HEADER HYDROLASE 23-JUN-15 5A60 TITLE CRYSTAL STRUCTURE OF FULL-LENGTH E. COLI YGIF IN COMPLEX WITH TITLE 2 TRIPOLYPHOSPHATE AND TWO MAGNESIUM IONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: INORGANIC TRIPHOSPHATASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.6.1.25; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VARIANT: RIL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PETM11 KEYWDS HYDROLASE, INORGANIC POLYPHOSPHATE, TRIPOLYPHOSPHATE, TRIPHOSPHATE KEYWDS 2 TUNNEL METALLOENZYMES EXPDTA X-RAY DIFFRACTION AUTHOR J.MARTINEZ,V.TRUFFAULT,M.HOTHORN REVDAT 4 06-NOV-19 5A60 1 REMARK REVDAT 3 07-OCT-15 5A60 1 JRNL REVDAT 2 12-AUG-15 5A60 1 JRNL REVDAT 1 05-AUG-15 5A60 0 JRNL AUTH J.MARTINEZ,V.TRUFFAULT,M.HOTHORN JRNL TITL STRUCTURAL DETERMINANTS FOR SUBSTRATE BINDING AND CATALYSIS JRNL TITL 2 IN TRIPHOSPHATE TUNNEL METALLOENZYMES. JRNL REF J.BIOL.CHEM. V. 290 23348 2015 JRNL REFN ISSN 0021-9258 JRNL PMID 26221030 JRNL DOI 10.1074/JBC.M115.674473 REMARK 2 REMARK 2 RESOLUTION. 1.82 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0107 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) : 1.82 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.88 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 47520 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.151 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2518 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) : 1.82 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3314 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.01 REMARK 3 BIN R VALUE (WORKING SET) : 0.3810 REMARK 3 BIN FREE R VALUE SET COUNT : 186 REMARK 3 BIN FREE R VALUE : 0.3900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3385 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 289 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.56000 REMARK 3 B22 (A**2) : -0.56000 REMARK 3 B33 (A**2) : 1.82000 REMARK 3 B12 (A**2) : -0.28000 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): 0.144 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.099 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.086 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.625 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.981 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.973 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3496 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3334 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4752 ; 1.149 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7640 ; 0.870 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 432 ; 5.420 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 170 ;34.360 ;24.059 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 580 ;12.340 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;13.438 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 525 ; 0.064 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3986 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 820 ; 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): 1722 ; 3.076 ; 4.840 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1721 ; 3.077 ; 4.838 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2153 ; 4.248 ; 7.259 