HEADER HYDROLASE 09-SEP-04 1WPP TITLE STRUCTURE OF STREPTOCOCCUS GORDONII INORGANIC PYROPHOSPHATASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE MANGANESE-DEPENDENT INORGANIC PYROPHOSPHATASE; COMPND 3 CHAIN: A, B; 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: STREPTOCOCCUS GORDONII; SOURCE 3 ORGANISM_TAXID: 29390; SOURCE 4 STRAIN: STR. CHALLIS; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: C43(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-15B KEYWDS INORGANIC PYROPHOSPHATASE, METAL BINDING, INHIBITION, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR I.P.FABRICHNIY,L.LEHTIO,A.SALMINEN,A.A.BAYKOV,R.LAHTI,A.GOLDMAN REVDAT 5 13-MAR-24 1WPP 1 REMARK LINK REVDAT 4 11-OCT-17 1WPP 1 REMARK REVDAT 3 13-JUL-11 1WPP 1 VERSN REVDAT 2 24-FEB-09 1WPP 1 VERSN REVDAT 1 23-NOV-04 1WPP 0 JRNL AUTH I.P.FABRICHNIY,L.LEHTIO,A.SALMINEN,A.B.ZYRYANOV,A.A.BAYKOV, JRNL AUTH 2 R.LAHTI,A.GOLDMAN JRNL TITL STRUCTURAL STUDIES OF METAL IONS IN FAMILY II JRNL TITL 2 PYROPHOSPHATASES: THE REQUIREMENT FOR A JANUS ION JRNL REF BIOCHEMISTRY V. 43 14403 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 15533045 JRNL DOI 10.1021/BI0484973 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 38171 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2010 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) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2777 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1890 REMARK 3 BIN FREE R VALUE SET COUNT : 147 REMARK 3 BIN FREE R VALUE : 0.2780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4704 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 536 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.56 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.25000 REMARK 3 B22 (A**2) : -1.35000 REMARK 3 B33 (A**2) : 0.11000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.196 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.169 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.116 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.258 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4886 ; 0.017 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6635 ; 1.535 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 632 ; 5.889 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 773 ; 0.111 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3712 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2238 ; 0.180 ; 0.100 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): 811 ; 0.124 ; 0.100 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.111 ; 0.500 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 55 ; 0.180 ; 0.100 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 38 ; 0.157 ; 0.100 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): 3126 ; 0.855 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5029 ; 1.494 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1760 ; 2.544 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1606 ; 4.093 ; 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1WPP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-SEP-04. REMARK 100 THE DEPOSITION ID IS D_1000023857. