HEADER HYDROLASE 26-APR-12 4ARU TITLE HAFNIA ALVEI PHYTASE IN COMPLEX WITH TARTRATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTIDINE ACID PHOSPHATASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 34-446; COMPND 5 SYNONYM: PHYTASE; COMPND 6 EC: 3.1.3.26; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HAFNIA ALVEI; SOURCE 3 ORGANISM_TAXID: 569; SOURCE 4 EXPRESSION_SYSTEM: ASPERGILLUS ORYZAE; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 5062 KEYWDS HYDROLASE, 6-PHYTASE, PHOSPHOHYDROLASE, HAPP EXPDTA X-RAY DIFFRACTION AUTHOR A.ARIZA,O.V.MOROZ,E.B.BLAGOVA,J.P.TURKENBURG,J.VEVODOVA,S.ROBERTS, AUTHOR 2 J.VIND,C.SJOHOLM,S.F.LASSEN,L.DE MARIA,V.GLITSOE,L.K.SKOV, AUTHOR 3 K.S.WILSON REVDAT 3 05-FEB-14 4ARU 1 JRNL REVDAT 2 19-JUN-13 4ARU 1 JRNL FORMUL REVDAT 1 08-MAY-13 4ARU 0 JRNL AUTH A.ARIZA,O.V.MOROZ,E.V.BLAGOVA,J.P.TURKENBURG,J.WATERMAN, JRNL AUTH 2 S.M.ROBERTS,J.VIND,C.SJOHOLM,S.F.LASSEN,L.DE MARIA, JRNL AUTH 3 V.GLITSOE,L.K.SKOV,K.S.WILSON JRNL TITL DEGRADATION OF PHYTATE BY THE 6-PHYTASE FROM HAFNIA ALVEI: JRNL TITL 2 A COMBINED STRUCTURAL AND SOLUTION STUDY. JRNL REF PLOS ONE V. 8 65062 2013 JRNL REFN ISSN 1932-6203 JRNL PMID 23741456 JRNL DOI 10.1371/JOURNAL.PONE.0065062 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU, REMARK 3 STEINER,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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.98 REMARK 3 NUMBER OF REFLECTIONS : 73569 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) : 0.16306 REMARK 3 R VALUE (WORKING SET) : 0.16170 REMARK 3 FREE R VALUE : 0.18865 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.0 REMARK 3 FREE R VALUE TEST SET COUNT : 3895 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) : 1.449 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.487 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5423 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.289 REMARK 3 BIN FREE R VALUE SET COUNT : 264 REMARK 3 BIN FREE R VALUE : 0.310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3129 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 664 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.54 REMARK 3 B22 (A**2) : 0.91 REMARK 3 B33 (A**2) : -0.37 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.063 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.065 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.042 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.132 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3415 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3218 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4695 ; 1.631 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7445 ; 0.825 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 454 ; 5.976 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 153 ;35.496 ;24.706 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 557 ;12.023 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;15.541 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 520 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3970 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 782 ; 0.001 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 24 REMARK 3 RESIDUE RANGE : A 46 A 136 REMARK 3 RESIDUE RANGE : A 265 A 413 