HEADER TRANSFERASE 24-OCT-07 2VEF TITLE DIHYDROPTEROATE SYNTHASE FROM STREPTOCOCCUS PNEUMONIAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROPTEROATE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DHPS, DIHYDROPTEROATE PYROPHOSPHORYLASE; COMPND 5 EC: 2.5.1.15; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 1313; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ANTIBIOTIC RESISTANCE, TRANSFERASE, FOLATE BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR J.P.DERRICK,C.LEVY REVDAT 4 13-JUL-11 2VEF 1 VERSN REVDAT 3 24-FEB-09 2VEF 1 VERSN REVDAT 2 20-MAY-08 2VEF 1 AUTHOR JRNL REMARK REVDAT 1 25-MAR-08 2VEF 0 JRNL AUTH C.LEVY,D.MINNIS,J.P.DERRICK JRNL TITL DIHYDROPTEROATE SYNTHASE FROM STREPTOCOCCUS PNEUMONIAE: JRNL TITL 2 STRUCTURE, LIGAND RECOGNITION AND MECHANISM OF SULFONAMIDE JRNL TITL 3 RESISTANCE. JRNL REF BIOCHEM.J. V. 412 379 2008 JRNL REFN ISSN 0264-6021 JRNL PMID 18321242 JRNL DOI 10.1042/BJ20071598 REMARK 2 REMARK 2 RESOLUTION. 1.8 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 50714 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 2767 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3338 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE SET COUNT : 170 REMARK 3 BIN FREE R VALUE : 0.3500 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4271 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 518 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : UNVERIFIED REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.33000 REMARK 3 B22 (A**2) : -0.22000 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): 0.139 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.136 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.098 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.816 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4339 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2926 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5865 ; 1.622 ; 1.967 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7148 ; 1.082 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 545 ; 5.540 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 197 ;35.757 ;24.315 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 758 ;13.545 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;17.196 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 687 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4796 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 838 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 875 ; 0.222 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3110 ; 0.202 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2021 ; 0.170 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2178 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 368 ; 0.156 ; 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): 20 ; 0.236 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 