PDB Short entry for 4GTV HEADER TRANSFERASE/TRANSFERASE INHIBITOR 29-AUG-12 4GTV TITLE ENGINEERED RABGGTASE IN COMPLEX WITH BMS ANALOGUE 13 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GERANYLGERANYL TRANSFERASE TYPE-2 SUBUNIT ALPHA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1-237 AND 353-441 LINKED WITH AGSG; COMPND 5 SYNONYM: GERANYLGERANYL TRANSFERASE TYPE II SUBUNIT ALPHA, RAB COMPND 6 GERANYL-GERANYLTRANSFERASE SUBUNIT ALPHA, RAB GG TRANSFERASE ALPHA, COMPND 7 RAB GGTASE ALPHA, RAB GERANYLGERANYLTRANSFERASE SUBUNIT ALPHA; COMPND 8 EC: 2.5.1.60; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: GERANYLGERANYL TRANSFERASE TYPE-2 SUBUNIT BETA; COMPND 12 CHAIN: B; COMPND 13 SYNONYM: GERANYLGERANYL TRANSFERASE TYPE II SUBUNIT BETA, GGTASE-II- COMPND 14 BETA, RAB GERANYL-GERANYLTRANSFERASE SUBUNIT BETA, RAB GG TRANSFERASE COMPND 15 BETA, RAB GGTASE BETA, RAB GERANYLGERANYLTRANSFERASE SUBUNIT BETA, COMPND 16 TYPE II PROTEIN GERANYL-GERANYLTRANSFERASE SUBUNIT BETA; COMPND 17 EC: 2.5.1.60; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: RABGGTA, GGTA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 CODON-PLUS RIL (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGATEV; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 13 ORGANISM_COMMON: RAT; SOURCE 14 ORGANISM_TAXID: 10116; SOURCE 15 GENE: RABGGTB, GGTB; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21 CODON-PLUS RIL (DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET27B KEYWDS PROTEIN PRENYLATION, INHIBITOR, TRANSFERASE-TRANSFERASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Z.GUO,E.A.STIGTER,R.S.BON,H.WALDMANN,W.BLANKENFELDT,R.S.GOODY REVDAT 3 08-NOV-23 4GTV 1 REMARK SEQADV LINK REVDAT 2 09-AUG-17 4GTV 1 SOURCE REMARK REVDAT 1 24-OCT-12 4GTV 0 JRNL AUTH E.A.STIGTER,Z.GUO,R.S.BON,Y.W.WU,A.CHOIDAS,A.WOLF, JRNL AUTH 2 S.MENNINGER,H.WALDMANN,W.BLANKENFELDT,R.S.GOODY JRNL TITL DEVELOPMENT OF SELECTIVE, POTENT RABGGTASE INHIBITORS JRNL REF J.MED.CHEM. V. 55 8330 2012 JRNL REFN ISSN 0022-2623 JRNL PMID 22963166 JRNL DOI 10.1021/JM300624S REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 48526 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2565 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3503 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.1780 REMARK 3 BIN FREE R VALUE SET COUNT : 186 REMARK 3 BIN FREE R VALUE : 0.2400 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4986 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 379 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.92000 REMARK 3 B22 (A**2) : -0.64000 REMARK 3 B33 (A**2) : -0.27000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.142 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.090 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.806 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.938 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5218 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3500 