REMARK 3 ORIGIN FOR THE GROUP (A): -10.4025 -26.9631 5.1279 REMARK 3 T TENSOR REMARK 3 T11: 0.0062 T22: 0.0160 REMARK 3 T33: 0.0103 T12: -0.0070 REMARK 3 T13: -0.0018 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 0.7076 L22: 0.7736 REMARK 3 L33: 1.0183 L12: -0.0854 REMARK 3 L13: 0.0262 L23: -0.3079 REMARK 3 S TENSOR REMARK 3 S11: -0.0290 S12: 0.0410 S13: 0.0523 REMARK 3 S21: -0.0061 S22: -0.0028 S23: -0.0693 REMARK 3 S31: -0.0636 S32: 0.0744 S33: 0.0319 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 25 A 45 REMARK 3 RESIDUE RANGE : A 137 A 264 REMARK 3 ORIGIN FOR THE GROUP (A): -31.8720 -37.6486 16.9181 REMARK 3 T TENSOR REMARK 3 T11: 0.0143 T22: 0.0435 REMARK 3 T33: 0.0133 T12: -0.0024 REMARK 3 T13: 0.0067 T23: -0.0173 REMARK 3 L TENSOR REMARK 3 L11: 1.2467 L22: 0.9998 REMARK 3 L33: 0.8709 L12: -0.2165 REMARK 3 L13: -0.0018 L23: -0.3940 REMARK 3 S TENSOR REMARK 3 S11: -0.0164 S12: -0.0890 S13: -0.0145 REMARK 3 S21: 0.1016 S22: -0.0006 S23: 0.0695 REMARK 3 S31: 0.0010 S32: -0.1124 S33: 0.0169 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES WITH TLS ADDED HYDROGENS HAVE REMARK 3 BEEN ADDED IN THE RIDING POSITIONS REMARK 4 REMARK 4 4ARU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-MAR-13. REMARK 100 THE PDBE ID CODE IS EBI-52239. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 120 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0723 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD (QUANTUM 315R) REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77478 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.45 REMARK 200 RESOLUTION RANGE LOW (A) : 54.76 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.90 REMARK 200 DATA REDUNDANCY : 13.2 REMARK 200 R MERGE (I) : 0.12 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.90 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 11.0 REMARK 200 R MERGE FOR SHELL (I) : 1.09 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.50 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 4ARS REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 7.7MG/ML PROTEIN MIXED WITH REMARK 280 MIHS AT 3:1 MOLAR RATIO; CONDITION H2 OF INDEX SCREEN, REMARK 280 0.2M POTASSIUM SODIUM TARTRATE; 20% PEG 3350 PH 8.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 42.47300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.47300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 50.52750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.69950 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 50.52750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.69950 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 42.47300 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 50.52750 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 50.69950 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 42.47300 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 50.52750 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 50.69950 REMARK 290 SMTRY3 8 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: 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 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 A2578 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 SER A 1 REMARK 465 ASP A 2 REMARK 465 THR A 3 REMARK 465 