29 ; 0.227 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 24 ; 0.192 ; 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): 2909 ; 1.207 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4417 ; 1.605 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1645 ; 2.653 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1448 ; 3.869 ; 4.500 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 5 A 303 REMARK 3 ORIGIN FOR THE GROUP (A): 34.3330 45.7164 1.8431 REMARK 3 T TENSOR REMARK 3 T11: -0.1859 T22: -0.1491 REMARK 3 T33: -0.1073 T12: -0.0233 REMARK 3 T13: -0.0121 T23: -0.0339 REMARK 3 L TENSOR REMARK 3 L11: 0.7050 L22: 2.4679 REMARK 3 L33: 1.6677 L12: -0.0710 REMARK 3 L13: -0.1801 L23: 0.6922 REMARK 3 S TENSOR REMARK 3 S11: -0.0176 S12: 0.1312 S13: -0.2378 REMARK 3 S21: 0.0141 S22: -0.0506 S23: 0.1638 REMARK 3 S31: 0.3047 S32: -0.1815 S33: 0.0682 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 303 REMARK 3 ORIGIN FOR THE GROUP (A): 43.8404 68.5819 32.5190 REMARK 3 T TENSOR REMARK 3 T11: 0.0044 T22: -0.1182 REMARK 3 T33: -0.1421 T12: -0.0558 REMARK 3 T13: -0.0623 T23: -0.0035 REMARK 3 L TENSOR REMARK 3 L11: 0.8235 L22: 1.6257 REMARK 3 L33: 3.0100 L12: 0.1061 REMARK 3 L13: 0.0387 L23: 0.9713 REMARK 3 S TENSOR REMARK 3 S11: 0.0751 S12: -0.2189 S13: 0.0854 REMARK 3 S21: 0.5292 S22: -0.0236 S23: -0.1736 REMARK 3 S31: 0.0615 S32: 0.1550 S33: -0.0515 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. REMARK 4 REMARK 4 2VEF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-OCT-07. REMARK 100 THE PDBE ID CODE IS EBI-31411. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.488 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65291 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.80 REMARK 200 RESOLUTION RANGE LOW (A) : 55.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 4.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.43 REMARK 200 R MERGE (I) : 0.05 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.70 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.89 REMARK 200 R MERGE FOR SHELL (I) : 0.21 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.50 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.1 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.2 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM IODIDE, 20% REMARK 280 (W/V) POLYETHYLENE GLYCOL 3,350 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 22.80650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.32800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.19100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.32800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.80650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.19100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 SER A 2 REMARK 465 SER A 3 REMARK 465 LYS A 4 REMARK 465 ALA A 5 REMARK 465 ASN A 6 REMARK 465 ASP A 21 REMARK 465 SER A 22 REMARK 465 