HEADER TRANSFERASE 01-JUL-04 1W2C TITLE HUMAN INOSITOL (1,4,5) TRISPHOSPHATE 3-KINASE COMPLEXED WITH TITLE 2 MN2+/AMPPNP/INS(1,4,5)P3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: INOSITOL-TRISPHOSPHATE 3-KINASE A; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 197-461; COMPND 5 SYNONYM: INOSITOL 1,4,5-TRISPHOSPHATE 3-KINASE, IP3-3K; COMPND 6 EC: 2.1.7.127; COMPND 7 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 BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: C41; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: POPTG KEYWDS INOSITOL PHOSPHATE KINASE, AMPPNP, IP3, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR B.GONZALEZ,M.J.SCHELL,R.F.IRVINE,R.L.WILLIAMS REVDAT 5 08-MAY-24 1W2C 1 LINK REVDAT 4 24-JAN-18 1W2C 1 SOURCE REVDAT 3 13-JUL-11 1W2C 1 VERSN REVDAT 2 24-FEB-09 1W2C 1 VERSN REVDAT 1 09-SEP-04 1W2C 0 JRNL AUTH B.GONZALEZ,M.J.SCHELL,A.J.LETCHER,D.B.VEPRINTSEV,R.F.IRVINE, JRNL AUTH 2 R.L.WILLIAMS JRNL TITL STRUCTURE OF A HUMAN INOSITOL 1,4,5-TRISPHOSPHATE 3-KINASE; JRNL TITL 2 SUBSTRATE BINDING REVEALS WHY IT IS NOT A PHOSPHOINOSITIDE JRNL TITL 3 3-KINASE JRNL REF MOL.CELL V. 15 689 2004 JRNL REFN ISSN 1097-2765 JRNL PMID 15350214 JRNL DOI 10.1016/J.MOLCEL.2004.08.004 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 43968 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2329 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3401 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2450 REMARK 3 BIN FREE R VALUE SET COUNT : 178 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4133 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 127 REMARK 3 SOLVENT ATOMS : 324 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 29.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.84000 REMARK 3 B22 (A**2) : 0.11000 REMARK 3 B33 (A**2) : -0.95000 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): 0.168 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.156 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.107 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.661 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4365 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 3961 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5899 ; 1.586 ; 2.002 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9183 ; 0.965 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 510 ; 6.554 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 634 ; 0.186 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4726 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 944 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 903 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4600 ; 0.249 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2565 ; 0.083 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 315 ; 0.160 ; 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): 10 ; 0.140 