ASN A 184 REMARK 465 ILE A 185 REMARK 465 GLY A 186 REMARK 465 LYS A 187 REMARK 465 LEU A 188 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 NH1B ARG A 32 O HOH A 2082 2.09 REMARK 500 OG1 THR A 81 O A HOH A 2217 2.06 REMARK 500 OD2B ASP A 111 O HOH A 2280 2.13 REMARK 500 CG B ASP A 293 O HOH A 2533 1.84 REMARK 500 OD1B ASP A 293 O HOH A 2531 1.54 REMARK 500 OD1B ASP A 293 O HOH A 2533 1.80 REMARK 500 OD2B ASP A 293 O HOH A 2533 1.50 REMARK 500 O B HOH A 2009 O B HOH A 2010 1.59 REMARK 500 O HOH A 2028 O HOH A 2030 2.19 REMARK 500 O B HOH A 2043 O HOH A 2045 0.00 REMARK 500 O HOH A 2057 O HOH A 2058 2.17 REMARK 500 O B HOH A 2087 O HOH A 2088 0.00 REMARK 500 O B HOH A 2101 O HOH A 2102 1.51 REMARK 500 O HOH A 2102 O A HOH A 2106 1.98 REMARK 500 O B HOH A 2161 O HOH A 2164 0.00 REMARK 500 O A HOH A 2217 O HOH A 2218 1.34 REMARK 500 O B HOH A 2462 O B HOH A 2463 0.00 REMARK 500 O HOH A 2560 O B HOH A 2562 0.52 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE1 GLN A 118 O41 TLA A 1415 3555 2.18 REMARK 500 O1 TLA A 1415 C3 TLA A 1415 3555 1.99 REMARK 500 O1 TLA A 1415 C4 TLA A 1415 3555 0.82 REMARK 500 O1 TLA A 1415 O4 TLA A 1415 3555 1.81 REMARK 500 O1 TLA A 1415 O41 TLA A 1415 3555 0.51 REMARK 500 O11 TLA A 1415 O2 TLA A 1415 3555 1.77 REMARK 500 O11 TLA A 1415 C4 TLA A 1415 3555 1.99 REMARK 500 O11 TLA A 1415 O4 TLA A 1415 3555 1.60 REMARK 500 C1 TLA A 1415 C2 TLA A 1415 3555 2.16 REMARK 500 C1 TLA A 1415 O2 TLA A 1415 3555 1.56 REMARK 500 C1 TLA A 1415 C3 TLA A 1415 3555 1.98 REMARK 500 C1 TLA A 1415 C4 TLA A 1415 3555 0.74 REMARK 500 C1 TLA A 1415 O4 TLA A 1415 3555 0.95 REMARK 500 C1 TLA A 1415 O41 TLA A 1415 3555 1.45 REMARK 500 C2 TLA A 1415 C2 TLA A 1415 3555 0.76 REMARK 500 C2 TLA A 1415 O2 TLA A 1415 3555 1.09 REMARK 500 C2 TLA A 1415 C3 TLA A 1415 3555 1.43 REMARK 500 C2 TLA A 1415 C4 TLA A 1415 3555 1.45 REMARK 500 C2 TLA A 1415 O4 TLA A 1415 3555 1.35 REMARK 500 O2 TLA A 1415 C3 TLA A 1415 3555 0.74 REMARK 500 O2 TLA A 1415 O3 TLA A 1415 3555 1.55 REMARK 500 O2 TLA A 1415 C4 TLA A 1415 3555 2.05 REMARK 500 O HOH A 2014 O HOH A 2014 4545 0.70 REMARK 500 O A HOH A 2020 O B HOH A 2020 6444 0.00 REMARK 500 O HOH A 2112 O HOH A 2112 3555 0.83 REMARK 500 O HOH A 2221 O HOH A 2221 4545 0.94 REMARK 500 O A HOH A 2250 O B HOH A 2250 3555 0.00 REMARK 500 O A HOH A 2295 O A HOH A 2295 4545 2.20 REMARK 500 O A HOH A 2295 O B HOH A 2295 4545 0.00 REMARK 500 O B HOH A 2295 O B HOH A 2295 4545 2.20 REMARK 500 O B HOH A 2339 O A HOH A 2624 6445 1.93 REMARK 500 O B HOH A 2462 O A HOH A 2470 4545 1.61 REMARK 500 O B HOH A 2463 O A HOH A 2470 4545 1.61 REMARK 500 O B HOH A 2582 O B HOH A 2582 3554 2.00 REMARK 500 O A HOH A 2583 O A HOH A 2583 3554 1.32 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 52 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 MET A 354 CG - SD - CE ANGL. DEV. = -10.0 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 ASN A 78 167.18 63.91 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 K A1417 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 380 OD1 REMARK 620 2 HOH A2629 O 108.0 REMARK 620 3 HOH A2636 O 90.9 85.8 REMARK 620 4 ILE A 381 O 91.6 90.6 176.1 REMARK 620 5 CYS A 384 O 166.2 83.9 97.0 81.2 REMARK 620 6 GLN A 387 OE1 71.3 168.0 106.1 77.5 95.