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-AUG-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.879 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40182 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM CITRATE, AMMONIUM SULPHATE, REMARK 280 K/NA-TARTRATE, PH 5.6, VAPOR DIFFUSION, SITTING DROP, STREAK REMARK 280 SEEDING, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 48.04000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 74.48000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 48.04000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 74.48000 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: 3770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -274.0 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 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 B1034 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 1 REMARK 465 MET B 1 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 ASP A 34 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 77 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP A 225 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 258 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP B 164 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP B 225 CB - CG - OD2 ANGL. DEV. = 7.6 DEGREES REMARK 500 ASP B 251 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP B 258 CB - CG - OD2 ANGL. DEV. = 6.0 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 ASP A 77 17.84 57.75 REMARK 500 ASN A 79 -23.13 -143.68 REMARK 500 SER A 84 -164.75 -105.34 REMARK 500 VAL A 118 -169.10 -116.04 REMARK 500 VAL A 301 -50.08 -130.46 REMARK 500 ASP B 87 30.87 -96.81 REMARK 500 ASN B 212 61.85 62.10 REMARK 500 ASP B 225 103.86 -162.51 REMARK 500 VAL B 301 -53.19 -122.90 REMARK 500 PHE B 309 4.06 -69.86 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 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 9 NE2 REMARK 620 2 ASP A 13 OD1 98.8 REMARK 620 3 ASP A 13 OD2 89.7 54.6 REMARK 620 4 ASP A 77 OD1 91.3 140.2 87.3 REMARK 620 5 HOH A 807 O 167.1 89.6 103.2 88.4 REMARK 620 6 HOH A 852 O 80.6 99.1 150.4 120.5 88.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 602 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 15 OD2 REMARK 620 2 ASP A 77 OD2 89.1 REMARK 620 3 HIS A 99 NE2 100.8 88.5 REMARK 620 4 ASP A 151 OD2 90.8 179.5 91.1 REMARK 620 5 HOH A 807 O 131.2 91.7 128.0 88.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 603 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 9 NE2 REMARK 620 2 ASP B 13 OD1 100.7 REMARK 620 3 ASP B 13 OD2 95.4 56.4 REMARK 620 4 ASP B 77 OD1 84.1 149.8 93.6 REMARK 620 5 HOH B 902 O 162.7 91.1 101.7 92.1 REMARK 620 6 HOH B1007 O 79.6 96.0 150.9 114.2 86.