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1774 ; 3.792 ; 5.335 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 6830 ; 1.193 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 74 ;34.338 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 6974 ;18.983 ; 5.000 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 : 8 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 1 A 28 REMARK 3 ORIGIN FOR THE GROUP (A): 20.6777 47.7245 75.4268 REMARK 3 T TENSOR REMARK 3 T11: 0.0729 T22: 0.0725 REMARK 3 T33: 0.0068 T12: -0.0128 REMARK 3 T13: 0.0014 T23: 0.0194 REMARK 3 L TENSOR REMARK 3 L11: 0.7467 L22: 0.4504 REMARK 3 L33: 0.6236 L12: -0.1885 REMARK 3 L13: 0.5350 L23: 0.1760 REMARK 3 S TENSOR REMARK 3 S11: 0.0550 S12: -0.0519 S13: -0.0288 REMARK 3 S21: 0.0009 S22: -0.0158 S23: -0.0165 REMARK 3 S31: 0.0517 S32: -0.0612 S33: -0.0392 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 : A 29 A 67 REMARK 3 ORIGIN FOR THE GROUP (A): 32.2716 59.9437 65.9808 REMARK 3 T TENSOR REMARK 3 T11: 0.0692 T22: 0.0666 REMARK 3 T33: 0.0300 T12: -0.0075 REMARK 3 T13: 0.0072 T23: 0.0033 REMARK 3 L TENSOR REMARK 3 L11: 0.3702 L22: 0.0406 REMARK 3 L33: 0.5224 L12: 0.0735 REMARK 3 L13: -0.0072 L23: 0.1136 REMARK 3 S TENSOR REMARK 3 S11: -0.0045 S12: 0.0546 S13: 0.0413 REMARK 3 S21: 0.0017 S22: 0.0228 S23: 0.0044 REMARK 3 S31: 0.0300 S32: 0.0173 S33: -0.0184 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 68 A 84 REMARK 3 ORIGIN FOR THE GROUP (A): 37.9443 51.5050 76.0587 REMARK 3 T TENSOR REMARK 3 T11: 0.0575 T22: 0.0704 REMARK 3 T33: 0.0176 T12: -0.0010 REMARK 3 T13: -0.0007 T23: -0.0008 REMARK 3 L TENSOR REMARK 3 L11: 0.4111 L22: 1.8476 REMARK 3 L33: 0.3412 L12: 0.1809 REMARK 3 L13: -0.1793 L23: -0.7490 REMARK 3 S TENSOR REMARK 3 S11: 0.0060 S12: 0.0048 S13: 0.0102 REMARK 3 S21: 0.0200 S22: -0.0243 S23: -0.0739 REMARK 3 S31: 0.0059 S32: -0.0021 S33: 0.0182 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 85 A 117 REMARK 3 ORIGIN FOR THE GROUP (A): 43.9951 65.9038 66.3039 REMARK 3 T TENSOR REMARK 3 T11: 0.0382 T22: 0.0507 REMARK 3 T33: 0.0416 T12: 0.0020 REMARK 3 T13: 0.0007 T23: -0.0088 REMARK 3 L TENSOR REMARK 3 L11: 1.3481 L22: 0.0836 REMARK 3 L33: 0.4833 L12: 0.3256 REMARK 3 L13: -0.5853 L23: -0.1112 REMARK 3 S TENSOR REMARK 3 S11: 0.0009 S12: -0.0415 S13: 0.1615 REMARK 3 S21: -0.0008 S22: 0.0134 S23: 0.0417 REMARK 3 S31: 0.0080 S32: 0.0896 S33: -0.0143 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 118 A 176 REMARK 3 ORIGIN FOR THE GROUP (A): 24.8693 51.6464 74.1479 REMARK 3 T TENSOR REMARK 3 T11: 0.0655 T22: 0.0658 REMARK 3 T33: 0.0197 T12: 0.0013 REMARK 3 T13: -0.0008 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.1525 L22: 0.0987 REMARK 3 L33: 0.1519 L12: -0.0426 REMARK 3 L13: -0.0320 L23: -0.0314 REMARK 3 S TENSOR REMARK 3 S11: -0.0052 S12: -0.0031 S13: 0.0294 REMARK 3 S21: 0.0078 S22: 0.0056 S23: 0.0143 REMARK 3 S31: -0.0068 S32: -0.0051 S33: -0.0004 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 177 A 251 REMARK 3 ORIGIN FOR THE GROUP (A): 36.4902 37.2621 71.2265 REMARK 3 T TENSOR REMARK 3 T11: 0.0682 T22: 0.0680 REMARK 3 T33: 0.0197 T12: 0.0010 REMARK 3 T13: 0.0017 T23: 0.0001 REMARK 3 L TENSOR REMARK 3 L11: 0.0551 L22: 0.0466 REMARK 3 L33: 0.0150 L12: 