HEADER TRANSFERASE 11-JUL-05 2A98 TITLE CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF HUMAN INOSITOL 1,4,5- TITLE 2 TRISPHOSPHATE 3-KINASE C COMPND MOL_ID: 1; COMPND 2 MOLECULE: INOSITOL 1,4,5-TRISPHOSPHATE 3-KINASE C; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN; COMPND 5 EC: 2.7.1.127; COMPND 6 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: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 ROSETTA-2; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PNIC-BSA4 KEYWDS KINASE, INOSITOL, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR B.M.HALLBERG,D.OGG,M.EHN,S.GRASLUND,M.HAMMARSTROM,T.KOTENYOVA, AUTHOR 2 P.NILSSON-EHLE,P.NORDLUND,C.PERSSON,J.SAGEMARK,H.SCHULER,P.STENMARK, AUTHOR 3 A.-G.THORSELL,C.ARROWSMITH,A.EDWARDS,M.SUNDSTROM,J.WEIGELT, AUTHOR 4 STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 6 23-AUG-23 2A98 1 REMARK REVDAT 5 11-OCT-17 2A98 1 REMARK REVDAT 4 13-JUL-11 2A98 1 VERSN REVDAT 3 24-FEB-09 2A98 1 VERSN REVDAT 2 25-OCT-05 2A98 1 JRNL AUTHOR REVDAT 1 19-JUL-05 2A98 0 JRNL AUTH B.M.HALLBERG,D.OGG,C.ARROWSMITH,A.EDWARDS,M.EHN,S.GRASLUND, JRNL AUTH 2 M.HAMMARSTROM,T.KOTENYOVA,P.NILSSON-EHLE,P.NORDLUND, JRNL AUTH 3 C.PERSSON,J.SAGEMARK,H.SCHULER,P.STENMARK,A.-G.THORSELL, JRNL AUTH 4 M.SUNDSTROM,J.WEIGELT JRNL TITL THE CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF HUMAN JRNL TITL 2 INOSITOL 1,4,5-TRISPHOSPHATE 3-KINASE C JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 12872 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) : 0.220 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 629 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 867 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2930 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.3480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2075 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 0 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) : 32.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.29000 REMARK 3 B22 (A**2) : 0.29000 REMARK 3 B33 (A**2) : -0.44000 REMARK 3 B12 (A**2) : 0.15000 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): 0.426 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.287 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.212 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 21.235 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2144 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2901 ; 1.849 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 258 ; 9.864 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 103 ;36.676 ;24.272 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 385 ;20.941 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;18.701 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 313 ; 0.179 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1614 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 814 ; 0.241 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1402 ; 0.316 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 51 ; 0.154 ; 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): 46 ; 0.261 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 2 ; 0.078 ; 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): 1327 ; 0.574 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2080 ; 0.956 