HEADER HYDROLASE 26-DEC-08 3FNS TITLE CRYSTAL STRUCTURE OF HISTO-ASPARTIC PROTEASE (HAP) FROM PLASMODIUM TITLE 2 FALCIPARUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: HAP PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: HISTO-ASPARTIC PROTEASE (HAP); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM 3D7; SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 GENE: HAP, PF14_0078; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA-GAMI B (DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET32B(+) KEYWDS HISTO-ASPARTIC PROTEASE, HAP, PLASMEPSIN, ASPARTIC PROTEASE, HORMONE, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR P.BHAUMIK,A.GUSTCHINA,A.WLODAWER REVDAT 2 01-NOV-17 3FNS 1 REMARK REVDAT 1 12-MAY-09 3FNS 0 JRNL AUTH P.BHAUMIK,H.XIAO,C.L.PARR,Y.KISO,A.GUSTCHINA,R.Y.YADA, JRNL AUTH 2 A.WLODAWER JRNL TITL CRYSTAL STRUCTURES OF THE HISTO-ASPARTIC PROTEASE (HAP) FROM JRNL TITL 2 PLASMODIUM FALCIPARUM. JRNL REF J.MOL.BIOL. V. 388 520 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 19285084 JRNL DOI 10.1016/J.JMB.2009.03.011 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0057 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 28018 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) : 0.226 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 866 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2013 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2990 REMARK 3 BIN FREE R VALUE SET COUNT : 62 REMARK 3 BIN FREE R VALUE : 0.4460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5180 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 104 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.33 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.72000 REMARK 3 B22 (A**2) : 0.72000 REMARK 3 B33 (A**2) : -1.44000 REMARK 3 B12 (A**2) : 0.00000 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): 0.500 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.300 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.233 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.239 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.911 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5316 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7218 ; 1.553 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 648 ; 7.040 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 238 ;38.296 ;25.546 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 908 ;21.429 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;18.644 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 804 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4008 ; 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): 3244 ; 0.778 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5290 ; 1.477 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2072 ; 1.747 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1928 ; 3.004 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 0 A 326 4 REMARK 3 1 B 0 B 326 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 2591 ; 0.29 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2591 ; 1.09 ; 2.00 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3FNS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JAN-09. REMARK 100 THE DEPOSITION ID IS D_1000050818. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-FEB-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99999 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28895 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 9.500 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 9.70 REMARK 200 R MERGE FOR SHELL (I) : 0.82200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MRBUMP REMARK 200 STARTING MODEL: 2ANL REMARK 200 REMARK 200 REMARK: AUTHORS STATE THAT THE VALUE OF RMERGE IN THE HIGHEST REMARK 200 RESOLUTION SHELL IS HIGH DUE TO POORLY DIFFRACTING CRYSTAL/HIGH REMARK 200 SYMMETRY SPACE GROUP/ HIGHLY REDUNDANT DATA. CRYSTAL HAS REMARK 200 SUFFERED SOME RADIATION DAMAGE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 3000, 0.2M ZINC ACETATE, 0.1M REMARK 280 SODIUM ACETATE PH 4.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 99.35000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 44.90000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 44.90000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 49.67500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 44.90000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 44.90000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 149.02500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 44.90000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 44.90000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 49.67500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 44.90000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 44.90000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 149.02500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 99.35000 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: TWO MOLECULES OF HISTO-ASPARTIC PROTEASE (HAP) ARE PRESENT REMARK 300 IN THE ASYMMETRIC UNIT. TWO MOLECULES FORM A TIGHT DIMER RELATED BY REMARK 300 A NON-CRYSTALLOGRAPHIC SYMMETRY. 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: 5170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -209.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A -5 REMARK 465 TYR A -4 REMARK 465 LEU A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 ASN A 327 REMARK 465 LEU A 328 REMARK 465 SER B -5 REMARK 465 TYR B -4 REMARK 465 LEU B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 ASN B 327 REMARK 465 LEU B 328 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 HOH A 349 O HOH A 388 2.08 REMARK 500 NZ LYS A 265 O HOH A 381 2.11 REMARK 500 OD2 ASP B 67 OG1 THR B 69 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 NH1 ARG A 261 O HOH B 366 4454 1.67 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 LEU B 258 CA - CB - CG ANGL. DEV. = 14.1 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 ALA A 10 54.86 -150.55 REMARK 500 SER A 14 51.55 -153.74 REMARK 500 ASP A 67 -69.45 -122.33 REMARK 500 ASP A 68 -0.53 80.12 REMARK 500 ASN A 144 47.50 32.84 REMARK 500 ASN A 159 60.70 -55.98 REMARK 500 LYS A 160 -55.97 -128.07 REMARK 500 ASN A 161 -164.54 -69.77 REMARK 500 ASP A 187 39.26 -85.12 REMARK 500 VAL A 237 -71.01 -60.95 REMARK 500 PHE A 238 45.74 -93.73 REMARK 500 ASN A 251 94.25 -62.78 REMARK 500 LYS A 272 -26.39 -36.77 REMARK 500 ASN A 285 34.65 -88.56 REMARK 500 GLU A 292 149.03 168.28 REMARK 500 PHE B 1 143.49 -21.02 REMARK 500 LEU B 9 -57.75 -126.62 REMARK 500 LEU B 13 78.18 -107.40 REMARK 500 SER B 14 45.18 -153.28 REMARK 500 SER B 47 153.16 -42.77 REMARK 500 ASP B 67 -55.22 -135.35 REMARK 500 LEU B 123 29.30 -149.30 REMARK 500 ASN B 144 47.09 39.19 REMARK 500 ASN B 159 49.20 -60.64 REMARK 500 LYS B 160 -79.83 -99.76 REMARK 500 PHE B 238 65.53 -106.58 REMARK 500 LYS B 239 80.96 14.14 REMARK 500 SER B 243A -169.53 -126.03 REMARK 500 LYS B 272 -36.72 -29.55 REMARK 500 ASN B 285 31.80 -81.96 REMARK 500 GLU B 292 150.92 154.