0.0506 REMARK 3 L13: 0.0285 L23: 0.0262 REMARK 3 S TENSOR REMARK 3 S11: -0.0034 S12: 0.0023 S13: 0.0076 REMARK 3 S21: -0.0033 S22: 0.0001 S23: 0.0073 REMARK 3 S31: 0.0023 S32: 0.0009 S33: 0.0033 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 252 A 337 REMARK 3 ORIGIN FOR THE GROUP (A): 33.9840 29.5427 84.0136 REMARK 3 T TENSOR REMARK 3 T11: 0.0667 T22: 0.0676 REMARK 3 T33: 0.0181 T12: 0.0007 REMARK 3 T13: 0.0016 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 0.1080 L22: 0.0548 REMARK 3 L33: 0.1960 L12: 0.0166 REMARK 3 L13: 0.1291 L23: 0.0069 REMARK 3 S TENSOR REMARK 3 S11: -0.0015 S12: -0.0154 S13: -0.0077 REMARK 3 S21: 0.0016 S22: 0.0010 S23: 0.0036 REMARK 3 S31: 0.0063 S32: -0.0162 S33: 0.0005 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 338 A 428 REMARK 3 ORIGIN FOR THE GROUP (A): 50.7636 16.7655 74.4400 REMARK 3 T TENSOR REMARK 3 T11: 0.0689 T22: 0.0652 REMARK 3 T33: 0.0184 T12: -0.0009 REMARK 3 T13: -0.0002 T23: -0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.0212 L22: 0.0725 REMARK 3 L33: 0.1618 L12: -0.0129 REMARK 3 L13: 0.0474 L23: 0.0151 REMARK 3 S TENSOR REMARK 3 S11: 0.0033 S12: -0.0039 S13: -0.0006 REMARK 3 S21: -0.0083 S22: -0.0058 S23: -0.0077 REMARK 3 S31: 0.0043 S32: 0.0050 S33: 0.0025 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES WITH TLS ADDED REMARK 4 REMARK 4 5A60 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-JUN-15. REMARK 100 THE DEPOSITION ID IS D_1290064160. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAR-14 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 : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000010 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : DECTRIS HYBRID PHOTON REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50673 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.820 REMARK 200 RESOLUTION RANGE LOW (A) : 48.880 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.9100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.82 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.9 REMARK 200 DATA REDUNDANCY IN SHELL : 9.06 REMARK 200 R MERGE FOR SHELL (I) : 0.94000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.180 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD, SHARP, RESOLVE, PHENIX REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3,350, 0.2 M NACL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 83.71800 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 41.85900 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 62.78850 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 20.92950 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 104.64750 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 -1 REMARK 465 HIS A 429 REMARK 465 SER A 430 REMARK 465 GLY A 431 REMARK 465 LYS A 432 REMARK 465 ARG A 433 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 134 -124.48 56.61 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 MG A 500 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 3PO A1000 O1G REMARK 620 2 3PO A1000 O1B 93.1 REMARK 620 3 3PO A1000 O5' 105.7 91.3 REMARK 620 4 GLU A 6 OE2 86.6 171.6 96.9 REMARK 620 5 GLU A 160 OE1 156.6 88.0 97.7 88.9 REMARK 620 6 GLU A 160 OE2 100.7 85.1 153.5 86.7 56.