HEADER HYDROLASE 13-NOV-04 1WCF TITLE 1.54 A CRYSTAL STRUCTURE OF RV3628, MYCOBACTERIUM TUBERCULOSIS TITLE 2 INORGANIC PYROPHOSPHATASE (PPASE) AT PH7.0 COMPND MOL_ID: 1; COMPND 2 MOLECULE: INORGANIC PYROPHOSPHATASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PYROPHOSPHATE PHOSPHO-HYDROLASE, PPASE; COMPND 5 EC: 3.6.1.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: MODIFIED PET28A KEYWDS STRUCTURAL GENOMICS, POTASSIUM, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.BENINI,K.S.WILSON REVDAT 4 13-DEC-23 1WCF 1 REMARK LINK ATOM REVDAT 3 17-AUG-11 1WCF 1 KEYWDS JRNL REMARK DBREF REVDAT 3 2 1 SEQADV FORMUL ATOM ANISOU REVDAT 3 3 1 VERSN REVDAT 2 24-FEB-09 1WCF 1 VERSN REVDAT 1 12-JUL-06 1WCF 0 JRNL AUTH S.BENINI,K.S.WILSON JRNL TITL STRUCTURE OF THE MYCOBACTERIUM TUBERCULOSIS SOLUBLE JRNL TITL 2 INORGANIC PYROPHOSPHATASE RV3628 AT PH 7.0. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 67 866 2011 JRNL REFN ESSN 1744-3091 JRNL PMID 21821883 JRNL DOI 10.1107/S1744309111023323 REMARK 2 REMARK 2 RESOLUTION. 1.54 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.54 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 84.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 40559 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) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.170 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2153 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) : 1.54 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.58 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2827 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2050 REMARK 3 BIN FREE R VALUE SET COUNT : 165 REMARK 3 BIN FREE R VALUE : 0.2310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1280 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 279 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.32000 REMARK 3 B22 (A**2) : 1.32000 REMARK 3 B33 (A**2) : -1.99000 REMARK 3 B12 (A**2) : 0.66000 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): 0.060 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.053 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.038 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.284 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.967 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1352 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1215 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1840 ; 1.647 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2828 ; 0.917 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 161 ; 5.855 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 71 ;25.945 ;24.085 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 219 ;11.272 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;10.348 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 197 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1506 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 278 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 224 ; 0.260 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1232 ; 0.206 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 660 ; 0.193 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 773 ; 0.084 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 176 ; 0.167 ; 0.200 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): 7 ; 0.087 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 52 ; 0.353 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.147 ; 0.200 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): 814 ; 1.687 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1327 ; 2.946 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 544 ;10.726 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 513 ; 8.821 ; 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 : NULL 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 1WCF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-NOV-04. REMARK 100 THE DEPOSITION ID IS D_1290021616. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-APR-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9340 REMARK 200 MONOCHROMATOR : DIAMOND (111), GE(220) REMARK 200 OPTICS : SAGITALLY FOCUSING GE(220) AND A REMARK 200 MULTILAYER REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 537840 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.540 REMARK 200 RESOLUTION RANGE LOW (A) : 84.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.60 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.2400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.54 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.58 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.50 REMARK 200 R MERGE FOR SHELL (I) : 0.60000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1SXV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8M NAKPO4 PH 7.0, PH 7.00 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 51.65600 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 51.65600 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 51.65600 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 51.65600 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 51.65600 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 51.65600 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -82.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 51.65600 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -48.45100 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 83.91959 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -0.500000 -0.866025 0.000000 48.45100 REMARK 350 BIOMT2 4 0.866025 -0.500000 0.000000 83.91959 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 0.500000 0.866025 0.000000 -48.45100 REMARK 350 BIOMT2 5 0.866025 -0.500000 0.000000 83.91959 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 51.65600 REMARK 350 BIOMT1 6 0.500000 -0.866025 0.000000 48.45100 REMARK 350 BIOMT2 6 -0.866025 -0.500000 0.000000 83.91959 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 51.65600 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2066 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2067 LIES ON A SPECIAL POSITION. 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 -8 REMARK 465 SER A -7 REMARK 465 SER A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 162 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 HIS A 0 ND1 CD2 CE1 NE2 REMARK 470 GLU A 22 CG CD OE1 OE2 REMARK 470 LYS A 120 NZ REMARK 470 LYS A 136 CE NZ REMARK 470 ASP A 139 CG OD1 OD2 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 2160 O HOH A 2160 11555 0.36 REMARK 500 O HOH A 2039 O HOH A 2039 12565 1.04 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 VAL A 83 CB VAL A 83 CG2 -0.155 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 VAL A 83 CG1 - CB - CG2 ANGL. DEV. = -82.7 DEGREES REMARK 500 VAL A 83 CG1 - CB - CG2 ANGL. DEV. = -38.2 DEGREES REMARK 500 VAL A 83 CA - CB - CG2 ANGL. DEV. = 9.9 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 66 -157.55 -99.75 REMARK 500 ASP A 84 -161.61 -118.65 REMARK 500 ASP A 89 62.67 -156.83 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 A2007 DISTANCE = 7.48 ANGSTROMS REMARK 525 HOH A2036 DISTANCE = 5.96 ANGSTROMS REMARK 525 HOH A2043 DISTANCE = 6.72 ANGSTROMS REMARK 525 HOH A2044 DISTANCE = 6.61 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 K A1163 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PRO A 55 O REMARK 620 2 ASP A 57 OD1 70.3 REMARK 620 3 ASP A 57 OD2 103.8 36.2 REMARK 620 4 ASP A 89 OD1 160.6 95.3 59.7 REMARK 620 5 HOH A2140 O 55.1 124.9 151.2 135.1 REMARK 620 6 HOH A2144 O 117.5 162.0 128.5 72.8 63.1 REMARK 620 7 HOH A2147 O 106.1 117.6 120.5 92.0 86.5 77.1 REMARK 620 8 HOH A2152 O 44.3 49.2 83.5 134.2 90.4 147.9 83.9 REMARK 620 9 HOH A2153 O 118.8 59.2 47.7 59.4 156.1 121.3 72.8 75.9 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A1162 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 127 O REMARK 620 2 ASP A 128 O 70.0 REMARK 620 3 GLU A 130 O 80.3 107.0 REMARK 620 4 LYS A 133 O 86.5 150.2 85.9 REMARK 620 5 HOH A2229 O 108.6 60.3 70.1 148.3 REMARK 620 6 HOH A2236 O 96.2 84.3 