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 329 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 32 NE2 REMARK 620 2 ASP A 215 OD2 113.3 REMARK 620 3 GLU B 278A OE2 132.5 98.6 REMARK 620 4 HOH A 374 O 107.1 83.8 110.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 332 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 48 OE1 REMARK 620 2 GLU A 48 OE2 60.9 REMARK 620 3 GLU A 51 OE1 121.0 102.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 330 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 195 OD2 REMARK 620 2 HIS A 198 NE2 98.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 329 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 278A OE2 REMARK 620 2 HIS B 32 NE2 131.3 REMARK 620 3 ASP B 215 OD2 98.1 127.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 330 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 195 OD2 REMARK 620 2 HIS B 198 NE2 99.0 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 329 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 330 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 331 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 332 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 329 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 330 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3FNT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PEPSTATIN A BOUND HISTO-ASPARTIC PROTEASE FROM REMARK 900 PLASMODIUM FALCIPARUM REMARK 900 RELATED ID: 3FNU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KNI-10006 BOUND HISTO-ASPARTIC PROTEASE (HAP) REMARK 900 FROM PLASMODIUM FALCIPARUM DBREF 3FNS A -5 328 UNP Q8IM15 Q8IM15_PLAF7 120 451 DBREF 3FNS B -5 328 UNP Q8IM15 Q8IM15_PLAF7 120 451 SEQRES 1 A 332 SER TYR LEU GLY SER GLU PHE ASP ASN VAL GLU LEU LYS SEQRES 2 A 332 ASP LEU ALA ASN VAL LEU SER PHE GLY GLU ALA LYS LEU SEQRES 3 A 332 GLY ASP ASN GLY GLN LYS PHE ASN PHE LEU PHE HIS THR SEQRES 4 A 332 ALA SER SER ASN VAL TRP VAL PRO SER ILE LYS CYS THR SEQRES 5 A 332 SER GLU SER CYS GLU SER LYS ASN HIS TYR ASP SER SER SEQRES 6 A 332 LYS SER LYS THR TYR GLU LYS ASP ASP THR PRO VAL LYS SEQRES 7 A 332 LEU THR SER LYS ALA GLY THR ILE SER GLY ILE PHE SER SEQRES 8 A 332 LYS ASP LEU VAL THR ILE GLY LYS LEU SER VAL PRO TYR SEQRES 9 A 332 LYS PHE ILE GLU MET THR GLU ILE VAL GLY PHE GLU PRO SEQRES 10 A 332 PHE TYR SER GLU SER ASP VAL ASP GLY VAL PHE GLY LEU SEQRES 11 A 332 GLY TRP LYS ASP LEU SER ILE GLY SER ILE ASP PRO TYR SEQRES 12 A 332 ILE VAL GLU LEU LYS THR GLN ASN LYS ILE GLU GLN ALA SEQRES 13 A 332 VAL TYR SER ILE TYR LEU PRO PRO GLU ASN LYS ASN LYS SEQRES 14 A 332 GLY TYR LEU THR ILE GLY GLY ILE GLU GLU ARG PHE PHE SEQRES 15 A 332 ASP GLY PRO LEU ASN TYR GLU LYS LEU ASN HIS ASP LEU SEQRES 16 A 332 MET TRP GLN VAL ASP LEU ASP VAL HIS PHE GLY ASN VAL SEQRES 17 A 332 SER SER LYS LYS ALA ASN VAL ILE LEU ASP SER ALA THR SEQRES 18 A 332 SER VAL ILE THR VAL PRO THR GLU PHE PHE ASN GLN PHE SEQRES 19 A 332 VAL GLU SER ALA SER VAL PHE LYS VAL PRO PHE LEU SER SEQRES 20 A 332 LEU TYR VAL THR THR CYS GLY ASN THR LYS LEU PRO THR SEQRES 21 A 332 LEU GLU TYR ARG SER PRO ASN LYS VAL TYR THR LEU GLU SEQRES 22 A 332 PRO LYS GLN TYR LEU GLU PRO LEU GLU ASN ILE PHE SER SEQRES 23 A 332 ALA LEU CYS MET LEU ASN ILE VAL PRO ILE ASP LEU GLU SEQRES 24 A 332 LYS ASN THR PHE VAL LEU GLY