HEADER HYDROLASE 22-AUG-16 5LS0 TITLE CRYSTAL STRUCTURE OF INORGANIC PYROPHOSPHATASE PPA1 FROM ARABIDOPSIS TITLE 2 THALIANA COMPND MOL_ID: 1; COMPND 2 MOLECULE: SOLUBLE INORGANIC PYROPHOSPHATASE 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PYROPHOSPHATE PHOSPHO-HYDROLASE 1,PPASE 1; COMPND 5 EC: 3.6.1.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: PPA1, AT1G01050, T25K16.5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PMCSG48 KEYWDS INORGANIC PYROPHOSPHATASE, HYDROLASE, OB-FOLD EXPDTA X-RAY DIFFRACTION AUTHOR M.GRZECHOWIAK,M.SIKORSKI,M.JASKOLSKI REVDAT 5 17-JAN-24 5LS0 1 REMARK LINK REVDAT 4 04-SEP-19 5LS0 1 JRNL REVDAT 3 14-AUG-19 5LS0 1 JRNL REVDAT 2 08-AUG-18 5LS0 1 REMARK REVDAT 1 13-SEP-17 5LS0 0 JRNL AUTH M.GRZECHOWIAK,M.RUSZKOWSKI,J.SLIWIAK,K.SZPOTKOWSKI, JRNL AUTH 2 M.SIKORSKI,M.JASKOLSKI JRNL TITL CRYSTAL STRUCTURES OF PLANT INORGANIC PYROPHOSPHATASE, AN JRNL TITL 2 ENZYME WITH A MOONLIGHTING AUTOPROTEOLYTIC ACTIVITY. JRNL REF BIOCHEM.J. V. 476 2297 2019 JRNL REFN ESSN 1470-8728 JRNL PMID 31371393 JRNL DOI 10.1042/BCJ20190427 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.NAVARRO-DE LA SANCHA,M.COELLO-COUTINO, REMARK 1 AUTH 2 L.G.VALENCIA-TURCOTTE,E.E.HERNANDEZ-DOMINGUEZ,G.TREJO-YEPES, REMARK 1 AUTH 3 R.RODRIGUEZ-SOTRES REMARK 1 TITL CHARACTERIZATION OF TWO SOLUBLE INORGANIC PYROPHOSPHATASES REMARK 1 TITL 2 FROM ARABIDOPSIS THALIANA REMARK 1 REF PLANT SCIENCE V. 172 796 2007 REMARK 1 REFN ISSN 0168-9452 REMARK 1 DOI 10.1016/J.PLANTSCI.2006.12.011 REMARK 1 REFERENCE 2 REMARK 1 AUTH C.A.WU,N.K.LOKANATH,D.Y.KIM,H.J.PARK,H.Y.HWANG,S.T.KIM, REMARK 1 AUTH 2 S.W.SUH,K.K.KIM REMARK 1 TITL STRUCTURE OF INORGANIC PYROPHOSPHATASE FROM HELICOBACTER REMARK 1 TITL 2 PYLORI. REMARK 1 REF ACTA CRYSTALLOGR. D BIOL. V. 61 1459 2005 REMARK 1 REF 2 CRYSTALLOGR. REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 16239722 REMARK 1 DOI 10.1107/S0907444905025667 REMARK 1 REFERENCE 3 REMARK 1 AUTH E.OKSANEN,A.K.AHONEN,H.TUOMINEN,V.TUOMINEN,R.LAHTI, REMARK 1 AUTH 2 A.GOLDMAN,P.HEIKINHEIMO REMARK 1 TITL A COMPLETE STRUCTURAL DESCRIPTION OF THE CATALYTIC CYCLE OF REMARK 1 TITL 2 YEAST PYROPHOSPHATASE. REMARK 1 REF BIOCHEMISTRY V. 46 1228 2007 REMARK 1 REFN ISSN 0006-2960 REMARK 1 PMID 17260952 REMARK 1 DOI 10.1021/BI0619977 REMARK 1 REFERENCE 4 REMARK 1 AUTH V.R.SAMYGINA,V.M.MOISEEV,E.V.RODINA,N.N.VOROBYEVA,A.N.POPOV, REMARK 1 AUTH 2 S.A.KURILOVA,T.I.NAZAROVA,S.M.AVAEVA,H.D.BARTUNIK REMARK 1 TITL REVERSIBLE INHIBITION OF ESCHERICHIA COLI INORGANIC REMARK 1 TITL 2 PYROPHOSPHATASE BY FLUORIDE: TRAPPED CATALYTIC INTERMEDIATES REMARK 1 TITL 3 IN CRYO-CRYSTALLOGRAPHIC STUDIES. REMARK 1 REF J. MOL. BIOL. V. 366 1305 2007 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 17196979 REMARK 1 DOI 10.1016/J.JMB.2006.11.082 REMARK 2 REMARK 2 RESOLUTION. 