HEADER TRANSFERASE 18-AUG-05 2AQX TITLE CRYSTAL STRUCTURE OF THE CATALYTIC AND CAM-BINDING DOMAINS OF INOSITOL TITLE 2 1,4,5-TRISPHOSPHATE 3-KINASE B CAVEAT 2AQX CHIRALITY ERROR AT CA CENTER OF VAL B 651. COMPND MOL_ID: 1; COMPND 2 MOLECULE: PREDICTED: INOSITOL 1,4,5-TRISPHOSPHATE 3-KINASE B; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CAM-BINDING DOMAINS; COMPND 5 EC: 2.7.1.127; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS IP3K, ITPKB, IP3-3K, IP3-3KB, INOSITOL, KINASE, IP3, CALMODULIN KEYWDS 2 BINDING, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.P.CHAMBERLAIN,M.L.SANDBERG,K.SAUER,M.P.COOKE,S.A.LESLEY,G.SPRAGGON REVDAT 4 13-MAR-24 2AQX 1 REMARK LINK REVDAT 3 13-JUL-11 2AQX 1 VERSN REVDAT 2 24-FEB-09 2AQX 1 VERSN REVDAT 1 06-DEC-05 2AQX 0 JRNL AUTH P.P.CHAMBERLAIN,M.L.SANDBERG,K.SAUER,M.P.COOKE,S.A.LESLEY, JRNL AUTH 2 G.SPRAGGON JRNL TITL STRUCTURAL INSIGHTS INTO ENZYME REGULATION FOR INOSITOL JRNL TITL 2 1,4,5-TRISPHOSPHATE 3-KINASE B JRNL REF BIOCHEMISTRY V. 44 14486 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 16262249 JRNL DOI 10.1021/BI051256Q REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 18227 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 979 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1172 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4672 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 66 REMARK 3 SOLVENT ATOMS : 99 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) : 35.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.10000 REMARK 3 B22 (A**2) : -0.28000 REMARK 3 B33 (A**2) : -2.46000 REMARK 3 B12 (A**2) : -1.16000 REMARK 3 B13 (A**2) : 1.53000 REMARK 3 B23 (A**2) : 1.80000 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): 0.357 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.264 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.620 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.880 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4831 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6511 ; 1.677 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 573 ; 9.066 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 232 ;34.414 ;23.966 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 908 ;21.084 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;19.966 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 685 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3610 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2397 ; 0.240 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3244 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 215 ; 0.160 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.099 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 59 ; 0.202 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.254 ; 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): 2958 ; 0.720 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4630 ; 1.237 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2146 ; 