PDB Short entry for 2JGA HEADER HYDROLASE 09-FEB-07 2JGA TITLE CRYSTAL STRUCTURE OF HUMAN CYTOSOLIC 5'-NUCLEOTIDASE III IN COMPLEX TITLE 2 WITH PHOSPHATE AND MAGNESIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOSOLIC 5'-NUCLEOTIDASE III; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 14-286; COMPND 5 SYNONYM: CN-III, PYRIMIDINE 5'-NUCLEOTIDASE 1, P5'N-1, P5N-1, PN-I, COMPND 6 URIDINE 5'-MONOPHOSPHATE HYDROLASE 1, P36; COMPND 7 EC: 3.1.3.5; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR: P28A-LIC KEYWDS PYRIMIDINE 5-PRIME- NUCLEOTIDASE 1, NUCLEOTIDE METABOLISM, PYRIMIDINE KEYWDS 2 5-PRIME NUCLEOTIDASE DEFICIENCY, URIDINE 5-PRIME MONOPHOSPHATE KEYWDS 3 HYDROLASE 1, CYTOSOLIC III, DISEASE MUTATION, NUCLEOTIDE-BINDING, KEYWDS 4 P5N1, UMPH1, 5-PRIME, HYDROLASE, NUCLEOTIDASE EXPDTA X-RAY DIFFRACTION AUTHOR K.WALLDEN,P.STENMARK,C.ARROWSMITH,H.BERGLUND,R.COLLINS,A.EDWARDS, AUTHOR 2 M.EHN,S.FLODIN,A.FLORES,S.GRASLUND,M.HAMMARSTROM,M.HALLBERG, AUTHOR 3 B.HOLMBERG,L.SCHIAVONE,M.HOGBOM,T.KOTENYOVA,A.MAGNUSDOTTIR, AUTHOR 4 P.NILSSON-EHLE,T.NYMAN,D.OGG,C.PERSSON,J.SAGEMARK,M.SUNDSTROM, AUTHOR 5 A.G.THORSELL,J.UPPENBERG,S.VAN DEN BERG,J.WEIGELT,M.WELIN,P.NORDLUND REVDAT 4 13-DEC-23 2JGA 1 LINK REVDAT 3 13-JUL-11 2JGA 1 VERSN REVDAT 2 24-FEB-09 2JGA 1 VERSN REVDAT 1 03-APR-07 2JGA 0 JRNL AUTH K.WALLDEN,P.STENMARK,T.NYMAN,S.FLODIN,S.GRASLUND,P.LOPPNAU, JRNL AUTH 2 V.BIANCHI,P.NORDLUND JRNL TITL CRYSTAL STRUCTURE OF HUMAN CYTOSOLIC 5'-NUCLEOTIDASE II: JRNL TITL 2 INSIGHTS INTO ALLOSTERIC REGULATION AND SUBSTRATE JRNL TITL 3 RECOGNITION. JRNL REF J.BIOL.CHEM. V. 282 17828 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17405878 JRNL DOI 10.1074/JBC.M700917200 REMARK 2 REMARK 2 RESOLUTION. 3.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.3.0021 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) : 3.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 6706 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 335 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) : 3.01 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 469 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1990 REMARK 3 BIN FREE R VALUE SET COUNT : 27 REMARK 3 BIN FREE R VALUE : 0.3830 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2190 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 15 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06000 REMARK 3 B22 (A**2) : 0.23000 REMARK 3 B33 (A**2) : -0.17000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.472 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.339 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 37.473 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.878 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2232 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3012 ; 1.361 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 272 ; 5.929 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 107 ;39.732 ;25.421 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 420 ;19.569 