HEADER TRANSFERASE 07-JUL-23 8PPD TITLE HUMAN INOSITOL 1,4,5-TRISPHOSPHATE 3-KINASE A (IP3K) CATALYTIC DOMAIN TITLE 2 IN COMPLEX WITH DL-6-DEOXY-6-HYDROXY-METHYL-SCYLLO-INOSITOL 1,2,4- TITLE 3 TRISPHOSPHATE/ATP/MN COMPND MOL_ID: 1; COMPND 2 MOLECULE: INOSITOL-TRISPHOSPHATE 3-KINASE A; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: INOSITOL 1,4,5-TRISPHOSPHATE 3-KINASE A,IP3 3-KINASE A,IP3K COMPND 5 A,INSP 3-KINASE A; COMPND 6 EC: 2.7.1.127; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: CATALYTIC DOMAIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ITPKA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 STAR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: POPTG KEYWDS INOSITOL POLYPHOSPHATE, INSP, INOSITOL KINASE, IP3K, CALCIUM, INSP3, KEYWDS 2 IP3, IPK, IP3 3-K, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.A.MARQUEZ-MONINO,B.GONZALEZ REVDAT 2 27-MAR-24 8PPD 1 JRNL REVDAT 1 28-FEB-24 8PPD 0 JRNL AUTH M.A.MARQUEZ-MONINO,R.ORTEGA-GARCIA,H.WHITFIELD,A.M.RILEY, JRNL AUTH 2 L.INFANTES,S.W.GARRETT,M.L.SHIPTON,C.A.BREARLEY, JRNL AUTH 3 B.V.L.POTTER,B.GONZALEZ JRNL TITL SUBSTRATE PROMISCUITY OF INOSITOL 1,4,5-TRISPHOSPHATE KINASE JRNL TITL 2 DRIVEN BY STRUCTURALLY-MODIFIED LIGANDS AND ACTIVE SITE JRNL TITL 3 PLASTICITY. JRNL REF NAT COMMUN V. 15 1502 2024 JRNL REFN ESSN 2041-1723 JRNL PMID 38374076 JRNL DOI 10.1038/S41467-024-45917-5 REMARK 2 REMARK 2 RESOLUTION. 1.77 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 1.77 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.31 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 62730 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3335 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) : 1.77 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4555 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.21 REMARK 3 BIN R VALUE (WORKING SET) : 0.3870 REMARK 3 BIN FREE R VALUE SET COUNT : 210 REMARK 3 BIN FREE R VALUE : 0.4140 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4230 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 149 REMARK 3 SOLVENT ATOMS : 286 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.18000 REMARK 3 B22 (A**2) : -0.09000 REMARK 3 B33 (A**2) : -1.09000 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): 0.120 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.114 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.091 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.003 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4547 ; 0.006 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4129 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6165 ; 1.358 ; 1.658 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9552 ; 1.293 ; 1.591 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 533 ; 6.531 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 274 ;24.970 ;20.109 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 787 ;16.255 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 53 ;17.031 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 564 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5007 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1029 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2135 ; 2.690 ; 4.015 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2134 ; 2.686 ; 4.013 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2667 ; 3.949 ; 5.988 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2668 ; 3.949 ; 5.989 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2412 ; 3.116 ; 4.440 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2407 ; 3.106 ; 4.433 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3493 ; 4.898 ; 6.523 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5093 ; 7.464 ;46.607 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5040 ; 7.436 ;46.381 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : NULL REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 0 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 2083 ; 0.48 ; 0.50 REMARK 3 TIGHT THERMAL 1 A (A**2): 1264 ; 3.56 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2083 ; 4.20 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 8PPD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1292129212. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-JUL-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979178 REMARK 200 MONOCHROMATOR : CHANNEL-CUT SI(111) REMARK 200 OPTICS : KB MIRRORS, RECTANGULAR BEAM REMARK 200 SHAPE REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66119 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.770 REMARK 200 RESOLUTION RANGE LOW (A) : 48.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 11.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.77 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: CUBE / TRAPEZOIDAL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.83 M SODIUM CITRATE, 0.1M TRIS PH REMARK 280 8.5 AND 0.1 M NACL. PROTEIN:PRECIPITANT RATIO 1:1. PROTEIN REMARK 280 CONCENTRATION: 18 MG/ML. PROTEIN BUFFER: 20 MM TRIS PH 7.5, 50 REMARK 280 MM AMMONIUM SULFATE AND 2 MM DTT. SOAKING 2H WITH 1.5 M LITHIUM REMARK 280 SULFATE, 0.1 M TRIS PH 8.5, 10 MM LIGAND, 3 MM ATP AND 3 MM REMARK 280 MNCL2., VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K 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 96.02800 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 96.02800 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 36.08000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.76200 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 36.08000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.76200 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 96.02800 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 36.08000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 48.76200 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 96.02800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 36.08000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 48.76200 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 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 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 S SO4 B 503 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 717 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A 187 REMARK 465 TRP A 188 REMARK 465 VAL A 189 REMARK 465 GLN A 190 REMARK 465 LEU A 191 REMARK 465 ALA A 192 REMARK 465 GLY A 193 REMARK 465 HIS A 194 REMARK 465 THR A 195 REMARK 465 GLY B 193 REMARK 465 HIS B 194 REMARK 465 LYS B 277 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 LYS B 283 REMARK 465 LEU B 284 REMARK 465 ARG B 285 REMARK 465 LYS B 286 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: 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 53.18 -161.13 REMARK 500 ARG A 350 -48.53 -131.22 REMARK 500 ASP A 416 85.06 74.55 REMARK 500 ARG B 350 -51.26 -131.17 REMARK 500 ARG B 350 -47.75 -131.31 REMARK 500 ASP B 416 88.77 73.88 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 A 506 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 416 OD2 REMARK 620 2 ATP A 504 O3G 98.6 REMARK 620 3 ATP A 504 O1A 101.1 122.4 REMARK 620 4 HOH A 649 O 91.7 106.7 126.