HEADER HYDROLASE 25-FEB-11 3QVC TITLE CRYSTAL STRUCTURE OF HISTO-ASPARTIC PROTEASE (HAP) ZYMOGEN FROM TITLE 2 PLASMODIUM FALCIPARUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTO-ASPARTIC PROTEASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HAP PROTEIN, PUTATIVE ASPARTIC PROTEINASE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 5833; SOURCE 4 GENE: HAP; 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, MALARIA, KEYWDS 2 ZYMOGEN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR P.BHAUMIK,A.GUSTCHINA,A.WLODAWER REVDAT 2 30-NOV-11 3QVC 1 JRNL REVDAT 1 12-OCT-11 3QVC 0 JRNL AUTH P.BHAUMIK,H.XIAO,K.HIDAKA,A.GUSTCHINA,Y.KISO,R.Y.YADA, JRNL AUTH 2 A.WLODAWER JRNL TITL STRUCTURAL INSIGHTS INTO THE ACTIVATION AND INHIBITION OF JRNL TITL 2 HISTO-ASPARTIC PROTEASE FROM PLASMODIUM FALCIPARUM. JRNL REF BIOCHEMISTRY V. 50 8862 2011 JRNL REFN ISSN 0006-2960 JRNL PMID 21928835 JRNL DOI 10.1021/BI201118Z REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 26780 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) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1410 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1947 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.2630 REMARK 3 BIN FREE R VALUE SET COUNT : 102 REMARK 3 BIN FREE R VALUE : 0.3360 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2947 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 242 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.77 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.11000 REMARK 3 B22 (A**2) : 2.22000 REMARK 3 B33 (A**2) : -1.67000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.33000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.190 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.178 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.144 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.521 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3062 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4143 ; 2.275 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 377 ; 8.848 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 134 ;34.492 ;25.522 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 545 ;20.906 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ;20.627 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 463 ; 0.210 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2270 ; 0.011 ; 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): 1853 ; 1.083 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3025 ; 1.939 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1209 ; 3.106 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1113 ; 4.771 ; 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 77P A 8 REMARK 3 ORIGIN FOR THE GROUP (A): 5.6190 -3.3200 -24.9170 REMARK 3 T TENSOR REMARK 3 T11: 0.0827 T22: 0.1974 REMARK 3 T33: 0.0525 T12: -0.0058 REMARK 3 T13: -0.0438 T23: -0.0053 REMARK 3 L TENSOR REMARK 3 L11: 6.1858 L22: 0.3795 REMARK 3 L33: 0.8734 L12: -0.7622 REMARK 3 L13: -1.0577 L23: 0.1396 REMARK 3 S TENSOR REMARK 3 S11: 0.0462 S12: 0.2395 S13: 0.1610 REMARK 3 S21: -0.0742 S22: -0.0318 S23: 0.0556 REMARK 3 S31: -0.1066 S32: 0.0230 S33: -0.0144 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 9 A 193 REMARK 3 ORIGIN FOR THE GROUP (A): -21.1480 4.1590 -26.6930 REMARK 3 T TENSOR REMARK 3 T11: 0.0840 T22: 0.1361 REMARK 3 T33: 0.0966 T12: 0.0052 REMARK 3 T13: -0.0864 T23: -0.0153 REMARK 3 L TENSOR REMARK 3 L11: 2.0873 L22: 0.9770 REMARK 3 L33: 2.4488 L12: 0.1404 REMARK 3 L13: 1.0256 L23: -0.4524 REMARK 3 S TENSOR REMARK 3 S11: -0.1109 S12: 0.1132 S13: 0.0119 REMARK 3 S21: -0.1573 S22: 0.0837 S23: 0.1035 REMARK 3 S31: -0.0038 S32: -0.2522 S33: 0.0272 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 194 A 328 REMARK 3 ORIGIN FOR THE GROUP (A): 1.7270 6.3700 -13.5440 REMARK 3 T TENSOR REMARK 3 T11: 0.1386 T22: 0.0889 REMARK 3 T33: 0.0818 T12: -0.0147 REMARK 3 T13: -0.0612 T23: 0.0074 REMARK 3 L TENSOR REMARK 3 L11: 1.7234 L22: 0.8054 REMARK 3 L33: 1.5911 L12: -0.7814 REMARK 3 L13: 0.1420 L23: 0.5683 REMARK 3 S TENSOR REMARK 3 S11: -0.0509 S12: 0.0450 S13: 0.0354 REMARK 3 S21: -0.1076 S22: 0.0292 S23: -0.0359 REMARK 3 S31: -0.1944 S32: 0.1407 S33: 0.0217 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 3QVC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-APR-11. REMARK 100 THE RCSB ID CODE IS RCSB064149. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-JUL-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.1 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 : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37803 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 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 (%) : 98.4 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.14610 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.200 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 (%): 48.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% (W/V) PEG 3350, 0.2M TRI-POTASSIUM REMARK 280 CITRATE, PH 8.1, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-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 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 60.74500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.21500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 60.74500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.21500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33230 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 6.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 42.60856 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -58.99138 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 MET A 1P REMARK 465 ASN A 2P REMARK 465 LEU A 3P REMARK 465 THR A 4P REMARK 465 ILE A 5P REMARK 465 LYS A 6P REMARK 465 GLU A 7P REMARK 465 GLU A 8P REMARK 465 ASP A 9P REMARK 465 PHE A 10P REMARK 465 THR A 11P REMARK 465 ASN A 12P REMARK 465 THR A 13P REMARK 465 PHE A 14P REMARK 465 MET A 15P REMARK 465 LYS A 16P