HEADER TRANSFERASE 04-APR-19 5QQ4 TITLE PANDDA ANALYSIS GROUP DEPOSITION -- CRYSTAL STRUCTURE OF T. CRUZI FPPS TITLE 2 IN COMPLEX WITH FMOPL000276A COMPND MOL_ID: 1; COMPND 2 MOLECULE: FARNESYL DIPHOSPHATE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA CRUZI; SOURCE 3 ORGANISM_TAXID: 5693; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SGC - DIAMOND I04-1 FRAGMENT SCREENING, PANDDA, XCHEMEXPLORER, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.K.PETRICK,E.R.NELSON,L.MUENZKER,T.KROJER,A.DOUANGAMATH,J.BRANDAO- AUTHOR 2 NETO,F.VON DELFT,C.DEKKER,W.JAHNKE REVDAT 2 06-MAR-24 5QQ4 1 LINK REVDAT 1 29-APR-20 5QQ4 0 JRNL AUTH J.K.PETRICK,L.MUENZKER,F.VON DELFT,W.JAHNKE JRNL TITL PANDDA ANALYSIS GROUP DEPOSITION - FPPS SCREENED AGAINST THE JRNL TITL 2 DSI FRAGMENT LIBRARY JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.58 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 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) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 66.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 52019 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 2841 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) : 1.58 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.62 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3762 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.91 REMARK 3 BIN R VALUE (WORKING SET) : 0.3440 REMARK 3 BIN FREE R VALUE SET COUNT : 213 REMARK 3 BIN FREE R VALUE : 0.3560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2871 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 320 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.22000 REMARK 3 B22 (A**2) : 0.22000 REMARK 3 B33 (A**2) : -0.72000 REMARK 3 B12 (A**2) : 0.11000 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): 0.104 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.106 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.082 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.430 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3699 ; 0.760 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3046 ; 0.034 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4631 ; 2.606 ; 1.988 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7084 ; 2.045 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 422 ; 5.496 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 156 ;37.117 ;24.487 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 590 ;15.381 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;20.432 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 487 ; 0.158 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4132 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 731 ; 0.002 ; 0.020 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): 1745 ; 1.969 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1741 ; 1.959 ; 1.992 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2058 ; 2.766 ; 2.936 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5QQ4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-APR-19. REMARK 100 THE DEPOSITION ID IS D_1001402265. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-OCT-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.91587 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55931 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 396.070 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 17.50 REMARK 200 R MERGE (I) : 0.14500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.62 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.10 REMARK 200 R MERGE FOR SHELL (I) : 2.43900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 1YHK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 80 MM MES, 4 MM ZNSO4, 12.36% W/V PEG REMARK 280 MME 550, 11.57% V/V GLYCEROL, PH 6.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 132.02633 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 264.05267 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 198.03950 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 330.06583 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 66.01317 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 132.02633 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 264.05267 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 330.06583 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 198.03950 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 66.01317 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: 7700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -207.0 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 0.500000 -0.866025 0.000000 -28.91050 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 -50.07445 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -66.01317 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 GLY A -1 REMARK 465 PRO A 0 REMARK 465 LYS A 361 REMARK 465 LYS A 362 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 547 O HOH A 752 1.29 REMARK 500 CG GLN A 338 O HOH A 622 1.50 REMARK 500 O HOH A 730 O HOH A 770 1.75 REMARK 500 O HOH A 502 O HOH A 734 1.80 REMARK 500 O HOH A 706 O HOH A 768 1.90 REMARK 500 O HOH A 739 O HOH A 816 1.94 REMARK 500 O HOH A 730 O HOH A 741 1.96 REMARK 500 NH2 ARG A 108 O HOH A 501 1.97 REMARK 500 OG SER A 3 OE2 GLU A 60 2.00 REMARK 500 O HOH A 692 O HOH A 759 2.11 REMARK 500 O HOH A 518 O HOH A 737 2.14 REMARK 500 OE2 GLU A 231 O HOH A 502 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 679 O HOH A 719 8445 2.17 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 MET A 101 C MET A 101 O 0.213 REMARK 500 TRP A 140 CB TRP A 140 CG -0.355 REMARK 500 TRP A 140 CG TRP A 140 CD2 -0.107 REMARK 500 TYR A 161 CE1 TYR A 161 CZ -0.089 REMARK 500 LEU A 234 CG LEU A 234 CD1 0.323 REMARK 500 LEU A 335 N LEU A 335 CA 0.151 REMARK 500 GLN A 338 CB GLN A 338 CG -0.324 REMARK 500 GLN A 338 CG GLN A 338 CD 0.633 REMARK 500 GLN A 338 CD GLN A 338 OE1 0.220 REMARK 500 GLN A 338 CD GLN A 338 NE2 0.231 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 34 NE - CZ - NH1 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 75 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 75 NE - CZ - NH2 ANGL. DEV. = 3.9 DEGREES REMARK 500 ASP A 102 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 MET A 106 CG - SD - CE ANGL. DEV. = -12.4 DEGREES REMARK 500 ARG A 115 