1.83 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.41 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.950 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 37724 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.155 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.650 REMARK 3 FREE R VALUE TEST SET COUNT : 1000 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 19.4077 - 3.4950 1.00 5257 144 0.1245 0.1604 REMARK 3 2 3.4950 - 2.7767 1.00 5251 143 0.1574 0.1963 REMARK 3 3 2.7767 - 2.4265 1.00 5257 143 0.1658 0.2136 REMARK 3 4 2.4265 - 2.2050 1.00 5239 142 0.1593 0.1887 REMARK 3 5 2.2050 - 2.0471 1.00 5261 143 0.1737 0.2034 REMARK 3 6 2.0471 - 1.9265 1.00 5213 142 0.2083 0.2371 REMARK 3 7 1.9265 - 1.8301 1.00 5246 143 0.2949 0.3290 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.710 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.76 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 2941 REMARK 3 ANGLE : 1.264 3988 REMARK 3 CHIRALITY : 0.055 437 REMARK 3 PLANARITY : 0.008 517 REMARK 3 DIHEDRAL : 13.954 1122 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 33 THROUGH 77 ) REMARK 3 ORIGIN FOR THE GROUP (A): 29.1835 24.8392 143.1357 REMARK 3 T TENSOR REMARK 3 T11: 0.2984 T22: 0.3571 REMARK 3 T33: 0.2553 T12: 0.0168 REMARK 3 T13: -0.0599 T23: 0.0223 REMARK 3 L TENSOR REMARK 3 L11: 1.2318 L22: 1.6869 REMARK 3 L33: 1.3957 L12: 0.3211 REMARK 3 L13: 0.3255 L23: 0.5443 REMARK 3 S TENSOR REMARK 3 S11: 0.0730 S12: 0.2254 S13: -0.0062 REMARK 3 S21: -0.4145 S22: -0.0227 S23: 0.2165 REMARK 3 S31: -0.1704 S32: -0.4104 S33: -0.0625 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 78 THROUGH 158 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.7961 21.2262 150.0919 REMARK 3 T TENSOR REMARK 3 T11: 0.2774 T22: 0.4547 REMARK 3 T33: 0.3479 T12: -0.0098 REMARK 3 T13: -0.0773 T23: 0.0253 REMARK 3 L TENSOR REMARK 3 L11: 1.3514 L22: 1.8874 REMARK 3 L33: 2.5325 L12: 0.1082 REMARK 3 L13: 0.1829 L23: 1.2020 REMARK 3 S TENSOR REMARK 3 S11: 0.1305 S12: 0.1081 S13: -0.0574 REMARK 3 S21: -0.2427 S22: -0.1180 S23: 0.4340 REMARK 3 S31: -0.0857 S32: -0.6671 S33: -0.0751 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 159 THROUGH 171 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.7813 26.6346 160.6229 REMARK 3 T TENSOR REMARK 3 T11: 0.2622 T22: 0.5355 REMARK 3 T33: 0.3681 T12: 0.0480 REMARK 3 T13: -0.0352 T23: 0.0267 REMARK 3 L TENSOR REMARK 3 L11: 2.7462 L22: 7.5117 REMARK 3 L33: 4.9566 L12: 1.7054 REMARK 3 L13: -1.4657 L23: -2.6985 REMARK 3 S TENSOR REMARK 3 S11: 0.2796 S12: -0.1824 S13: 0.0996 REMARK 3 S21: 0.0128 S22: -0.0513 S23: 0.3864 REMARK 3 S31: -0.2343 S32: -0.9481 S33: -0.1709 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 172 THROUGH 187 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.2310 34.0049 154.5222 REMARK 3 T TENSOR REMARK 3 T11: 0.4132 T22: 0.6342 REMARK 3 T33: 0.5644 T12: 0.1993 REMARK 3 T13: -0.0495 T23: 0.0306 REMARK 3 L TENSOR REMARK 3 L11: 2.7788 L22: 4.3939 REMARK 3 L33: 1.5280 L12: 2.4752 REMARK 3 L13: 0.6887 L23: 0.8233 REMARK 3 S TENSOR REMARK 3 S11: 0.0197 S12: 0.1787 S13: 0.4867 REMARK 3 S21: -0.2659 S22: -0.2012 S23: 0.9573 REMARK 3 S31: -0.4675 S32: -0.7212 S33: 0.1649 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 