HEADER HYDROLASE/HYDROLASE INHIBITOR 25-AUG-11 3TJU TITLE CRYSTAL STRUCTURE OF HUMAN GRANZYME H WITH AN INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: GRANZYME H; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GZMH, CCP-X, CATHEPSIN G-LIKE 2, CTSGL2, CYTOTOXIC T- COMPND 5 LYMPHOCYTE PROTEINASE, CYTOTOXIC SERINE PROTEASE C, CSP-C; COMPND 6 EC: 3.4.21.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: AC-PTSY-CMK INHIBITOR; COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: GZMH, CGL2, CTSGL2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSSETA(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: THIS SEQUENCE IS A SYNTHETIC CONSTRUCT. KEYWDS SERINE PROTEASE, CYTOLYSIS, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.WANG,K.ZHANG,L.WU,L.TONG,F.SUN,Z.FAN REVDAT 5 16-OCT-24 3TJU 1 REMARK REVDAT 4 06-DEC-23 3TJU 1 LINK REVDAT 3 01-NOV-23 3TJU 1 REMARK SEQADV LINK REVDAT 2 03-JUL-13 3TJU 1 JRNL LINK REVDAT 1 28-DEC-11 3TJU 0 JRNL AUTH L.WANG,K.ZHANG,L.WU,S.LIU,H.ZHANG,Q.ZHOU,L.TONG,F.SUN,Z.FAN JRNL TITL STRUCTURAL INSIGHTS INTO THE SUBSTRATE SPECIFICITY OF HUMAN JRNL TITL 2 GRANZYME H: THE FUNCTIONAL ROLES OF A NOVEL RKR MOTIF JRNL REF J.IMMUNOL. V. 188 765 2012 JRNL REFN ISSN 0022-1767 JRNL PMID 22156497 JRNL DOI 10.4049/JIMMUNOL.1101381 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 8604 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) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.289 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 406 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 596 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.68 REMARK 3 BIN R VALUE (WORKING SET) : 0.2620 REMARK 3 BIN FREE R VALUE SET COUNT : 23 REMARK 3 BIN FREE R VALUE : 0.3320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1796 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 30 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 50.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.24000 REMARK 3 B22 (A**2) : 4.24000 REMARK 3 B33 (A**2) : -8.48000 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): 0.862 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.372 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.281 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 29.310 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.912 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.885 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1818 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2461 ; 1.590 ; 1.972 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 226 ; 6.391 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 71 ;36.785 ;22.958 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 302 ;19.409 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;16.806 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 267 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1353 ; 0.007 ; 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): 1138 ; 0.549 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1833 ; 1.031 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 680 ; 1.665 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 628 ; 2.765 ; 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 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 16 A 240 REMARK 3 ORIGIN FOR THE GROUP (A): 8.8470 -28.9110 4.9243 REMARK 3 T TENSOR REMARK 3 T11: 0.0137 T22: 0.0105 REMARK 3 T33: 0.0768 T12: 