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 49 ; 0.271 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 17 ; 0.209 ; 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): 2547 ; 0.923 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4091 ; 1.680 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1818 ; 2.375 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1808 ; 3.783 ; 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 : 6 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 197 A 256 REMARK 3 ORIGIN FOR THE GROUP (A): 30.7360 26.0940 81.3520 REMARK 3 T TENSOR REMARK 3 T11: 0.2395 T22: 0.1186 REMARK 3 T33: 0.1452 T12: 0.0135 REMARK 3 T13: -0.0292 T23: -0.0261 REMARK 3 L TENSOR REMARK 3 L11: 1.6814 L22: 0.4542 REMARK 3 L33: 0.9833 L12: 0.0450 REMARK 3 L13: 0.1331 L23: -0.1688 REMARK 3 S TENSOR REMARK 3 S11: 0.0037 S12: -0.1496 S13: 0.1318 REMARK 3 S21: 0.1284 S22: -0.0177 S23: -0.1326 REMARK 3 S31: -0.1965 S32: 0.1647 S33: 0.0140 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 257 A 268 REMARK 3 RESIDUE RANGE : A 324 A 461 REMARK 3 ORIGIN FOR THE GROUP (A): 15.3980 16.5650 73.2090 REMARK 3 T TENSOR REMARK 3 T11: 0.1681 T22: 0.1307 REMARK 3 T33: 0.1520 T12: 0.0423 REMARK 3 T13: 0.0171 T23: -0.0057 REMARK 3 L TENSOR REMARK 3 L11: 0.8279 L22: 0.5273 REMARK 3 L33: 0.7175 L12: -0.0018 REMARK 3 L13: -0.3597 L23: 0.0893 REMARK 3 S TENSOR REMARK 3 S11: 0.0110 S12: 0.0411 S13: -0.0331 REMARK 3 S21: 0.0741 S22: -0.0389 S23: 0.0245 REMARK 3 S31: -0.0069 S32: -0.0890 S33: 0.0279 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 269 A 323 REMARK 3 ORIGIN FOR THE GROUP (A): 1.2250 27.8530 89.7070 REMARK 3 T TENSOR REMARK 3 T11: 0.1949 T22: 0.1619 REMARK 3 T33: 0.1210 T12: 0.0507 REMARK 3 T13: 0.1241 T23: -0.0468 REMARK 3 L TENSOR REMARK 3 L11: 2.2428 L22: 0.3312 REMARK 3 L33: 1.0092 L12: -0.0683 REMARK 3 L13: -1.5916 L23: 0.2095 REMARK 3 S TENSOR REMARK 3 S11: 0.2813 S12: -0.0973 S13: 0.1989 REMARK 3 S21: -0.0218 S22: -0.0260 S23: -0.0890 REMARK 3 S31: -0.1506 S32: 0.0253 S33: -0.2553 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 : B 197 B 256 REMARK 3 ORIGIN FOR THE GROUP (A): 10.4520 59.7240 77.0430 REMARK 3 T TENSOR REMARK 3 T11: 0.1680 T22: 0.2160 REMARK 3 T33: 0.1468 T12: 0.0354 REMARK 3 T13: -0.0584 T23: -0.0259 REMARK 3 L TENSOR REMARK 3 L11: 0.9726 L22: 1.4337 REMARK 3 L33: 1.9361 L12: 0.4510 REMARK 3 L13: -0.0386 L23: 0.0577 REMARK 3 S TENSOR REMARK 3 S11: -0.0964 S12: -0.1431 S13: 0.0239 REMARK 3 S21: 0.2752 S22: 0.0683 S23: -0.1640 REMARK 3 S31: -0.0945 S32: 0.3555 S33: 0.0281 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 257 B 268 REMARK 3 RESIDUE RANGE : B 324 B 461 REMARK 3 ORIGIN FOR THE GROUP (A): 1.8970 51.2730 61.2180 REMARK 3 T TENSOR REMARK 3 T11: 0.1564 T22: 0.1412 REMARK 3 T33: 0.1517 T12: 0.0424 REMARK 3 T13: 0.0121 T23: 0.0034 REMARK 3 L TENSOR REMARK 3 L11: 0.3915 L22: 0.6030 REMARK 3 L33: 1.1284 L12: 0.0348 REMARK 