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 6 OE1 REMARK 620 2 HOH A3008 O 86.2 REMARK 620 3 GLU A 162 OE1 93.2 82.5 REMARK 620 4 HOH A3003 O 170.4 90.0 77.5 REMARK 620 5 GLU A 4 OE2 91.1 172.9 91.1 91.6 REMARK 620 6 3PO A1000 O5' 93.9 87.2 167.1 94.8 99.5 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3PO A 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 2002 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5A5Y RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ATTTM3 IN COMPLEX WITH TRIPOLYPHOSPHATE AND REMARK 900 MAGNESIUM ION (FORM A) REMARK 900 RELATED ID: 5A61 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF FULL-LENGTH E. COLI YGIF IN COMPLEX WITH REMARK 900 TRIPOLYPHOSPHATE AND TWO MANGANESE IONS. REMARK 900 RELATED ID: 5A64 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MOUSE THIAMINE TRIPHOSPHATASE IN COMPLEX WITH REMARK 900 THIAMINE TRIPHOSPHATE. REMARK 900 RELATED ID: 5A65 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MOUSE THIAMINE TRIPHOSPHATASE IN COMPLEX WITH REMARK 900 THIAMINE DIPHOSPHATE, ORTHOPHOSPHATE AND MAGNESIUM IONS. REMARK 900 RELATED ID: 5A66 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ATTTM3 IN COMPLEX WITH TRIPOLYPHOSPHATE AND REMARK 900 MANGANESE ION (FORM A) REMARK 900 RELATED ID: 5A67 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ATTTM3 IN COMPLEX WITH TRIPOLYPHOSPHATE AND REMARK 900 MANGANESE ION (FORM B) REMARK 900 RELATED ID: 5A68 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE ATTTM3 PRODUCT COMPLEX WITH TWO REMARK 900 ORTHOPHOSPHATES AND MANGANESE IONS (FORM B) DBREF 5A60 A 1 433 UNP V8FJJ2 V8FJJ2_ECOLX 1 433 SEQADV 5A60 GLY A -1 UNP V8FJJ2 EXPRESSION TAG SEQADV 5A60 ALA A 0 UNP V8FJJ2 EXPRESSION TAG SEQRES 1 A 435 GLY ALA MET ALA GLN GLU ILE GLU LEU LYS PHE ILE VAL SEQRES 2 A 435 ASN HIS SER ALA VAL GLU ALA LEU ARG ASP HIS LEU ASN SEQRES 3 A 435 THR LEU GLY GLY GLU HIS HIS ASP PRO VAL GLN LEU LEU SEQRES 4 A 435 ASN ILE TYR TYR GLU THR PRO ASP ASN TRP LEU ARG GLY SEQRES 5 A 435 HIS ASP MET GLY LEU ARG ILE ARG GLY GLU ASN GLY ARG SEQRES 6 A 435 TYR GLU MET THR MET LYS VAL ALA GLY ARG VAL THR GLY SEQRES 7 A 435 GLY LEU HIS GLN ARG PRO GLU TYR ASN VAL ALA LEU SER SEQRES 8 A 435 GLU PRO THR LEU ASP LEU ALA GLN LEU PRO THR GLU VAL SEQRES 9 A 435 TRP PRO ASN GLY GLU LEU PRO ALA ASP LEU ALA SER ARG SEQRES 10 A 435 VAL GLN PRO LEU PHE SER THR ASP PHE TYR ARG GLU LYS SEQRES 11 A 435 TRP LEU VAL ALA VAL ASP ASP SER ARG ILE GLU ILE ALA SEQRES 12 A 435 LEU ASP GLN GLY GLU VAL LYS ALA GLY GLU PHE ALA GLU SEQRES 13 A 435 PRO ILE CYS GLU LEU GLU LEU GLU LEU LEU SER GLY ASP SEQRES 14 A 435 THR ARG ALA VAL LEU LYS LEU ALA ASN GLN LEU VAL SER SEQRES 15 A 435 GLN THR GLY LEU ARG GLN GLY SER LEU SER LYS ALA ALA SEQRES 16 A 435 ARG GLY TYR HIS LEU ALA GLN GLY ASN PRO ALA ARG GLU SEQRES 17 A 435 ILE LYS PRO THR THR ILE LEU HIS VAL ALA ALA LYS ALA SEQRES 18 A 435 ASP VAL GLU GLN GLY LEU GLU ALA ALA PHE GLU LEU ALA SEQRES 19 A 435 LEU ALA GLN TRP GLN TYR HIS GLU GLU LEU TRP VAL ARG SEQRES 20 A 435 GLY ASN ASP ALA ALA LYS GLU GLN VAL LEU ALA ALA ILE SEQRES 21 A 435 GLY LEU VAL ARG HIS ALA LEU MET LEU PHE GLY GLY ILE SEQRES 22 A 435 VAL PRO ARG LYS ALA SER THR HIS LEU ARG ASP LEU LEU SEQRES 23 