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 604 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 15 OD1 REMARK 620 2 ASP B 77 OD2 80.9 REMARK 620 3 HIS B 99 NE2 109.7 91.5 REMARK 620 4 ASP B 151 OD1 89.7 170.6 91.3 REMARK 620 5 HOH B 902 O 126.3 98.4 123.9 87.5 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 A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 806 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 901 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1WPM RELATED DB: PDB REMARK 900 STRUCTURE OF B. SUBTILIS PPASE WITHOUT METALS REMARK 900 RELATED ID: 1WPN RELATED DB: PDB REMARK 900 STRUCTURE OF N-TERMINAL CORE OF B. SUBTILIS PPASE DBREF 1WPP A 1 311 UNP P95765 PPAC_STRGC 1 311 DBREF 1WPP B 1 311 UNP P95765 PPAC_STRGC 1 311 SEQADV 1WPP SER A 109 UNP P95765 ASN 109 SEE REMARK 999 SEQADV 1WPP GLY A 133 UNP P95765 SER 133 SEE REMARK 999 SEQADV 1WPP PRO A 137 UNP P95765 SER 137 SEE REMARK 999 SEQADV 1WPP VAL A 166 UNP P95765 ALA 166 SEE REMARK 999 SEQADV 1WPP SER B 109 UNP P95765 ASN 109 SEE REMARK 999 SEQADV 1WPP GLY B 133 UNP P95765 SER 133 SEE REMARK 999 SEQADV 1WPP PRO B 137 UNP P95765 SER 137 SEE REMARK 999 SEQADV 1WPP VAL B 166 UNP P95765 ALA 166 SEE REMARK 999 SEQRES 1 A 311 MET SER LYS ILE LEU VAL PHE GLY HIS GLN ASN PRO ASP SEQRES 2 A 311 SER ASP ALA ILE GLY SER SER TYR ALA PHE ALA TYR LEU SEQRES 3 A 311 ALA ARG GLU ALA TYR GLY LEU ASP THR GLU ALA VAL ALA SEQRES 4 A 311 LEU GLY GLU PRO ASN GLU GLU THR ALA PHE VAL LEU ASP SEQRES 5 A 311 TYR PHE GLY VAL ALA ALA PRO ARG VAL ILE THR SER ALA SEQRES 6 A 311 LYS ALA GLU GLY ALA GLU GLN VAL ILE LEU THR ASP HIS SEQRES 7 A 311 ASN GLU PHE GLN GLN SER VAL ALA ASP ILE ALA GLU VAL SEQRES 8 A 311 GLU VAL TYR GLY VAL VAL ASP HIS HIS ARG VAL ALA ASN SEQRES 9 A 311 PHE GLU THR ALA SER PRO LEU TYR MET ARG LEU GLU PRO SEQRES 10 A 311 VAL GLY SER ALA SER SER ILE VAL TYR ARG MET PHE LYS SEQRES 11 A 311 GLU HIS GLY VAL ALA VAL PRO LYS GLU ILE ALA GLY LEU SEQRES 12 A 311 MET LEU SER GLY LEU ILE SER ASP THR LEU LEU LEU LYS SEQRES 13 A 311 SER PRO THR THR HIS PRO THR ASP LYS VAL ILE ALA PRO SEQRES 14 A 311 GLU LEU ALA GLU LEU ALA GLY VAL ASN LEU GLU GLU TYR SEQRES 15 A 311 GLY LEU ALA MET LEU LYS ALA GLY THR ASN LEU ALA SER SEQRES 16 A 311 LYS SER ALA GLU GLU LEU ILE ASP ILE ASP ALA LYS THR SEQRES 17 A 311 PHE GLU LEU ASN GLY ASN ASN VAL ARG VAL ALA GLN VAL SEQRES 18 A 311 ASN THR VAL ASP ILE ALA GLU VAL LEU GLU ARG GLN ALA SEQRES 19 A 311 GLU ILE GLU ALA ALA ILE GLU LYS ALA ILE ALA ASP ASN SEQRES 20 A 311 GLY TYR SER ASP PHE VAL LEU MET ILE THR ASP ILE ILE SEQRES 21 A 311 ASN SER ASN SER GLU ILE LEU ALA ILE GLY SER ASN MET SEQRES 22 A 311 ASP LYS VAL GLU ALA ALA PHE ASN PHE VAL LEU GLU ASN SEQRES 23 A 311 ASN HIS ALA PHE LEU ALA GLY ALA VAL SER ARG LYS LYS SEQRES 24 A 311 GLN VAL VAL PRO GLN LEU THR GLU SER PHE ASN ALA SEQRES 1 B 311 MET SER LYS ILE LEU VAL PHE GLY HIS GLN ASN PRO ASP SEQRES 2 B 311 SER ASP ALA ILE GLY SER SER TYR ALA PHE ALA TYR LEU SEQRES 