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 919 ; 1.682 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 821 ; 2.488 ; 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 : 9 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 425 A 435 REMARK 3 ORIGIN FOR THE GROUP (A): 13.1220 46.0930 0.0450 REMARK 3 T TENSOR REMARK 3 T11: -0.0513 T22: 0.4520 REMARK 3 T33: 0.0983 T12: 0.0618 REMARK 3 T13: 0.0277 T23: -0.0661 REMARK 3 L TENSOR REMARK 3 L11: 11.8028 L22: 40.1306 REMARK 3 L33: 14.0423 L12: 1.8293 REMARK 3 L13: -0.7937 L23: -6.3757 REMARK 3 S TENSOR REMARK 3 S11: -0.3586 S12: -1.1355 S13: 0.5206 REMARK 3 S21: 0.6495 S22: 0.5520 S23: 0.9279 REMARK 3 S31: -1.4592 S32: -0.1921 S33: -0.1934 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 436 A 453 REMARK 3 ORIGIN FOR THE GROUP (A): 8.1230 37.6380 -10.6930 REMARK 3 T TENSOR REMARK 3 T11: 0.1405 T22: 0.2211 REMARK 3 T33: 0.1524 T12: 0.0447 REMARK 3 T13: 0.1378 T23: 0.0508 REMARK 3 L TENSOR REMARK 3 L11: 9.4880 L22: 6.4154 REMARK 3 L33: 18.9288 L12: -1.8030 REMARK 3 L13: 10.6256 L23: -5.3765 REMARK 3 S TENSOR REMARK 3 S11: 0.2280 S12: 1.0249 S13: 0.0106 REMARK 3 S21: -0.7929 S22: -0.4439 S23: -0.5328 REMARK 3 S31: 0.7727 S32: 1.3914 S33: 0.2160 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 454 A 480 REMARK 3 ORIGIN FOR THE GROUP (A): 10.0980 48.8980 -1.7430 REMARK 3 T TENSOR REMARK 3 T11: 0.1906 T22: 0.2078 REMARK 3 T33: 0.3195 T12: 0.0055 REMARK 3 T13: -0.0638 T23: -0.0132 REMARK 3 L TENSOR REMARK 3 L11: 11.4523 L22: 0.9309 REMARK 3 L33: 0.1785 L12: -2.0195 REMARK 3 L13: -0.9872 L23: -0.0577 REMARK 3 S TENSOR REMARK 3 S11: -0.6232 S12: -0.2117 S13: 1.0627 REMARK 3 S21: 0.3463 S22: 0.6728 S23: -0.3475 REMARK 3 S31: -0.3836 S32: 0.1524 S33: -0.0496 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 481 A 494 REMARK 3 ORIGIN FOR THE GROUP (A): -2.0130 32.1120 2.9750 REMARK 3 T TENSOR REMARK 3 T11: 0.1329 T22: 0.0445 REMARK 3 T33: 0.2214 T12: 0.0969 REMARK 3 T13: 0.0703 T23: 0.0673 REMARK 3 L TENSOR REMARK 3 L11: 0.4276 L22: 10.7773 REMARK 3 L33: 3.8080 L12: 1.0937 REMARK 3 L13: -0.3364 L23: -3.3991 REMARK 3 S TENSOR REMARK 3 S11: -0.0284 S12: 0.4472 S13: -0.2491 REMARK 3 S21: 0.4274 S22: -0.6214 S23: -0.7484 REMARK 3 S31: 0.7239 S32: 0.5395 S33: 0.6498 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 495 A 543 REMARK 3 ORIGIN FOR THE GROUP (A): 2.7060 24.0680 17.8270 REMARK 3 T TENSOR REMARK 3 T11: 0.5589 T22: 0.3372 REMARK 3 T33: 0.6128 T12: 0.3554 REMARK 3 T13: 0.0323 T23: 0.2151 REMARK 3 L TENSOR REMARK 3 L11: 8.3186 L22: 8.7724 REMARK 3 L33: 9.3970 L12: -1.3839 REMARK 3 L13: 0.5163 L23: 1.0994 REMARK 3 S TENSOR REMARK 3 S11: -0.2356 S12: -0.6630 S13: -0.9336 REMARK 3 S21: 0.8455 S22: 0.2429 S23: -0.7403 REMARK 3 S31: 1.9974 S32: 1.4943 S33: -0.0072 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 544 A 585 REMARK 3 ORIGIN FOR THE GROUP (A): -12.1280 38.9530 7.9240 REMARK 3 T TENSOR REMARK 3 T11: -0.0560 T22: -0.0084 REMARK 3 T33: 0.1618 T12: 0.0506 REMARK 3 T13: 0.0211 T23: 0.0633 REMARK 3 L TENSOR REMARK 3 L11: 1.9943 L22: 5.7213 REMARK 3 L33: 9.4290 L12: -1.6866 REMARK 3 L13: -0.0470 L23: 2.1493 REMARK 3 S TENSOR REMARK 3 S11: -0.2886 S12: -0.1877 S13: -0.2448 REMARK 3 S21: 0.1262 S22: 0.0546 S23: 0.0545 REMARK 3 S31: 0.0706 S32: -0.3224 S33: 0.2339 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 