3 L13: -0.2432 L23: -0.2313 REMARK 3 S TENSOR REMARK 3 S11: -0.0946 S12: 0.0074 S13: 0.0157 REMARK 3 S21: 0.0173 S22: 0.0436 S23: 0.0302 REMARK 3 S31: 0.0825 S32: 0.1532 S33: 0.0510 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 : B 269 B 323 REMARK 3 ORIGIN FOR THE GROUP (A): 22.7120 46.8280 55.0390 REMARK 3 T TENSOR REMARK 3 T11: 0.1192 T22: 0.2752 REMARK 3 T33: 0.2904 T12: 0.1307 REMARK 3 T13: 0.0265 T23: 0.0554 REMARK 3 L TENSOR REMARK 3 L11: -0.0168 L22: 2.2994 REMARK 3 L33: 0.7436 L12: -1.3756 REMARK 3 L13: -0.1508 L23: 0.7034 REMARK 3 S TENSOR REMARK 3 S11: -0.1343 S12: -0.0942 S13: 0.0853 REMARK 3 S21: 0.1894 S22: -0.0021 S23: -0.5977 REMARK 3 S31: 0.1609 S32: 0.2812 S33: 0.1363 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 1W2C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-JUL-04. REMARK 100 THE DEPOSITION ID IS D_1290014563. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 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 : 48847 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 55.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 6.680 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.0664 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.91 REMARK 200 R MERGE FOR SHELL (I) : 0.30000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.280 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.835 M NA CITRATE, 0.1 M NACL, 0.1 M REMARK 280 TRIS PH=8, PH 8.00 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 95.60200 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 95.60200 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 36.03150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.75850 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 36.03150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.75850 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 95.60200 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 36.03150 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 48.75850 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 95.60200 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 36.03150 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 48.75850 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 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 B2048 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 ALA B 278 REMARK 465 ARG B 279 REMARK 465 GLU B 280 REMARK 465 ARG B 281 REMARK 465 PRO B 282 REMARK 465 GLU B 298 REMARK 465 ALA B 299 REMARK 465 PRO B 300 REMARK 465 THR B 301 REMARK 465 GLU B 302 REMARK 465 GLU B 303 REMARK 465 GLU B 304 REMARK 465 HIS B 305 REMARK 465 ALA B 306 REMARK 465 GLN B 307 REMARK 465 ARG B 308 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 ASP A 225 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 262 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 339 CB - CG - OD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG A 376 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 376 NE - CZ - NH1 ANGL. DEV. = 3.4 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 281 61.33 -160.02 REMARK 500 ASP A 339 -23.89 -36.02 REMARK 500 ARG A 350 -48.82 -136.27 REMARK 500 ASP A 416 83.69 76.04 REMARK 500 ARG B 350 -50.17 -123.94 REMARK 500 ASP B 416 87.11 69.68 REMARK 500 ASP B 425 105.63 -26.65 REMARK 500 ARG B 440 15.06 59.22 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 MN A1464 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 416 OD2 REMARK 620 2 ANP A1462 O1G 111.6 REMARK 620 3 ANP A1462 O1A 89.5 117.5 REMARK 620 4 HOH A2165 O 96.4 113.4 121.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B1464 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 416 OD2 REMARK 620 2 ANP B1462 N3B 77.4 REMARK 620 3 ANP B1462 O1A 89.0 89.2 REMARK 620 4 HOH B2156 O 77.2 152.9 99.8 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A1464 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1465 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1466 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B1464 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1465 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ANP A1462 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE I3P A1463 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ANP B1462 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE I3P B1463 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1W2D RELATED DB: PDB REMARK 900 HUMAN INOSITOL (1,4,5)-TRISPHOSPHATE 3-KINASE COMPLEXED WITH MN2+/ REMARK 900 ADP/INS(1,3,4,5) REMARK 900 RELATED ID: 1W2F RELATED DB: PDB REMARK 900 HUMAN INOSITOL (1,4,5)-TRISPHOSPHATE 3-KINASE SUBSTITUTED WITH REMARK 900 SELENOMETHIONINE DBREF 1W2C A 197 461 UNP P23677 IP3K_HUMAN 197 461 DBREF 1W2C B 197 461 UNP P23677 IP3K_HUMAN 197 461 SEQRES 1 A 265 SER PHE LYS ALA ALA GLY THR SER GLY LEU ILE LEU LYS SEQRES 2 A 265 ARG CYS SER GLU PRO GLU ARG TYR CYS LEU ALA ARG LEU SEQRES 3 A 265 MET ALA ASP ALA LEU ARG GLY CYS VAL PRO ALA PHE HIS SEQRES 4 A 265 GLY VAL VAL GLU ARG ASP GLY GLU SER TYR LEU GLN LEU SEQRES 5 A 265 GLN ASP LEU LEU ASP GLY PHE ASP GLY PRO CYS VAL LEU SEQRES 6 A 265 ASP CYS LYS MET GLY VAL ARG THR TYR LEU GLU GLU GLU SEQRES 7 A 265 LEU THR LYS ALA ARG GLU ARG PRO LYS LEU ARG LYS ASP SEQRES 8 A 265 MET TYR LYS LYS MET LEU ALA VAL ASP PRO GLU ALA PRO SEQRES 9 A 265 THR GLU GLU GLU HIS ALA GLN ARG ALA VAL THR LYS PRO SEQRES 10 A 265 ARG TYR MET GLN TRP ARG GLU GLY ILE SER SER SER THR SEQRES 11 A 265 THR LEU GLY PHE ARG ILE GLU GLY ILE LYS LYS ALA ASP SEQRES 12 A 265 GLY SER CYS SER THR ASP PHE LYS THR THR ARG SER ARG SEQRES 13 A 265 GLU GLN VAL LEU ARG VAL PHE GLU GLU PHE VAL GLN GLY SEQRES 14 A 265 ASP GLU GLU VAL LEU ARG ARG TYR LEU ASN ARG LEU GLN SEQRES 15 A 265 GLN ILE ARG ASP THR LEU GLU VAL SER GLU PHE PHE ARG SEQRES 16 A 265 ARG HIS GLU VAL ILE GLY SER SER