165.9 80.3 123.7 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 1162 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 1163 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1164 REMARK 999 REMARK 999 SEQUENCE REMARK 999 SWS O06379 IPYR_MYCTU THE FIRST RESIDUE IN THE REMARK 999 STRUCTURE IS COMING FROM THE N-TERM HIS-TAG. NO ELECTRON REMARK 999 DENSITY VISIBLE FOR THE LAST RESIDUE (C-TERM HIS) DBREF 1WCF A 1 162 UNP P65746 IPYR_MYCTU 1 162 SEQADV 1WCF MET A -8 UNP P65746 EXPRESSION TAG SEQADV 1WCF SER A -7 UNP P65746 EXPRESSION TAG SEQADV 1WCF SER A -6 UNP P65746 EXPRESSION TAG SEQADV 1WCF HIS A -5 UNP P65746 EXPRESSION TAG SEQADV 1WCF HIS A -4 UNP P65746 EXPRESSION TAG SEQADV 1WCF HIS A -3 UNP P65746 EXPRESSION TAG SEQADV 1WCF HIS A -2 UNP P65746 EXPRESSION TAG SEQADV 1WCF HIS A -1 UNP P65746 EXPRESSION TAG SEQADV 1WCF HIS A 0 UNP P65746 EXPRESSION TAG SEQRES 1 A 171 MET SER SER HIS HIS HIS HIS HIS HIS MET GLN PHE ASP SEQRES 2 A 171 VAL THR ILE GLU ILE PRO LYS GLY GLN ARG ASN LYS TYR SEQRES 3 A 171 GLU VAL ASP HIS GLU THR GLY ARG VAL ARG LEU ASP ARG SEQRES 4 A 171 TYR LEU TYR THR PRO MET ALA TYR PRO THR ASP TYR GLY SEQRES 5 A 171 PHE ILE GLU ASP THR LEU GLY ASP ASP GLY ASP PRO LEU SEQRES 6 A 171 ASP ALA LEU VAL LEU LEU PRO GLN PRO VAL PHE PRO GLY SEQRES 7 A 171 VAL LEU VAL ALA ALA ARG PRO VAL GLY MET PHE ARG MET SEQRES 8 A 171 VAL ASP GLU HIS GLY GLY ASP ASP LYS VAL LEU CYS VAL SEQRES 9 A 171 PRO ALA GLY ASP PRO ARG TRP ASP HIS VAL GLN ASP ILE SEQRES 10 A 171 GLY ASP VAL PRO ALA PHE GLU LEU ASP ALA ILE LYS HIS SEQRES 11 A 171 PHE PHE VAL HIS TYR LYS ASP LEU GLU PRO GLY LYS PHE SEQRES 12 A 171 VAL LYS ALA ALA ASP TRP VAL ASP ARG ALA GLU ALA GLU SEQRES 13 A 171 ALA GLU VAL GLN ARG SER VAL GLU ARG PHE LYS ALA GLY SEQRES 14 A 171 THR HIS HET K A1162 1 HET K A1163 1 HET PO4 A1164 5 HETNAM K POTASSIUM ION HETNAM PO4 PHOSPHATE ION FORMUL 2 K 2(K 1+) FORMUL 4 PO4 O4 P 3- FORMUL 5 HOH *279(H2 O) HELIX 1 1 ASP A 99 ASP A 103 5 5 HELIX 2 2 ASP A 107 VAL A 111 5 5 HELIX 3 3 PRO A 112 TYR A 126 1 15 HELIX 4 4 ASP A 142 GLY A 160 1 19 SHEET 1 AA 7 LYS A 91 PRO A 96 0 SHEET 2 AA 7 LEU A 71 ASP A 84 -1 O ARG A 75 N VAL A 95 SHEET 3 AA 7 PHE A 3 ILE A 9 -1 O PHE A 3 N ALA A 74 SHEET 4 AA 7 ASP A 41 ILE A 45 -1 O TYR A 42 N ILE A 9 SHEET 5 AA 7 ASP A 57 VAL A 60 -1 O ALA A 58 N GLY A 43 SHEET 6 AA 7 LYS A 91 PRO A 96 1 O VAL A 92 N LEU A 59 SHEET 7 AA 7 LEU A 71 ASP A 84 -1 O ARG A 75 N VAL A 95 SHEET 1 AB 7 GLY A 87 GLY A 88 0 SHEET 2 AB 7 LEU A 71 ASP A 84 -1 O ASP A 84 N GLY A 87 SHEET 3 AB 7 LYS A 91 PRO A 96 -1 O LYS A 91 N PHE A 80 SHEET 4 AB 7 ASP A 57 VAL A 60 1 O ASP A 57 N VAL A 92 SHEET 5 AB 7 ASP A 41 ILE A 45 -1 O ASP A 41 N VAL A 60 SHEET 6 AB 7 PHE A 3 ILE A 9 -1 O THR A 6 N PHE A 44 SHEET 7 AB 7 LEU A 71 ASP A 84 -1 O VAL A 72 N VAL A 5 SHEET 1 AC 2 ASN A 15 VAL A 19 0 SHEET 2 AC 2 VAL A 26 TYR A 31 -1 O ARG A 27 N GLU A 18 LINK O PRO A 55 K K A1163 1555 1555 3.59 LINK OD1 ASP A 57 K K A1163 1555 1555 3.30 LINK OD2 ASP A 57 K K A1163 1555 1555 3.63 LINK OD1 ASP A 89 K K A1163 1555 1555 2.86 LINK O LYS A 127 K K A1162 1555 1555 2.83 LINK O ASP A 128 K K A1162 1555 1555 3.02 LINK O GLU A 130 K K A1162 1555 1555 2.61 LINK O LYS A 133 K K A1162 1555 1555 2.67 LINK K K A1162 O HOH A2229 1555 1555 3.29 LINK K K A1162 O HOH A2236 1555 1555 2.71 LINK K K A1163 O HOH A2140 1555 1555 2.85 LINK K K A1163 O HOH A2144 1555 1555 3.12 LINK K K A1163 O HOH A2147 1555 1555 2.75 LINK K K A1163 O HOH A2152 1555 1555 3.41 LINK K K A1163 O HOH A2153 1555 1555 3.39 LINK K K A1163 O HOH A2180 1555 1555 2.74 SITE 1 AC1 5 LYS A 127 ASP A 128 GLU A 130 LYS A 133 SITE 2 AC1 5 HOH A2236 SITE 1 AC2 6 PRO A 55 ASP A 57 ASP A 89 HOH A2140 SITE 2 AC2 6 HOH A2147 HOH A2180 SITE 1 AC3 8 LYS A 16 GLU A 18 ASP A 29 ARG A 30 SITE 2 AC3 8 TYR A 126 LYS A 127 HOH A2277 HOH A2279 CRYST1 96.902 96.902 103.312 90.00 90.00 120.00 P 63 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 0.010320 0.005958 0.000000 0.00000 SCALE2 0.000000 0.011916 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009679 0.00000