586 A 614 REMARK 3 ORIGIN FOR THE GROUP (A): -8.6120 38.8560 -10.4150 REMARK 3 T TENSOR REMARK 3 T11: 0.1245 T22: 0.0868 REMARK 3 T33: 0.0922 T12: -0.0629 REMARK 3 T13: 0.0016 T23: 0.0723 REMARK 3 L TENSOR REMARK 3 L11: 11.8432 L22: 12.7825 REMARK 3 L33: 6.4138 L12: -8.4523 REMARK 3 L13: -2.2510 L23: 2.7835 REMARK 3 S TENSOR REMARK 3 S11: 0.3930 S12: 0.9971 S13: -0.3499 REMARK 3 S21: -1.3850 S22: -0.7169 S23: 0.6017 REMARK 3 S31: -0.1992 S32: -0.5364 S33: 0.3239 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 615 A 664 REMARK 3 ORIGIN FOR THE GROUP (A): -0.3280 31.8790 -4.7990 REMARK 3 T TENSOR REMARK 3 T11: 0.1456 T22: 0.0942 REMARK 3 T33: 0.1023 T12: 0.0340 REMARK 3 T13: 0.1517 T23: 0.0416 REMARK 3 L TENSOR REMARK 3 L11: 5.4068 L22: 7.9484 REMARK 3 L33: 4.1089 L12: -0.5305 REMARK 3 L13: -0.4045 L23: 1.7111 REMARK 3 S TENSOR REMARK 3 S11: -0.1607 S12: 0.4904 S13: -0.5318 REMARK 3 S21: -0.5193 S22: -0.0117 S23: -0.6254 REMARK 3 S31: 0.7483 S32: 0.2308 S33: 0.1724 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 665 A 683 REMARK 3 ORIGIN FOR THE GROUP (A): -14.9070 34.1270 -4.8910 REMARK 3 T TENSOR REMARK 3 T11: 0.0865 T22: 0.0773 REMARK 3 T33: 0.1983 T12: -0.1017 REMARK 3 T13: 0.0359 T23: -0.0023 REMARK 3 L TENSOR REMARK 3 L11: 6.2945 L22: 8.4988 REMARK 3 L33: 9.8140 L12: -6.9182 REMARK 3 L13: -1.9264 L23: -0.0286 REMARK 3 S TENSOR REMARK 3 S11: 0.1243 S12: -0.0019 S13: -0.6594 REMARK 3 S21: -0.4953 S22: 0.1271 S23: 0.6380 REMARK 3 S31: 0.0271 S32: -0.5170 S33: -0.2514 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 2A98 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JUL-05. REMARK 100 THE DEPOSITION ID IS D_1000033644. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUN-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : SI-111 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12906 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 28.680 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.7900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.65 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.63400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1W2C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3350, SODIUM THIOCYANATE, MAGNESIUM REMARK 280 CHLORIDE, INOSITOL 1,4,5-TRISPHOSPHATE, PH 8.0, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 58.31333 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 116.62667 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 87.47000 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 145.78333 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 29.15667 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 58.31333 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 116.62667 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 145.78333 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 87.47000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 29.15667 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 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 502 CD GLU A 502 OE1 0.368 REMARK 500 GLU A 502 CD GLU A 502 OE2 0.261 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 GLU A 502 OE1 - CD - OE2 ANGL. DEV. = 10.1 DEGREES REMARK 500 ASP A 627 CB - CG - OD1 ANGL. DEV. = -6.1 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 ARG A 503 85.34 -156.94 REMARK 500 ASP A 509 -66.49 -7.74 REMARK 500 ASN A 567 79.08 -101.03 REMARK 500 VAL A 590 -92.63 13.64 REMARK 500 ASP A 638 84.82 74.30 REMARK 500 LYS A 641 38.79 -141.80 REMARK 500 ASP A 647 126.65 -14.40 REMARK 500 HIS A 648 -1.86 69.81 REMARK 500 HIS A 653 15.01 58.