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;20.697 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 340 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1654 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 950 ; 0.222 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1520 ; 0.310 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 74 ; 0.129 ; 0.200 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): 13 ; 0.190 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.146 ; 0.200 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): 1382 ; 0.448 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2193 ; 0.797 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 937 ; 1.290 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 819 ; 2.170 ; 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 : 10 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 14 A 30 REMARK 3 ORIGIN FOR THE GROUP (A): 23.6997 7.1577 38.1212 REMARK 3 T TENSOR REMARK 3 T11: 0.0427 T22: 0.1818 REMARK 3 T33: 0.0432 T12: 0.0359 REMARK 3 T13: -0.0074 T23: -0.0825 REMARK 3 L TENSOR REMARK 3 L11: 9.9918 L22: 9.2083 REMARK 3 L33: 4.7458 L12: 3.0487 REMARK 3 L13: -3.5046 L23: -6.4648 REMARK 3 S TENSOR REMARK 3 S11: 0.5696 S12: -0.5691 S13: -0.0225 REMARK 3 S21: 1.7609 S22: -0.0961 S23: -0.0651 REMARK 3 S31: -0.2449 S32: 0.6838 S33: -0.4735 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 31 A 66 REMARK 3 ORIGIN FOR THE GROUP (A): 31.5290 12.0403 10.8581 REMARK 3 T TENSOR REMARK 3 T11: 0.1522 T22: 0.1710 REMARK 3 T33: 0.1566 T12: 0.0692 REMARK 3 T13: -0.0844 T23: -0.0215 REMARK 3 L TENSOR REMARK 3 L11: 1.8011 L22: 1.5934 REMARK 3 L33: 2.7361 L12: 0.1256 REMARK 3 L13: -1.1224 L23: -0.2795 REMARK 3 S TENSOR REMARK 3 S11: 0.0421 S12: 0.2706 S13: 0.2015 REMARK 3 S21: -0.3829 S22: 0.0358 S23: 0.0972 REMARK 3 S31: -0.0979 S32: -0.0285 S33: -0.0779 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 67 A 80 REMARK 3 ORIGIN FOR THE GROUP (A): 38.6956 26.1430 -1.5286 REMARK 3 T TENSOR REMARK 3 T11: -0.0617 T22: 0.3465 REMARK 3 T33: 0.2804 T12: 0.0964 REMARK 3 T13: 0.0949 T23: 0.0944 REMARK 3 L TENSOR REMARK 3 L11: 0.1859 L22: 9.2939 REMARK 3 L33: 14.5884 L12: -0.3784 REMARK 3 L13: -1.6386 L23: 2.2273 REMARK 3 S TENSOR REMARK 3 S11: 0.1331 S12: 0.3607 S13: -0.0834 REMARK 3 S21: -0.5382 S22: 0.4062 S23: -0.3271 REMARK 3 S31: -0.3623 S32: 1.6368 S33: -0.5393 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 81 A 121 REMARK 3 ORIGIN FOR THE GROUP (A): 30.1800 27.8704 6.7653 REMARK 3 T TENSOR REMARK 3 T11: 0.1105 T22: 0.0582 REMARK 3 T33: 0.2538 T12: 0.0789 REMARK 3 T13: 0.0529 T23: 0.1190 REMARK 3 L TENSOR REMARK 3 L11: 1.5418 L22: 4.6263 REMARK 3 L33: 4.5688 L12: 0.1737 REMARK 3 L13: 0.3656 L23: 1.8118 REMARK 3 S TENSOR REMARK 3 S11: 0.0294 S12: 0.1868 S13: 0.5265 REMARK 3 S21: 0.2078 S22: 0.2016 S23: 0.5201 REMARK 3 S31: -0.1814 S32: -0.0242 S33: -0.2309 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 122 A 145 REMARK 3 ORIGIN FOR THE GROUP (A): 27.1345 2.4528 12.3072 