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 507 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 416 OD2 REMARK 620 2 ATP B 505 PG 115.3 REMARK 620 3 ATP B 505 O1G 80.6 34.9 REMARK 620 4 ATP B 505 O2G 141.3 38.3 66.8 REMARK 620 5 ATP B 505 O3B 116.1 35.4 55.5 61.6 REMARK 620 6 ATP B 505 O1A 111.3 105.0 125.0 104.5 72.3 REMARK 620 7 ATP B 505 O1A 110.6 105.7 125.4 105.3 72.9 0.8 REMARK 620 8 HOH B 650 O 88.5 136.9 136.8 100.9 155.4 98.0 97.7 REMARK 620 N 1 2 3 4 5 6 7 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8PP8 RELATED DB: PDB REMARK 900 SAME PROTEIN, DIFFERENT LIGAND. REMARK 900 RELATED ID: 8PP9 RELATED DB: PDB REMARK 900 SAME PROTEIN, DIFFERENT LIGAND. REMARK 900 RELATED ID: 8PPA RELATED DB: PDB REMARK 900 SAME PROTEIN, DIFFERENT LIGAND. REMARK 900 RELATED ID: 8PPB RELATED DB: PDB REMARK 900 SAME PROTEIN, DIFFERENT LIGAND. REMARK 900 RELATED ID: 8PPC RELATED DB: PDB REMARK 900 SAME PROTEIN, DIFFERENT LIGAND. DBREF 8PPD A 188 461 UNP P23677 IP3KA_HUMAN 188 461 DBREF 8PPD B 188 461 UNP P23677 IP3KA_HUMAN 188 461 SEQADV 8PPD GLY A 183 UNP P23677 EXPRESSION TAG SEQADV 8PPD SER A 184 UNP P23677 EXPRESSION TAG SEQADV 8PPD HIS A 185 UNP P23677 EXPRESSION TAG SEQADV 8PPD MET A 186 UNP P23677 EXPRESSION TAG SEQADV 8PPD SER A 187 UNP P23677 EXPRESSION TAG SEQADV 8PPD GLY B 183 UNP P23677 EXPRESSION TAG SEQADV 8PPD SER B 184 UNP P23677 EXPRESSION TAG SEQADV 8PPD HIS B 185 UNP P23677 EXPRESSION TAG SEQADV 8PPD MET B 186 UNP P23677 EXPRESSION TAG SEQADV 8PPD SER B 187 UNP P23677 EXPRESSION TAG SEQRES 1 A 279 GLY SER HIS MET SER TRP VAL GLN LEU ALA GLY HIS THR SEQRES 2 A 279 GLY SER PHE LYS ALA ALA GLY THR SER GLY LEU ILE LEU SEQRES 3 A 279 LYS ARG CYS SER GLU PRO GLU ARG TYR CYS LEU ALA ARG SEQRES 4 A 279 LEU MET ALA ASP ALA LEU ARG GLY CYS VAL PRO ALA PHE SEQRES 5 A 279 HIS GLY VAL VAL GLU ARG ASP GLY GLU SER TYR LEU GLN SEQRES 6 A 279 LEU GLN ASP LEU LEU ASP GLY PHE ASP GLY PRO CYS VAL SEQRES 7 A 279 LEU ASP CYS LYS MET GLY VAL ARG THR TYR LEU GLU GLU SEQRES 8 A 279 GLU LEU THR LYS ALA ARG GLU ARG PRO LYS LEU ARG LYS SEQRES 9 A 279 ASP MET TYR LYS LYS MET LEU ALA VAL ASP PRO GLU ALA SEQRES 10 A 279 PRO THR GLU GLU GLU HIS ALA GLN ARG ALA VAL THR LYS SEQRES 11 A 279 PRO ARG TYR MET GLN TRP ARG GLU GLY ILE SER SER SER SEQRES 12 A 279 THR THR LEU GLY PHE ARG ILE GLU GLY ILE LYS LYS ALA SEQRES 13 A 279 ASP GLY SER CYS SER THR ASP PHE LYS THR THR ARG SER SEQRES 14 A 279 ARG GLU GLN VAL LEU ARG VAL PHE GLU GLU PHE VAL GLN SEQRES 15 A 279 GLY ASP GLU GLU VAL LEU ARG ARG TYR LEU ASN ARG LEU SEQRES 16 A 279 GLN GLN ILE ARG ASP THR LEU GLU VAL SER GLU PHE PHE SEQRES 17 A 279 ARG ARG HIS GLU VAL ILE GLY SER SER LEU LEU PHE VAL SEQRES 18 A 279 HIS ASP HIS CYS HIS ARG ALA GLY VAL TRP LEU ILE ASP SEQRES 19 A 279 PHE GLY LYS THR THR PRO LEU PRO ASP GLY GLN ILE LEU SEQRES 20 A 279 ASP HIS ARG ARG PRO TRP GLU GLU GLY ASN ARG GLU ASP SEQRES 21 A 279 GLY TYR LEU LEU GLY LEU ASP ASN LEU ILE GLY ILE LEU SEQRES 22 A 279 ALA SER LEU ALA GLU ARG SEQRES 1 B 279 GLY SER HIS MET SER TRP VAL GLN LEU ALA GLY HIS THR SEQRES 2 B 279 GLY SER PHE LYS ALA ALA GLY