0.0020 REMARK 3 T13: -0.0069 T23: -0.0080 REMARK 3 L TENSOR REMARK 3 L11: 0.9579 L22: 1.8328 REMARK 3 L33: 3.4663 L12: -0.0466 REMARK 3 L13: -0.3404 L23: 0.3402 REMARK 3 S TENSOR REMARK 3 S11: -0.0163 S12: -0.0811 S13: 0.0529 REMARK 3 S21: -0.0748 S22: 0.0534 S23: 0.0577 REMARK 3 S31: -0.1868 S32: -0.0121 S33: -0.0370 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 : B 1 B 5 REMARK 3 ORIGIN FOR THE GROUP (A): 11.3744 -36.7064 15.5725 REMARK 3 T TENSOR REMARK 3 T11: 0.0902 T22: 0.1088 REMARK 3 T33: 0.0778 T12: -0.0272 REMARK 3 T13: 0.0171 T23: -0.0217 REMARK 3 L TENSOR REMARK 3 L11: 6.3570 L22: 16.9369 REMARK 3 L33: 16.5765 L12: -8.0284 REMARK 3 L13: -3.0062 L23: 13.9463 REMARK 3 S TENSOR REMARK 3 S11: -0.2251 S12: -0.2859 S13: 0.1639 REMARK 3 S21: 0.3095 S22: -0.2713 S23: 0.1768 REMARK 3 S31: 0.1360 S32: -0.8147 S33: 0.4964 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 250 A 252 REMARK 3 ORIGIN FOR THE GROUP (A): 17.2413 -34.6990 17.9052 REMARK 3 T TENSOR REMARK 3 T11: 0.3735 T22: 0.5754 REMARK 3 T33: 0.1217 T12: -0.0324 REMARK 3 T13: -0.1540 T23: -0.1101 REMARK 3 L TENSOR REMARK 3 L11: 11.4816 L22: 1.7377 REMARK 3 L33: 5.0411 L12: -4.3307 REMARK 3 L13: -7.6074 L23: 2.8626 REMARK 3 S TENSOR REMARK 3 S11: 0.1640 S12: 0.6041 S13: 0.2936 REMARK 3 S21: -0.0450 S22: 0.0155 S23: -0.1804 REMARK 3 S31: -0.1105 S32: -0.4147 S33: -0.1795 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 254 A 288 REMARK 3 ORIGIN FOR THE GROUP (A): 8.3779 -28.4253 4.3877 REMARK 3 T TENSOR REMARK 3 T11: 0.0792 T22: 0.0324 REMARK 3 T33: 0.2664 T12: 0.0365 REMARK 3 T13: -0.0173 T23: 0.0015 REMARK 3 L TENSOR REMARK 3 L11: 0.3207 L22: 0.8572 REMARK 3 L33: 2.2227 L12: -0.1328 REMARK 3 L13: -0.4558 L23: 1.3121 REMARK 3 S TENSOR REMARK 3 S11: 0.1547 S12: 0.0882 S13: 0.0230 REMARK 3 S21: -0.1038 S22: 0.0456 S23: -0.1459 REMARK 3 S31: -0.2762 S32: -0.0135 S33: -0.2003 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 REMARK 4 REMARK 4 3TJU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-SEP-11. REMARK 100 THE DEPOSITION ID IS D_1000067566. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NUMERICAL LINK TYPE SI(111) REMARK 200 DOUBLE CRYSTAL MONOCHROMATOR, REMARK 200 LIQUID NITROGEN COOLING REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8689 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -0.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 35.50 REMARK 200 R MERGE (I) : 0.09900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 58.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 22.20 REMARK 200 R MERGE FOR SHELL (I) : 0.24800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 12.70 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASES, PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3TK9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M LI2SO4, 0.1M BICINE (PH 8.5), 25% REMARK 280 (W/V) PEG 3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K 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 72.39100 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 31.61950 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 31.61950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 36.19550 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 31.61950 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 31.61950 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 108.58650 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 