1.799 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1881 ; 2.936 ; 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 651 A 759 REMARK 3 RESIDUE RANGE : A 803 A 937 REMARK 3 ORIGIN FOR THE GROUP (A): -9.6530 41.5471 25.3820 REMARK 3 T TENSOR REMARK 3 T11: -0.0209 T22: -0.0287 REMARK 3 T33: -0.0172 T12: -0.0065 REMARK 3 T13: 0.0143 T23: 0.0006 REMARK 3 L TENSOR REMARK 3 L11: 0.5332 L22: 0.6220 REMARK 3 L33: 1.3520 L12: 0.1607 REMARK 3 L13: 0.3749 L23: 0.2368 REMARK 3 S TENSOR REMARK 3 S11: 0.0448 S12: -0.0477 S13: -0.0289 REMARK 3 S21: 0.0099 S22: -0.0615 S23: 0.1182 REMARK 3 S31: 0.1219 S32: -0.1170 S33: 0.0167 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 : B 651 B 759 REMARK 3 RESIDUE RANGE : B 803 B 937 REMARK 3 ORIGIN FOR THE GROUP (A): 27.3564 47.4529 51.8884 REMARK 3 T TENSOR REMARK 3 T11: -0.0137 T22: -0.0288 REMARK 3 T33: -0.0063 T12: 0.0118 REMARK 3 T13: 0.0045 T23: 0.0213 REMARK 3 L TENSOR REMARK 3 L11: 1.2439 L22: 0.8032 REMARK 3 L33: 1.2173 L12: -0.4472 REMARK 3 L13: 0.7731 L23: -0.6301 REMARK 3 S TENSOR REMARK 3 S11: 0.0114 S12: -0.0658 S13: 0.1349 REMARK 3 S21: -0.0389 S22: -0.1173 S23: -0.1476 REMARK 3 S31: 0.0110 S32: -0.0178 S33: 0.1059 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 760 A 802 REMARK 3 ORIGIN FOR THE GROUP (A): -14.5354 40.2411 -2.7823 REMARK 3 T TENSOR REMARK 3 T11: -0.0593 T22: -0.0946 REMARK 3 T33: -0.1067 T12: 0.0236 REMARK 3 T13: -0.0312 T23: 0.0123 REMARK 3 L TENSOR REMARK 3 L11: 2.0029 L22: 3.8710 REMARK 3 L33: 10.2316 L12: -1.5432 REMARK 3 L13: -1.1743 L23: -0.7416 REMARK 3 S TENSOR REMARK 3 S11: 0.0658 S12: -0.0642 S13: 0.3986 REMARK 3 S21: -0.3383 S22: -0.2903 S23: -0.3349 REMARK 3 S31: -0.3013 S32: -0.0357 S33: 0.2245 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 760 B 802 REMARK 3 ORIGIN FOR THE GROUP (A): 35.4277 36.6386 81.8910 REMARK 3 T TENSOR REMARK 3 T11: 0.2091 T22: 0.2474 REMARK 3 T33: -0.0302 T12: -0.1512 REMARK 3 T13: -0.0897 T23: 0.0776 REMARK 3 L TENSOR REMARK 3 L11: 1.3007 L22: 0.8564 REMARK 3 L33: 15.2549 L12: 0.9463 REMARK 3 L13: -1.6082 L23: 0.3223 REMARK 3 S TENSOR REMARK 3 S11: 0.3504 S12: -0.4755 S13: -0.1395 REMARK 3 S21: 0.5745 S22: -1.0045 S23: 0.0515 REMARK 3 S31: 0.0340 S32: 0.6384 S33: 0.6540 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2AQX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-AUG-05. REMARK 100 THE DEPOSITION ID IS D_1000034209. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUL-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19368 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, MAGNESIUM CHLORIDE, HEPES, REMARK 280 ATP, PH 7, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -68.