3 B 311 ALA ARG GLU ALA TYR GLY LEU ASP THR GLU ALA VAL ALA SEQRES 4 B 311 LEU GLY GLU PRO ASN GLU GLU THR ALA PHE VAL LEU ASP SEQRES 5 B 311 TYR PHE GLY VAL ALA ALA PRO ARG VAL ILE THR SER ALA SEQRES 6 B 311 LYS ALA GLU GLY ALA GLU GLN VAL ILE LEU THR ASP HIS SEQRES 7 B 311 ASN GLU PHE GLN GLN SER VAL ALA ASP ILE ALA GLU VAL SEQRES 8 B 311 GLU VAL TYR GLY VAL VAL ASP HIS HIS ARG VAL ALA ASN SEQRES 9 B 311 PHE GLU THR ALA SER PRO LEU TYR MET ARG LEU GLU PRO SEQRES 10 B 311 VAL GLY SER ALA SER SER ILE VAL TYR ARG MET PHE LYS SEQRES 11 B 311 GLU HIS GLY VAL ALA VAL PRO LYS GLU ILE ALA GLY LEU SEQRES 12 B 311 MET LEU SER GLY LEU ILE SER ASP THR LEU LEU LEU LYS SEQRES 13 B 311 SER PRO THR THR HIS PRO THR ASP LYS VAL ILE ALA PRO SEQRES 14 B 311 GLU LEU ALA GLU LEU ALA GLY VAL ASN LEU GLU GLU TYR SEQRES 15 B 311 GLY LEU ALA MET LEU LYS ALA GLY THR ASN LEU ALA SER SEQRES 16 B 311 LYS SER ALA GLU GLU LEU ILE ASP ILE ASP ALA LYS THR SEQRES 17 B 311 PHE GLU LEU ASN GLY ASN ASN VAL ARG VAL ALA GLN VAL SEQRES 18 B 311 ASN THR VAL ASP ILE ALA GLU VAL LEU GLU ARG GLN ALA SEQRES 19 B 311 GLU ILE GLU ALA ALA ILE GLU LYS ALA ILE ALA ASP ASN SEQRES 20 B 311 GLY TYR SER ASP PHE VAL LEU MET ILE THR ASP ILE ILE SEQRES 21 B 311 ASN SER ASN SER GLU ILE LEU ALA ILE GLY SER ASN MET SEQRES 22 B 311 ASP LYS VAL GLU ALA ALA PHE ASN PHE VAL LEU GLU ASN SEQRES 23 B 311 ASN HIS ALA PHE LEU ALA GLY ALA VAL SER ARG LYS LYS SEQRES 24 B 311 GLN VAL VAL PRO GLN LEU THR GLU SER PHE ASN ALA HET ZN A 601 1 HET ZN A 602 1 HET SO4 A 801 5 HET SO4 A 803 5 HET SO4 A 806 5 HET ZN B 603 1 HET ZN B 604 1 HET SO4 B 802 5 HET SO4 B 804 5 HET SO4 B 805 5 HET CL B 901 1 HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION FORMUL 3 ZN 4(ZN 2+) FORMUL 5 SO4 6(O4 S 2-) FORMUL 13 CL CL 1- FORMUL 14 HOH *536(H2 O) HELIX 1 1 ASP A 13 TYR A 31 1 19 HELIX 2 2 ASN A 44 GLY A 55 1 12 HELIX 3 3 GLU A 80 SER A 84 5 5 HELIX 4 4 ASP A 87 VAL A 91 5 5 HELIX 5 5 SER A 120 HIS A 132 1 13 HELIX 6 6 PRO A 137 LEU A 153 1 17 HELIX 7 7 HIS A 161 GLY A 176 1 16 HELIX 8 8 ASN A 178 GLY A 190 1 13 HELIX 9 9 SER A 197 ILE A 202 1 6 HELIX 10 10 ASP A 225 GLU A 231 1 7 HELIX 11 11 ARG A 232 GLY A 248 1 17 HELIX 12 12 ASN A 272 ASN A 281 1 10 HELIX 13 13 SER A 296 VAL A 301 1 6 HELIX 14 14 VAL A 301 ALA A 311 1 11 HELIX 15 15 ASP B 13 TYR B 31 1 19 HELIX 16 16 ASN B 44 GLY B 55 1 12 HELIX 17 17 GLU B 80 SER B 84 5 5 HELIX 18 18 ASP B 87 VAL B 91 5 5 HELIX 19 19 SER B 120 HIS B 132 1 13 HELIX 20 20 PRO B 137 LEU B 153 1 17 HELIX 21 21 HIS B 161 GLY B 176 1 16 HELIX 22 22 ASN B 178 ALA B 189 1 12 HELIX 23 23 SER B 197 ILE B 202 1 6 HELIX 24 24 ASP B 225 GLU B 231 1 7 HELIX 25 25 ARG B 232 GLY B 248 1 17 HELIX 26 26 ASN B 272 ASN B 281 1 10 HELIX 27 27 SER B 296 VAL B 301 1 6 HELIX 28 28 VAL B 301 PHE B 309 1 9 SHEET 1 A10 THR A 35 ALA A 37 0 SHEET 2 A10 ILE A 4 PHE A 7 1 N VAL A 6 O GLU A 36 SHEET 3 A10 GLN A 72 THR A 76 1 O ILE A 74 N LEU A 5 SHEET 4 A10 GLU A 92 ASP A 98 1 O GLU