PHE A 23 REMARK 465 SER A 24 REMARK 465 ASP A 25 REMARK 465 GLY A 26 REMARK 465 GLY A 27 REMARK 465 GLN A 28 REMARK 465 PHE A 29 REMARK 465 THR A 57 REMARK 465 ARG A 58 REMARK 465 PRO A 59 REMARK 465 GLY A 60 REMARK 465 SER A 61 REMARK 465 GLY A 157 REMARK 465 GLN A 158 REMARK 465 GLU A 163 REMARK 465 GLU A 164 REMARK 465 GLU A 304 REMARK 465 ALA A 305 REMARK 465 GLU A 306 REMARK 465 ASN A 307 REMARK 465 LEU A 308 REMARK 465 ASP A 309 REMARK 465 LEU A 310 REMARK 465 LYS A 311 REMARK 465 GLN A 312 REMARK 465 TYR A 313 REMARK 465 LYS A 314 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 SER B 3 REMARK 465 LYS B 4 REMARK 465 ALA B 5 REMARK 465 PRO B 20 REMARK 465 ASP B 21 REMARK 465 SER B 22 REMARK 465 PHE B 23 REMARK 465 SER B 24 REMARK 465 ASP B 25 REMARK 465 GLY B 26 REMARK 465 GLY B 27 REMARK 465 GLN B 28 REMARK 465 PHE B 29 REMARK 465 PHE B 30 REMARK 465 ALA B 31 REMARK 465 THR B 57 REMARK 465 ARG B 58 REMARK 465 PRO B 59 REMARK 465 GLY B 60 REMARK 465 SER B 61 REMARK 465 SER B 62 REMARK 465 PHE B 156 REMARK 465 GLY B 157 REMARK 465 GLN B 158 REMARK 465 ALA B 159 REMARK 465 ASP B 303 REMARK 465 GLU B 304 REMARK 465 ALA B 305 REMARK 465 GLU B 306 REMARK 465 ASN B 307 REMARK 465 LEU B 308 REMARK 465 ASP B 309 REMARK 465 LEU B 310 REMARK 465 LYS B 311 REMARK 465 GLN B 312 REMARK 465 TYR B 313 REMARK 465 LYS B 314 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 THR A 161 OG1 CG2 REMARK 470 GLU A 162 CG CD OE1 OE2 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 N TYR B 63 O HOH B 2035 2.15 REMARK 500 OD1 ASP B 221 O HOH B 2139 2.11 REMARK 500 OD1 ASP B 221 O HOH B 2140 2.14 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 GLU A 162 C GLU A 162 O 0.157 REMARK 500 SER B 48 CB SER B 48 OG -0.086 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 260 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 260 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG B 260 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ARG B 260 NE - CZ - NH2 ANGL. DEV. = -5.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 SER A 56 22.9 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A1304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VEG RELATED DB: PDB REMARK 900 DIHYDROPTEROATE SYNTHASE FROM STREPTOCOCCUS REMARK 900 PNEUMONIAE: COMPLEX WITH 6-HYDROXYMETHYL-7,8 REMARK 900 -DIHYDROPTERIN MONOPHOSPHATE REMARK 999 REMARK 999 SEQUENCE REMARK 999 DIPEPTIDE 'IE' REMOVED FROM THE SEQUENCE AT POSITION 65, REMARK 999 AS THIS CORRESPONDS TO THE SULPHONAMIDE RESISTANT REMARK 999 PHENOTYPE AND THIS STRUCTURE IS FOR THE SENSITIVE FORM OF REMARK 999 THE ENZYME (SEE LOPEZ,P., ESPINOSA,M., GREENBERG,B., LACKS, REMARK 999 S.A., SULFONAMIDE RESISTANCE IN STREPTOCOCCUS PNEUMONIAE REMARK 999 DNA SEQUENCE OF THE GENE ENCODING DIHYDROPTEROATE SYNTHASE REMARK 999 AND CHARACTERIZATION OF THE ENZYME.