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 B 650 REMARK 465 GLY B 938 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 VAL B 651 N CA CB CG1 CG2 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 CYS A 740 CB CYS A 740 SG -0.102 REMARK 500 GLU B 780 CD GLU B 780 OE1 0.086 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 PRO A 790 C - N - CA ANGL. DEV. = 12.4 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 TRP A 653 -7.01 -140.44 REMARK 500 ASN A 681 32.14 70.00 REMARK 500 LYS A 757 -71.00 -85.72 REMARK 500 PRO A 759 57.91 -93.32 REMARK 500 PRO A 790 -97.75 11.72 REMARK 500 SER A 800 -169.48 -114.85 REMARK 500 ASP A 893 93.94 67.85 REMARK 500 HIS A 908 -10.00 85.39 REMARK 500 GLU A 914 128.28 -30.87 REMARK 500 ARG A 917 3.02 59.77 REMARK 500 GLN A 937 -71.50 -80.53 REMARK 500 TRP B 653 -3.03 -149.02 REMARK 500 LEU B 669 -71.79 -83.85 REMARK 500 ASP B 773 101.57 -164.77 REMARK 500 PRO B 790 -92.40 -11.86 REMARK 500 SER B 800 -168.57 -119.46 REMARK 500 ASN B 843 105.85 -58.66 REMARK 500 ASP B 893 95.06 66.40 REMARK 500 HIS B 908 -4.31 80.19 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 LYS A 789 PRO A 790 106.63 REMARK 500 LYS B 789 PRO B 790 137.27 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 600 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 105 O REMARK 620 2 ASP A 893 OD2 166.2 REMARK 620 3 ATP A1462 O3G 90.3 76.5 REMARK 620 4 ATP A1462 O2A 82.8 94.4 95.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 601 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 893 OD2 REMARK 620 2 ASP A 893 OD1 59.6 REMARK 620 3 ATP A1462 O1B 71.4 77.8 REMARK 620 4 ATP A1462 O1G 105.6 153.6 76.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1600 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 893 OD2 REMARK 620 2 ATP B2462 O2A 62.5 REMARK 620 3 ATP B2462 O3G 64.2 67.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1601 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 893 OD2 REMARK 620 2 ASP B 893 OD1 57.9 REMARK 620 3 ATP B2462 O1B 71.3 77.5 REMARK 620 4 ATP B2462 O1G 97.9 148.5 75.4 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 MG A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP A 1462 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP B 2462 DBREF 2AQX A 650 938 UNP P42335 IP3KB_RAT 722 1010 DBREF 2AQX B 650 938 UNP P42335 IP3KB_RAT 722 1010 SEQRES 1 A 289 MET VAL GLN TRP SER PRO PHE VAL MET SER PHE LYS LYS SEQRES 2 A 289 LYS TYR PRO TRP ILE GLN LEU ALA GLY HIS ALA GLY SER SEQRES 3 A 289 PHE LYS ALA ALA ALA ASN GLY ARG ILE LEU LYS LYS HIS SEQRES 4 A 289 CYS GLU SER GLU GLN ARG CYS LEU ASP ARG LEU MET ALA SEQRES 5 A 289 ASP VAL LEU ARG PRO PHE VAL PRO ALA TYR HIS GLY ASP SEQRES 6 A 289 VAL VAL LYS ASP GLY GLU ARG TYR ASN GLN MET ASP ASP SEQRES 7 A 289 LEU LEU ALA ASP PHE ASP SER PRO CYS VAL MET ASP CYS SEQRES 8 A 289 LYS MET GLY VAL ARG THR TYR LEU GLU GLU GLU LEU THR SEQRES 9 A 289 LYS ALA ARG LYS LYS PRO SER LEU ARG LYS ASP MET TYR SEQRES 10 A 289 GLN LYS MET VAL GLU VAL ASP PRO GLU ALA PRO THR GLU SEQRES 11 A 289 GLU GLU LYS ALA GLN ARG ALA VAL THR LYS PRO ARG TYR SEQRES 12 A 289 MET GLN TRP ARG GLU THR ILE SER SER THR ALA THR LEU SEQRES 13 A 289 GLY PHE ARG ILE GLU GLY ILE LYS LYS GLU ASP GLY SER SEQRES 14 A 289 VAL ASN ARG ASP PHE LYS LYS THR LYS THR ARG GLU GLN SEQRES 15 A 289 VAL THR GLU ALA PHE