188 THROUGH 207 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.0041 20.9910 135.4566 REMARK 3 T TENSOR REMARK 3 T11: 0.5006 T22: 0.8163 REMARK 3 T33: 0.4882 T12: 0.1074 REMARK 3 T13: -0.2719 T23: -0.0458 REMARK 3 L TENSOR REMARK 3 L11: 3.3745 L22: 3.6944 REMARK 3 L33: 2.7386 L12: -0.0431 REMARK 3 L13: -2.2835 L23: -0.0375 REMARK 3 S TENSOR REMARK 3 S11: 0.3517 S12: 0.5869 S13: 0.0427 REMARK 3 S21: -0.9340 S22: -0.2619 S23: 0.6969 REMARK 3 S31: -0.2106 S32: -0.8499 S33: -0.3456 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 30 THROUGH 65 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.9049 -1.9482 126.4568 REMARK 3 T TENSOR REMARK 3 T11: 0.2185 T22: 0.3088 REMARK 3 T33: 0.2846 T12: 0.0124 REMARK 3 T13: -0.0450 T23: -0.0372 REMARK 3 L TENSOR REMARK 3 L11: 1.4430 L22: 2.0068 REMARK 3 L33: 2.3599 L12: 0.1613 REMARK 3 L13: 0.8248 L23: -0.2045 REMARK 3 S TENSOR REMARK 3 S11: 0.1455 S12: -0.1947 S13: -0.1173 REMARK 3 S21: 0.3032 S22: 0.0415 S23: -0.1497 REMARK 3 S31: 0.1527 S32: 0.1959 S33: -0.1742 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 66 THROUGH 77 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.7980 10.0146 126.0818 REMARK 3 T TENSOR REMARK 3 T11: 0.3095 T22: 0.3204 REMARK 3 T33: 0.3038 T12: -0.0256 REMARK 3 T13: 0.0169 T23: -0.0630 REMARK 3 L TENSOR REMARK 3 L11: 1.1932 L22: 1.5751 REMARK 3 L33: 4.3387 L12: 0.1174 REMARK 3 L13: 0.1981 L23: -2.3620 REMARK 3 S TENSOR REMARK 3 S11: -0.0371 S12: -0.1963 S13: 0.1328 REMARK 3 S21: 0.1708 S22: 0.0345 S23: -0.1908 REMARK 3 S31: -0.4618 S32: 0.3397 S33: -0.0832 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 78 THROUGH 102 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.7607 4.5757 121.9065 REMARK 3 T TENSOR REMARK 3 T11: 0.2076 T22: 0.2970 REMARK 3 T33: 0.2689 T12: -0.0083 REMARK 3 T13: -0.0115 T23: -0.0613 REMARK 3 L TENSOR REMARK 3 L11: 1.0169 L22: 1.7889 REMARK 3 L33: 2.4686 L12: 0.2803 REMARK 3 L13: 0.4374 L23: -0.7889 REMARK 3 S TENSOR REMARK 3 S11: 0.0516 S12: -0.0962 S13: 0.0347 REMARK 3 S21: 0.2116 S22: 0.0878 S23: -0.2671 REMARK 3 S31: -0.3135 S32: 0.3649 S33: -0.1244 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 103 THROUGH 158 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.7246 -5.1416 117.4463 REMARK 3 T TENSOR REMARK 3 T11: 0.2524 T22: 0.4419 REMARK 3 T33: 0.3863 T12: 0.0568 REMARK 3 T13: -0.0479 T23: -0.0660 REMARK 3 L TENSOR REMARK 3 L11: 1.4645 L22: 1.6723 REMARK 3 L33: 2.2088 L12: 0.3140 REMARK 3 L13: 0.0597 L23: -0.5232 REMARK 3 S TENSOR REMARK 3 S11: 0.0511 S12: 0.0995 S13: -0.1104 REMARK 3 S21: -0.0054 S22: 0.0426 S23: -0.3877 REMARK 3 S31: 0.1077 S32: 0.6057 S33: -0.0702 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 159 THROUGH 184 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.7999 8.4232 111.0005 REMARK 3 T TENSOR REMARK 3 T11: 0.2831 T22: 0.5746 REMARK 3 T33: 0.3983 T12: -0.0909 REMARK 3 T13: 0.0193 T23: -0.0510 REMARK 3 L TENSOR REMARK 3 L11: 2.5727 L22: 3.6475 REMARK 3 L33: 2.0968 L12: -1.6091 REMARK 3 L13: 