A 92 N VAL A 73 SHEET 5 A10 TYR A 112 LEU A 115 1 O ARG A 114 N VAL A 96 SHEET 6 A10 TYR B 112 LEU B 115 -1 O LEU B 115 N MET A 113 SHEET 7 A10 GLU B 92 ASP B 98 1 N TYR B 94 O TYR B 112 SHEET 8 A10 GLN B 72 THR B 76 1 N LEU B 75 O VAL B 97 SHEET 9 A10 ILE B 4 PHE B 7 1 N LEU B 5 O ILE B 74 SHEET 10 A10 THR B 35 ALA B 37 1 O GLU B 36 N VAL B 6 SHEET 1 B 5 ALA A 206 LEU A 211 0 SHEET 2 B 5 ASN A 214 THR A 223 -1 O VAL A 218 N LYS A 207 SHEET 3 B 5 ASP A 251 ASP A 258 1 O MET A 255 N ALA A 219 SHEET 4 B 5 ASN A 263 GLY A 270 -1 O LEU A 267 N LEU A 254 SHEET 5 B 5 HIS A 288 LEU A 291 -1 O ALA A 289 N ILE A 266 SHEET 1 C 5 ALA B 206 LEU B 211 0 SHEET 2 C 5 ASN B 214 THR B 223 -1 O VAL B 218 N LYS B 207 SHEET 3 C 5 ASP B 251 ASP B 258 1 O MET B 255 N ALA B 219 SHEET 4 C 5 ASN B 263 GLY B 270 -1 O LEU B 267 N LEU B 254 SHEET 5 C 5 HIS B 288 ALA B 292 -1 O ALA B 289 N ILE B 266 LINK NE2 HIS A 9 ZN ZN A 601 1555 1555 2.11 LINK OD1 ASP A 13 ZN ZN A 601 1555 1555 2.05 LINK OD2 ASP A 13 ZN ZN A 601 1555 1555 2.53 LINK OD2 ASP A 15 ZN ZN A 602 1555 1555 2.02 LINK OD1 ASP A 77 ZN ZN A 601 1555 1555 2.01 LINK OD2 ASP A 77 ZN ZN A 602 1555 1555 2.00 LINK NE2 HIS A 99 ZN ZN A 602 1555 1555 2.11 LINK OD2 ASP A 151 ZN ZN A 602 1555 1555 1.99 LINK ZN ZN A 601 O HOH A 807 1555 1555 2.06 LINK ZN ZN A 601 O HOH A 852 1555 1555 2.63 LINK ZN ZN A 602 O HOH A 807 1555 1555 1.94 LINK NE2 HIS B 9 ZN ZN B 603 1555 1555 2.08 LINK OD1 ASP B 13 ZN ZN B 603 1555 1555 2.04 LINK OD2 ASP B 13 ZN ZN B 603 1555 1555 2.45 LINK OD1 ASP B 15 ZN ZN B 604 1555 1555 2.01 LINK OD1 ASP B 77 ZN ZN B 603 1555 1555 2.03 LINK OD2 ASP B 77 ZN ZN B 604 1555 1555 2.02 LINK NE2 HIS B 99 ZN ZN B 604 1555 1555 2.10 LINK OD1 ASP B 151 ZN ZN B 604 1555 1555 2.02 LINK ZN ZN B 603 O HOH B 902 1555 1555 2.17 LINK ZN ZN B 603 O HOH B1007 1555 1555 2.61 LINK ZN ZN B 604 O HOH B 902 1555 1555 1.89 SITE 1 AC1 6 HIS A 9 ASP A 13 ASP A 77 ZN A 602 SITE 2 AC1 6 HOH A 807 HOH A 852 SITE 1 AC2 6 ASP A 15 ASP A 77 HIS A 99 ASP A 151 SITE 2 AC2 6 ZN A 601 HOH A 807 SITE 1 AC3 6 HIS B 9 ASP B 13 ASP B 77 ZN B 604 SITE 2 AC3 6 HOH B 902 HOH B1007 SITE 1 AC4 6 ASP B 15 ASP B 77 HIS B 99 ASP B 151 SITE 2 AC4 6 ZN B 603 HOH B 902 SITE 1 AC5 6 ARG A 297 LYS A 298 HOH A 816 HOH A 854 SITE 2 AC5 6 HOH A1003 HOH A1067 SITE 1 AC6 4 ARG B 297 LYS B 298 HOH B 945 HOH B 979 SITE 1 AC7 8 GLU A 92 VAL A 93 THR A 107 ALA A 108 SITE 2 AC7 8 SER A 109 HOH A 819 HOH A 830 HOH A1001 SITE 1 AC8 9 GLU B 92 VAL B 93 THR B 107 ALA B 108 SITE 2 AC8 9 SER B 109 HOH B 906 HOH B 943 HOH B1006 SITE 3 AC8 9 HOH B1112 SITE 1 AC9 4 GLN B 82 GLN B 83 LYS B 207 HOH B1049 SITE 1 BC1 5 GLN A 82 GLN A 83 LYS A 207 HOH A 987 SITE 2 BC1 5 HOH A 995 SITE 1 BC2 2 ARG B 101 LYS B 298 CRYST1 96.080 148.960 43.720 90.00 90.00 90.00 P 21 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010408 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006713 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022873 0.00000