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1416 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2440 O REMARK 620 2 HOH A2076 O 113.5 REMARK 620 3 ARG A 22 NH1 108.8 134.8 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 TLA A1414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TLA A1415 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A1416 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A1417 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1418 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1419 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4ARO RELATED DB: PDB REMARK 900 HAFNIA ALVEI PHYTASE IN COMPLEX WITH MYO-INOSITOL REMARK 900 HEXAKIS SULPHATE REMARK 900 RELATED ID: 4ARS RELATED DB: PDB REMARK 900 HAFNIA ALVEI PHYTASE APO FORM REMARK 900 RELATED ID: 4ARV RELATED DB: PDB REMARK 900 YERSINIA KRISTENSENII PHYTASE APO FORM REMARK 999 REMARK 999 SEQUENCE REMARK 999 EUROPEAN NUCLEOTIDE ARCHIVE JQ394762 REMARK 999 LYS12ARG NATURAL SUBSTUTION IN THIS SAMPLE DBREF 4ARU A 1 413 UNP G9Y2J2 G9Y2J2_HAFAL 34 446 SEQADV 4ARU ARG A 12 UNP G9Y2J2 LYS 45 SEE REMARK 999 SEQRES 1 A 413 SER ASP THR ALA PRO ALA GLY PHE GLN LEU GLU ARG VAL SEQRES 2 A 413 VAL ILE LEU SER ARG HIS GLY VAL ARG ALA PRO THR LYS SEQRES 3 A 413 MET THR GLN THR MET ARG ASP VAL THR PRO HIS GLN TRP SEQRES 4 A 413 PRO GLU TRP PRO VAL LYS LEU GLY TYR ILE THR PRO ARG SEQRES 5 A 413 GLY GLU HIS LEU ILE SER LEU MET GLY GLY PHE TYR ARG SEQRES 6 A 413 GLU ARG PHE GLN GLN GLN GLY LEU LEU PRO LYS ASP ASN SEQRES 7 A 413 CYS PRO THR PRO ASP ALA VAL TYR VAL TRP ALA ASP VAL SEQRES 8 A 413 ASP GLN ARG THR ARG LYS THR GLY GLU ALA PHE LEU ALA SEQRES 9 A 413 GLY LEU ALA PRO GLN CYS ASP LEU ALA ILE HIS HIS GLN SEQRES 10 A 413 GLN ASN THR GLN GLN ALA ASP PRO LEU PHE HIS PRO VAL SEQRES 11 A 413 LYS ALA GLY ILE CYS SER MET ASP LYS SER GLN VAL HIS SEQRES 12 A 413 ALA ALA VAL GLU LYS GLN ALA GLY THR PRO ILE GLU THR SEQRES 13 A 413 LEU ASN GLN ARG TYR GLN ALA SER LEU ALA LEU MET SER SEQRES 14 A 413 SER VAL LEU ASP PHE PRO LYS SER PRO TYR CYS GLN GLN SEQRES 15 A 413 HIS ASN ILE GLY LYS LEU CYS ASP PHE SER GLN ALA MET SEQRES 16 A 413 PRO SER ARG LEU ALA ILE ASN ASP ASP GLY ASN LYS VAL SEQRES 17 A 413 ALA LEU GLU GLY ALA VAL GLY LEU ALA SER THR LEU ALA SEQRES 18 A 413 GLU ILE PHE LEU LEU GLU HIS ALA GLN GLY MET PRO LYS SEQRES 19 A 413 VAL ALA TRP GLY ASN ILE HIS THR GLU GLN GLN TRP ASN SEQRES 20 A 413 SER LEU LEU LYS LEU HIS ASN ALA GLN PHE ASP LEU MET SEQRES 21 A 413 SER ARG THR PRO TYR ILE ALA LYS HIS ASN GLY THR PRO SEQRES 22 A 413 LEU LEU GLN THR ILE ALA HIS ALA LEU GLY SER ASN ILE SEQRES 23 A 413 THR SER ARG PRO LEU PRO ASP ILE SER PRO ASP ASN LYS SEQRES 24 A 413 ILE LEU PHE ILE ALA GLY HIS ASP THR ASN ILE ALA ASN SEQRES 25 A 413 ILE SER GLY MET LEU GLY MET THR TRP THR LEU PRO GLY SEQRES 26 A 413 GLN PRO ASP ASN THR PRO PRO GLY GLY ALA LEU VAL PHE SEQRES 27 A 413 GLU ARG TRP VAL ASP ASN ALA GLY LYS PRO TYR VAL SER SEQRES 28 A 413 VAL ASN MET VAL TYR GLN THR LEU ALA GLN LEU HIS ASP SEQRES 29 A 413 GLN ALA PRO LEU THR LEU GLN HIS PRO ALA GLY SER VAL SEQRES 30 A 413 ARG LEU ASN ILE PRO GLY CYS SER ASP GLN THR PRO ASP SEQRES 31 A 413 GLY TYR CYS PRO LEU SER THR PHE SER ARG LEU VAL SER SEQRES 32 A 413 HIS SER VAL GLU PRO ALA CYS GLN LEU PRO HET TLA