A 435 THR GLN CYS GLU ALA THR ILE ALA SER ALA VAL SER ALA SEQRES 24 A 435 VAL THR ALA VAL TYR SER THR GLU THR ALA MET ALA LYS SEQRES 25 A 435 LEU ALA LEU THR GLU TRP LEU VAL SER LYS ALA TRP GLN SEQRES 26 A 435 PRO PHE LEU ASP ALA LYS ALA GLN GLY LYS ILE SER ASP SEQRES 27 A 435 SER PHE LYS ARG PHE ALA ASP ILE HIS LEU SER ARG HIS SEQRES 28 A 435 ALA ALA GLU LEU LYS SER VAL PHE CYS GLN PRO LEU GLY SEQRES 29 A 435 ASP ARG TYR HIS ASP GLN LEU PRO ARG LEU THR ARG ASP SEQRES 30 A 435 ILE ASP SER ILE LEU LEU LEU ALA GLY TYR TYR ASP PRO SEQRES 31 A 435 VAL VAL ALA GLN ALA TRP LEU GLU ASN TRP GLN GLY LEU SEQRES 32 A 435 ARG HIS ALA ILE ALA THR GLY GLN ARG ILE GLU ILE GLU SEQRES 33 A 435 HIS PHE ARG ASN GLU ALA ASN ASN GLN GLU PRO PHE TRP SEQRES 34 A 435 LEU HIS SER GLY LYS ARG HET MG A 500 1 HET MG A 501 1 HET 3PO A1000 13 HET EDO A2001 4 HET EDO A2002 4 HETNAM MG MAGNESIUM ION HETNAM 3PO TRIPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 MG 2(MG 2+) FORMUL 4 3PO H5 O10 P3 FORMUL 5 EDO 2(C2 H6 O2) FORMUL 7 HOH *289(H2 O) HELIX 1 1 ALA A 15 ASN A 24 1 10 HELIX 2 2 ASN A 46 HIS A 51 1 6 HELIX 3 3 ASP A 94 LEU A 98 5 5 HELIX 4 4 PRO A 99 TRP A 103 5 5 HELIX 5 5 ASP A 111 VAL A 116 1 6 HELIX 6 6 ASP A 167 VAL A 179 1 13 HELIX 7 7 SER A 190 GLN A 200 1 11 HELIX 8 8 ASP A 220 ARG A 245 1 26 HELIX 9 9 ALA A 249 PHE A 268 1 20 HELIX 10 10 PRO A 273 ALA A 276 5 4 HELIX 11 11 SER A 277 ALA A 294 1 18 HELIX 12 12 SER A 296 SER A 303 1 8 HELIX 13 13 SER A 303 SER A 319 1 17 HELIX 14 14 TRP A 322 LEU A 326 5 5 HELIX 15 15 ASP A 327 SER A 335 1 9 HELIX 16 16 SER A 337 CYS A 358 1 22 HELIX 17 17 TYR A 365 ASP A 367 5 3 HELIX 18 18 GLN A 368 ALA A 383 1 16 HELIX 19 19 ASP A 387 GLY A 408 1 22 HELIX 20 20 GLN A 409 GLN A 423 1 15 SHEET 1 AA 2 ARG A 73 THR A 75 0 SHEET 2 AA 2 LEU A 78 LEU A 88 -1 O LEU A 78 N THR A 75 SHEET 1 AB 2 LEU A 184 GLN A 186 0 SHEET 2 AB 2 ALA A 2 VAL A 11 -1 O ILE A 10 N ARG A 185 LINK MG MG A 500 O1G 3PO A1000 1555 1555 1.89 LINK MG MG A 500 O1B 3PO A1000 1555 1555 2.07 LINK MG MG A 500 O5' 3PO A1000 1555 1555 1.90 LINK MG MG A 500 OE2 GLU A 6 1555 1555 2.21 LINK MG MG A 500 OE1 GLU A 160 1555 1555 2.31 LINK MG MG A 500 OE2 GLU A 160 1555 1555 2.32 LINK MG MG A 501 OE1 GLU A 6 1555 1555 2.08 LINK MG MG A 501 O HOH A3008 1555 1555 2.41 LINK MG MG A 501 OE1 GLU A 162 1555 1555 2.30 LINK MG MG A 501 O HOH A3003 1555 1555 2.30 LINK MG MG A 501 OE2 GLU A 4 1555 1555 2.20 LINK MG MG A 501 O5' 3PO A1000 1555 1555 2.30 SITE 1 AC1 4 GLU A 6 GLU A 160 MG A 501 3PO A1000 SITE 1 AC2 7 GLU A 4 GLU A 6 GLU A 162 MG A 500 SITE 2 AC2 7 3PO A1000 HOH A3003 HOH A3008 SITE 1 AC3 17 GLU A 4 GLU A 6 LYS A 8 ARG A 56 SITE 2 AC3 17 ARG A 58 LYS A 69 ARG A 81 PHE A 124 SITE 3 AC3 17 ARG A 126 GLU A 160 SER A 190 LYS A 191 SITE 4 AC3 17 MG A 500 MG A 501 HOH A3004 HOH A3033 SITE 5 AC3 17 HOH A3034 SITE 1 AC4 5 GLU A 252 ARG A 402 HIS A 403 ALA A 406 SITE 2 AC4 5 HOH A3218 SITE 1 AC5 6 GLU A 17 ARG A 348 HIS A 349 ARG A 371 SITE 2 AC5 6 ARG A 374 HOH A3233 CRYST1 89.924 89.924 125.577 90.00 90.00 120.00 P 65 6 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 0.011121 0.006420 0.000000 0.00000 SCALE2 0.000000 0.012841 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007963 0.00000