REMARK 465 ASN A 17P REMARK 465 GLU A 18P REMARK 465 GLU A 19P REMARK 465 SER A 20P REMARK 465 PHE A 21P REMARK 465 ASN A 22P REMARK 465 THR A 23P REMARK 465 PHE A 24P REMARK 465 ARG A 25P REMARK 465 VAL A 26P REMARK 465 THR A 27P REMARK 465 LYS A 28P REMARK 465 VAL A 29P REMARK 465 LYS A 30P REMARK 465 ARG A 31P REMARK 465 TRP A 32P REMARK 465 ASN A 33P REMARK 465 ALA A 34P REMARK 465 LYS A 35P REMARK 465 ARG A 36P REMARK 465 LEU A 37P REMARK 465 PHE A 38P REMARK 465 LYS A 39P REMARK 465 ILE A 40P REMARK 465 LEU A 41P REMARK 465 PHE A 42P REMARK 465 VAL A 43P REMARK 465 THR A 44P REMARK 465 VAL A 45P REMARK 465 PHE A 46P REMARK 465 ILE A 47P REMARK 465 VAL A 48P REMARK 465 LEU A 49P REMARK 465 ALA A 50P REMARK 465 GLY A 51P REMARK 465 GLY A 52P REMARK 465 PHE A 53P REMARK 465 SER A 54P REMARK 465 TYR A 55P REMARK 465 TYR A 56P REMARK 465 ILE A 57P REMARK 465 PHE A 58P REMARK 465 GLU A 59P REMARK 465 ASN A 60P REMARK 465 PHE A 61P REMARK 465 VAL A 62P REMARK 465 PHE A 63P REMARK 465 GLN A 64P REMARK 465 LYS A 65P REMARK 465 ASN A 66P REMARK 465 ARG A 67P REMARK 465 LYS A 68P REMARK 465 ILE A 69P REMARK 465 ASN A 70P REMARK 465 HIS A 71P REMARK 465 ILE A 72P REMARK 465 ILE A 73P REMARK 465 LYS A 74P REMARK 465 THR A 75P REMARK 465 SER A 76P REMARK 465 SER A 120P REMARK 465 TYR A 121P REMARK 465 LEU A 122P REMARK 465 GLY A 123P REMARK 465 SER A 124P REMARK 465 GLU A 125P REMARK 465 PHE A 126P 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 OH TYR A 151 O HOH A 340 1.70 REMARK 500 O HOH A 405 O HOH A 511 1.71 REMARK 500 NE2 GLN A 191 OD1 ASN A 211 1.77 REMARK 500 NE1 TRP A 190 O HOH A 340 1.99 REMARK 500 O HOH A 400 O HOH A 550 2.01 REMARK 500 O ASP A 195 O HOH A 530 2.04 REMARK 500 O HOH A 354 O HOH A 371 2.04 REMARK 500 CA TYR A 260 O HOH A 530 2.05 REMARK 500 O PHE A 310 O HOH A 429 2.05 REMARK 500 NE2 GLN A 273 O HOH A 396 2.07 REMARK 500 O GLY A 321 O HOH A 429 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ASN A 211 CB ASN A 211 CG -0.147 REMARK 500 VAL A 320 CB VAL A 320 CG1 -0.159 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 A 73 CA - CB - CG ANGL. DEV. = 15.5 DEGREES REMARK 500 ILE A 91 CB - CA - C ANGL. DEV. = -12.6 DEGREES REMARK 500 MET A 104 CG - SD - CE ANGL. DEV. = -17.9 DEGREES REMARK 500 PRO A 110 C - N - CA ANGL. DEV. = -11.4 DEGREES REMARK 500 LEU A 214 CB - CG - CD2 ANGL. DEV. = -10.9 DEGREES REMARK 500 VAL A 246 CG1 - CB - CG2 ANGL. DEV. = 10.0 DEGREES REMARK 500 ARG A 307 NE - CZ - NH2 ANGL. DEV. = -3.1 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 THR A 117P -166.81 -115.17 REMARK 500 LYS A 118P 105.98 -14.11 REMARK 500 SER A 129 -178.20 -66.43 REMARK 500 SER A 234 26.78 45.92 REMARK 500 PHE A 242 -8.57 72.33 REMARK 500 ASN A 285 39.59 -83.77 REMARK 500 LEU A 291 -143.98 -104.21 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 LYS A 114P GLY A 115P -35.17 REMARK 500 ASP A 2 ASN A 3 -142.15 REMARK 500 ILE A 91 GLY A 92 -41.80 REMARK 500 PHE A 109A GLU A 109B -146.68 REMARK 500 GLU A 109B PRO