HEADER HYDROLASE 27-AUG-05 2AU7 TITLE THE R43Q ACTIVE SITE VARIANT OF E.COLI INORGANIC PYROPHOSPHATASE 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; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PUC19 KEYWDS HYDROLASE, MUTANT, INORGANIC PYROPHOSPHATASE EXPDTA X-RAY DIFFRACTION AUTHOR V.R.SAMYGINA,S.M.AVAEVA,H.D.BARTUNIK REVDAT 6 29-MAY-24 2AU7 1 REMARK REVDAT 5 10-NOV-21 2AU7 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 2AU7 1 VERSN REVDAT 3 24-FEB-09 2AU7 1 VERSN REVDAT 2 01-JAN-08 2AU7 1 JRNL REVDAT 1 29-AUG-06 2AU7 0 JRNL AUTH V.R.SAMYGINA,V.M.MOISEEV,E.V.RODINA,N.N.VOROBYEVA,A.N.POPOV, JRNL AUTH 2 S.A.KURILOVA,T.I.NAZAROVA,S.M.AVAEVA,H.D.BARTUNIK JRNL TITL REVERSIBLE INHIBITION OF ESCHERICHIA COLI INORGANIC JRNL TITL 2 PYROPHOSPHATASE BY FLUORIDE: TRAPPED CATALYTIC INTERMEDIATES JRNL TITL 3 IN CRYO-CRYSTALLOGRAPHIC STUDIES JRNL REF J.MOL.BIOL. V. 366 1305 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17196979 JRNL DOI 10.1016/J.JMB.2006.11.082 REMARK 2 REMARK 2 RESOLUTION. 1.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.6 REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.123 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.123 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.153 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 3897 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 73988 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.109 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.109 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.134 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 3078 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 59074 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1378 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 316 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 1628.9 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 1291.0 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 33 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 16707 REMARK 3 NUMBER OF RESTRAINTS : 20893 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.018 REMARK 3 ANGLE DISTANCES (A) : 0.038 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH & HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ANISOTROPIC REFINEMENT REDUCED FREE R REMARK 3 (NO CUTOFF) BY ? REMARK 4 REMARK 4 2AU7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-AUG-05. REMARK 100 THE DEPOSITION ID IS D_1000034316. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MPG/DESY, HAMBURG REMARK 200 BEAMLINE : BW6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98000 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : DOUBLE FOCUSSING X-RAY OPTICS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 94372 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.050 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.20600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.640 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 5.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 55.49250 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 32.03861 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 24.35133 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 55.49250 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 32.03861 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 24.35133 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 55.49250 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 32.03861 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 24.35133 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 