ARG GLU PHE THR LYS GLY ASN GLN SEQRES 16 A 289 ASN ILE LEU ILE ALA TYR ARG ASP ARG LEU LYS ALA ILE SEQRES 17 A 289 ARG ALA THR LEU GLU ILE SER PRO PHE PHE LYS CYS HIS SEQRES 18 A 289 GLU VAL ILE GLY SER SER LEU LEU PHE ILE HIS ASP LYS SEQRES 19 A 289 LYS GLU GLN ALA LYS VAL TRP MET ILE ASP PHE GLY LYS SEQRES 20 A 289 THR THR PRO LEU PRO GLU GLY GLN THR LEU GLN HIS ASP SEQRES 21 A 289 VAL PRO TRP GLN GLU GLY ASN ARG GLU ASP GLY TYR LEU SEQRES 22 A 289 SER GLY LEU ASP ASN LEU ILE ASP ILE LEU THR GLU MET SEQRES 23 A 289 SER GLN GLY SEQRES 1 B 289 MET VAL GLN TRP SER PRO PHE VAL MET SER PHE LYS LYS SEQRES 2 B 289 LYS TYR PRO TRP ILE GLN LEU ALA GLY HIS ALA GLY SER SEQRES 3 B 289 PHE LYS ALA ALA ALA ASN GLY ARG ILE LEU LYS LYS HIS SEQRES 4 B 289 CYS GLU SER GLU GLN ARG CYS LEU ASP ARG LEU MET ALA SEQRES 5 B 289 ASP VAL LEU ARG PRO PHE VAL PRO ALA TYR HIS GLY ASP SEQRES 6 B 289 VAL VAL LYS ASP GLY GLU ARG TYR ASN GLN MET ASP ASP SEQRES 7 B 289 LEU LEU ALA ASP PHE ASP SER PRO CYS VAL MET ASP CYS SEQRES 8 B 289 LYS MET GLY VAL ARG THR TYR LEU GLU GLU GLU LEU THR SEQRES 9 B 289 LYS ALA ARG LYS LYS PRO SER LEU ARG LYS ASP MET TYR SEQRES 10 B 289 GLN LYS MET VAL GLU VAL ASP PRO GLU ALA PRO THR GLU SEQRES 11 B 289 GLU GLU LYS ALA GLN ARG ALA VAL THR LYS PRO ARG TYR SEQRES 12 B 289 MET GLN TRP ARG GLU THR ILE SER SER THR ALA THR LEU SEQRES 13 B 289 GLY PHE ARG ILE GLU GLY ILE LYS LYS GLU ASP GLY SER SEQRES 14 B 289 VAL ASN ARG ASP PHE LYS LYS THR LYS THR ARG GLU GLN SEQRES 15 B 289 VAL THR GLU ALA PHE ARG GLU PHE THR LYS GLY ASN GLN SEQRES 16 B 289 ASN ILE LEU ILE ALA TYR ARG ASP ARG LEU LYS ALA ILE SEQRES 17 B 289 ARG ALA THR LEU GLU ILE SER PRO PHE PHE LYS CYS HIS SEQRES 18 B 289 GLU VAL ILE GLY SER SER LEU LEU PHE ILE HIS ASP LYS SEQRES 19 B 289 LYS GLU GLN ALA LYS VAL TRP MET ILE ASP PHE GLY LYS SEQRES 20 B 289 THR THR PRO LEU PRO GLU GLY GLN THR LEU GLN HIS ASP SEQRES 21 B 289 VAL PRO TRP GLN GLU GLY ASN ARG GLU ASP GLY TYR LEU SEQRES 22 B 289 SER GLY LEU ASP ASN LEU ILE ASP ILE LEU THR GLU MET SEQRES 23 B 289 SER GLN GLY HET MG A 600 1 HET MG A 601 1 HET ATP A1462 31 HET MG B1600 1 HET MG B1601 1 HET ATP B2462 31 HETNAM MG MAGNESIUM ION HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE FORMUL 3 MG 4(MG 2+) FORMUL 5 ATP 2(C10 H16 N5 O13 P3) FORMUL 9 HOH *99(H2 O) HELIX 1 1 CYS A 689 MET A 700 1 12 HELIX 2 2 LEU A 704 VAL A 708 5 5 HELIX 3 3 LEU A 748 ARG A 756 1 9 HELIX 4 4 ARG A 762 ASP A 773 1 12 HELIX 5 5 THR A 778 ARG A 785 1 8 HELIX 6 6 THR A 788 GLU A 797 1 10 HELIX 7 7 SER A 801 GLY A 806 1 6 HELIX 8 8 THR A 828 LYS A 841 1 14 HELIX 9 9 ASN A 843 GLU A 862 1 20 HELIX 10 10 SER A 864 CYS A 869 1 6 HELIX 11 11 GLY A 920 GLY A 938 1 19 HELIX 12 12 CYS B 689 ALA B 701 1 13 HELIX 13 13 LEU B 704 VAL B 708 5 5 HELIX 14 14 LEU B 748 LYS B 758 1 11 HELIX 15 15 ARG B 762 ASP B 773 1 12 HELIX 16 16 THR B 778 ARG B 785 1 8 HELIX 17 17 THR B 788 GLU B 797 1 10 HELIX 18 18 SER B 801 GLY B 806 1 6 HELIX 19 19 THR B 828 LYS B 841 1 14 HELIX 20 20 ASN B 843 SER