A 110 139.93 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 LYS A 114P 24.5 L L OUTSIDE RANGE REMARK 500 MET A 104 22.6 L L OUTSIDE RANGE REMARK 500 GLU A 109B 21.6 L L OUTSIDE RANGE REMARK 500 VAL A 212 23.8 L L OUTSIDE RANGE 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 EDO A 329 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 330 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 331 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 332 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 333 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3QVI RELATED DB: PDB DBREF 3QVC A 1P 328 UNP Q9Y006 Q9Y006_PLAFA 1 451 SEQRES 1 A 451 MET ASN LEU THR ILE LYS GLU GLU ASP PHE THR ASN THR SEQRES 2 A 451 PHE MET LYS ASN GLU GLU SER PHE ASN THR PHE ARG VAL SEQRES 3 A 451 THR LYS VAL LYS ARG TRP ASN ALA LYS ARG LEU PHE LYS SEQRES 4 A 451 ILE LEU PHE VAL THR VAL PHE ILE VAL LEU ALA GLY GLY SEQRES 5 A 451 PHE SER TYR TYR ILE PHE GLU ASN PHE VAL PHE GLN LYS SEQRES 6 A 451 ASN ARG LYS ILE ASN HIS ILE ILE LYS THR SER LYS TYR SEQRES 7 A 451 SER THR VAL GLY PHE ASN ILE GLU ASN SER TYR ASP ARG SEQRES 8 A 451 LEU MET LYS THR ILE LYS GLU HIS LYS LEU LYS ASN TYR SEQRES 9 A 451 ILE LYS GLU SER VAL LYS LEU PHE ASN LYS GLY LEU THR SEQRES 10 A 451 LYS LYS SER TYR LEU GLY SER GLU PHE ASP ASN VAL GLU SEQRES 11 A 451 LEU LYS ASP LEU ALA ASN VAL LEU SER PHE GLY GLU ALA SEQRES 12 A 451 LYS LEU GLY ASP ASN GLY GLN LYS PHE ASN PHE LEU PHE SEQRES 13 A 451 HIS THR ALA SER SER ASN VAL TRP VAL PRO SER ILE LYS SEQRES 14 A 451 CYS THR SER GLU SER CYS GLU SER LYS ASN HIS TYR ASP SEQRES 15 A 451 SER SER LYS SER LYS THR TYR GLU LYS ASP ASP THR PRO SEQRES 16 A 451 VAL LYS LEU THR SER LYS ALA GLY THR ILE SER GLY ILE SEQRES 17 A 451 PHE SER LYS ASP LEU VAL THR ILE GLY LYS LEU SER VAL SEQRES 18 A 451 PRO TYR LYS PHE ILE GLU MET THR GLU ILE VAL GLY PHE SEQRES 19 A 451 GLU PRO PHE TYR SER GLU SER ASP VAL ASP GLY VAL PHE SEQRES 20 A 451 GLY LEU GLY TRP LYS ASP LEU SER ILE GLY SER ILE ASP SEQRES 21 A 451 PRO TYR ILE VAL GLU LEU LYS THR GLN ASN LYS ILE GLU SEQRES 22 A 451 GLN ALA VAL TYR SER ILE TYR LEU PRO PRO GLU ASN LYS SEQRES 23 A 451 ASN LYS GLY TYR LEU THR ILE GLY GLY ILE GLU GLU ARG SEQRES 24 A 451 PHE PHE ASP GLY PRO LEU ASN TYR GLU LYS LEU ASN HIS SEQRES 25 A 451 ASP LEU MET TRP GLN VAL ASP LEU ASP VAL HIS PHE GLY SEQRES 26 A 451 ASN VAL SER SER LYS LYS ALA ASN VAL ILE LEU ASP SER SEQRES 27 A 451 ALA THR SER VAL ILE THR VAL PRO THR GLU PHE PHE ASN SEQRES 28 A 451 GLN PHE VAL GLU SER ALA SER VAL PHE LYS VAL PRO PHE SEQRES 29 A 451 LEU SER LEU TYR VAL THR THR CYS GLY ASN THR LYS LEU SEQRES 30 A 451 PRO THR LEU GLU TYR ARG SER PRO ASN LYS VAL TYR THR SEQRES 31 A 451 LEU GLU PRO LYS GLN TYR LEU GLU PRO LEU GLU ASN ILE SEQRES 32 A 451 PHE SER ALA LEU CYS MET LEU ASN ILE VAL PRO ILE ASP SEQRES 33 A 451 LEU GLU LYS ASN THR PHE VAL LEU GLY ASP PRO PHE MET SEQRES 34 A 451 ARG LYS TYR PHE THR VAL TYR ASP TYR ASP ASN HIS THR SEQRES 35 A 451 VAL GLY PHE ALA LEU ALA