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7105 ; 1.121 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8506 ; 4.188 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 650 ; 5.341 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 237 ;34.140 ;24.135 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 871 ;14.879 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;19.991 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 784 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5807 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1057 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1281 ; 0.219 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3293 ; 0.233 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2559 ; 0.177 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2117 ; 0.106 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 333 ; 0.212 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.202 ; 0.200 REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 4 ; 0.071 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 11 ; 0.200 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 30 ; 0.270 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.186 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): 1 ; 0.059 ; 0.200 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): 3178 ; 1.024 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1280 ; 2.193 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5105 ; 1.791 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2040 ; 2.291 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1988 ; 3.581 ; 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 : 6 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 330 REMARK 3 ORIGIN FOR THE GROUP (A): 13.9223 6.7535 16.2776 REMARK 3 T TENSOR REMARK 3 T11: -0.0016 T22: 0.0054 REMARK 3 T33: -0.0005 T12: 0.0001 REMARK 3 T13: -0.0001 T23: 0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.0072 L22: 0.0055 REMARK 3 L33: 0.0318 L12: 0.0024 REMARK 3 L13: 0.0145 L23: 0.0084 REMARK 3 S TENSOR REMARK 3 S11: -0.0001 S12: 0.0004 S13: -0.0014 REMARK 3 S21: 0.0006 S22: -0.0003 S23: -0.0001 REMARK 3 S31: 0.0001 S32: 0.0008 S33: 0.0004 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 5 B 331 REMARK 3 ORIGIN FOR THE GROUP (A): 2.9167 25.7031 18.1677 REMARK 3 T TENSOR REMARK 3 T11: -0.0016 T22: 0.0057 REMARK 3 T33: -0.0005 T12: 0.0002 REMARK 3 T13: 0.0001 T23: -0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.0075 L22: 0.0131 REMARK 3 L33: 0.0066 L12: 0.0037 REMARK 3 L13: 0.0007 L23: 0.0078 REMARK 3 S TENSOR REMARK 3 S11: 0.0001 S12: -0.0009 S13: 0.0009 REMARK 3 S21: -0.0001 S22: -0.0012 S23: 0.0008 REMARK 3 S31: 0.0003 S32: -0.0009 S33: 0.0010 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 : B 401 B 401 REMARK 3 ORIGIN FOR THE GROUP (A): -0.3480 16.5994 23.8288 REMARK 3 T TENSOR REMARK 3 T11: 0.0015 T22: 0.0013 REMARK 3 T33: 