HEADER HYDROLASE 19-JUL-11 3T00 TITLE CRYSTAL STRUCTURE OF PHOSPHONOACETATE HYDROLASE FROM SINORHIZOBIUM TITLE 2 MELILOTI 1021 IN COMPLEX WITH VANADATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHONOACETATE HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.6.1.9; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SINORHIZOBIUM MELILOTI; SOURCE 3 ORGANISM_COMMON: ENSIFER MELILOTI; SOURCE 4 ORGANISM_TAXID: 266834; SOURCE 5 STRAIN: 1021; SOURCE 6 GENE: PHNA, RB0978, SM_B21538; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS ALKALINE PHOSPHATASE SUPERFAMILY, TRANSITION STATE MIMIC, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR V.AGARWAL,S.K.NAIR REVDAT 4 13-SEP-23 3T00 1 REMARK SEQADV LINK REVDAT 3 08-NOV-17 3T00 1 REMARK REVDAT 2 09-NOV-11 3T00 1 JRNL REVDAT 1 03-AUG-11 3T00 0 JRNL AUTH V.AGARWAL,S.A.BORISOVA,W.W.METCALF,W.A.VAN DER DONK,S.K.NAIR JRNL TITL STRUCTURAL AND MECHANISTIC INSIGHTS INTO C-P BOND HYDROLYSIS JRNL TITL 2 BY PHOSPHONOACETATE HYDROLASE. JRNL REF CHEM.BIOL. V. 18 1230 2011 JRNL REFN ISSN 1074-5521 JRNL PMID 22035792 JRNL DOI 10.1016/J.CHEMBIOL.2011.07.019 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0056 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 41726 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2103 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) : 2712 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.3380 REMARK 3 BIN FREE R VALUE SET COUNT : 146 REMARK 3 BIN FREE R VALUE : 0.3740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3184 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 351 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.16000 REMARK 3 B22 (A**2) : -0.16000 REMARK 3 B33 (A**2) : 0.31000 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): 0.141 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.133 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.082 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.570 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3276 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4459 ; 1.114 ; 1.971 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 416 ; 5.159 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 145 ;32.734 ;22.966 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 518 ;12.777 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;12.898 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 495 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2531 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2071 ; 0.596 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3333 ; 1.099 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1205 ; 1.335 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1125 ; 2.297 ; 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: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 3T00 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUL-11. REMARK 100 THE DEPOSITION ID IS D_1000066864. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-DEC-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97857 REMARK 200 MONOCHROMATOR : KOHZU REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41825 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.80 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.7000 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) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.69300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 12.10 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3SZY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.74 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG3350, 0.2 M NACL, 0.1 M HEPES, REMARK 280 PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 -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 36.22050 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.56150 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.56150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 54.33075 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.56150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.56150 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 18.11025 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.56150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.56150 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 54.33075 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.56150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.56150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 18.11025 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 36.22050 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: 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ASN A 2 REMARK 465 GLN A 3 REMARK 465 GLU A 417 REMARK 465 ALA A 418 REMARK 465 GLY A 419 REMARK 465 ALA A 420 REMARK 465 GLU A 421 REMARK 465 GLY A 422 REMARK 465 GLY A 423 REMARK 465 LEU A 424 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 670 O HOH A 751 1.79 REMARK 500 O HOH A 497 O HOH A 773 1.92 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 THR A 96 -32.32 71.62 REMARK 500 MET A 102 55.30 -111.13 REMARK 500 ASN A 168 87.86 54.47 REMARK 500 THR A 209 -163.14 -121.86 REMARK 500 HIS A 295 1.23 49.70 REMARK 500 THR A 360 -88.79 -89.88 REMARK 500 ARG A 364 -35.08 96.34 REMARK 500 HIS A 365 -156.09 58.11 REMARK 500 ASN A 390 34.50 -89.81 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 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 29 OD1 REMARK 620 2 THR A 68 OG1 141.3 REMARK 620 3 ASP A 250 OD2 92.2 105.5 REMARK 620 4 HIS A 251 NE2 104.1 107.9 95.6 REMARK 620 5 VO4 A 503 O4 102.0 64.2 165.7 79.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 VO4 A 503 V REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 68 OG1 REMARK 620 2 VO4 A 503 O1 77.3 REMARK 620 3 VO4 A 503 O2 166.2 107.0 REMARK 620 4 VO4 A 503 O3 82.5 112.0 107.2 REMARK 620 5 VO4 A 503 O4 67.7 116.3 99.0 113.