LEU LEU PHE VAL HIS SEQRES 17 A 265 ASP HIS CYS HIS ARG ALA GLY VAL TRP LEU ILE ASP PHE SEQRES 18 A 265 GLY LYS THR THR PRO LEU PRO ASP GLY GLN ILE LEU ASP SEQRES 19 A 265 HIS ARG ARG PRO TRP GLU GLU GLY ASN ARG GLU ASP GLY SEQRES 20 A 265 TYR LEU LEU GLY LEU ASP ASN LEU ILE GLY ILE LEU ALA SEQRES 21 A 265 SER LEU ALA GLU ARG SEQRES 1 B 265 SER PHE LYS ALA ALA GLY THR SER GLY LEU ILE LEU LYS SEQRES 2 B 265 ARG CYS SER GLU PRO GLU ARG TYR CYS LEU ALA ARG LEU SEQRES 3 B 265 MET ALA ASP ALA LEU ARG GLY CYS VAL PRO ALA PHE HIS SEQRES 4 B 265 GLY VAL VAL GLU ARG ASP GLY GLU SER TYR LEU GLN LEU SEQRES 5 B 265 GLN ASP LEU LEU ASP GLY PHE ASP GLY PRO CYS VAL LEU SEQRES 6 B 265 ASP CYS LYS MET GLY VAL ARG THR TYR LEU GLU GLU GLU SEQRES 7 B 265 LEU THR LYS ALA ARG GLU ARG PRO LYS LEU ARG LYS ASP SEQRES 8 B 265 MET TYR LYS LYS MET LEU ALA VAL ASP PRO GLU ALA PRO SEQRES 9 B 265 THR GLU GLU GLU HIS ALA GLN ARG ALA VAL THR LYS PRO SEQRES 10 B 265 ARG TYR MET GLN TRP ARG GLU GLY ILE SER SER SER THR SEQRES 11 B 265 THR LEU GLY PHE ARG ILE GLU GLY ILE LYS LYS ALA ASP SEQRES 12 B 265 GLY SER CYS SER THR ASP PHE LYS THR THR ARG SER ARG SEQRES 13 B 265 GLU GLN VAL LEU ARG VAL PHE GLU GLU PHE VAL GLN GLY SEQRES 14 B 265 ASP GLU GLU VAL LEU ARG ARG TYR LEU ASN ARG LEU GLN SEQRES 15 B 265 GLN ILE ARG ASP THR LEU GLU VAL SER GLU PHE PHE ARG SEQRES 16 B 265 ARG HIS GLU VAL ILE GLY SER SER LEU LEU PHE VAL HIS SEQRES 17 B 265 ASP HIS CYS HIS ARG ALA GLY VAL TRP LEU ILE ASP PHE SEQRES 18 B 265 GLY LYS THR THR PRO LEU PRO ASP GLY GLN ILE LEU ASP SEQRES 19 B 265 HIS ARG ARG PRO TRP GLU GLU GLY ASN ARG GLU ASP GLY SEQRES 20 B 265 TYR LEU LEU GLY LEU ASP ASN LEU ILE GLY ILE LEU ALA SEQRES 21 B 265 SER LEU ALA GLU ARG HET ANP A1462 31 HET I3P A1463 24 HET MN A1464 1 HET SO4 A1465 5 HET SO4 A1466 5 HET ANP B1462 31 HET I3P B1463 24 HET MN B1464 1 HET SO4 B1465 5 HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM I3P D-MYO-INOSITOL-1,4,5-TRIPHOSPHATE HETNAM MN MANGANESE (II) ION HETNAM SO4 SULFATE ION FORMUL 3 ANP 2(C10 H17 N6 O12 P3) FORMUL 4 I3P 2(C6 H15 O15 P3) FORMUL 5 MN 2(MN 2+) FORMUL 6 SO4 3(O4 S 2-) FORMUL 12 HOH *324(H2 O) HELIX 1 1 SER A 212 ALA A 224 1 13 HELIX 2 2 ASP A 225 VAL A 231 5 7 HELIX 3 3 LEU A 271 ARG A 281 1 11 HELIX 4 4 ARG A 285 ASP A 296 1 12 HELIX 5 5 THR A 301 ARG A 308 1 8 HELIX 6 6 THR A 311 SER A 323 1 13 HELIX 7 7 SER A 324 GLY A 329 1 6 HELIX 8 8 SER A 351 GLN A 364 1 14 HELIX 9 9 ASP A 366 SER A 387 1 22 HELIX 10 10 SER A 387 ARG A 392 1 6 HELIX 11 11 GLY A 443 GLU A 460 1 18 HELIX 12 12 SER B 212 ALA B 224 1 13 HELIX 13 13 LEU B 227 VAL B 231 5 5 HELIX 14 14 GLU B 272 LYS B 277 1 6 HELIX 15 15 ARG B 285 ASP B 296 1 12 HELIX 16 16 THR B 311 SER B 323 1 13 HELIX 17 17 SER B 324 GLY B 329 1 6 HELIX 18 18 SER B 351 GLN B 364 1 14 HELIX 19 19 ASP B 366 SER B 387 1 22 HELIX 20 20 SER B 387 ARG B 392 1 6 HELIX 21 21 GLY B 443 ARG B 461 1 19 SHEET 1 AA 4 PHE A 198 