0.2254 L23: 0.7638 REMARK 3 S TENSOR REMARK 3 S11: 0.0155 S12: 0.1344 S13: 0.2768 REMARK 3 S21: -0.0599 S22: 0.0184 S23: -0.4699 REMARK 3 S31: -0.3734 S32: 0.7786 S33: -0.0108 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 185 THROUGH 208 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.9592 -2.1612 131.6736 REMARK 3 T TENSOR REMARK 3 T11: 0.2866 T22: 0.5970 REMARK 3 T33: 0.4201 T12: 0.0426 REMARK 3 T13: -0.1773 T23: -0.0239 REMARK 3 L TENSOR REMARK 3 L11: 2.1720 L22: 2.7170 REMARK 3 L33: 0.0173 L12: 0.6627 REMARK 3 L13: -0.0536 L23: -0.2081 REMARK 3 S TENSOR REMARK 3 S11: 0.0181 S12: -0.2779 S13: -0.0479 REMARK 3 S21: 0.5873 S22: -0.0554 S23: -0.3883 REMARK 3 S31: 0.3069 S32: 0.7077 S33: -0.0878 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5LS0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1200000311. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUL-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91814 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR, SI REMARK 200 -111 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40001 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.790 REMARK 200 RESOLUTION RANGE LOW (A) : 40.564 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.9200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 1.08700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 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: 4LUG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.07 M BICINE, 7% (W/V) PEG 6000, PH REMARK 280 9.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 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 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+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 1.000000 0.000000 0.000000 40.56500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.42021 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 58.22000 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 40.56500 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 23.42021 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 58.22000 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 40.56500 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 23.42021 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 58.22000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 46.84043 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 116.44000 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 46.84043 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 116.44000 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 46.84043 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 116.44000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -57.0 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 81.13000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 40.56500 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 70.26064 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 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 0.00000 REMARK 350 BIOMT3 3 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 B 511 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 30 REMARK 465 VAL A 31 REMARK 465 ALA A 32 REMARK 465 HIS A 208 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 B 423 O HOH B 471 1.86 REMARK 500 O HOH A 413 O HOH A 462 2.12 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 135 38.96 -154.30 REMARK 500 ASP B 135 28.96 -148.