REMARK 3 T TENSOR REMARK 3 T11: 0.1978 T22: -0.0473 REMARK 3 T33: 0.1497 T12: 0.0255 REMARK 3 T13: -0.0531 T23: -0.0914 REMARK 3 L TENSOR REMARK 3 L11: 4.7705 L22: 1.9942 REMARK 3 L33: 8.8639 L12: 0.8022 REMARK 3 L13: -2.2349 L23: -0.5777 REMARK 3 S TENSOR REMARK 3 S11: -0.0762 S12: 0.1313 S13: -0.4200 REMARK 3 S21: -0.4366 S22: 0.0772 S23: -0.0218 REMARK 3 S31: 0.9793 S32: -0.0704 S33: -0.0010 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 146 A 188 REMARK 3 ORIGIN FOR THE GROUP (A): 19.3961 11.6820 7.5043 REMARK 3 T TENSOR REMARK 3 T11: 0.0882 T22: 0.2145 REMARK 3 T33: 0.1726 T12: 0.0004 REMARK 3 T13: -0.1837 T23: 0.0134 REMARK 3 L TENSOR REMARK 3 L11: 0.2860 L22: 5.0778 REMARK 3 L33: 2.2696 L12: 0.6253 REMARK 3 L13: -0.7960 L23: -2.1874 REMARK 3 S TENSOR REMARK 3 S11: -0.0580 S12: 0.7088 S13: 0.1756 REMARK 3 S21: -0.4750 S22: 0.1890 S23: 0.2522 REMARK 3 S31: 0.3862 S32: -0.7188 S33: -0.1310 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 189 A 199 REMARK 3 ORIGIN FOR THE GROUP (A): 20.1996 24.6932 5.8479 REMARK 3 T TENSOR REMARK 3 T11: -0.0133 T22: 0.0662 REMARK 3 T33: 0.2419 T12: 0.1368 REMARK 3 T13: -0.0580 T23: 0.1485 REMARK 3 L TENSOR REMARK 3 L11: 7.4845 L22: 5.8131 REMARK 3 L33: 7.6999 L12: 2.9251 REMARK 3 L13: 4.4844 L23: -1.0034 REMARK 3 S TENSOR REMARK 3 S11: -0.2675 S12: 0.2068 S13: 0.9228 REMARK 3 S21: -0.0062 S22: 0.1103 S23: 0.8794 REMARK 3 S31: 0.0970 S32: -0.7628 S33: 0.1572 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 200 A 242 REMARK 3 ORIGIN FOR THE GROUP (A): 16.9746 18.0716 23.7997 REMARK 3 T TENSOR REMARK 3 T11: 0.0705 T22: 0.0579 REMARK 3 T33: 0.2553 T12: 0.0776 REMARK 3 T13: 0.0545 T23: -0.0412 REMARK 3 L TENSOR REMARK 3 L11: 5.1161 L22: 4.1115 REMARK 3 L33: 3.7496 L12: 1.3055 REMARK 3 L13: -2.0863 L23: -1.9654 REMARK 3 S TENSOR REMARK 3 S11: 0.3738 S12: 0.1097 S13: 0.6222 REMARK 3 S21: 0.3846 S22: 0.0783 S23: 0.8845 REMARK 3 S31: -0.3722 S32: -0.5956 S33: -0.4520 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 243 A 264 REMARK 3 ORIGIN FOR THE GROUP (A): 34.6053 17.9619 27.4671 REMARK 3 T TENSOR REMARK 3 T11: 0.1376 T22: 0.1100 REMARK 3 T33: -0.0436 T12: -0.0029 REMARK 3 T13: 0.0016 T23: -0.0622 REMARK 3 L TENSOR REMARK 3 L11: 10.6553 L22: 3.7993 REMARK 3 L33: 1.7232 L12: 2.2677 REMARK 3 L13: -2.9524 L23: -1.3478 REMARK 3 S TENSOR REMARK 3 S11: 0.6010 S12: -0.5117 S13: 0.4863 REMARK 3 S21: 0.5001 S22: -0.3591 S23: -0.0918 REMARK 3 S31: -0.4618 S32: 0.2298 S33: -0.2419 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 265 A 286 REMARK 3 ORIGIN FOR THE GROUP (A): 30.6199 5.5969 26.7956 REMARK 3 T TENSOR REMARK 3 T11: 0.1134 T22: 0.1063 REMARK 3 T33: 0.1147 T12: 0.0479 REMARK 3 T13: -0.0547 T23: -0.0379 REMARK 3 L TENSOR REMARK 3 L11: 6.5034 L22: 2.0679 REMARK 3 L33: 3.0271 L12: 2.7420 REMARK 3 L13: -2.2564 L23: -2.2341 REMARK 3 S TENSOR REMARK 3 S11: -0.1963 S12: -0.2325 S13: -0.7294 REMARK 3 S21: 0.0525 S22: -0.1571 S23: -0.3773 REMARK 3 S31: 0.3021 S32: 0.2737 S33: 0.3534 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2JGA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1290031397. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-APR-06 REMARK 200 TEMPERATURE (KELVIN) : 100.0 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 : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9196 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7057 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 77.150 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.40 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.00 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 6.300 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 2CN1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24% PEG1500 AND 20% GLYCEROL 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 38.52300 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 38.52300 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 43.72950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.51800 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 43.72950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.51800 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 38.52300 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 43.72950 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 50.51800 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 38.52300 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 43.72950 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 50.51800 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: PQS 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 MET A -5 REMARK 465 GLY A -4 REMARK 465 SER A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 HIS A 1 REMARK 465 HIS A 2 REMARK 465 HIS A 3 REMARK 465 HIS A 4 REMARK 465 SER A 5 REMARK 465 SER A 6 REMARK 465 GLY A 7 REMARK 465 LEU A 8 REMARK 465 VAL A 9 REMARK 465 PRO A 10 REMARK 465 ARG A 11 REMARK 465 GLY A 12 REMARK 465 SER A 13 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 PHE A 39 -70.93 -105.64 REMARK 500 PHE A 138 -70.46 -56.40 REMARK 500 GLU A 242 -51.72 -125.89 REMARK 500 SER A 264 -41.27 -137.03 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 A1288 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 38 OD1 REMARK 620 2 ASP A 40 O 77.5 REMARK 620 3 ASP A 227 OD1 62.5 83.4 REMARK 620 4 ASP A 227 OD2 107.7 91.5 45.2 REMARK 620 5 PO4 A1287 O4 66.1 83.5 128.5 172.7 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 PO4 A1287 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1288 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2CN1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN CYTOSOLIC 5'- NUCLEOTIDASE III (NT5C3) REMARK 999 REMARK 999 SEQUENCE REMARK 999 ISOFORM 2 DBREF 2JGA A -5 13 PDB 2JGA 2JGA -5 13 DBREF 2JGA A 14 286 UNP Q9H0P0 5NT3_HUMAN 14 286 SEQADV 2JGA ARG A 72 UNP Q9H0P0 LYS 72 CONFLICT SEQRES 1 A 292 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 292 LEU VAL PRO ARG GLY SER ASN PRO THR ARG VAL GLU GLU SEQRES 3 A 292 ILE ILE CYS GLY LEU