(1987) J. BACTERIOL. REMARK 999 169 4320-4326) DBREF 2VEF A 1 314 UNP P59655 DHPS_STRR6 1 314 DBREF 2VEF B 1 314 UNP P59655 DHPS_STRR6 1 314 SEQRES 1 A 314 MET SER SER LYS ALA ASN HIS ALA LYS THR VAL ILE CYS SEQRES 2 A 314 GLY ILE ILE ASN VAL THR PRO ASP SER PHE SER ASP GLY SEQRES 3 A 314 GLY GLN PHE PHE ALA LEU GLU GLN ALA LEU GLN GLN ALA SEQRES 4 A 314 ARG LYS LEU ILE ALA GLU GLY ALA SER MET LEU ASP ILE SEQRES 5 A 314 GLY GLY GLU SER THR ARG PRO GLY SER SER TYR VAL GLU SEQRES 6 A 314 ILE GLU GLU GLU ILE GLN ARG VAL VAL PRO VAL ILE LYS SEQRES 7 A 314 ALA ILE ARG LYS GLU SER ASP VAL LEU ILE SER ILE ASP SEQRES 8 A 314 THR TRP LYS SER GLN VAL ALA GLU ALA ALA LEU ALA ALA SEQRES 9 A 314 GLY ALA ASP LEU VAL ASN ASP ILE THR GLY LEU MET GLY SEQRES 10 A 314 ASP GLU LYS MET PRO HIS VAL VAL ALA GLU ALA ARG ALA SEQRES 11 A 314 GLN VAL VAL ILE MET PHE ASN PRO VAL MET ALA ARG PRO SEQRES 12 A 314 GLN HIS PRO SER SER LEU ILE PHE PRO HIS PHE GLY PHE SEQRES 13 A 314 GLY GLN ALA PHE THR GLU GLU GLU LEU ALA ASP PHE GLU SEQRES 14 A 314 THR LEU PRO ILE GLU GLU LEU MET GLU ALA PHE PHE GLU SEQRES 15 A 314 ARG ALA LEU ALA ARG ALA ALA GLU ALA GLY ILE ALA PRO SEQRES 16 A 314 GLU ASN ILE LEU LEU ASP PRO GLY ILE GLY PHE GLY LEU SEQRES 17 A 314 THR LYS LYS GLU ASN LEU LEU LEU LEU ARG ASP LEU ASP SEQRES 18 A 314 LYS LEU HIS GLN LYS GLY TYR PRO ILE PHE LEU GLY VAL SEQRES 19 A 314 SER ARG LYS ARG PHE VAL ILE ASN ILE LEU GLU GLU ASN SEQRES 20 A 314 GLY PHE GLU VAL ASN PRO GLU THR GLU LEU GLY PHE ARG SEQRES 21 A 314 ASN ARG ASP THR ALA SER ALA HIS VAL THR SER ILE ALA SEQRES 22 A 314 ALA ARG GLN GLY VAL GLU VAL VAL ARG VAL HIS ASP VAL SEQRES 23 A 314 ALA SER HIS ARG MET ALA VAL GLU ILE ALA SER ALA ILE SEQRES 24 A 314 ARG LEU ALA ASP GLU ALA GLU ASN LEU ASP LEU LYS GLN SEQRES 25 A 314 TYR LYS SEQRES 1 B 314 MET SER SER LYS ALA ASN HIS ALA LYS THR VAL ILE CYS SEQRES 2 B 314 GLY ILE ILE ASN VAL THR PRO ASP SER PHE SER ASP GLY SEQRES 3 B 314 GLY GLN PHE PHE ALA LEU GLU GLN ALA LEU GLN GLN ALA SEQRES 4 B 314 ARG LYS LEU ILE ALA GLU GLY ALA SER MET LEU ASP ILE SEQRES 5 B 314 GLY GLY GLU SER THR ARG PRO GLY SER SER TYR VAL GLU SEQRES 6 B 314 ILE GLU GLU GLU ILE GLN ARG VAL VAL PRO VAL ILE LYS SEQRES 7 B 314 ALA ILE ARG LYS GLU SER ASP VAL LEU ILE SER ILE ASP SEQRES 8 B 314 THR TRP LYS SER GLN VAL ALA GLU ALA ALA LEU ALA ALA SEQRES 9 B 314 GLY ALA ASP LEU VAL ASN ASP ILE THR GLY LEU MET GLY SEQRES 10 B 314 ASP GLU LYS MET PRO HIS VAL VAL ALA GLU ALA ARG ALA SEQRES 11 B 314 GLN VAL VAL ILE MET PHE ASN PRO VAL MET ALA ARG PRO SEQRES 12 B 314 GLN HIS PRO SER SER LEU ILE PHE PRO HIS PHE GLY PHE SEQRES 13 B 314 GLY GLN ALA PHE THR GLU GLU GLU LEU ALA ASP PHE GLU SEQRES 14 B 314 THR LEU PRO ILE GLU GLU LEU MET GLU ALA PHE PHE GLU SEQRES 15 B 314 ARG ALA LEU ALA ARG ALA ALA GLU ALA GLY ILE ALA PRO SEQRES 16 B 314 GLU ASN ILE LEU LEU ASP PRO GLY ILE GLY PHE GLY LEU SEQRES 17 B 314 THR LYS LYS GLU ASN LEU LEU LEU LEU ARG ASP LEU ASP SEQRES 18 B 314 LYS LEU HIS GLN