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 HIS A 589 VAL A 590 94.82 REMARK 500 GLN A 682 SER A 683 -145.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE I3P A 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: Q96DU7_HUMAN RELATED DB: TARGETDB DBREF 2A98 A 425 683 UNP Q9Y475 Q9Y475_HUMAN 425 683 SEQRES 1 A 259 GLU ASP GLY ARG ILE LEU LYS ARG PHE CYS GLN CYS GLU SEQRES 2 A 259 GLN ARG SER LEU GLU GLN LEU MET LYS ASP PRO LEU ARG SEQRES 3 A 259 PRO PHE VAL PRO ALA TYR TYR GLY MET VAL LEU GLN ASP SEQRES 4 A 259 GLY GLN THR PHE ASN GLN MET GLU ASP LEU LEU ALA ASP SEQRES 5 A 259 PHE GLU GLY PRO SER ILE MET ASP CYS LYS MET GLY SER SEQRES 6 A 259 ARG THR TYR LEU GLU GLU GLU LEU VAL LYS ALA ARG GLU SEQRES 7 A 259 ARG PRO ARG PRO ARG LYS ASP MET TYR GLU LYS MET VAL SEQRES 8 A 259 ALA VAL ASP PRO GLY ALA PRO THR PRO GLU GLU HIS ALA SEQRES 9 A 259 GLN GLY ALA VAL THR LYS PRO ARG TYR MET GLN TRP ARG SEQRES 10 A 259 GLU THR MET SER SER THR SER THR LEU GLY PHE ARG ILE SEQRES 11 A 259 GLU GLY ILE LYS LYS ALA ASP GLY THR CYS ASN THR ASN SEQRES 12 A 259 PHE LYS LYS THR GLN ALA LEU GLU GLN VAL THR LYS VAL SEQRES 13 A 259 LEU GLU ASP PHE VAL ASP GLY ASP HIS VAL ILE LEU GLN SEQRES 14 A 259 LYS TYR VAL ALA CYS LEU GLU GLU LEU ARG GLU ALA LEU SEQRES 15 A 259 GLU ILE SER PRO PHE PHE LYS THR HIS GLU VAL VAL GLY SEQRES 16 A 259 SER SER LEU LEU PHE VAL HIS ASP HIS THR GLY LEU ALA SEQRES 17 A 259 LYS VAL TRP MET ILE ASP PHE GLY LYS THR VAL ALA LEU SEQRES 18 A 259 PRO ASP HIS GLN THR LEU SER HIS ARG LEU PRO TRP ALA SEQRES 19 A 259 GLU GLY ASN ARG GLU ASP GLY TYR LEU TRP GLY LEU ASP SEQRES 20 A 259 ASN MET ILE CYS LEU LEU GLN GLY LEU ALA GLN SER HET I3P A 1 24 HETNAM I3P D-MYO-INOSITOL-1,4,5-TRIPHOSPHATE FORMUL 2 I3P C6 H15 O15 P3 HELIX 1 1 CYS A 434 MET A 445 1 12 HELIX 2 2 LEU A 449 VAL A 453 5 5 HELIX 3 3 LEU A 493 LEU A 497 5 5 HELIX 4 4 ARG A 507 ALA A 516 1 10 HELIX 5 5 THR A 523 GLY A 530 1 8 HELIX 6 6 THR A 533 SER A 545 1 13 HELIX 7 7 SER A 546 GLY A 551 1 6 HELIX 8 8 ALA A 573 ASP A 586 1 14 HELIX 9 9 ASP A 588 SER A 609 1 22 HELIX 10 10 SER A 609 THR A 614 1 6 HELIX 11 11 GLY A 665 GLN A 682 1 18 SHEET 1 A 3 ARG A 428 ARG A 432 0 SHEET 2 A 3 GLN A 465 GLU A 471 -1 O ASN A 468 N LYS A 431 SHEET 3 A 3 TYR A 456 GLN A 462 -1 N GLY A 458 O GLN A 469 SHEET 1 B 5 CYS A 564 ASN A 565 0 SHEET 2 B 5 PHE A 552 LYS A 558 -1 N ILE A 557 O ASN A 565 SHEET 3 B 5 SER A 481 MET A 487 -1 N ASP A 484 O GLU A 555 SHEET 4 B 5 SER A 621 HIS A 626 -1 O PHE A 624 N MET A 483 SHEET 5 B 5 ALA A 632 ILE A 637 -1 O ILE A 637 N SER A 621 SHEET 1 C 2 HIS A 615 VAL A 617 0 SHEET 2 C 2 THR A 642 ALA A 644 -1 O VAL A 643 N GLU A 616 SITE 1 AC1 10 LYS A 486 ARG A 507 MET A 510 LYS A 513 SITE 2 AC1 10 LYS A 534 TYR A 537 MET A 538 ARG A 541 SITE 3 AC1 10 LYS A 569 LYS A 641 CRYST1 87.720 87.720 174.940 90.00 90.00 120.00 P 61 2 2 12 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 0.011400 0.006580 0.000000 0.00000 SCALE2 0.000000 0.013160 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005720 0.00000