31.61950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 31.61950 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 36.19550 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 31.61950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 31.61950 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 108.58650 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 72.39100 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 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: 1560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 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 400 REMARK 400 COMPOUND REMARK 400 THE UNBOUND FORM OF THE INHIBITOR (CHAIN B) IS ACE-PRO-THR-SER-TYR- REMARK 400 CHLOROMETHYLKETONE. UPON REACTION WITH PROTEIN IT FORMS TWO REMARK 400 COVALENT BONDS: 1) A COVALENT BOND TO SER 197 FORMING A HEMIACETAL REMARK 400 AND 2) A COVALENT BOND TO NE2 OF HIS 59 REMARK 400 REMARK 400 THE 1-ACETYL-L-PROLYL-L-THREONYL-N-[(2R,3S)-4-CHLORO-3-HYDROXY-1-(4- REMARK 400 HYDROXYPHENYL)BUTAN-2-YL]-L-SERINAMIDE IS PEPTIDE-LIKE, A MEMBER OF REMARK 400 INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: 1-ACETYL-L-PROLYL-L-THREONYL-N-[(2R,3S)-4-CHLORO-3-HYDROXY- REMARK 400 1-(4-HYDROXYPHENYL)BUTAN-2-YL]-L-SERINAMIDE REMARK 400 CHAIN: B REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL 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 LEU A 241 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 39 CB CG CD CE NZ REMARK 480 GLU A 76 CB CG CD OE1 OE2 REMARK 480 LYS A 114 CD CE NZ REMARK 480 LYS A 132 CD CE NZ REMARK 480 LYS A 187 CB CG CD CE NZ REMARK 480 LYS A 235 CB CG CD CE NZ 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 CE1 HIS A 59 C1 0QE B 6 1.87 REMARK 500 OG SER A 197 O TYW B 5 1.94 REMARK 500 OG SER A 197 C1 0QE B 6 2.13 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 LYS A 132 CB - CG - CD ANGL. DEV. = 17.5 DEGREES REMARK 500 LYS A 235 CB - CA - C ANGL. DEV. = 22.8 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 GLN A 37 -113.55 -105.70 REMARK 500 GLU A 38 34.94 -72.30 REMARK 500 LYS A 39 6.93 86.15 REMARK 500 CYS A 60 34.97 -91.94 REMARK 500 SER A 64 61.21 37.90 REMARK 500 HIS A 72 -71.67 -115.46 REMARK 500 PRO A 93 -15.60 -48.54 REMARK 500 THR A 116 -166.30 -114.76 REMARK 500 SER A 146 -174.30 -174.79 REMARK 500 HIS A 172 123.73 -23.23 REMARK 500 THR A 191 148.82 179.86 REMARK 500 LYS A 194 134.66 -35.77 REMARK 500 SER A 228 -39.14 -38.22 REMARK 500 LYS A 235 -70.72 -56.35 REMARK 500 MET A 238 -71.34 -63.21 REMARK 500 SER B 4 139.89 -37.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 236 0.15 SIDE CHAIN 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 SO4 A 250 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 251 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 252 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN B OF AC-PTSY-CMK REMARK 800 INHIBITOR REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3TJV RELATED DB: PDB REMARK 900 RELATED ID: 3TK9 RELATED DB: PDB DBREF 3TJU A 16 241 UNP P20718 GRAH_HUMAN 21 246 DBREF 3TJU B 1 6 PDB 3TJU 3TJU 1 6 SEQADV 3TJU ASN A 103 UNP P20718 ASP 108 ENGINEERED MUTATION SEQRES 1 A 226 ILE ILE GLY GLY HIS GLU ALA LYS PRO HIS SER ARG PRO SEQRES 2 A 226 TYR MET ALA PHE VAL GLN PHE LEU GLN GLU LYS SER ARG SEQRES 3 A 226 LYS ARG CYS GLY GLY ILE LEU VAL ARG LYS ASP PHE VAL SEQRES 4 A 226 LEU THR ALA ALA HIS CYS GLN GLY SER SER ILE ASN VAL SEQRES 5 A 226 THR LEU GLY ALA HIS ASN ILE