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 511 DISTANCE = 5.95 ANGSTROMS 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 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 103 OD1 REMARK 620 2 HOH A 402 O 86.2 REMARK 620 3 HOH A 413 O 95.3 94.5 REMARK 620 4 HOH A 431 O 107.5 163.8 76.2 REMARK 620 5 HOH A 446 O 83.1 87.9 177.1 101.9 REMARK 620 6 HOH A 456 O 165.2 80.0 91.2 86.9 91.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 103 OD1 REMARK 620 2 HOH B 410 O 82.4 REMARK 620 3 HOH B 423 O 91.1 93.4 REMARK 620 4 HOH B 452 O 86.8 94.8 171.2 REMARK 620 5 HOH B 470 O 167.9 85.8 92.3 91.5 REMARK 620 6 HOH B 478 O 95.7 169.3 76.1 95.6 96.3 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LUG RELATED DB: PDB REMARK 900 INORGANIC PYROPHOSPHATASE PPA1 FROM A. THALIANA COORDINATED SODIUM REMARK 900 ION DBREF 5LS0 A 30 208 UNP Q93V56 IPYR1_ARATH 30 208 DBREF 5LS0 B 30 208 UNP Q93V56 IPYR1_ARATH 30 208 SEQRES 1 A 179 SER VAL ALA ALA HIS PRO TRP HIS ASP LEU GLU ILE GLY SEQRES 2 A 179 PRO GLY ALA PRO GLN ILE PHE ASN VAL VAL VAL GLU ILE SEQRES 3 A 179 THR LYS GLY SER LYS VAL LYS TYR GLU LEU ASP LYS LYS SEQRES 4 A 179 THR GLY LEU ILE LYS VAL ASP ARG ILE LEU TYR SER SER SEQRES 5 A 179 VAL VAL TYR PRO HIS ASN TYR GLY PHE VAL PRO ARG THR SEQRES 6 A 179 LEU CYS GLU ASP ASN ASP PRO ILE ASP VAL LEU VAL ILE SEQRES 7 A 179 MET GLN GLU PRO VAL LEU PRO GLY CYS PHE LEU ARG ALA SEQRES 8 A 179 ARG ALA ILE GLY LEU MET PRO MET ILE ASP GLN GLY GLU SEQRES 9 A 179 LYS ASP ASP LYS ILE ILE ALA VAL CYS VAL ASP ASP PRO SEQRES 10 A 179 GLU TYR LYS HIS TYR THR ASP ILE LYS GLU LEU PRO PRO SEQRES 11 A 179 HIS ARG LEU SER GLU ILE ARG ARG PHE PHE GLU ASP TYR SEQRES 12 A 179 LYS LYS ASN GLU ASN LYS GLU VAL ALA VAL ASN ASP PHE SEQRES 13 A 179 LEU PRO SER GLU SER ALA VAL GLU ALA ILE GLN TYR SER SEQRES 14 A 179 MET ASP LEU TYR ALA GLU TYR ILE LEU HIS SEQRES 1 B 179 SER VAL ALA ALA HIS PRO TRP HIS ASP LEU GLU ILE GLY SEQRES 2 B 179 PRO GLY ALA PRO GLN ILE PHE ASN VAL VAL VAL GLU ILE SEQRES 3 B 179 THR LYS GLY SER LYS VAL LYS TYR GLU LEU ASP LYS LYS SEQRES 4 B 179 THR GLY LEU ILE LYS VAL ASP ARG ILE LEU TYR SER SER SEQRES 5 B 179 VAL VAL TYR PRO HIS ASN TYR GLY PHE VAL PRO ARG THR SEQRES 6 B 179 LEU CYS GLU ASP ASN ASP PRO ILE ASP VAL LEU VAL ILE SEQRES 7 B 179 MET GLN GLU PRO VAL LEU PRO GLY CYS PHE LEU ARG ALA SEQRES 8 B 179 ARG ALA ILE GLY LEU MET PRO MET ILE ASP GLN GLY GLU SEQRES 9 B 179 LYS ASP ASP LYS ILE ILE ALA VAL CYS VAL ASP ASP PRO SEQRES 10 B 179 GLU TYR LYS HIS TYR THR ASP ILE LYS GLU LEU PRO PRO SEQRES 11 B 179 HIS ARG LEU SER GLU ILE ARG ARG PHE PHE GLU ASP TYR SEQRES 12 B 