ILE LYS GLY GLY ALA ALA LYS LEU SEQRES 4 A 292 GLN ILE ILE THR ASP PHE ASP MET THR LEU SER ARG PHE SEQRES 5 A 292 SER TYR LYS GLY LYS ARG CYS PRO THR CYS HIS ASN ILE SEQRES 6 A 292 ILE ASP ASN CYS LYS LEU VAL THR ASP GLU CYS ARG ARG SEQRES 7 A 292 LYS LEU LEU GLN LEU LYS GLU LYS TYR TYR ALA ILE GLU SEQRES 8 A 292 VAL ASP PRO VAL LEU THR VAL GLU GLU LYS TYR PRO TYR SEQRES 9 A 292 MET VAL GLU TRP TYR THR LYS SER HIS GLY LEU LEU VAL SEQRES 10 A 292 GLN GLN ALA LEU PRO LYS ALA LYS LEU LYS GLU ILE VAL SEQRES 11 A 292 ALA GLU SER ASP VAL MET LEU LYS GLU GLY TYR GLU ASN SEQRES 12 A 292 PHE PHE ASP LYS LEU GLN GLN HIS SER ILE PRO VAL PHE SEQRES 13 A 292 ILE PHE SER ALA GLY ILE GLY ASP VAL LEU GLU GLU VAL SEQRES 14 A 292 ILE ARG GLN ALA GLY VAL TYR HIS PRO ASN VAL LYS VAL SEQRES 15 A 292 VAL SER ASN PHE MET ASP PHE ASP GLU THR GLY VAL LEU SEQRES 16 A 292 LYS GLY PHE LYS GLY GLU LEU ILE HIS VAL PHE ASN LYS SEQRES 17 A 292 HIS ASP GLY ALA LEU ARG ASN THR GLU TYR PHE ASN GLN SEQRES 18 A 292 LEU LYS ASP ASN SER ASN ILE ILE LEU LEU GLY ASP SER SEQRES 19 A 292 GLN GLY ASP LEU ARG MET ALA ASP GLY VAL ALA ASN VAL SEQRES 20 A 292 GLU HIS ILE LEU LYS ILE GLY TYR LEU ASN ASP ARG VAL SEQRES 21 A 292 ASP GLU LEU LEU GLU LYS TYR MET ASP SER TYR ASP ILE SEQRES 22 A 292 VAL LEU VAL GLN ASP GLU SER LEU GLU VAL ALA ASN SER SEQRES 23 A 292 ILE LEU GLN LYS ILE LEU HET PO4 A1287 5 HET MG A1288 1 HETNAM PO4 PHOSPHATE ION HETNAM MG MAGNESIUM ION FORMUL 2 PO4 O4 P 3- FORMUL 3 MG MG 2+ FORMUL 4 HOH *15(H2 O) HELIX 1 1 ASN A 14 GLY A 29 1 16 HELIX 2 2 THR A 55 ASN A 62 1 8 HELIX 3 3 THR A 67 VAL A 86 1 20 HELIX 4 4 THR A 91 ALA A 114 1 24 HELIX 5 5 LYS A 119 GLU A 126 1 8 HELIX 6 6 GLY A 134 GLN A 144 1 11 HELIX 7 7 ILE A 156 ALA A 167 1 12 HELIX 8 8 ASN A 201 ARG A 208 1 8 HELIX 9 9 ASN A 209 GLN A 215 1 7 HELIX 10 10 GLN A 229 MET A 234 5 6 HELIX 11 11 ARG A 253 ASP A 263 1 11 HELIX 12 12 LEU A 275 LEU A 286 1 12 SHEET 1 AA 6 VAL A 174 VAL A 177 0 SHEET 2 AA 6 VAL A 149 PHE A 152 1 O VAL A 149 N LYS A 175 SHEET 3 AA 6 LEU A 33 THR A 37 1 O ILE A 35 N PHE A 150 SHEET 4 AA 6 ASN A 221 GLY A 226 1 O ASN A 221 N GLN A 34 SHEET 5 AA 6 HIS A 243 LEU A 250 1 O HIS A 243 N ILE A 222 SHEET 6 AA 6 ILE A 267 VAL A 270 1 O ILE A 267 N GLY A 248 SHEET 1 AB 2 SER A 47 TYR A 48 0 SHEET 2 AB 2 LYS A 51 ARG A 52 -1 O LYS A 51 N TYR A 48 SHEET 1 AC 2 MET A 181 PHE A 183 0 SHEET 2 AC 2 LEU A 189 PHE A 192 -1 N LYS A 190 O ASP A 182 LINK OD1 ASP A 38 MG MG A1288 1555 1555 2.58 LINK O ASP A 40 MG MG A1288 1555 1555 2.28 LINK OD1 ASP A 227 MG MG A1288 1555 1555 2.22 LINK OD2 ASP A 227 MG MG A1288 1555 1555 3.10 LINK O4 PO4 A1287 MG MG A1288 1555 1555 2.26 SITE 1 AC1 8 ASP A 38 PHE A 39 ASP A 40 SER A 153 SITE 2 AC1 8 ALA A 154 GLY A 155 LYS A 202 MG A1288 SITE 1 AC2 4 ASP A 38 ASP A 40 ASP A 227 PO4 A1287 CRYST1 87.459 101.036 77.046 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 0.011434 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009897 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012979 0.00000