LYS GLU GLN GLU ARG THR SEQRES 6 A 226 GLN GLN PHE ILE PRO VAL LYS ARG PRO ILE PRO HIS PRO SEQRES 7 A 226 ALA TYR ASN PRO LYS ASN PHE SER ASN ASN ILE MET LEU SEQRES 8 A 226 LEU GLN LEU GLU ARG LYS ALA LYS TRP THR THR ALA VAL SEQRES 9 A 226 ARG PRO LEU ARG LEU PRO SER SER LYS ALA GLN VAL LYS SEQRES 10 A 226 PRO GLY GLN LEU CYS SER VAL ALA GLY TRP GLY TYR VAL SEQRES 11 A 226 SER MET SER THR LEU ALA THR THR LEU GLN GLU VAL LEU SEQRES 12 A 226 LEU THR VAL GLN LYS ASP CYS GLN CYS GLU ARG LEU PHE SEQRES 13 A 226 HIS GLY ASN TYR SER ARG ALA THR GLU ILE CYS VAL GLY SEQRES 14 A 226 ASP PRO LYS LYS THR GLN THR GLY PHE LYS GLY ASP SER SEQRES 15 A 226 GLY GLY PRO LEU VAL CYS LYS ASP VAL ALA GLN GLY ILE SEQRES 16 A 226 LEU SER TYR GLY ASN LYS LYS GLY THR PRO PRO GLY VAL SEQRES 17 A 226 TYR ILE LYS VAL SER HIS PHE LEU PRO TRP ILE LYS ARG SEQRES 18 A 226 THR MET LYS ARG LEU SEQRES 1 B 6 ACE PRO THR SER TYW 0QE MODRES 3TJU TYW B 5 TYR HET ACE B 1 3 HET TYW B 5 12 HET 0QE B 6 1 HET SO4 A 250 5 HET SO4 A 251 5 HET SO4 A 252 5 HETNAM ACE ACETYL GROUP HETNAM TYW (2S)-2-AMINO-3-(4-HYDROXYPHENYL)PROPANE-1,1-DIOL HETNAM 0QE CHLOROMETHANE HETNAM SO4 SULFATE ION HETSYN 0QE CHLORO METHYL GROUP FORMUL 2 ACE C2 H4 O FORMUL 2 TYW C9 H13 N O3 FORMUL 2 0QE C H3 CL FORMUL 3 SO4 3(O4 S 2-) FORMUL 6 HOH *30(H2 O) HELIX 1 1 ALA A 57 GLN A 61 5 5 HELIX 2 2 LYS A 163 PHE A 171 1 9 HELIX 3 3 VAL A 227 LYS A 239 1 13 SHEET 1 A 7 HIS A 20 GLU A 21 0 SHEET 2 A 7 GLN A 155 THR A 160 -1 O GLU A 156 N HIS A 20 SHEET 3 A 7 LEU A 136 GLY A 141 -1 N CYS A 137 O LEU A 159 SHEET 4 A 7 PRO A 200 CYS A 203 -1 O VAL A 202 N SER A 138 SHEET 5 A 7 VAL A 206 GLY A 214 -1 O VAL A 206 N CYS A 203 SHEET 6 A 7 GLY A 222 LYS A 226 -1 O VAL A 223 N TYR A 213 SHEET 7 A 7 GLU A 180 VAL A 183 -1 N ILE A 181 O TYR A 224 SHEET 1 B 6 HIS A 20 GLU A 21 0 SHEET 2 B 6 GLN A 155 THR A 160 -1 O GLU A 156 N HIS A 20 SHEET 3 B 6 LEU A 136 GLY A 141 -1 N CYS A 137 O LEU A 159 SHEET 4 B 6 PRO A 200 CYS A 203 -1 O VAL A 202 N SER A 138 SHEET 5 B 6 VAL A 206 GLY A 214 -1 O VAL A 206 N CYS A 203 SHEET 6 B 6 THR B 3 SER B 4 -1 O THR B 3 N GLY A 214 SHEET 1 C 7 MET A 30 LEU A 36 0 SHEET 2 C 7 ARG A 41 ARG A 50 -1 O GLY A 46 N ALA A 31 SHEET 3 C 7 PHE A 53 THR A 56 -1 O LEU A 55 N ILE A 47 SHEET 4 C 7 MET A 105 LEU A 109 -1 O LEU A 107 N VAL A 54 SHEET 5 C 7 GLN A 82 PRO A 91 -1 N ILE A 90 O LEU A 106 SHEET 6 C 7 SER A 63 LEU A 69 -1 N VAL A 67 O ILE A 84 SHEET 7 C 7 MET A 30 LEU A 36 -1 N PHE A 32 O THR A 68 SHEET 1 D 2 TYR A 144 SER A 146 0 SHEET 2 D 2 THR A 149 LEU A 150 -1 O THR A 149 N VAL A 145 SSBOND 1 CYS A 44 CYS A 60 1555 1555 2.05 SSBOND 2 CYS A 137 CYS A 203 1555 1555 2.06 SSBOND 3 CYS A 167 CYS A 182 1555 1555 2.07 LINK NE2 HIS A 59 C1 0QE B 6 1555 1555 1.46 LINK OG SER A 197 C TYW B 5 1555 1555 1.57 LINK C ACE B 1 N PRO B 2 1555 1555 1.35 LINK C SER B 4 N TYW B 5 1555 1555 1.33 LINK C TYW B 5 C1 0QE B 6 1555 1555 1.25 CISPEP 1 PRO A 220 PRO A 221 0 1.74 SITE 1 AC1 3 HIS A 20 GLU A 21 LYS A 98 SITE 1 AC2 3 ARG A 88 LYS A 216 ARG A 240 SITE 1 AC3 4 GLN A 34 ARG A 41 ARG A 43 LYS A 75 SITE 1 AC4 9 HIS A 59 PHE A 100 ASN A 174 PHE A 193 SITE 2 AC4 9 SER A 197 SER A 212 GLY A 214 ASN A 215 SITE 3 AC4 9 LYS A 216 CRYST1 63.239 63.239 144.782 90.00 90.00 90.00 P 41 21 2 8 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 0.015813 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015813 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006907 0.00000