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 211 OD2 REMARK 620 2 HIS A 215 NE2 92.6 REMARK 620 3 HIS A 377 NE2 100.6 97.0 REMARK 620 4 VO4 A 503 O2 139.2 112.8 106.9 REMARK 620 5 VO4 A 503 O4 73.3 164.8 91.2 76.6 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE VO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 504 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3SZY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PHOSPHONOACETATE HYDROLASE FROM SINORHIZOBIUM REMARK 900 MELILOTI 1021 IN APO FORM REMARK 900 RELATED ID: 3SZZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PHOSPHONOACETATE HYDROLASE FROM SINORHIZOBIUM REMARK 900 MELILOTI 1021 IN COMPLEX WITH ACETATE REMARK 900 RELATED ID: 3T01 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PHOSPHONOACETATE HYDROLASE FROM SINORHIZOBIUM REMARK 900 MELILOTI 1021 IN COMPLEX WITH PHOSPHONOFORMATE REMARK 900 RELATED ID: 3T02 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PHOSPHONOACETATE HYDROLASE FROM SINORHIZOBIUM REMARK 900 MELILOTI 1021 IN COMPLEX WITH PHOSPHONOACETATE DBREF 3T00 A 1 424 UNP Q92UV8 Q92UV8_RHIME 1 424 SEQADV 3T00 GLY A -2 UNP Q92UV8 EXPRESSION TAG SEQADV 3T00 SER A -1 UNP Q92UV8 EXPRESSION TAG SEQADV 3T00 HIS A 0 UNP Q92UV8 EXPRESSION TAG SEQRES 1 A 427 GLY SER HIS MET ASN GLN MET SER LYS ILE SER VAL THR SEQRES 2 A 427 VAL ASN GLY ARG ARG TYR PRO TRP PRO ARG VAL PRO ALA SEQRES 3 A 427 ILE ALA VAL CYS LEU ASP GLY CYS GLU PRO ALA TYR LEU SEQRES 4 A 427 ASP ALA ALA ILE ASP ALA GLY LEU MET PRO ALA LEU LYS SEQRES 5 A 427 ARG ILE LYS GLU ARG GLY ALA VAL ARG LEU ALA HIS SER SEQRES 6 A 427 VAL ILE PRO SER PHE THR ASN PRO ASN ASN LEU SER ILE SEQRES 7 A 427 ALA THR GLY SER PRO PRO ALA VAL HIS GLY ILE CYS GLY SEQRES 8 A 427 ASN TYR LEU TYR GLU PRO SER THR GLY GLU GLU VAL MET SEQRES 9 A 427 MET ASN ASP PRO LYS PHE LEU ARG ALA PRO THR ILE PHE SEQRES 10 A 427 GLN ALA PHE TYR ASP ALA GLY ALA ARG VAL ALA VAL VAL SEQRES 11 A 427 THR ALA LYS ASP LYS LEU ARG ALA LEU LEU GLY LYS GLY SEQRES 12 A 427 LEU ARG PHE ASP GLU GLY ARG ALA VAL CYS PHE SER SER SEQRES 13 A 427 GLU LYS SER ASP LYS ALA THR ARG ALA GLU HIS GLY ILE SEQRES 14 A 427 ASP ASN ALA SER ALA TRP LEU GLY ARG PRO VAL PRO GLU SEQRES 15 A 427 VAL TYR SER ALA ALA LEU SER GLU PHE VAL PHE ALA ALA SEQRES 16 A 427 GLY VAL LYS LEU LEU ARG GLU PHE ARG PRO ASP ILE MET SEQRES 17 A 427 TYR LEU THR THR THR ASP TYR VAL GLN HIS LYS TYR ALA SEQRES 18 A 427 PRO GLY VAL PRO GLU ALA ASN SER PHE TYR GLU MET PHE SEQRES 19 A 427 ASP ARG TYR LEU ALA GLU LEU ASP GLY LEU GLY ALA ALA SEQRES 20 A 427 ILE VAL VAL THR ALA ASP HIS GLY MET LYS PRO LYS HIS SEQRES 21 A 427 LYS ALA ASP GLY SER PRO ASP VAL ILE TYR VAL GLN ASP SEQRES 22 A 427 LEU LEU ASP GLU TRP LEU GLY LYS ASP ALA ALA ARG VAL SEQRES 23 A 427 ILE LEU PRO ILE THR ASP PRO TYR VAL VAL HIS HIS GLY SEQRES 24 A 427 ALA LEU GLY SER PHE ALA THR ALA TYR LEU PRO ASP GLY SEQRES 25 A 427 CYS ASP ARG SER GLU ILE MET ALA ARG LEU LYS ALA ILE SEQRES 26 A 427 GLN GLY VAL ASP VAL VAL LEU GLY ARG GLU GLU ALA CYS SEQRES 27 A 427 ARG ARG PHE GLU LEU PRO GLU ASP ARG ILE GLY ASP ILE SEQRES 28 A 427 VAL LEU VAL SER SER GLU ASN LYS THR LEU GLY THR SER SEQRES 29 A 427 GLU HIS ARG HIS ASP LEU ALA ALA LEU ASP GLU PRO LEU SEQRES 30 A 427 ARG SER HIS GLY GLY LEU THR GLU GLN GLU VAL PRO PHE SEQRES 31 A 427 ILE VAL ASN ARG VAL LEU PRO GLU LEU PRO ASN ALA