55.49250 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 32.03861 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 24.35133 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 55.49250 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 32.03861 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 24.35133 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 55.49250 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 32.03861 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 24.35133 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 64.07722 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 48.70267 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 64.07722 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 48.70267 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 64.07722 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 48.70267 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 64.07722 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 48.70267 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 64.07722 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 48.70267 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 64.07722 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 48.70267 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 22410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -600.0 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 166.47750 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 96.11583 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 192.23166 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 73.05400 REMARK 350 BIOMT1 5 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 -1.000000 0.000000 192.23166 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 73.05400 REMARK 350 BIOMT1 6 -0.500000 -0.866025 0.000000 166.47750 REMARK 350 BIOMT2 6 -0.866025 0.500000 0.000000 96.11583 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 73.05400 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 MN MN A 205 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 426 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 472 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 554 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 607 LIES ON A SPECIAL POSITION. 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 116 CD GLU A 116 OE2 0.069 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 GLU A 13 OE1 - CD - OE2 ANGL. DEV. = 8.7 DEGREES REMARK 500 GLU A 13 CG - CD - OE2 ANGL. DEV. = -13.6 DEGREES REMARK 500 ALA A 25 C - N - CA ANGL. DEV. = 15.8 DEGREES REMARK 500 GLU A 31 OE1 - CD - OE2 ANGL. DEV. = -11.7 DEGREES REMARK 500 GLU A 31 OE1 - CD - OE2 ANGL. DEV. = -7.6 DEGREES REMARK 500 ASP A 67 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 CYS A 87 CB - CA - C ANGL. DEV. = 7.8 DEGREES REMARK 500 ARG A 88 NE - CZ - NH2 ANGL. DEV. = 4.9 DEGREES REMARK 500 HIS A 110 CG - ND1 - CE1 ANGL. DEV. = 6.8 DEGREES REMARK 500 GLU A 153 CB - CG - CD ANGL. DEV. = 25.4 DEGREES REMARK 500 GLU A 153 OE1 - CD - OE2 ANGL. DEV. = -12.7 DEGREES REMARK 500 GLU A 153 CG - CD - OE2 ANGL. DEV. = 14.9 DEGREES REMARK 500 ARG A 171 NE - CZ - NH2 ANGL. DEV. = 4.6 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 10 79.24 -159.14 REMARK 500 ASN A 24 58.07 34.65 REMARK 500 ASP A 102 56.63 -155.87 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 MN A 204 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 31 OE2 REMARK 620 2 PO4 A 180 O1 92.2 REMARK 620 3 HOH A 377 O 87.0 177.8 REMARK 620 4 HOH A 378 O 164.5 95.1 85.2 REMARK 620 5 HOH A 497 O 102.4 94.3 87.9 90.7 REMARK 620 6 HOH A 500 O 69.4 87.2 90.6 97.3 171.7 REMARK 620 7 HOH A 600 O 25.4 85.4 94.7 169.2 78.5 93.