HEADER HYDROLASE/HYDROLASE INHIBITOR 25-JAN-10 3LIX TITLE CRYSTAL STRUCTURE OF HTLV PROTEASE COMPLEXED WITH THE INHIBITOR KNI- TITLE 2 10729 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN T-LYMPHOTROPIC VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11908; SOURCE 4 GENE: PRT; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PHTLVDELTA9 KEYWDS HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.SATOH,M.LI,J.NGUYEN,Y.KISO,A.WLODAWER,A.GUSTCHINA REVDAT 6 06-SEP-23 3LIX 1 REMARK REVDAT 5 13-OCT-21 3LIX 1 REMARK SEQADV REVDAT 4 01-NOV-17 3LIX 1 REMARK REVDAT 3 13-JUL-11 3LIX 1 VERSN REVDAT 2 05-JAN-11 3LIX 1 JRNL REVDAT 1 14-JUL-10 3LIX 0 JRNL AUTH T.SATOH,M.LI,J.T.NGUYEN,Y.KISO,A.GUSTCHINA,A.WLODAWER JRNL TITL CRYSTAL STRUCTURES OF INHIBITOR COMPLEXES OF HUMAN T-CELL JRNL TITL 2 LEUKEMIA VIRUS (HTLV-1) PROTEASE. JRNL REF J.MOL.BIOL. V. 401 626 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20600105 JRNL DOI 10.1016/J.JMB.2010.06.052 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0057 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 (%) : 89.7 REMARK 3 NUMBER OF REFLECTIONS : 7237 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.282 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.900 REMARK 3 FREE R VALUE TEST SET COUNT : 214 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) : 335 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 58.54 REMARK 3 BIN R VALUE (WORKING SET) : 0.2280 REMARK 3 BIN FREE R VALUE SET COUNT : 11 REMARK 3 BIN FREE R VALUE : 0.2190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1766 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 55 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.15000 REMARK 3 B22 (A**2) : -4.15000 REMARK 3 B33 (A**2) : 6.22000 REMARK 3 B12 (A**2) : -2.07000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.407 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.284 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 27.017 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.933 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.871 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1871 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2571 ; 1.548 ; 2.025 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 234 ; 5.993 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 62 ;37.963 ;24.516 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 303 ;19.854 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;12.387 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 317 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1360 ; 0.006 ; 0.022 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): 1182 ; 4.016 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1954 ; 6.368 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 689 ; 4.503 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 615 ; 6.863 ; 3.000 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 : 0 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 875 ; 0.55 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 875 ; 0.98 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 1 A 116 REMARK 3 ORIGIN FOR THE GROUP (A): 23.4877 44.3911 20.5827 REMARK 3 T TENSOR REMARK 3 T11: 0.0448 T22: 0.0373 REMARK 3 T33: 0.1287 T12: 0.0232 REMARK 3 T13: -0.0653 T23: -0.0043 REMARK 3 L TENSOR REMARK 3 L11: 1.2604 L22: 3.5289 REMARK 3 L33: 0.3666 L12: 0.2358 REMARK 3 L13: -0.3817 L23: 0.1038 REMARK 3 S TENSOR REMARK 3 S11: -0.0453 S12: -0.0187 S13: 0.4734 REMARK 3 S21: 0.0233 S22: -0.0022 S23: 0.0198 REMARK 3 S31: -0.0466 S32: -0.0418 S33: 0.0475 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 116 REMARK 3 ORIGIN FOR THE GROUP (A): 15.2158 22.6529 20.7086 REMARK 3 T TENSOR REMARK 3 T11: 0.0436 T22: 0.0333 REMARK 3 T33: 0.0716 T12: 0.0108 REMARK 3 T13: 0.0066 T23: 0.0060 REMARK 3 L TENSOR REMARK 3 L11: 2.1311 L22: 2.9459 REMARK 3 L33: 1.6701 L12: 0.5631 REMARK 3 L13: 0.2593 L23: -0.4965 REMARK 3 S TENSOR REMARK 3 S11: -0.1733 S12: 0.0485 S13: -0.1665 REMARK 3 S21: -0.0450 S22: 0.0517 S23: 0.3757 REMARK 3 S31: 0.0023 S32: -0.0210 S33: 0.1216 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 REMARK 4 REMARK 4 3LIX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-APR-10. REMARK 100 THE DEPOSITION ID IS D_1000057333. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.2 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) : 1.000 REMARK 200 MONOCHROMATOR : MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7455 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.4 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10100 REMARK 200 FOR THE DATA SET : 14.6000 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 (%) : 59.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.28000 REMARK 200 FOR SHELL : 2.700 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: 2B7F REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17%PEG8000 16% PEG300 0.01M BACL 10MM REMARK 280 DTT, PH 5.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 79.66350 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 79.66350 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 79.66350 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 79.66350 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 79.66350 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 79.66350 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 33270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 58000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -402.0 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 77.37600 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 38.68800 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 67.00958 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.500000 -0.866025 0.000000 38.68800 REMARK 350 BIOMT2 4 -0.866025 -0.500000 0.000000 67.00958 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 79.66350 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 77.37600 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 79.66350 REMARK 350 BIOMT1 6 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 6 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 79.66350 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 118 O HOH A 119 1.99 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 PRO A 1 N PRO A 1 CA 0.148 REMARK 500 PRO A 1 CD PRO A 1 N 0.118 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 1 CA - N - CD ANGL. DEV. = -12.8 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 96 -159.17 -102.44 REMARK 500 ASN A 97 32.35 -164.58 REMARK 500 GLN B 20 -2.47 77.16 REMARK 500 ASN B 48 -92.29 -66.05 REMARK 500 THR B 49 105.53 41.89 REMARK 500 PHE B 80 -75.95 -69.62 REMARK 500 ASN B 96 -147.19 -85.13 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 117 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 65 OD2 REMARK 620 2 ASP A 65 OD1 53.0 REMARK 620 N 1 REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE INHIBITOR REMARK 630 MOLECULE NAME: N-{(1S,2S)-1-BENZYL-3-[(4R)-5,5-DIMETHYL-4-{[(1R)-1, REMARK 630 2,2-TRIMETHYLPROPYL]CARBAMOYL}-1,3-THIAZOLIDIN-3-YL]-2-HYDROXY-3- REMARK 630 OXOPROPYL}-3-METHYL-N~2~-{(2S)-2-[(MORPHOLIN-4-YLACETYL)AMINO]-2- REMARK 630 PHENYLACETYL}-L-VALINAMIDE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 E17 B 117 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: 00E 004 TBG 005 00B 00D REMARK 630 DETAILS: NULL 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 117 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE E17 B 117 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2B7F RELATED DB: PDB REMARK 900 RELATED ID: 3LIQ RELATED DB: PDB REMARK 900 RELATED ID: 3LIN RELATED DB: PDB REMARK 900 RELATED ID: 3LIT RELATED