0.0016 T12: 0.0003 REMARK 3 T13: 0.0003 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 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 : B 403 B 403 REMARK 3 ORIGIN FOR THE GROUP (A): 4.7857 20.3751 26.3728 REMARK 3 T TENSOR REMARK 3 T11: -0.0006 T22: 0.0000 REMARK 3 T33: -0.0006 T12: 0.0000 REMARK 3 T13: 0.0001 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 1.4707 L22: 0.3495 REMARK 3 L33: 1.6892 L12: 0.6301 REMARK 3 L13: 0.3131 L23: 0.4933 REMARK 3 S TENSOR REMARK 3 S11: -0.1023 S12: 0.0297 S13: -0.0658 REMARK 3 S21: 0.0261 S22: 0.0315 S23: -0.0251 REMARK 3 S31: -0.0119 S32: 0.1304 S33: 0.0709 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 402 B 402 REMARK 3 ORIGIN FOR THE GROUP (A): -8.5878 43.5435 29.3057 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: 0.0000 REMARK 3 T33: 0.0000 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 401 A 557 REMARK 3 RESIDUE RANGE : B 501 B 722 REMARK 3 ORIGIN FOR THE GROUP (A): 7.7253 16.9382 14.5600 REMARK 3 T TENSOR REMARK 3 T11: -0.0013 T22: 0.0057 REMARK 3 T33: -0.0007 T12: 0.0001 REMARK 3 T13: 0.0001 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0014 L22: 0.0063 REMARK 3 L33: 0.0042 L12: 0.0013 REMARK 3 L13: 0.0014 L23: 0.0051 REMARK 3 S TENSOR REMARK 3 S11: 0.0006 S12: -0.0001 S13: 0.0007 REMARK 3 S21: -0.0001 S22: -0.0009 S23: -0.0001 REMARK 3 S31: 0.0006 S32: -0.0009 S33: 0.0003 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4GTV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-SEP-12. REMARK 100 THE DEPOSITION ID IS D_1000074625. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9879 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM, XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51134 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 19.990 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.36100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: 3DSS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: RABGGTASE IN 20MM HEPES PH7.2, 100MM REMARK 280 NACL AND 2MM DTT WAS MIXED WITH 15% PEG3350, 0.2M CA ACETATE, REMARK 280 0.1M HEPES PH7.2. THE OBTAINED CRYSTALS WAS SOAKED WITH 20% REMARK 280 PEG3350, 0.2M CA ACETATE, 5% GLYCEROL IN THE PRESENCE OF 1MM REMARK 280 INHIBITOR FOR 12 HOUR, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 285K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 33.31250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 57.76950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.37050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 57.76950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.31250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.37050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 4340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 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 MET A 1 REMARK 465 HIS A 2 REMARK 465 GLY A 3 REMARK 465 ARG A 4 REMARK 465 LEU A 5 REMARK 465 LYS A 6 REMARK 465 VAL A 7 