PRO SEQRES 32 A 427 ARG LEU ARG ASN PHE ASP ALA PHE PHE TYR ALA VAL THR SEQRES 33 A 427 ALA ALA ALA GLU ALA GLY ALA GLU GLY GLY LEU HET ZN A 501 1 HET ZN A 502 1 HET VO4 A 503 5 HET NI A 504 1 HETNAM ZN ZINC ION HETNAM VO4 VANADATE ION HETNAM NI NICKEL (II) ION FORMUL 2 ZN 2(ZN 2+) FORMUL 4 VO4 O4 V 3- FORMUL 5 NI NI 2+ FORMUL 6 HOH *351(H2 O) HELIX 1 1 GLU A 32 ALA A 42 1 11 HELIX 2 2 MET A 45 GLY A 55 1 11 HELIX 3 3 PHE A 67 GLY A 78 1 12 HELIX 4 4 PRO A 80 GLY A 85 1 6 HELIX 5 5 ASP A 104 LEU A 108 5 5 HELIX 6 6 THR A 112 ALA A 120 1 9 HELIX 7 7 LYS A 130 GLY A 138 1 9 HELIX 8 8 LYS A 155 ALA A 159 5 5 HELIX 9 9 THR A 160 GLY A 165 1 6 HELIX 10 10 ASN A 168 GLY A 174 1 7 HELIX 11 11 ALA A 183 PHE A 200 1 18 HELIX 12 12 ASP A 211 TYR A 217 1 7 HELIX 13 13 VAL A 221 LEU A 241 1 21 HELIX 14 14 VAL A 268 GLY A 277 1 10 HELIX 15 15 ASP A 311 ALA A 321 1 11 HELIX 16 16 ARG A 331 GLU A 339 1 9 HELIX 17 17 PRO A 341 ILE A 345 5 5 HELIX 18 18 GLY A 379 GLU A 382 5 4 HELIX 19 19 ARG A 403 PHE A 405 5 3 HELIX 20 20 ASP A 406 ALA A 416 1 11 SHEET 1 A 2 SER A 8 VAL A 11 0 SHEET 2 A 2 ARG A 14 PRO A 17 -1 O TYR A 16 N VAL A 9 SHEET 1 B 7 ALA A 56 HIS A 61 0 SHEET 2 B 7 GLU A 384 VAL A 389 -1 O VAL A 385 N ALA A 60 SHEET 3 B 7 ALA A 244 THR A 248 -1 N VAL A 247 O ILE A 388 SHEET 4 B 7 ALA A 23 CYS A 27 1 N ILE A 24 O ALA A 244 SHEET 5 B 7 ILE A 204 THR A 208 1 O LEU A 207 N CYS A 27 SHEET 6 B 7 VAL A 124 THR A 128 1 N VAL A 127 O TYR A 206 SHEET 7 B 7 ALA A 148 SER A 152 1 O VAL A 149 N VAL A 126 SHEET 1 C 2 TYR A 90 TYR A 92 0 SHEET 2 C 2 GLU A 99 MET A 101 -1 O VAL A 100 N LEU A 91 SHEET 1 D 2 LYS A 254 PRO A 255 0 SHEET 2 D 2 ARG A 375 SER A 376 -1 O SER A 376 N LYS A 254 SHEET 1 E 2 VAL A 265 TYR A 267 0 SHEET 2 E 2 THR A 357 GLY A 359 1 O GLY A 359 N ILE A 266 SHEET 1 F 4 ARG A 282 ILE A 284 0 SHEET 2 F 4 PHE A 301 TYR A 305 -1 O THR A 303 N ILE A 284 SHEET 3 F 4 ILE A 348 SER A 352 -1 O LEU A 350 N ALA A 302 SHEET 4 F 4 VAL A 325 GLY A 330 -1 N LEU A 329 O VAL A 349 LINK OD1 ASP A 29 ZN ZN A 501 1555 1555 2.00 LINK OG1 THR A 68 ZN ZN A 501 1555 1555 2.26 LINK OG1 THR A 68 V VO4 A 503 1555 1555 2.04 LINK OD2 ASP A 211 ZN ZN A 502 1555 1555 1.82 LINK NE2 HIS A 215 ZN ZN A 502 1555 1555 2.12 LINK OD2 ASP A 250 ZN ZN A 501 1555 1555 2.26 LINK NE2 HIS A 251 ZN ZN A 501 1555 1555 2.19 LINK NE2 HIS A 377 ZN ZN A 502 1555 1555 2.06 LINK ZN ZN A 501 O4 VO4 A 503 1555 1555 1.81 LINK ZN ZN A 502 O2 VO4 A 503 1555 1555 1.97 LINK ZN ZN A 502 O4 VO4 A 503 1555 1555 2.63 CISPEP 1 ILE A 64 PRO A 65 0 6.23 CISPEP 2 ALA A 399 PRO A 400 0 5.28 SITE 1 AC1 5 ASP A 29 THR A 68 ASP A 250 HIS A 251 SITE 2 AC1 5 VO4 A 503 SITE 1 AC2 4 ASP A 211 HIS A 215 HIS A 377 VO4 A 503 SITE 1 AC3 9 ASP A 29 THR A 68 ASP A 211 HIS A 215 SITE 2 AC3 9 HIS A 251 HIS A 377 HOH A 465 ZN A 501 SITE 3 AC3 9 ZN A 502 SITE 1 AC4 2 ARG A 175 PHE A 188 CRYST1 111.123 111.123 72.441 90.00 90.00 90.00 P 43 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 0.008999 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008999 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013804 0.00000