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 201 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 65 OD1 REMARK 620 2 ASP A 70 OD2 163.1 REMARK 620 3 ASP A 102 OD1 86.0 80.2 REMARK 620 4 PO4 A 180 O3 99.7 91.0 93.8 REMARK 620 5 PO4 A 180 O4 95.8 100.5 159.1 65.3 REMARK 620 6 HOH A 322 O 85.9 87.7 103.0 162.6 97.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 202 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 70 OD1 REMARK 620 2 PO4 A 180 O2 95.3 REMARK 620 3 PO4 A 180 O4 96.2 64.6 REMARK 620 4 HOH A 308 O 82.5 103.7 168.2 REMARK 620 5 HOH A 315 O 90.7 160.7 96.5 95.2 REMARK 620 6 HOH A 352 O 168.1 89.4 95.6 85.8 88.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 203 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 97 OD2 REMARK 620 2 ASP A 102 OD2 90.7 REMARK 620 3 PO4 A 180 O3 169.0 89.7 REMARK 620 4 HOH A 364 O 79.4 88.6 89.6 REMARK 620 5 HOH A 416 O 90.3 178.4 89.1 90.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 206 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 142 O REMARK 620 2 GLU A 145 O 91.5 REMARK 620 3 LYS A 148 O 100.6 92.5 REMARK 620 4 HOH A 379 O 171.0 82.4 86.3 REMARK 620 5 HOH A 447 O 91.1 177.3 87.9 95.0 REMARK 620 6 HOH A 529 O 95.7 77.8 161.3 76.6 101.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 205 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 517 O REMARK 620 2 HOH A 519 O 89.6 REMARK 620 3 HOH A 564 O 80.1 83.0 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 180 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 209 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 210 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 211 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2AU6 RELATED DB: PDB REMARK 900 CATALYTIC INTERMEDIATE STRUCTURE OF THE SAME PROTEIN REMARK 900 RELATED ID: 2AU8 RELATED DB: PDB REMARK 900 CATALYTIC INTERMEDIATE STRUCTURE OF THE SAME PROTEIN REMARK 900 RELATED ID: 2AU9 RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH SUBSTRATE REMARK 999 REMARK 999 SEQUENCE REMARK 999 THERE IS THR IN THE POSITION 85 ACCORDING TO: REMARK 999 OGANESSYAN V.YU., KURILOVA S.A., VOROBEVA N.N., REMARK 999 NAZAROVA T.I., POPOV A.N., LEBEDEV A.A., REMARK 999 AVAEVA S.M., HARUTYUNYAN E.H.(1994) REMARK 999 FEBS LETT., 348, P301-304. ANALYSIS OF THE REMARK 999 DENSITY MAP SHOWS THAT RESIDUE IN THIS POSITION. DBREF 2AU7 A 1 175 UNP P0A7A9 IPYR_ECOLI 1 175 SEQADV 2AU7 GLN A 43 UNP P0A7A9 ARG 43 ENGINEERED MUTATION SEQADV 2AU7 THR A 85 UNP P0A7A9 ILE 85 SEE REMARK 999 SEQRES 1 A 175 SER LEU LEU ASN VAL PRO ALA GLY LYS ASP LEU PRO GLU SEQRES 2 A 175 ASP ILE TYR VAL VAL ILE GLU ILE PRO ALA ASN ALA ASP SEQRES 3 A 175 PRO ILE LYS TYR GLU ILE ASP LYS GLU SER GLY ALA LEU SEQRES 4 A 175 PHE VAL ASP GLN PHE MET SER THR ALA MET PHE TYR PRO SEQRES 5 A 175 CYS ASN TYR GLY TYR ILE ASN HIS THR LEU SER LEU ASP SEQRES 6 A 175 GLY ASP PRO VAL ASP VAL LEU VAL PRO THR PRO TYR PRO SEQRES 7 A 175 LEU GLN PRO GLY SER VAL THR ARG CYS ARG PRO VAL GLY SEQRES 8 A 175 VAL LEU LYS MET THR ASP GLU ALA GLY GLU ASP ALA LYS SEQRES 9 A 175 LEU VAL ALA VAL PRO HIS SER LYS LEU SER LYS GLU TYR SEQRES 10 A 175 ASP HIS ILE LYS ASP VAL ASN ASP LEU PRO GLU LEU LEU SEQRES 11 A 175 LYS ALA GLN ILE ALA HIS PHE PHE GLU HIS TYR LYS ASP SEQRES 12 A 175 LEU GLU LYS GLY LYS TRP VAL LYS VAL GLU GLY TRP GLU SEQRES 13 A 175 ASN ALA GLU ALA ALA LYS ALA GLU ILE VAL ALA SER PHE SEQRES 14 A 175 GLU ARG ALA LYS ASN LYS HET PO4 A 180 5 HET MN A 201 