ALA A 200 0 SHEET 2 AA 4 LEU A 206 ARG A 210 -1 O LEU A 208 N LYS A 199 SHEET 3 AA 4 SER A 244 GLN A 249 -1 O LEU A 246 N LYS A 209 SHEET 4 AA 4 PHE A 234 GLU A 239 -1 N HIS A 235 O GLN A 247 SHEET 1 AB 5 CYS A 342 SER A 343 0 SHEET 2 AB 5 PHE A 330 LYS A 336 -1 O ILE A 335 N SER A 343 SHEET 3 AB 5 CYS A 259 MET A 265 -1 O VAL A 260 N LYS A 336 SHEET 4 AB 5 SER A 399 HIS A 404 -1 O LEU A 400 N CYS A 263 SHEET 5 AB 5 ALA A 410 ILE A 415 -1 O GLY A 411 N VAL A 403 SHEET 1 AC 2 HIS A 393 ILE A 396 0 SHEET 2 AC 2 LYS A 419 PRO A 422 -1 O LYS A 419 N ILE A 396 SHEET 1 BA 4 PHE B 198 ALA B 200 0 SHEET 2 BA 4 LEU B 206 ARG B 210 -1 O LEU B 208 N LYS B 199 SHEET 3 BA 4 GLU B 243 GLN B 249 -1 O LEU B 246 N LYS B 209 SHEET 4 BA 4 PHE B 234 ARG B 240 -1 N HIS B 235 O GLN B 247 SHEET 1 BB 5 CYS B 342 SER B 343 0 SHEET 2 BB 5 PHE B 330 LYS B 336 -1 O ILE B 335 N SER B 343 SHEET 3 BB 5 CYS B 259 MET B 265 -1 O VAL B 260 N LYS B 336 SHEET 4 BB 5 SER B 399 HIS B 404 -1 O LEU B 400 N CYS B 263 SHEET 5 BB 5 ALA B 410 ILE B 415 -1 O GLY B 411 N VAL B 403 SHEET 1 BC 2 HIS B 393 VAL B 395 0 SHEET 2 BC 2 THR B 420 PRO B 422 -1 O THR B 421 N GLU B 394 LINK OD2 ASP A 416 MN MN A1464 1555 1555 2.16 LINK O1G ANP A1462 MN MN A1464 1555 1555 2.49 LINK O1A ANP A1462 MN MN A1464 1555 1555 2.12 LINK MN MN A1464 O HOH A2165 1555 1555 2.35 LINK OD2 ASP B 416 MN MN B1464 1555 1555 2.20 LINK N3B ANP B1462 MN MN B1464 1555 1555 2.76 LINK O1A ANP B1462 MN MN B1464 1555 1555 2.19 LINK MN MN B1464 O HOH B2156 1555 1555 2.39 SITE 1 AC1 3 ASP A 416 ANP A1462 HOH A2165 SITE 1 AC2 4 ARG A 352 SER A 457 ARG A 461 HOH A2158 SITE 1 AC3 3 GLN A 354 ARG A 357 HOH A2166 SITE 1 AC4 3 ASP B 416 ANP B1462 HOH B2156 SITE 1 AC5 4 GLN B 354 ARG B 357 HOH B2157 HOH B2158 SITE 1 AC6 14 SER A 197 PHE A 198 LYS A 209 PRO A 232 SITE 2 AC6 14 GLN A 249 ASP A 250 LEU A 251 ASP A 262 SITE 3 AC6 14 LYS A 336 ASP A 416 I3P A1463 MN A1464 SITE 4 AC6 14 HOH A2032 HOH A2162 SITE 1 AC7 14 LYS A 264 ARG A 285 MET A 288 LYS A 312 SITE 2 AC7 14 TYR A 315 MET A 316 ARG A 319 LYS A 419 SITE 3 AC7 14 ANP A1462 HOH A2035 HOH A2070 HOH A2128 SITE 4 AC7 14 HOH A2163 HOH A2164 SITE 1 AC8 15 SER B 197 PHE B 198 LYS B 209 GLN B 249 SITE 2 AC8 15 ASP B 250 LEU B 251 ASP B 262 LYS B 336 SITE 3 AC8 15 LEU B 401 ILE B 415 ASP B 416 I3P B1463 SITE 4 AC8 15 MN B1464 HOH B2032 HOH B2154 SITE 1 AC9 13 LYS B 264 ARG B 285 MET B 288 LYS B 291 SITE 2 AC9 13 LYS B 312 TYR B 315 MET B 316 ARG B 319 SITE 3 AC9 13 LYS B 419 ANP B1462 HOH B2033 HOH B2037 SITE 4 AC9 13 HOH B2155 CRYST1 72.063 97.517 191.204 90.00 90.00 90.00 C 2 2 21 16 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 0.013877 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010255 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005230 0.00000 MTRIX1 1 -0.226330 0.584360 0.779290 -0.85030 1 MTRIX2 1 0.590330 -0.554090 0.586940 0.08568 1 MTRIX3 1 0.774780 0.592880 -0.219560 0.29121 1