DB: PDB REMARK 900 RELATED ID: 3LIV RELATED DB: PDB REMARK 900 RELATED ID: 3LIY RELATED DB: PDB DBREF 3LIX A 1 116 UNP Q82134 Q82134_9DELA 1 116 DBREF 3LIX B 1 116 UNP Q82134 Q82134_9DELA 1 116 SEQADV 3LIX ILE A 40 UNP Q82134 LEU 40 ENGINEERED MUTATION SEQADV 3LIX ILE B 40 UNP Q82134 LEU 40 ENGINEERED MUTATION SEQRES 1 A 116 PRO VAL ILE PRO LEU ASP PRO ALA ARG ARG PRO VAL ILE SEQRES 2 A 116 LYS ALA GLN VAL ASP THR GLN THR SER HIS PRO LYS THR SEQRES 3 A 116 ILE GLU ALA LEU LEU ASP THR GLY ALA ASP MET THR VAL SEQRES 4 A 116 ILE PRO ILE ALA LEU PHE SER SER ASN THR PRO LEU LYS SEQRES 5 A 116 ASN THR SER VAL LEU GLY ALA GLY GLY GLN THR GLN ASP SEQRES 6 A 116 HIS PHE LYS LEU THR SER LEU PRO VAL LEU ILE ARG LEU SEQRES 7 A 116 PRO PHE ARG THR THR PRO ILE VAL LEU THR SER CYS LEU SEQRES 8 A 116 VAL ASP THR LYS ASN ASN TRP ALA ILE ILE GLY ARG ASP SEQRES 9 A 116 ALA LEU GLN GLN CYS GLN GLY VAL LEU TYR LEU PRO SEQRES 1 B 116 PRO VAL ILE PRO LEU ASP PRO ALA ARG ARG PRO VAL ILE SEQRES 2 B 116 LYS ALA GLN VAL ASP THR GLN THR SER HIS PRO LYS THR SEQRES 3 B 116 ILE GLU ALA LEU LEU ASP THR GLY ALA ASP MET THR VAL SEQRES 4 B 116 ILE PRO ILE ALA LEU PHE SER SER ASN THR PRO LEU LYS SEQRES 5 B 116 ASN THR SER VAL LEU GLY ALA GLY GLY GLN THR GLN ASP SEQRES 6 B 116 HIS PHE LYS LEU THR SER LEU PRO VAL LEU ILE ARG LEU SEQRES 7 B 116 PRO PHE ARG THR THR PRO ILE VAL LEU THR SER CYS LEU SEQRES 8 B 116 VAL ASP THR LYS ASN ASN TRP ALA ILE ILE GLY ARG ASP SEQRES 9 B 116 ALA LEU GLN GLN CYS GLN GLY VAL LEU TYR LEU PRO HET ZN A 117 1 HET E17 B 117 56 HETNAM ZN ZINC ION HETNAM E17 N-{(1S,2S)-1-BENZYL-3-[(4R)-5,5-DIMETHYL-4-{[(1R)-1,2, HETNAM 2 E17 2-TRIMETHYLPROPYL]CARBAMOYL}-1,3-THIAZOLIDIN-3-YL]-2- HETNAM 3 E17 HYDROXY-3-OXOPROPYL}-3-METHYL-N~2~-{(2S)-2- HETNAM 4 E17 [(MORPHOLIN-4-YLACETYL)AMINO]-2-PHENYLACETYL}-L- HETNAM 5 E17 VALINAMIDE HETSYN E17 KNI-10729 FORMUL 3 ZN ZN 2+ FORMUL 4 E17 C42 H62 N6 O7 S FORMUL 5 HOH *55(H2 O) HELIX 1 1 ALA A 43 PHE A 45 5 3 HELIX 2 2 GLY A 102 CYS A 109 1 8 HELIX 3 3 ALA B 43 PHE B 45 5 3 HELIX 4 4 GLY B 102 CYS B 109 1 8 SHEET 1 A 4 VAL A 2 PRO A 4 0 SHEET 2 A 4 VAL B 112 TYR B 114 -1 O LEU B 113 N ILE A 3 SHEET 3 A 4 VAL A 112 TYR A 114 -1 N TYR A 114 O VAL B 112 SHEET 4 A 4 VAL B 2 PRO B 4 -1 O ILE B 3 N LEU A 113 SHEET 1 B 5 ILE A 85 LEU A 87 0 SHEET 2 B 5 VAL A 74 ARG A 77 -1 N ILE A 76 O ILE A 85 SHEET 3 B 5 VAL A 12 ASP A 18 -1 N ASP A 18 O LEU A 75 SHEET 4 B 5 LYS A 25 LEU A 31 -1 O ALA A 29 N ILE A 13 SHEET 5 B 5 ALA A 99 ILE A 101 1 O ILE A 101 N LEU A 30 SHEET 1 C 4 VAL A 39 PRO A 41 0 SHEET 2 C 4 LEU A 91 ASP A 93 1 O LEU A 91 N ILE A 40 SHEET 3 C 4 GLN A 62 LEU A 69 -1 N LYS A 68 O VAL A 92 SHEET 4 C 4 LYS A 52 LEU A 57 -1 N LYS A 52 O LEU A 69 SHEET 1 D 5 ILE B 85 LEU B 87 0 SHEET 2 D 5 VAL B 74 ARG B 77 -1 N ILE B 76 O ILE B 85 SHEET 3 D 5 VAL B 12 ASP B 18 -1 N GLN B 16 O ARG B 77 SHEET 4 D 5 LYS B 25 LEU B 31 -1 O LYS B 25 N VAL B 17 SHEET 5 D 5 ILE B 100 ILE B 101 1 O ILE B 101 N LEU B 30 SHEET 1 E 4 VAL B 39 PRO B 41 0 SHEET 2 E 4 LEU B 91 ASP B 93 1 O ASP B 93 N ILE B 40 SHEET 3 E 4 PHE B 67 THR B 70 -1 N LYS B 68 O VAL B 92 SHEET 4 E 4 LEU B 51 ASN B 53 -1 N LYS B 52 O LEU B 69 SHEET 1 F 2 VAL B 56 GLY B 58 0 SHEET 2 F 2 GLY B 61 THR B 63 -1 O THR B 63 N VAL B 56 LINK OD2 ASP A 65 ZN ZN A 117 1555 1555 2.10 LINK OD1 ASP A 65 ZN ZN A 117 1555 1555 2.65 SITE 1 AC1 4 ASP A 65 HIS A 66 ASP B 65 HIS B 66 SITE 1 AC2 19 ARG A 10 ASP A 32 GLY A 34 ALA A 35 SITE 2 AC2 19 MET A 37 VAL A 56 LEU A 57 ALA A 59 SITE 3 AC2 19 TRP A 98 LEU B 30 ASP B 32 GLY B 34 SITE 4 AC2 19 ASP B 36 MET B 37 VAL B 56 LEU B 57 SITE 5 AC2 19 GLY B 58 ALA B 59 HOH B 119 CRYST1 77.376 77.376 159.327 90.00 90.00 120.00 P 63 2 2 24 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 0.012924 0.007462 0.000000 0.00000 SCALE2 0.000000 0.014923 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006276 0.00000