B 864 1 22 HELIX 21 21 PHE B 866 LYS B 868 5 3 HELIX 22 22 GLY B 920 GLN B 937 1 18 SHEET 1 A 2 VAL A 657 PRO A 665 0 SHEET 2 A 2 VAL B 657 PRO B 665 -1 O PHE B 660 N LYS A 662 SHEET 1 B 4 PHE A 676 ALA A 678 0 SHEET 2 B 4 ARG A 683 LYS A 687 -1 O LEU A 685 N LYS A 677 SHEET 3 B 4 GLU A 720 ASP A 726 -1 O ASN A 723 N LYS A 686 SHEET 4 B 4 TYR A 711 LYS A 717 -1 N GLY A 713 O GLN A 724 SHEET 1 C 5 VAL A 819 ASN A 820 0 SHEET 2 C 5 PHE A 807 LYS A 813 -1 N ILE A 812 O ASN A 820 SHEET 3 C 5 CYS A 736 MET A 742 -1 N ASP A 739 O GLU A 810 SHEET 4 C 5 SER A 876 HIS A 881 -1 O PHE A 879 N MET A 738 SHEET 5 C 5 ALA A 887 ILE A 892 -1 O LYS A 888 N ILE A 880 SHEET 1 D 2 HIS A 870 VAL A 872 0 SHEET 2 D 2 THR A 897 PRO A 899 -1 O THR A 898 N GLU A 871 SHEET 1 E 4 PHE B 676 ALA B 678 0 SHEET 2 E 4 ARG B 683 LYS B 687 -1 O LEU B 685 N LYS B 677 SHEET 3 E 4 GLU B 720 ASP B 726 -1 O ASN B 723 N LYS B 686 SHEET 4 E 4 TYR B 711 LYS B 717 -1 N VAL B 715 O TYR B 722 SHEET 1 F 5 VAL B 819 ASN B 820 0 SHEET 2 F 5 PHE B 807 LYS B 813 -1 N ILE B 812 O ASN B 820 SHEET 3 F 5 CYS B 736 MET B 742 -1 N ASP B 739 O GLU B 810 SHEET 4 F 5 SER B 876 HIS B 881 -1 O HIS B 881 N CYS B 736 SHEET 5 F 5 ALA B 887 ILE B 892 -1 O LYS B 888 N ILE B 880 SHEET 1 G 2 HIS B 870 ILE B 873 0 SHEET 2 G 2 LYS B 896 PRO B 899 -1 O THR B 898 N GLU B 871 LINK O HOH A 105 MG MG A 600 1555 1555 2.20 LINK MG MG A 600 OD2 ASP A 893 1555 1555 2.28 LINK MG MG A 600 O3G ATP A1462 1555 1555 1.97 LINK MG MG A 600 O2A ATP A1462 1555 1555 1.99 LINK MG MG A 601 OD2 ASP A 893 1555 1555 1.85 LINK MG MG A 601 OD1 ASP A 893 1555 1555 2.41 LINK MG MG A 601 O1B ATP A1462 1555 1555 2.38 LINK MG MG A 601 O1G ATP A1462 1555 1555 2.28 LINK OD2 ASP B 893 MG MG B1600 1555 1555 2.13 LINK OD2 ASP B 893 MG MG B1601 1555 1555 2.38 LINK OD1 ASP B 893 MG MG B1601 1555 1555 2.15 LINK MG MG B1600 O2A ATP B2462 1555 1555 2.64 LINK MG MG B1600 O3G ATP B2462 1555 1555 2.41 LINK MG MG B1601 O1B ATP B2462 1555 1555 2.29 LINK MG MG B1601 O1G ATP B2462 1555 1555 2.10 SITE 1 AC1 4 HOH A 105 GLY A 874 ASP A 893 ATP A1462 SITE 1 AC2 3 ASP A 893 LYS A 896 ATP A1462 SITE 1 AC3 5 LYS B 741 GLY B 874 SER B 876 ASP B 893 SITE 2 AC3 5 ATP B2462 SITE 1 AC4 2 ASP B 893 ATP B2462 SITE 1 AC5 23 HOH A 2 HOH A 6 HOH A 8 HOH A 21 SITE 2 AC5 23 HOH A 105 MG A 600 MG A 601 TRP A 666 SITE 3 AC5 23 ILE A 667 LEU A 669 ALA A 670 GLY A 671 SITE 4 AC5 23 PHE A 676 LYS A 686 PRO A 709 MET A 725 SITE 5 AC5 23 ASP A 726 ASP A 727 LEU A 728 ASP A 739 SITE 6 AC5 23 LEU A 878 ASP A 893 LYS A 896 SITE 1 AC6 19 HOH B 53 HOH B 79 TRP B 666 ILE B 667 SITE 2 AC6 19 LEU B 669 ALA B 670 GLY B 671 PHE B 676 SITE 3 AC6 19 LYS B 686 PRO B 709 MET B 725 ASP B 726 SITE 4 AC6 19 ASP B 727 LEU B 728 ASP B 739 LYS B 741 SITE 5 AC6 19 ASP B 893 MG B1600 MG B1601 CRYST1 53.204 60.655 56.851 59.90 72.74 88.18 P 1 2 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 0.018796 -0.000597 -0.006456 0.00000 SCALE2 0.000000 0.016495 -0.009925 0.00000 SCALE3 0.000000 0.000000 0.021496 0.00000