A1414 10 HET TLA A1415 10 HET NA A1416 1 HET K A1417 1 HET CL A1418 1 HET CL A1419 1 HETNAM K POTASSIUM ION HETNAM TLA L(+)-TARTARIC ACID HETNAM NA SODIUM ION HETNAM K POTASSIUM ION HETNAM CL CHLORIDE ION FORMUL 2 TLA 2(C4 H6 O6) FORMUL 4 NA NA 1+ FORMUL 5 K K 1+ FORMUL 3 CL 2(CL 1-) FORMUL 6 HOH *664(H2 O) HELIX 1 1 THR A 28 VAL A 34 1 7 HELIX 2 2 THR A 50 GLN A 71 1 22 HELIX 3 3 THR A 81 ASP A 83 5 3 HELIX 4 4 ASP A 92 ALA A 107 1 16 HELIX 5 5 ASP A 138 GLY A 151 1 14 HELIX 6 6 PRO A 153 ARG A 160 5 8 HELIX 7 7 TYR A 161 ASP A 173 1 13 HELIX 8 8 PHE A 174 LYS A 176 5 3 HELIX 9 9 SER A 177 HIS A 183 1 7 HELIX 10 10 ASP A 190 MET A 195 1 6 HELIX 11 11 GLY A 212 GLN A 230 1 19 HELIX 12 12 VAL A 235 ASN A 239 5 5 HELIX 13 13 THR A 242 SER A 261 1 20 HELIX 14 14 THR A 263 GLY A 283 1 21 HELIX 15 15 HIS A 306 GLY A 318 1 13 HELIX 16 16 THR A 358 ASP A 364 1 7 HELIX 17 17 LEU A 395 VAL A 406 1 12 HELIX 18 18 GLU A 407 GLN A 411 5 5 SHEET 1 AA 7 HIS A 115 HIS A 116 0 SHEET 2 AA 7 VAL A 85 ALA A 89 1 O VAL A 87 N HIS A 115 SHEET 3 AA 7 ILE A 300 GLY A 305 1 O ILE A 300 N TYR A 86 SHEET 4 AA 7 GLN A 9 ARG A 18 1 O VAL A 13 N LEU A 301 SHEET 5 AA 7 ALA A 335 VAL A 342 -1 O LEU A 336 N LEU A 16 SHEET 6 AA 7 PRO A 348 TYR A 356 -1 O TYR A 349 N TRP A 341 SHEET 7 AA 7 GLY A 375 ARG A 378 -1 O GLY A 375 N TYR A 356 SHEET 1 AB 7 HIS A 115 HIS A 116 0 SHEET 2 AB 7 VAL A 85 ALA A 89 1 O VAL A 87 N HIS A 115 SHEET 3 AB 7 ILE A 300 GLY A 305 1 O ILE A 300 N TYR A 86 SHEET 4 AB 7 GLN A 9 ARG A 18 1 O VAL A 13 N LEU A 301 SHEET 5 AB 7 ALA A 335 VAL A 342 -1 O LEU A 336 N LEU A 16 SHEET 6 AB 7 PRO A 348 TYR A 356 -1 O TYR A 349 N TRP A 341 SHEET 7 AB 7 CYS A 393 PRO A 394 -1 O CYS A 393 N VAL A 350 SHEET 1 AC 2 GLY A 375 ARG A 378 0 SHEET 2 AC 2 PRO A 348 TYR A 356 -1 O MET A 354 N VAL A 377 SHEET 1 AD 2 ARG A 198 ILE A 201 0 SHEET 2 AD 2 VAL A 208 GLU A 211 -1 O ALA A 209 N ALA A 200 SSBOND 1 CYS A 79 CYS A 110 1555 1555 2.04 SSBOND 2 CYS A 135 CYS A 410 1555 1555 2.10 SSBOND 3 CYS A 180 CYS A 189 1555 1555 2.06 SSBOND 4 CYS A 384 CYS A 393 1555 1555 2.23 LINK NA NA A1416 O HOH A2440 1555 1555 2.81 LINK NA NA A1416 NH1 ARG A 22 1555 1555 3.04 LINK NA NA A1416 O HOH A2076 1555 1555 2.78 LINK K K A1417 O ILE A 381 1555 1555 2.75 LINK K K A1417 O CYS A 384 1555 1555 2.77 LINK K K A1417 OE1 GLN A 387 1555 1555 2.82 LINK K K A1417 O HOH A2636 1555 1555 2.72 LINK K K A1417 O HOH A2629 1555 1555 2.73 LINK K K A1417 OD1 ASN A 380 1555 1555 2.64 SITE 1 AC1 10 ARG A 18 HIS A 19 ARG A 22 ARG A 94 SITE 2 AC1 10 HIS A 306 ASP A 307 HOH A2075 HOH A2312 SITE 3 AC1 10 HOH A2663 HOH A2664 SITE 1 AC2 4 ILE A 114 HIS A 115 HIS A 116 GLN A 118 SITE 1 AC3 6 ARG A 22 PRO A 24 THR A 25 ILE A 223 SITE 2 AC3 6 HOH A2076 HOH A2440 SITE 1 AC4 6 ASN A 380 ILE A 381 CYS A 384 GLN A 387 SITE 2 AC4 6 HOH A2629 HOH A2636 SITE 1 AC5 6 PRO A 51 ARG A 52 GLN A 230 HOH A2051 SITE 2 AC5 6 HOH A2063 HOH A2065 SITE 1 AC6 6 VAL A 44 LYS A 45 TYR A 48 GLN A 109 SITE 2 AC6 6 HOH A2057 HOH A2134 CRYST1 101.055 101.399 84.946 90.00 90.00 90.00 C 2 2 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 0.009896 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009862 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011772 0.00000 MASTER 489 0 6 18 18 0 12 6 0 0 0 32 END