REMARK 465 LYS A 8 REMARK 465 THR A 9 REMARK 465 SER A 10 REMARK 465 GLU A 11 REMARK 465 GLU A 12 REMARK 465 GLN A 13 REMARK 465 ALA A 14 REMARK 465 GLU A 15 REMARK 465 ASP A 196 REMARK 465 SER A 197 REMARK 465 GLY A 198 REMARK 465 PRO A 199 REMARK 465 GLN A 200 REMARK 465 GLY A 201 REMARK 465 GLY A 239 REMARK 465 SER A 240 REMARK 465 GLY B 2 REMARK 465 THR B 3 REMARK 465 GLN B 4 REMARK 465 LYS B 33 REMARK 465 LYS B 34 REMARK 465 ASP B 35 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 17 CG CD CE NZ REMARK 470 ARG A 18 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 19 CG CD1 CD2 REMARK 470 GLU A 20 CG CD OE1 OE2 REMARK 470 GLU A 22 CG CD OE1 OE2 REMARK 470 GLN A 23 CG CD OE1 NE2 REMARK 470 GLN A 37 CG CD OE1 NE2 REMARK 470 GLU A 122 CG CD OE1 OE2 REMARK 470 PHE A 175 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 202 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 242 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 262 CG CD OE1 OE2 REMARK 470 GLU B 38 CG CD OE1 OE2 REMARK 470 GLU B 274 CG CD OE1 OE2 REMARK 470 GLU B 304 CG CD OE1 OE2 REMARK 470 GLN B 321 CG CD OE1 NE2 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 B 542 O HOH B 701 2.11 REMARK 500 O HOH A 487 O HOH B 694 2.11 REMARK 500 O HOH B 501 O HOH B 660 2.12 REMARK 500 O HOH A 517 O HOH B 576 2.17 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 ARG A 315 NE - CZ - NH2 ANGL. DEV. = -3.3 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 PHE A 175 -148.29 -84.26 REMARK 500 ASP A 285 92.02 -170.29 REMARK 500 LEU B 19 62.13 -103.42 REMARK 500 VAL B 330 45.54 -80.74 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 CA B 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 64 O REMARK 620 2 MET B 66 O 88.1 REMARK 620 3 HOH B 501 O 95.2 79.3 REMARK 620 4 HOH B 551 O 92.8 80.7 158.1 REMARK 620 5 HOH B 660 O 76.4 124.4 50.4 151.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 238 OD2 REMARK 620 2 ASP B 238 OD1 55.1 REMARK 620 3 CYS B 240 SG 100.8 93.6 REMARK 620 4 HIS B 290 NE2 123.3 86.6 124.1 REMARK 620 5 7TR B 403 NBC 97.7 148.2 108.8 98.3 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 7TR B 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4GTM RELATED DB: PDB REMARK 900 RELATED ID: 4GTO RELATED DB: PDB REMARK 900 RELATED ID: 4GTP RELATED DB: PDB REMARK 900 RELATED ID: 4GTQ RELATED DB: PDB REMARK 900 RELATED ID: 4GTR RELATED DB: PDB REMARK 900 RELATED ID: 4GTS RELATED DB: PDB REMARK 900 RELATED ID: 4GTT RELATED DB: PDB DBREF 4GTV A 1 237 UNP Q08602 PGTA_RAT 1 237 DBREF 4GTV A 242 330 UNP Q08602 PGTA_RAT 353 441 DBREF 4GTV B 2 331 UNP Q08603 PGTB2_RAT 2 331 SEQADV 4GTV ALA A 238 UNP Q08602 LINKER SEQADV 4GTV GLY A 239 UNP Q08602 LINKER SEQADV 4GTV SER A 240 UNP Q08602 LINKER SEQADV 4GTV GLY A 241 UNP Q08602 LINKER SEQRES 1 A 330 MET HIS GLY ARG LEU LYS VAL LYS THR SER GLU GLU GLN SEQRES 2 A 330 ALA GLU ALA LYS ARG LEU GLU ARG GLU GLN LYS LEU LYS SEQRES 3 A 330 LEU TYR GLN SER ALA