179 LYS LYS ASN GLU ASN LYS GLU VAL ALA VAL ASN ASP PHE SEQRES 13 B 179 LEU PRO SER GLU SER ALA VAL GLU ALA ILE GLN TYR SER SEQRES 14 B 179 MET ASP LEU TYR ALA GLU TYR ILE LEU HIS HET MG A 301 1 HET MG B 301 1 HET PEG B 302 7 HET PEG B 303 7 HETNAM MG MAGNESIUM ION HETNAM PEG DI(HYDROXYETHYL)ETHER FORMUL 3 MG 2(MG 2+) FORMUL 5 PEG 2(C4 H10 O3) FORMUL 7 HOH *186(H2 O) HELIX 1 AA1 ASP A 153 LEU A 157 5 5 HELIX 2 AA2 PRO A 158 TYR A 172 1 15 HELIX 3 AA3 LYS A 173 ASN A 177 5 5 HELIX 4 AA4 SER A 188 TYR A 205 1 18 HELIX 5 AA5 ASP B 153 LEU B 157 5 5 HELIX 6 AA6 PRO B 158 TYR B 172 1 15 HELIX 7 AA7 LYS B 173 ASN B 177 5 5 HELIX 8 AA8 SER B 188 ILE B 206 1 19 SHEET 1 AA1 7 LEU A 186 PRO A 187 0 SHEET 2 AA1 7 PHE A 117 MET A 126 -1 N LEU A 125 O LEU A 186 SHEET 3 AA1 7 LYS A 137 CYS A 142 -1 O LYS A 137 N MET A 126 SHEET 4 AA1 7 ASP A 103 ILE A 107 1 N LEU A 105 O ILE A 138 SHEET 5 AA1 7 ASN A 87 PHE A 90 -1 N GLY A 89 O VAL A 104 SHEET 6 AA1 7 ILE A 48 ILE A 55 -1 N GLU A 54 O TYR A 88 SHEET 7 AA1 7 PHE A 117 MET A 126 -1 O ALA A 120 N PHE A 49 SHEET 1 AA2 2 VAL A 61 LEU A 65 0 SHEET 2 AA2 2 ILE A 72 ILE A 77 -1 O LYS A 73 N GLU A 64 SHEET 1 AA3 3 GLU A 133 LYS A 134 0 SHEET 2 AA3 3 MET A 128 ASP A 130 -1 N ASP A 130 O GLU A 133 SHEET 3 AA3 3 VAL A 180 VAL A 182 -1 O ALA A 181 N ILE A 129 SHEET 1 AA4 7 LEU B 186 PRO B 187 0 SHEET 2 AA4 7 PHE B 117 MET B 126 -1 N LEU B 125 O LEU B 186 SHEET 3 AA4 7 LYS B 137 CYS B 142 -1 O ILE B 139 N ILE B 123 SHEET 4 AA4 7 ASP B 103 ILE B 107 1 N ILE B 107 O ALA B 140 SHEET 5 AA4 7 ASN B 87 PHE B 90 -1 N ASN B 87 O VAL B 106 SHEET 6 AA4 7 ILE B 48 ILE B 55 -1 N VAL B 52 O PHE B 90 SHEET 7 AA4 7 PHE B 117 MET B 126 -1 O ALA B 120 N PHE B 49 SHEET 1 AA5 2 VAL B 61 LEU B 65 0 SHEET 2 AA5 2 ILE B 72 ILE B 77 -1 O LYS B 73 N GLU B 64 SHEET 1 AA6 3 GLU B 133 LYS B 134 0 SHEET 2 AA6 3 MET B 128 ASP B 130 -1 N ASP B 130 O GLU B 133 SHEET 3 AA6 3 VAL B 180 VAL B 182 -1 O ALA B 181 N ILE B 129 LINK OD1 ASP A 103 MG MG A 301 1555 1555 2.08 LINK MG MG A 301 O HOH A 402 1555 1555 2.11 LINK MG MG A 301 O HOH A 413 1555 1555 2.10 LINK MG MG A 301 O AHOH A 431 1555 1555 2.22 LINK MG MG A 301 O HOH A 446 1555 1555 2.20 LINK MG MG A 301 O HOH A 456 1555 1555 2.33 LINK OD1 ASP B 103 MG MG B 301 1555 1555 2.11 LINK MG MG B 301 O HOH B 410 1555 1555 2.18 LINK MG MG B 301 O HOH B 423 1555 1555 2.13 LINK MG MG B 301 O HOH B 452 1555 1555 2.06 LINK MG MG B 301 O HOH B 470 1555 1555 2.12 LINK MG MG B 301 O HOH B 478 1555 1555 2.09 CISPEP 1 ALA A 45 PRO A 46 0 6.99 CISPEP 2 ALA B 45 PRO B 46 0 9.92 SITE 1 AC1 6 ASP A 103 HOH A 402 HOH A 413 HOH A 431 SITE 2 AC1 6 HOH A 446 HOH A 456 SITE 1 AC2 6 ASP B 103 HOH B 410 HOH B 423 HOH B 452 SITE 2 AC2 6 HOH B 470 HOH B 478 SITE 1 AC3 2 HIS B 150 HOH B 401 SITE 1 AC4 3 HIS A 150 LYS B 155 LEU B 157 CRYST1 81.130 81.130 174.660 90.00 90.00 120.00 H 3 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 0.012326 0.007116 0.000000 0.00000 SCALE2 0.000000 0.014233 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005725 0.00000