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 115 NE - CZ - NH2 ANGL. DEV. = 5.8 DEGREES REMARK 500 MET A 138 CG - SD - CE ANGL. DEV. = -11.3 DEGREES REMARK 500 TRP A 140 CB - CA - C ANGL. DEV. = 12.3 DEGREES REMARK 500 TRP A 140 CA - CB - CG ANGL. DEV. = 15.1 DEGREES REMARK 500 ASP A 145 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 GLN A 157 N - CA - CB ANGL. DEV. = -11.1 DEGREES REMARK 500 GLN A 338 CB - CA - C ANGL. DEV. = -19.7 DEGREES REMARK 500 GLN A 338 OE1 - CD - NE2 ANGL. DEV. = -19.8 DEGREES REMARK 500 GLN A 338 CG - CD - NE2 ANGL. DEV. = 15.3 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 VAL A 119 -71.72 -105.76 REMARK 500 THR A 120 160.48 68.82 REMARK 500 ASP A 181 112.87 -173.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 820 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH A 821 DISTANCE = 6.32 ANGSTROMS 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 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 98 OD1 REMARK 620 2 ASP A 98 OD2 55.6 REMARK 620 3 ASP A 102 OD2 92.3 83.4 REMARK 620 4 HOH A 599 O 129.9 74.9 88.8 REMARK 620 5 HOH A 636 O 94.0 98.9 173.5 86.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 404 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 250 OD1 REMARK 620 2 HOH A 508 O 82.5 REMARK 620 3 HOH A 549 O 84.2 100.2 REMARK 620 4 HOH A 653 O 170.6 95.2 87.3 REMARK 620 5 HOH A 723 O 96.4 173.3 73.1 84.8 REMARK 620 6 HOH A 728 O 105.4 96.6 161.7 83.8 90.1 REMARK 620 N 1 2 3 4 5 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LX7 A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LX7 A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LX7 A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 408 DBREF 5QQ4 A 1 362 UNP Q8WS26 Q8WS26_TRYCR 64 425 SEQADV 5QQ4 GLY A -1 UNP Q8WS26 EXPRESSION TAG SEQADV 5QQ4 PRO A 0 UNP Q8WS26 EXPRESSION TAG SEQRES 1 A 364 GLY PRO MET ALA SER MET GLU ARG PHE LEU SER VAL TYR SEQRES 2 A 364 ASP GLU VAL GLN ALA PHE LEU LEU ASP GLN LEU GLN SER SEQRES 3 A 364 LYS TYR GLU ILE ASP PRO ASN ARG ALA ARG TYR LEU ARG SEQRES 4 A 364 ILE MET MET ASP THR THR CYS LEU GLY GLY LYS TYR PHE SEQRES 5 A 364 ARG GLY MET THR VAL VAL ASN VAL ALA GLU GLY PHE LEU SEQRES 6 A 364 ALA VAL THR GLN HIS ASP GLU ALA THR LYS GLU ARG ILE SEQRES 7 A 364 LEU HIS ASP ALA CYS VAL GLY GLY TRP MET ILE GLU PHE SEQRES 8 A 364 LEU GLN ALA HIS TYR LEU VAL GLU ASP ASP ILE MET ASP SEQRES 9 A 364 GLY SER VAL MET ARG ARG GLY LYS PRO CYS TRP TYR ARG SEQRES 10 A 364 PHE PRO GLY VAL THR THR GLN CYS ALA ILE ASN ASP GLY SEQRES 11 A 364 ILE ILE LEU LYS SER TRP THR GLN ILE MET ALA TRP HIS SEQRES 12 A 364 TYR PHE ALA ASP ARG PRO PHE LEU LYS ASP LEU LEU CYS SEQRES 13 A 364 LEU PHE GLN LYS VAL ASP TYR ALA THR ALA VAL GLY GLN SEQRES 14 A 364 MET TYR ASP VAL THR SER MET CYS ASP SER ASN LYS LEU SEQRES 15 A 364 ASP PRO GLU VAL ALA GLN PRO MET THR THR ASP PHE ALA SEQRES 16 A 364 GLU PHE THR PRO ALA ILE TYR LYS ARG ILE VAL LYS TYR SEQRES 17 A 364 LYS THR THR PHE TYR THR TYR LEU LEU PRO LEU VAL MET SEQRES 18 A 364 GLY LEU LEU VAL SER GLU ALA ALA ALA SER VAL GLU MET SEQRES 19 A 364 ASN LEU VAL GLU ARG VAL ALA HIS LEU ILE GLY GLU TYR SEQRES 20 A 364 PHE GLN VAL GLN ASP ASP VAL MET ASP CYS PHE THR