LYS ASN LEU HET EDO A 329 4 HET EDO A 330 4 HET EDO A 331 4 HET EDO A 332 4 HET EDO A 333 4 HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 EDO 5(C2 H6 O2) FORMUL 7 HOH *242(H2 O) HELIX 1 1 ASN A 87P HIS A 99P 1 13 HELIX 2 2 LEU A 101P LYS A 114P 1 14 HELIX 3 3 GLU A 5 ALA A 10 5 6 HELIX 4 4 SER A 47 GLU A 51 5 5 HELIX 5 5 ASP A 57 SER A 61 5 5 HELIX 6 6 PRO A 110 SER A 115 1 6 HELIX 7 7 PRO A 135 GLN A 143 1 9 HELIX 8 8 GLU A 171 ARG A 173 5 3 HELIX 9 9 PRO A 224 GLU A 233 1 10 HELIX 10 10 GLU A 270 TYR A 274 1 5 HELIX 11 11 GLY A 302 LYS A 308 1 7 SHEET 1 A 9 GLU A 65 THR A 74 0 SHEET 2 A 9 GLY A 78 ILE A 91 -1 O ILE A 80 N LEU A 73 SHEET 3 A 9 VAL A 12 LEU A 20 -1 N LYS A 19 O THR A 90 SHEET 4 A 9 SER A 79P GLU A 86P-1 N GLU A 86P O VAL A 12 SHEET 5 A 9 LYS A 162 ILE A 167 -1 O LEU A 165 N VAL A 81P SHEET 6 A 9 VAL A 150 TYR A 154 -1 N TYR A 154 O TYR A 164 SHEET 7 A 9 TYR A 309 ASP A 314 -1 O TYR A 313 N TYR A 151 SHEET 8 A 9 THR A 319 ALA A 325 -1 O THR A 319 N ASP A 314 SHEET 9 A 9 PHE A 175 LYS A 183 -1 N GLU A 182 O VAL A 320 SHEET 1 B13 GLU A 65 THR A 74 0 SHEET 2 B13 GLY A 78 ILE A 91 -1 O ILE A 80 N LEU A 73 SHEET 3 B13 LEU A 94 GLY A 109 -1 O GLU A 103 N ILE A 83 SHEET 4 B13 VAL A 38 PRO A 41 1 N VAL A 38 O ILE A 102 SHEET 5 B13 GLY A 119 GLY A 122 -1 O VAL A 120 N TRP A 39 SHEET 6 B13 GLN A 25 HIS A 32 1 N LEU A 30 O PHE A 121 SHEET 7 B13 VAL A 12 LEU A 20 -1 N PHE A 15 O PHE A 29 SHEET 8 B13 SER A 79P GLU A 86P-1 N GLU A 86P O VAL A 12 SHEET 9 B13 LYS A 162 ILE A 167 -1 O LEU A 165 N VAL A 81P SHEET 10 B13 VAL A 150 TYR A 154 -1 N TYR A 154 O TYR A 164 SHEET 11 B13 TYR A 309 ASP A 314 -1 O TYR A 313 N TYR A 151 SHEET 12 B13 THR A 319 ALA A 325 -1 O THR A 319 N ASP A 314 SHEET 13 B13 PHE A 175 LYS A 183 -1 N GLU A 182 O VAL A 320 SHEET 1 C 7 LYS A 265 LEU A 269 0 SHEET 2 C 7 LEU A 258 SER A 262 -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 VAL A 205 N PHE A 199 SHEET 5 C 7 THR A 298 LEU A 301 1 O PHE A 299 N ASN A 211 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 4 PHE A 238 LYS A 239 0 SHEET 2 D 4 TYR A 245 THR A 248 -1 O VAL A 246 N PHE A 238 SHEET 3 D 4 LEU A 281 LEU A 284 -1 O LEU A 284 N TYR A 245 SHEET 4 D 4 LEU A 275 PRO A 277 -1 N GLU A 276 O MET A 283 SSBOND 1 CYS A 45 CYS A 50 1555 1555 2.05 SSBOND 2 CYS A 249 CYS A 282 1555 1555 2.07 CISPEP 1 LYS A 118P LYS A 119P 0 20.38 SITE 1 AC1 7 ASP A 67 PHE A 84 LYS A 102P SER A 129 SITE 2 AC1 7 GLY A 131 ILE A 133 HOH A 477 SITE 1 AC2 6 GLU A 172 PHE A 175 LYS A 326 HOH A 365 SITE 2 AC2 6 HOH A 468 HOH A 503 SITE 1 AC3 6 VAL A 109P PHE A 112P ASN A 113P PHE A 279B SITE 2 AC3 6 LEU A 281 HOH A 509 SITE 1 AC4 4 ASP A 2 ASN A 229 TYR A 245 PRO A 288 SITE 1 AC5 5 LYS A 97P TRP A 125 LYS A 126 ASP A 127 SITE 2 AC5 5 LEU A 188 CRYST1 121.490 68.430 72.770 90.00 125.84 90.00 C 1 2 1 4 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 0.008231 0.000000 0.005945 0.00000 SCALE2 0.000000 0.014613 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016952 0.00000