LYS GLY TYR PRO ILE PHE LEU GLY VAL SEQRES 19 B 314 SER ARG LYS ARG PHE VAL ILE ASN ILE LEU GLU GLU ASN SEQRES 20 B 314 GLY PHE GLU VAL ASN PRO GLU THR GLU LEU GLY PHE ARG SEQRES 21 B 314 ASN ARG ASP THR ALA SER ALA HIS VAL THR SER ILE ALA SEQRES 22 B 314 ALA ARG GLN GLY VAL GLU VAL VAL ARG VAL HIS ASP VAL SEQRES 23 B 314 ALA SER HIS ARG MET ALA VAL GLU ILE ALA SER ALA ILE SEQRES 24 B 314 ARG LEU ALA ASP GLU ALA GLU ASN LEU ASP LEU LYS GLN SEQRES 25 B 314 TYR LYS HET PO4 A1304 5 HETNAM PO4 PHOSPHATE ION FORMUL 3 PO4 O4 P 3- FORMUL 4 HOH *518(H2 O) HELIX 1 1 PHE A 30 GLU A 45 1 16 HELIX 2 2 SER A 62 SER A 84 1 23 HELIX 3 3 LYS A 94 ALA A 104 1 11 HELIX 4 4 LYS A 120 ARG A 129 1 10 HELIX 5 5 ASN A 137 ARG A 142 1 6 HELIX 6 6 LEU A 165 LEU A 171 1 7 HELIX 7 7 PRO A 172 GLY A 192 1 21 HELIX 8 8 ALA A 194 GLU A 196 5 3 HELIX 9 9 THR A 209 ASP A 219 1 11 HELIX 10 10 ASP A 219 GLN A 225 1 7 HELIX 11 11 LYS A 237 ASN A 247 1 11 HELIX 12 12 THR A 255 GLN A 276 1 22 HELIX 13 13 ASP A 285 LEU A 301 1 17 HELIX 14 14 LEU B 32 GLY B 46 1 15 HELIX 15 15 VAL B 64 SER B 84 1 21 HELIX 16 16 LYS B 94 ALA B 104 1 11 HELIX 17 17 LYS B 120 ARG B 129 1 10 HELIX 18 18 ASN B 137 ARG B 142 1 6 HELIX 19 19 HIS B 145 LEU B 149 5 5 HELIX 20 20 THR B 161 GLU B 169 1 9 HELIX 21 21 PRO B 172 GLY B 192 1 21 HELIX 22 22 ALA B 194 GLU B 196 5 3 HELIX 23 23 THR B 209 ASP B 219 1 11 HELIX 24 24 ASP B 219 GLN B 225 1 7 HELIX 25 25 LYS B 237 ASN B 247 1 11 HELIX 26 26 THR B 255 GLN B 276 1 22 HELIX 27 27 ASP B 285 LEU B 301 1 17 SHEET 1 AA 8 ILE A 198 ASP A 201 0 SHEET 2 AA 8 GLN A 131 MET A 135 1 O VAL A 132 N LEU A 199 SHEET 3 AA 8 LEU A 108 ASP A 111 1 O VAL A 109 N VAL A 133 SHEET 4 AA 8 LEU A 87 ASP A 91 1 O ILE A 90 N ASN A 110 SHEET 5 AA 8 MET A 49 GLY A 53 1 O LEU A 50 N SER A 89 SHEET 6 AA 8 VAL A 11 ASN A 17 1 O GLY A 14 N ASP A 51 SHEET 7 AA 8 VAL A 280 VAL A 283 1 O VAL A 281 N CYS A 13 SHEET 8 AA 8 PHE A 231 GLY A 233 1 O LEU A 232 N ARG A 282 SHEET 1 BA 8 ILE B 198 ASP B 201 0 SHEET 2 BA 8 GLN B 131 MET B 135 1 O VAL B 132 N LEU B 199 SHEET 3 BA 8 LEU B 108 ASP B 111 1 O VAL B 109 N VAL B 133 SHEET 4 BA 8 LEU B 87 ASP B 91 1 O ILE B 90 N ASN B 110 SHEET 5 BA 8 MET B 49 GLY B 53 1 O LEU B 50 N SER B 89 SHEET 6 BA 8 VAL B 11 ASN B 17 1 O GLY B 14 N ASP B 51 SHEET 7 BA 8 VAL B 280 VAL B 283 1 O VAL B 281 N CYS B 13 SHEET 8 BA 8 PHE B 231 GLY B 233 1 O LEU B 232 N ARG B 282 SITE 1 AC1 9 ALA A 44 GLU A 45 GLY A 46 THR A 255 SITE 2 AC1 9 GLU A 256 ARG A 290 HOH A2266 HOH A2302 SITE 3 AC1 9 ASN B 247 CRYST1 45.613 90.382 138.656 90.00 90.00 90.00 P 21 21 21 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 0.021924 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011064 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007212 0.00000 MTRIX1 1 -0.970000 -0.194000 0.148000 85.55718 1 MTRIX2 1 -0.204000 0.312000 -0.928000 63.41175 1 MTRIX3 1 0.134000 -0.930000 -0.342000 70.95837 1