PRO SEQRES 21 A 364 PRO GLU GLN LEU GLY LYS VAL GLY THR ASP ILE GLU ASP SEQRES 22 A 364 ALA LYS CYS SER TRP LEU ALA VAL THR PHE LEU GLY LYS SEQRES 23 A 364 ALA ASN ALA ALA GLN VAL ALA GLU PHE LYS ALA ASN TYR SEQRES 24 A 364 GLY GLU LYS ASP PRO ALA LYS VAL ALA VAL VAL LYS ARG SEQRES 25 A 364 LEU TYR SER LYS ALA ASN LEU GLN ALA ASP PHE ALA ALA SEQRES 26 A 364 TYR GLU ALA GLU VAL VAL ARG GLU VAL GLU SER LEU ILE SEQRES 27 A 364 GLU GLN LEU LYS VAL LYS SER PRO THR PHE ALA GLU SER SEQRES 28 A 364 VAL ALA VAL VAL TRP GLU LYS THR HIS LYS ARG LYS LYS HET SO4 A 401 5 HET ACT A 402 4 HET ZN A 403 1 HET ZN A 404 1 HET LX7 A 405 15 HET LX7 A 406 15 HET LX7 A 407 15 HET ACT A 408 4 HETNAM SO4 SULFATE ION HETNAM ACT ACETATE ION HETNAM ZN ZINC ION HETNAM LX7 1-[4-(TRIFLUOROMETHYLOXY)PHENYL]THIOUREA FORMUL 2 SO4 O4 S 2- FORMUL 3 ACT 2(C2 H3 O2 1-) FORMUL 4 ZN 2(ZN 2+) FORMUL 6 LX7 3(C8 H7 F3 N2 O S) FORMUL 10 HOH *320(H2 O) HELIX 1 AA1 ALA A 2 TYR A 26 1 25 HELIX 2 AA2 ASP A 29 LEU A 45 1 17 HELIX 3 AA3 TYR A 49 ALA A 64 1 16 HELIX 4 AA4 ASP A 69 GLY A 103 1 35 HELIX 5 AA5 TRP A 113 PHE A 116 5 4 HELIX 6 AA6 VAL A 119 PHE A 143 1 25 HELIX 7 AA7 PHE A 148 THR A 172 1 25 HELIX 8 AA8 ASP A 176 LEU A 180 5 5 HELIX 9 AA9 THR A 196 THR A 208 1 13 HELIX 10 AB1 THR A 208 TYR A 213 1 6 HELIX 11 AB2 TYR A 213 SER A 224 1 12 HELIX 12 AB3 ALA A 226 VAL A 230 5 5 HELIX 13 AB4 GLU A 231 THR A 257 1 27 HELIX 14 AB5 PRO A 258 GLY A 263 1 6 HELIX 15 AB6 SER A 275 GLY A 283 1 9 HELIX 16 AB7 ASN A 286 TYR A 297 1 12 HELIX 17 AB8 ASP A 301 ALA A 315 1 15 HELIX 18 AB9 ASN A 316 VAL A 341 1 26 HELIX 19 AC1 SER A 343 ARG A 360 1 18 SHEET 1 AA1 2 MET A 106 ARG A 107 0 SHEET 2 AA1 2 LYS A 110 PRO A 111 -1 O LYS A 110 N ARG A 107 LINK OD1 ASP A 98 ZN ZN A 403 1555 1555 2.09 LINK OD2 ASP A 98 ZN ZN A 403 1555 1555 2.57 LINK OD2 ASP A 102 ZN ZN A 403 1555 1555 2.00 LINK OD1 ASP A 250 ZN ZN A 404 1555 1555 2.06 LINK ZN ZN A 403 O HOH A 599 1555 1555 1.91 LINK ZN ZN A 403 O HOH A 636 1555 1555 2.11 LINK ZN ZN A 404 O HOH A 508 1555 1555 1.98 LINK ZN ZN A 404 O HOH A 549 1555 1555 1.90 LINK ZN ZN A 404 O HOH A 653 1555 1555 2.17 LINK ZN ZN A 404 O HOH A 723 1555 1555 2.35 LINK ZN ZN A 404 O HOH A 728 1555 1555 1.94 SITE 1 AC1 11 GLY A 47 LYS A 48 TYR A 49 PHE A 50 SITE 2 AC1 11 ARG A 51 GLN A 91 HOH A 507 HOH A 532 SITE 3 AC1 11 HOH A 572 HOH A 595 HOH A 694 SITE 1 AC2 5 ASP A 191 ARG A 237 SER A 334 LEU A 335 SITE 2 AC2 5 HOH A 564 SITE 1 AC3 4 ASP A 98 ASP A 102 HOH A 599 HOH A 636 SITE 1 AC4 6 ASP A 250 HOH A 508 HOH A 549 HOH A 653 SITE 2 AC4 6 HOH A 723 HOH A 728 SITE 1 AC5 8 TYR A 200 LYS A 201 GLU A 244 VAL A 248 SITE 2 AC5 8 TRP A 276 THR A 280 ASP A 320 TYR A 324 SITE 1 AC6 11 LYS A 25 GLU A 27 LEU A 155 LYS A 158 SITE 2 AC6 11 VAL A 159 LYS A 205 TYR A 206 PHE A 210 SITE 3 AC6 11 LEU A 214 ACT A 408 HOH A 558 SITE 1 AC7 5 PRO A 111 ARG A 115 PHE A 116 PRO A 117 SITE 2 AC7 5 GLU A 183 SITE 1 AC8 3 MET A 232 GLU A 236 LX7 A 406 CRYST1 57.821 57.821 396.079 90.00 90.00 120.00 P 61 2 2 12 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 0.017295 0.009985 0.000000 0.00000 SCALE2 0.000000 0.019970 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002525 0.00000