ASP PRO PHE MET ARG LYS SEQRES 25 A 332 TYR PHE THR VAL TYR ASP TYR ASP ASN HIS THR VAL GLY SEQRES 26 A 332 PHE ALA LEU ALA LYS ASN LEU SEQRES 1 B 332 SER TYR LEU GLY SER GLU PHE ASP ASN VAL GLU LEU LYS SEQRES 2 B 332 ASP LEU ALA ASN VAL LEU SER PHE GLY GLU ALA LYS LEU SEQRES 3 B 332 GLY ASP ASN GLY GLN LYS PHE ASN PHE LEU PHE HIS THR SEQRES 4 B 332 ALA SER SER ASN VAL TRP VAL PRO SER ILE LYS CYS THR SEQRES 5 B 332 SER GLU SER CYS GLU SER LYS ASN HIS TYR ASP SER SER SEQRES 6 B 332 LYS SER LYS THR TYR GLU LYS ASP ASP THR PRO VAL LYS SEQRES 7 B 332 LEU THR SER LYS ALA GLY THR ILE SER GLY ILE PHE SER SEQRES 8 B 332 LYS ASP LEU VAL THR ILE GLY LYS LEU SER VAL PRO TYR SEQRES 9 B 332 LYS PHE ILE GLU MET THR GLU ILE VAL GLY PHE GLU PRO SEQRES 10 B 332 PHE TYR SER GLU SER ASP VAL ASP GLY VAL PHE GLY LEU SEQRES 11 B 332 GLY TRP LYS ASP LEU SER ILE GLY SER ILE ASP PRO TYR SEQRES 12 B 332 ILE VAL GLU LEU LYS THR GLN ASN LYS ILE GLU GLN ALA SEQRES 13 B 332 VAL TYR SER ILE TYR LEU PRO PRO GLU ASN LYS ASN LYS SEQRES 14 B 332 GLY TYR LEU THR ILE GLY GLY ILE GLU GLU ARG PHE PHE SEQRES 15 B 332 ASP GLY PRO LEU ASN TYR GLU LYS LEU ASN HIS ASP LEU SEQRES 16 B 332 MET TRP GLN VAL ASP LEU ASP VAL HIS PHE GLY ASN VAL SEQRES 17 B 332 SER SER LYS LYS ALA ASN VAL ILE LEU ASP SER ALA THR SEQRES 18 B 332 SER VAL ILE THR VAL PRO THR GLU PHE PHE ASN GLN PHE SEQRES 19 B 332 VAL GLU SER ALA SER VAL PHE LYS VAL PRO PHE LEU SER SEQRES 20 B 332 LEU TYR VAL THR THR CYS GLY ASN THR LYS LEU PRO THR SEQRES 21 B 332 LEU GLU TYR ARG SER PRO ASN LYS VAL TYR THR LEU GLU SEQRES 22 B 332 PRO LYS GLN TYR LEU GLU PRO LEU GLU ASN ILE PHE SER SEQRES 23 B 332 ALA LEU CYS MET LEU ASN ILE VAL PRO ILE ASP LEU GLU SEQRES 24 B 332 LYS ASN THR PHE VAL LEU GLY ASP PRO PHE MET ARG LYS SEQRES 25 B 332 TYR PHE THR VAL TYR ASP TYR ASP ASN HIS THR VAL GLY SEQRES 26 B 332 PHE ALA LEU ALA LYS ASN LEU HET ZN A 329 1 HET ZN A 330 1 HET ZN A 331 1 HET ZN A 332 1 HET ZN B 329 1 HET ZN B 330 1 HETNAM ZN ZINC ION FORMUL 3 ZN 6(ZN 2+) FORMUL 9 HOH *104(H2 O) HELIX 1 1 SER A 47 GLU A 51 5 5 HELIX 2 2 ASP A 57 SER A 61 5 5 HELIX 3 3 TRP A 125 SER A 129 5 5 HELIX 4 4 PRO A 135 GLN A 143 1 9 HELIX 5 5 GLU A 171 PHE A 175 5 5 HELIX 6 6 PRO A 224 PHE A 238 1 15 HELIX 7 7 GLU A 270 TYR A 274 1 5 HELIX 8 8 GLY A 302 LYS A 308 1 7 HELIX 9 9 SER B 47 GLU B 51 5 5 HELIX 10 10 PRO B 110 SER B 115 1 6 HELIX 11 11 TRP B 125 SER B 129 5 5 HELIX 12 12 PRO B 135 GLN B 143 1 9 HELIX 13 13 PRO B 224 PHE B 238 1 15 HELIX 14 14 GLU B 270 TYR B 274 1 5 HELIX 15 15 GLY B 302 ARG B 307 1 6 SHEET 1 A 6 TRP A 39 PRO A 41 0 SHEET 2 A 6 LEU A 94 GLY A 109 1 O MET A 104 N VAL A 40 SHEET 3 A 6 GLY A 78 ILE A 91 -1 N VAL A 89 O VAL A 96 SHEET 4 A 6 LEU A 13 LEU A 20 -1 N LYS A 19 O THR A 90 SHEET 5 A 6 GLN A 25 HIS A 32 -1 O PHE A 29 N GLY A 16 SHEET 6 A 6 GLY A 119 GLY A 122 1 O PHE A 121 N LEU A 30 SHEET 1 B 9 GLU A 65 SER A 75 0 SHEET 2 B 9 GLY A 78 ILE A 91 -1 O PHE A 84 N ASP A 68 SHEET 3 B 9 LEU A 13 LEU A 20 -1 N LYS A 19 O THR A 90 SHEET 4 B 9 ASP A 2 ASP A 8 -1 N LYS A 7 O PHE A 15 SHEET 5 B 9 GLY A 163 ILE A 167 -1 O GLY A 163 N LEU A 6 SHEET 6 B 9 VAL A 150 TYR A 154 -1 N TYR A 154 O TYR A 164 SHEET 7 B 9 TYR A 309 ASP A 314 -1 O TYR A 313 N TYR A 151 SHEET 8 B 9 THR A 319 LEU A 324 -1 O ALA A 323 N PHE A 310 SHEET 9 B 9 ASN A 180 LYS A 183 -1 N GLU A 182 O VAL A 320 SHEET 1 C 7 VAL A 266 LEU A 269 0 SHEET 2 C 7 LEU A 258 ARG A 261 -1 N TYR A 260 O TYR A 267 SHEET 3 C 7 GLN A 191 PHE A 199 -1 