16 TYR A 17 -1 N TYR A 17 O ASP A 9 SHEET 1 A7 7 LYS B 265 THR B 267 0 SHEET 2 A7 7 GLU B 258 HIS B 260 -1 N PHE B 259 O TYR B 266 SHEET 3 A7 7 ASP B 196 HIS B 200 -1 O ASP B 198 N HIS B 260 SHEET 4 A7 7 VAL B 205 VAL B 213 -1 O MET B 206 N ILE B 199 SHEET 5 A7 7 THR B 298 LEU B 301 1 O PHE B 299 N VAL B 212 SHEET 6 A7 7 ILE B 220 ALA B 222 -1 N THR B 221 O ILE B 300 SHEET 7 A7 7 ILE B 289 PRO B 291 1 O LEU B 290 N ALA B 222 SHEET 1 A8 4 ILE B 237 LYS B 238 0 SHEET 2 A8 4 TYR B 245 THR B 248 -1 N VAL B 246 O ILE B 237 SHEET 3 A8 4 LEU B 284 MET B 286 -1 N CYS B 285 O THR B 247 SHEET 4 A8 4 ASP B 275 PRO B 276 -1 O ASP B 275 N MET B 286 SHEET 1 A914 SER B 319 VAL B 324 0 SHEET 2 A914 TYR B 309 ASP B 314 -1 N PHE B 310 O ALA B 323 SHEET 3 A914 LEU B 153 TYR B 157 -1 O PHE B 154 N PHE B 313 SHEET 4 A914 GLY B 166 ILE B 170 -1 O TYR B 167 N TYR B 157 SHEET 5 A914 SER B 5 VAL B 11 -1 N ILE B 6 O LEU B 168 SHEET 6 A914 MET B 15 ILE B 22 -1 O MET B 15 N VAL B 11 SHEET 7 A914 GLN B 27 ASP B 34 -1 O GLN B 27 N ILE B 22 SHEET 8 A914 GLY B 122 GLY B 125 1 O GLY B 122 N ILE B 32 SHEET 9 A914 GLN B 27 ASP B 34 1 O MET B 30 N GLY B 122 SHEET 10 A914 MET B 15 ILE B 22 -1 N GLY B 18 O PHE B 31 SHEET 11 A914 GLY B 84 LEU B 93 -1 N SER B 92 O GLN B 21 SHEET 12 A914 GLU B 67 VAL B 73 -1 O GLU B 67 N LYS B 88 SHEET 13 A914 GLY B 84 LEU B 93 -1 N GLY B 84 O VAL B 73 SHEET 14 A914 LEU B 96 VAL B 105 -1 O LEU B 96 N LEU B 93 SSBOND 1 CYS A 47 CYS A 52 1555 1555 2.03 SSBOND 2 CYS A 249 CYS A 285 1555 1555 2.03 SSBOND 3 CYS B 47 CYS B 52 1555 1555 2.03 SSBOND 4 CYS B 249 CYS B 285 1555 1555 2.02 LINK C IVA C 1 N VAL C 2 1555 1555 1.35 LINK C VAL C 3 N STA C 4 1555 1555 1.34 LINK C STA C 4 N ALA C 5 1555 1555 1.36 LINK C ALA C 5 N STA C 6 1555 1555 1.36 LINK C IVA D 349 N VAL D 350 1555 1555 1.34 LINK C VAL D 351 N STA D 352 1555 1555 1.35 LINK C STA D 352 N ALA D 353 1555 1555 1.37 LINK C ALA D 353 N STA D 354 1555 1555 1.34 CISPEP 1 GLU A 112 PRO A 113 0 -0.14 CISPEP 2 LEU A 242 PRO A 243 0 -0.33 CISPEP 3 ASP A 275 PRO A 276 0 -0.05 CISPEP 4 GLU B 112 PRO B 113 0 -0.23 SITE 1 AC1 17 LEU A 14 MET A 15 ASP A 34 GLY A 36 SITE 2 AC1 17 SER A 37 SER A 76 TYR A 77 GLY A 78 SITE 3 AC1 17 SER A 79 ILE A 114 ILE A 123 TYR A 192 SITE 4 AC1 17 ASP A 214 GLY A 216 THR A 217 SER A 218 SITE 5 AC1 17 ILE A 294 SITE 1 AC2 16 ASP A 109 MET B 15 ASP B 34 GLY B 36 SITE 2 AC2 16 SER B 76 TYR B 77 GLY B 78 SER B 79 SITE 3 AC2 16 ILE B 123 TYR B 192 ASP B 214 GLY B 216 SITE 4 AC2 16 THR B 217 SER B 218 TYR B 288 LEU B 290 CRYST1 101.930 101.930 123.389 90.00 90.00 120.00 P 31 2 1 12 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 0.009811 0.005664 0.000000 0.00000 SCALE2 0.000000 0.011328 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008104 0.00000