THR GLN ALA VAL PHE GLN LYS ARG SEQRES 4 A 330 GLN ALA GLY GLU LEU ASP GLU SER VAL LEU GLU LEU THR SEQRES 5 A 330 SER GLN ILE LEU GLY ALA ASN PRO ASP PHE ALA THR LEU SEQRES 6 A 330 TRP ASN CYS ARG ARG GLU VAL LEU GLN HIS LEU GLU THR SEQRES 7 A 330 GLU LYS SER PRO GLU GLU SER ALA ALA LEU VAL LYS ALA SEQRES 8 A 330 GLU LEU GLY PHE LEU GLU SER CYS LEU ARG VAL ASN PRO SEQRES 9 A 330 LYS SER TYR GLY THR TRP HIS HIS ARG CYS TRP LEU LEU SEQRES 10 A 330 SER ARG LEU PRO GLU PRO ASN TRP ALA ARG GLU LEU GLU SEQRES 11 A 330 LEU CYS ALA ARG PHE LEU GLU ALA ASP GLU ARG ASN PHE SEQRES 12 A 330 HIS CYS TRP ASP TYR ARG ARG PHE VAL ALA ALA GLN ALA SEQRES 13 A 330 ALA VAL ALA PRO ALA GLU GLU LEU ALA PHE THR ASP SER SEQRES 14 A 330 LEU ILE THR ARG ASN PHE SER ASN TYR SER SER TRP HIS SEQRES 15 A 330 TYR ARG SER CYS LEU LEU PRO GLN LEU HIS PRO GLN PRO SEQRES 16 A 330 ASP SER GLY PRO GLN GLY ARG LEU PRO GLU ASN VAL LEU SEQRES 17 A 330 LEU LYS GLU LEU GLU LEU VAL GLN ASN ALA PHE PHE THR SEQRES 18 A 330 ASP PRO ASN ASP GLN SER ALA TRP PHE TYR HIS ARG TRP SEQRES 19 A 330 LEU LEU GLY ALA GLY SER GLY ARG CYS GLU LEU SER VAL SEQRES 20 A 330 GLU LYS SER THR VAL LEU GLN SER GLU LEU GLU SER CYS SEQRES 21 A 330 LYS GLU LEU GLN GLU LEU GLU PRO GLU ASN LYS TRP CYS SEQRES 22 A 330 LEU LEU THR ILE ILE LEU LEU MET ARG ALA LEU ASP PRO SEQRES 23 A 330 LEU LEU TYR GLU LYS GLU THR LEU GLN TYR PHE SER THR SEQRES 24 A 330 LEU LYS ALA VAL ASP PRO MET ARG ALA ALA TYR LEU ASP SEQRES 25 A 330 ASP LEU ARG SER LYS PHE LEU LEU GLU ASN SER VAL LEU SEQRES 26 A 330 LYS MET GLU TYR ALA SEQRES 1 B 330 GLY THR GLN GLN LYS ASP VAL THR ILE LYS SER ASP ALA SEQRES 2 B 330 PRO ASP THR LEU LEU LEU GLU LYS HIS ALA ASP TYR ILE SEQRES 3 B 330 ALA SER TYR GLY SER LYS LYS ASP ASP TYR GLU TYR CYS SEQRES 4 B 330 MET SER GLU TYR LEU ARG MET SER GLY VAL TYR TRP GLY SEQRES 5 B 330 LEU THR VAL MET ASP LEU MET GLY GLN LEU HIS ARG MET SEQRES 6 B 330 ASN LYS GLU GLU ILE LEU VAL PHE ILE LYS SER CYS GLN SEQRES 7 B 330 HIS GLU CYS GLY GLY VAL SER ALA SER ILE GLY HIS ASP SEQRES 8 B 330 PRO HIS LEU LEU TYR THR LEU SER ALA VAL GLN ILE LEU SEQRES 9 B 330 THR LEU TYR ASP SER ILE HIS VAL ILE ASN VAL ASP LYS SEQRES 10 B 330 VAL VAL ALA TYR VAL GLN SER LEU GLN LYS GLU ASP GLY SEQRES 11 B 330 SER PHE ALA GLY ASP ILE TRP GLY GLU ILE ASP THR ARG SEQRES 12 B 330 PHE SER PHE CYS ALA VAL ALA THR LEU ALA LEU LEU GLY SEQRES 13 B 330 LYS LEU ASP ALA ILE ASN VAL GLU LYS ALA ILE GLU PHE SEQRES 14 B 330 VAL LEU SER CYS MET ASN PHE ASP GLY GLY PHE GLY CYS SEQRES 15 B 330 ARG PRO GLY SER GLU SER HIS ALA GLY GLN ILE TYR CYS SEQRES 16 B 330 CYS THR GLY PHE LEU ALA ILE THR SER GLN LEU HIS GLN SEQRES 17 B 330 VAL ASN SER ASP LEU LEU GLY TRP TRP LEU CYS GLU ARG SEQRES 18 B 330 GLN LEU PRO SER GLY GLY LEU ASN GLY ARG PRO GLU LYS SEQRES 19 B 330 LEU PRO ASP VAL CYS TYR SER TRP TRP VAL LEU ALA SER SEQRES 20 B 330 LEU LYS ILE ILE GLY ARG LEU HIS TRP ILE ASP ARG GLU SEQRES 21 B 330 LYS LEU ARG SER PHE ILE LEU