N HIS A 198 O GLU A 259 SHEET 4 C 7 VAL A 205 LEU A 214 -1 O SER A 207 N VAL A 197 SHEET 5 C 7 THR A 298 LEU A 301 1 O LEU A 301 N ILE A 213 SHEET 6 C 7 ILE A 221 VAL A 223 -1 N THR A 222 O VAL A 300 SHEET 7 C 7 ILE A 286 PRO A 288 1 O VAL A 287 N ILE A 221 SHEET 1 D 3 VAL A 246 THR A 248 0 SHEET 2 D 3 LEU A 281 LEU A 284 -1 O CYS A 282 N THR A 247 SHEET 3 D 3 LEU A 275 PRO A 277 -1 N GLU A 276 O MET A 283 SHEET 1 E12 GLU B 65 THR B 74 0 SHEET 2 E12 GLY B 78 ILE B 91 -1 O ILE B 80 N LEU B 73 SHEET 3 E12 LEU B 13 LEU B 20 -1 N LYS B 19 O THR B 90 SHEET 4 E12 ASN B 3 ASP B 8 -1 N LYS B 7 O PHE B 15 SHEET 5 E12 GLY B 163 ILE B 167 -1 O GLY B 163 N LEU B 6 SHEET 6 E12 VAL B 150 TYR B 154 -1 N TYR B 154 O TYR B 164 SHEET 7 E12 TYR B 309 ASP B 314 -1 O TYR B 313 N TYR B 151 SHEET 8 E12 THR B 319 ALA B 325 -1 O ALA B 323 N PHE B 310 SHEET 9 E12 PHE B 175 HIS B 186 -1 N ASN B 180 O PHE B 322 SHEET 10 E12 GLN B 191 PHE B 199 -1 O GLN B 191 N ASN B 185 SHEET 11 E12 LEU B 258 ARG B 261 -1 O ARG B 261 N ASP B 195 SHEET 12 E12 VAL B 266 LEU B 269 -1 O TYR B 267 N TYR B 260 SHEET 1 F 4 TRP B 39 PRO B 41 0 SHEET 2 F 4 LEU B 94 GLY B 109 1 O MET B 104 N VAL B 40 SHEET 3 F 4 GLY B 78 ILE B 91 -1 N SER B 85 O PHE B 101 SHEET 4 F 4 GLU B 65 THR B 74 -1 N LEU B 73 O ILE B 80 SHEET 1 G 7 VAL B 266 LEU B 269 0 SHEET 2 G 7 LEU B 258 ARG B 261 -1 N TYR B 260 O TYR B 267 SHEET 3 G 7 GLN B 191 PHE B 199 -1 N ASP B 195 O ARG B 261 SHEET 4 G 7 VAL B 205 LEU B 214 -1 O ALA B 210 N LEU B 194 SHEET 5 G 7 THR B 298 LEU B 301 1 O PHE B 299 N ILE B 213 SHEET 6 G 7 ILE B 221 VAL B 223 -1 N THR B 222 O VAL B 300 SHEET 7 G 7 ILE B 286 PRO B 288 1 O VAL B 287 N ILE B 221 SHEET 1 H 5 GLU B 65 THR B 74 0 SHEET 2 H 5 GLY B 78 ILE B 91 -1 O ILE B 80 N LEU B 73 SHEET 3 H 5 LEU B 13 LEU B 20 -1 N LYS B 19 O THR B 90 SHEET 4 H 5 GLN B 25 HIS B 32 -1 O PHE B 29 N GLY B 16 SHEET 5 H 5 GLY B 119 GLY B 122 1 O GLY B 119 N LEU B 30 SHEET 1 I 3 VAL B 246 THR B 248 0 SHEET 2 I 3 LEU B 281 LEU B 284 -1 O CYS B 282 N THR B 247 SHEET 3 I 3 LEU B 275 PRO B 277 -1 N GLU B 276 O MET B 283 SSBOND 1 CYS A 45 CYS A 50 1555 1555 2.06 SSBOND 2 CYS A 249 CYS A 282 1555 1555 2.07 SSBOND 3 CYS B 45 CYS B 50 1555 1555 2.06 SSBOND 4 CYS B 249 CYS B 282 1555 1555 2.07 LINK NE2 HIS A 32 ZN ZN A 329 1555 1555 2.09 LINK OE1 GLU A 48 ZN ZN A 332 1555 1555 2.03 LINK OE2 GLU A 48 ZN ZN A 332 1555 1555 2.27 LINK OE1 GLU A 51 ZN ZN A 332 1555 1555 1.78 LINK OD2 ASP A 195 ZN ZN A 330 1555 1555 1.91 LINK NE2 HIS A 198 ZN ZN A 330 1555 1555 2.09 LINK OD2 ASP A 215 ZN ZN A 329 1555 1555 2.14 LINK OE2 GLU A 278A ZN ZN B 329 1555 1555 2.02 LINK NE2 HIS B 32 ZN ZN B 329 1555 1555 1.97 LINK OD2 ASP B 195 ZN ZN B 330 1555 1555 2.03 LINK NE2 HIS B 198 ZN ZN B 330 1555 1555 2.07 LINK OD2 ASP B 215 ZN ZN B 329 1555 1555 1.99 LINK OE2 GLU B 278A ZN ZN A 329 1555 1555 2.06 LINK ZN ZN A 329 O HOH A 374 1555 1555 1.98 CISPEP 1 GLU A 109B PRO A 110 0 0.40 CISPEP 2 GLU B 109B PRO B 110 0 2.20 SITE 1 AC1 4 HIS A 32 ASP A 215 HOH A 374 GLU B 278A SITE 1 AC2 2 ASP A 195 HIS A 198 SITE 1 AC3 3 ASP A 127 HIS A 186 ASP A 187 SITE 1 AC4 4 GLU A 48 GLU A 51 GLU B 51 HOH B 375 SITE 1 AC5 4 GLU A 278A HOH A 336 HIS B 32 ASP B 215 SITE 1 AC6 2 ASP B 195 HIS B 198 CRYST1 89.800 89.800 198.700 90.00 90.00 90.00 P 41 21 2 16 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 0.011136 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011136 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005033 0.00000