1 HET MN A 202 1 HET MN A 203 1 HET MN A 204 1 HET MN A 205 1 HET NA A 206 1 HET CL A 208 1 HET CL A 209 1 HET CL A 210 1 HET CL A 211 1 HETNAM PO4 PHOSPHATE ION HETNAM MN MANGANESE (II) ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION FORMUL 2 PO4 O4 P 3- FORMUL 3 MN 5(MN 2+) FORMUL 8 NA NA 1+ FORMUL 9 CL 4(CL 1-) FORMUL 13 HOH *316(H2 O) HELIX 1 1 SER A 1 VAL A 5 5 5 HELIX 2 2 ASP A 122 LEU A 126 5 5 HELIX 3 3 PRO A 127 TYR A 141 1 15 HELIX 4 4 ASN A 157 LYS A 175 1 19 SHEET 1 A 8 GLY A 100 GLU A 101 0 SHEET 2 A 8 VAL A 150 GLU A 156 0 SHEET 3 A 8 ILE A 15 ILE A 21 0 SHEET 4 A 8 ASN A 54 TYR A 57 -1 O TYR A 55 N ILE A 21 SHEET 5 A 8 ASP A 70 VAL A 73 -1 O VAL A 71 N GLY A 56 SHEET 6 A 8 LYS A 104 PRO A 109 1 O LEU A 105 N LEU A 72 SHEET 7 A 8 VAL A 84 ASP A 97 -1 N LEU A 93 O LYS A 104 SHEET 8 A 8 VAL A 150 GLU A 156 -1 O GLY A 154 N LYS A 94 SHEET 1 B 2 ILE A 28 ILE A 32 0 SHEET 2 B 2 LEU A 39 PHE A 44 -1 O GLN A 43 N LYS A 29 LINK OE2AGLU A 31 MN MN A 204 1555 1555 2.21 LINK OD1 ASP A 65 MN MN A 201 1555 1555 2.17 LINK OD2 ASP A 70 MN MN A 201 1555 1555 2.15 LINK OD1 ASP A 70 MN MN A 202 1555 1555 2.10 LINK OD2 ASP A 97 MN MN A 203 1555 1555 2.14 LINK OD1 ASP A 102 MN MN A 201 1555 1555 2.11 LINK OD2 ASP A 102 MN MN A 203 1555 1555 2.13 LINK O LYS A 142 NA NA A 206 1555 1555 2.48 LINK O GLU A 145 NA NA A 206 1555 1555 2.35 LINK O LYS A 148 NA NA A 206 1555 1555 2.29 LINK O3 PO4 A 180 MN MN A 201 1555 1555 2.30 LINK O4 PO4 A 180 MN MN A 201 1555 1555 2.24 LINK O2 PO4 A 180 MN MN A 202 1555 1555 2.30 LINK O4 PO4 A 180 MN MN A 202 1555 1555 2.28 LINK O3 PO4 A 180 MN MN A 203 1555 1555 2.16 LINK O1 PO4 A 180 MN MN A 204 1555 1555 2.17 LINK MN MN A 201 O HOH A 322 1555 1555 2.19 LINK MN MN A 202 O HOH A 308 1555 1555 2.13 LINK MN MN A 202 O HOH A 315 1555 1555 2.17 LINK MN MN A 202 O HOH A 352 1555 1555 2.16 LINK MN MN A 203 O HOH A 364 1555 1555 2.29 LINK MN MN A 203 O HOH A 416 1555 1555 2.21 LINK MN MN A 204 O HOH A 377 1555 1555 2.35 LINK MN MN A 204 O HOH A 378 1555 1555 2.46 LINK MN MN A 204 O HOH A 497 1555 1555 2.17 LINK MN MN A 204 O BHOH A 500 1555 1555 2.01 LINK MN MN A 204 O BHOH A 600 1555 1555 2.38 LINK MN A MN A 205 O AHOH A 517 1555 1555 2.14 LINK MN A MN A 205 O HOH A 519 1555 1555 2.12 LINK MN A MN A 205 O AHOH A 564 1555 1555 1.90 LINK NA NA A 206 O HOH A 379 1555 1555 2.62 LINK NA NA A 206 O HOH A 447 1555 1555 2.36 LINK NA NA A 206 O HOH A 529 1555 1555 2.44 CISPEP 1 LEU A 11 PRO A 12 0 -3.49 SITE 1 AC1 16 LYS A 29 GLU A 31 TYR A 55 ASP A 65 SITE 2 AC1 16 ASP A 67 ASP A 70 ASP A 102 LYS A 104 SITE 3 AC1 16 MN A 201 MN A 202 MN A 203 MN A 204 SITE 4 AC1 16 CL A 208 HOH A 416 HOH A 500 HOH A 600 SITE 1 AC2 5 ASP A 65 ASP A 70 ASP A 102 PO4 A 180 SITE 2 AC2 5 HOH A 322 SITE 1 AC3 5 ASP A 70 PO4 A 180 HOH A 308 HOH A 315 SITE 2 AC3 5 HOH A 352 SITE 1 AC4 6 ASP A 97 ASP A 102 PO4 A 180 CL A 208 SITE 2 AC4 6 HOH A 364 HOH A 416 SITE 1 AC5 8 GLU A 31 ASP A 67 PO4 A 180 HOH A 377 SITE 2 AC5 8 HOH A 378 HOH A 497 HOH A 500 HOH A 600 SITE 1 AC6 3 HOH A 517 HOH A 519 HOH A 564 SITE 1 AC7 6 LYS A 142 GLU A 145 LYS A 148 HOH A 379 SITE 2 AC7 6 HOH A 447 HOH A 529 SITE 1 AC8 6 ASP A 97 ASP A 102 LYS A 104 TYR A 141 SITE 2 AC8 6 PO4 A 180 MN A 203 SITE 1 AC9 4 ALA A 7 HIS A 60 HOH A 572 HOH A 605 SITE 1 BC1 4 LYS A 131 ALA A 132 TRP A 155 HOH A 584 SITE 1 BC2 3 ARG A 88 HIS A 110 SER A 111 CRYST1 110.985 110.985 73.054 90.00 90.00 120.00 H 3 2 18 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 0.009010 0.005202 0.000000 0.00000 SCALE2 0.000000 0.010404 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013689 0.00000