ALA CYS GLN ASP GLU GLU SEQRES 22 B 330 THR GLY GLY PHE ALA ASP ARG PRO GLY ASP MET VAL ASP SEQRES 23 B 330 PRO PHE HIS THR LEU PHE GLY ILE ALA GLY LEU SER LEU SEQRES 24 B 330 LEU GLY GLU GLU GLN ILE LYS PRO VAL SER PRO VAL PHE SEQRES 25 B 330 CYS MET PRO GLU GLU VAL LEU GLN ARG VAL ASN VAL GLN SEQRES 26 B 330 PRO GLU LEU VAL SER HET ZN B 401 1 HET CA B 402 1 HET 7TR B 403 46 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM 7TR 4-({(3R)-7-CYANO-4-[(4-METHOXYPHENYL)SULFONYL]-1-[(1- HETNAM 2 7TR METHYL-1H-IMIDAZOL-5-YL)METHYL]-2,3,4,5-TETRAHYDRO-1H- HETNAM 3 7TR 1,4-BENZODIAZEPIN-3-YL}METHYL)PHENYL DIETHYLCARBAMATE FORMUL 3 ZN ZN 2+ FORMUL 4 CA CA 2+ FORMUL 5 7TR C34 H38 N6 O5 S FORMUL 6 HOH *379(H2 O) HELIX 1 1 ALA A 16 ALA A 41 1 26 HELIX 2 2 ASP A 45 GLY A 57 1 13 HELIX 3 3 PHE A 62 GLU A 79 1 18 HELIX 4 4 SER A 81 ASN A 103 1 23 HELIX 5 5 SER A 106 LEU A 120 1 15 HELIX 6 6 ASN A 124 ASP A 139 1 16 HELIX 7 7 ASN A 142 ALA A 156 1 15 HELIX 8 8 ALA A 159 ASN A 174 1 16 HELIX 9 9 ASN A 177 HIS A 192 1 16 HELIX 10 10 PRO A 204 ASP A 222 1 19 HELIX 11 11 ASP A 225 ALA A 238 1 14 HELIX 12 12 SER A 246 GLU A 267 1 22 HELIX 13 13 ASN A 270 ASP A 285 1 16 HELIX 14 14 TYR A 289 ASP A 304 1 16 HELIX 15 15 ARG A 307 GLU A 328 1 22 HELIX 16 16 LEU B 19 TYR B 30 1 12 HELIX 17 17 TYR B 37 MET B 41 1 5 HELIX 18 18 SER B 42 TYR B 44 5 3 HELIX 19 19 LEU B 45 MET B 60 1 16 HELIX 20 20 GLN B 62 MET B 66 5 5 HELIX 21 21 ASN B 67 GLN B 79 1 13 HELIX 22 22 HIS B 94 TYR B 108 1 15 HELIX 23 23 SER B 110 ILE B 114 5 5 HELIX 24 24 ASN B 115 LEU B 126 1 12 HELIX 25 25 ASP B 142 GLY B 157 1 16 HELIX 26 26 LYS B 158 ILE B 162 5 5 HELIX 27 27 ASN B 163 SER B 173 1 11 HELIX 28 28 HIS B 190 THR B 204 1 15 HELIX 29 29 GLN B 206 VAL B 210 5 5 HELIX 30 30 ASN B 211 GLU B 221 1 11 HELIX 31 31 ASP B 238 ILE B 252 1 15 HELIX 32 32 ARG B 254 ILE B 258 5 5 HELIX 33 33 ASP B 259 CYS B 270 1 12 HELIX 34 34 ASP B 287 LEU B 301 1 15 HELIX 35 35 PRO B 316 VAL B 323 1 8 LINK O HIS B 64 CA CA B 402 1555 1555 2.30 LINK O MET B 66 CA CA B 402 1555 1555 2.35 LINK OD2 ASP B 238 ZN ZN B 401 1555 1555 2.05 LINK OD1 ASP B 238 ZN ZN B 401 1555 1555 2.55 LINK SG CYS B 240 ZN ZN B 401 1555 1555 2.25 LINK NE2 HIS B 290 ZN ZN B 401 1555 1555 2.10 LINK ZN ZN B 401 NBC 7TR B 403 1555 1555 2.05 LINK CA CA B 402 O HOH B 501 1555 1555 2.47 LINK CA CA B 402 O HOH B 551 1555 1555 2.39 LINK CA CA B 402 O HOH B 660 1555 1555 2.50 SITE 1 AC1 4 ASP B 238 CYS B 240 HIS B 290 7TR B 403 SITE 1 AC2 6 ALA A 138 HIS B 64 MET B 66 HOH B 501 SITE 2 AC2 6 HOH B 551 HOH B 660 SITE 1 AC3 12 ASP A 61 TYR B 44 LEU B 45 LEU B 96 SITE 2 AC3 12 ARG B 144 CYS B 196 ASP B 238 CYS B 240 SITE 3 AC3 12 TRP B 244 PHE B 289 HIS B 290 ZN B 401 CRYST1 66.625 90.741 115.539 90.00 90.00 90.00 P 21 21 21 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 0.015009 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011020 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008655 0.00000