THR SER GLY LEU ILE LEU SEQRES 3 B 279 LYS ARG CYS SER GLU PRO GLU ARG TYR CYS LEU ALA ARG SEQRES 4 B 279 LEU MET ALA ASP ALA LEU ARG GLY CYS VAL PRO ALA PHE SEQRES 5 B 279 HIS GLY VAL VAL GLU ARG ASP GLY GLU SER TYR LEU GLN SEQRES 6 B 279 LEU GLN ASP LEU LEU ASP GLY PHE ASP GLY PRO CYS VAL SEQRES 7 B 279 LEU ASP CYS LYS MET GLY VAL ARG THR TYR LEU GLU GLU SEQRES 8 B 279 GLU LEU THR LYS ALA ARG GLU ARG PRO LYS LEU ARG LYS SEQRES 9 B 279 ASP MET TYR LYS LYS MET LEU ALA VAL ASP PRO GLU ALA SEQRES 10 B 279 PRO THR GLU GLU GLU HIS ALA GLN ARG ALA VAL THR LYS SEQRES 11 B 279 PRO ARG TYR MET GLN TRP ARG GLU GLY ILE SER SER SER SEQRES 12 B 279 THR THR LEU GLY PHE ARG ILE GLU GLY ILE LYS LYS ALA SEQRES 13 B 279 ASP GLY SER CYS SER THR ASP PHE LYS THR THR ARG SER SEQRES 14 B 279 ARG GLU GLN VAL LEU ARG VAL PHE GLU GLU PHE VAL GLN SEQRES 15 B 279 GLY ASP GLU GLU VAL LEU ARG ARG TYR LEU ASN ARG LEU SEQRES 16 B 279 GLN GLN ILE ARG ASP THR LEU GLU VAL SER GLU PHE PHE SEQRES 17 B 279 ARG ARG HIS GLU VAL ILE GLY SER SER LEU LEU PHE VAL SEQRES 18 B 279 HIS ASP HIS CYS HIS ARG ALA GLY VAL TRP LEU ILE ASP SEQRES 19 B 279 PHE GLY LYS THR THR PRO LEU PRO ASP GLY GLN ILE LEU SEQRES 20 B 279 ASP HIS ARG ARG PRO TRP GLU GLU GLY ASN ARG GLU ASP SEQRES 21 B 279 GLY TYR LEU LEU GLY LEU ASP ASN LEU ILE GLY ILE LEU SEQRES 22 B 279 ALA SER LEU ALA GLU ARG HET SO4 A 501 5 HET SO4 A 502 5 HET SO4 A 503 5 HET ATP A 504 31 HET 75I A 505 25 HET MN A 506 1 HET SO4 B 501 5 HET SO4 B 502 5 HET SO4 B 503 5 HET 75I B 504 25 HET ATP B 505 62 HET SO4 B 506 5 HET MN B 507 1 HETNAM SO4 SULFATE ION HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM 75I DL-6-DEOXY-6-HYDROXY-METHYL-SCYLLO-INOSITOL 1,2,4- HETNAM 2 75I TRISPHOSPHATE HETNAM MN MANGANESE (II) ION HETSYN 75I [(1R,2S,3S,4R,5S,6R)-2-(HYDROXYMETHYL)-3,5- HETSYN 2 75I BIS(OXIDANYL)-4,6-DIPHOSPHONOOXY-CYCLOHEXYL] HETSYN 3 75I DIHYDROGEN PHOSPHATE FORMUL 3 SO4 7(O4 S 2-) FORMUL 6 ATP 2(C10 H16 N5 O13 P3) FORMUL 7 75I 2(C7 H17 O15 P3) FORMUL 8 MN 2(MN 2+) FORMUL 16 HOH *286(H2 O) HELIX 1 AA1 SER A 212 MET A 223 1 12 HELIX 2 AA2 ALA A 224 VAL A 231 5 8 HELIX 3 AA3 GLU A 272 ARG A 281 1 10 HELIX 4 AA4 ARG A 285 ASP A 296 1 12 HELIX 5 AA5 THR A 301 ARG A 308 1 8 HELIX 6 AA6 THR A 311 SER A 323 1 13 HELIX 7 AA7 SER A 324 GLY A 329 1 6 HELIX 8 AA8 SER A 351 GLN A 364 1 14 HELIX 9 AA9 ASP A 366 SER A 387 1 22 HELIX 10 AB1 SER A 387 ARG A 392 1 6 HELIX 11 AB2 GLY A 443 GLU A 460 1 18 HELIX 12 AB3 SER B 184 ALA B 192 1 9 HELIX 13 AB4 SER B 212 MET B 223 1 12 HELIX 14 AB5 ALA B 224 VAL B 231 5 8 HELIX 15 AB6 LEU B 271 LEU B 275 5 5 HELIX 16 AB7 TYR B 289 ASP B 296 1 8 HELIX 17 AB8 THR B 311 SER B 323 1 13 HELIX 18 AB9 SER B 324 GLY B 329 1 6 HELIX 19 AC1 SER B 351 GLN B 364 1 14 HELIX 20 AC2 ASP B 366 SER B 387 1 22 HELIX 21 AC3 SER B 387 ARG B 392 1 6 HELIX 22 AC4 GLY B 443 ARG B 461 1 19 SHEET 1 AA1 4 PHE A 198 ALA A 200 0 SHEET 2 AA1 4 LEU A 206 ARG A 210 -1 O LEU A 208 N LYS A 199 SHEET 3 AA1 4 GLU A 243 GLN A 249 -1 O LEU A 246 N LYS A 209 SHEET 4 AA1 4 PHE A 234 ARG A 240 -1 N VAL A 238 O TYR A 245 SHEET 1 AA2 5 CYS A 342 SER A 343 0 SHEET 2 AA2 5 PHE A 330 LYS A 336 -1 N ILE A 335 O SER A 343 SHEET 3 AA2 5 CYS A 259 MET A 265 -1 N VAL A 260 O LYS A 336 SHEET 4 AA2 5 SER A 399 HIS A 404 -1 O HIS A 404 N CYS A 259 SHEET 5 AA2 5 ALA A 410 ILE A 415 -1 O TRP A 413 N LEU A 401 SHEET 1 AA3 2 HIS A 393 GLU A 394 0 SHEET 2 AA3 2 THR A 421 PRO A 422 -1 O THR A 421 N GLU A 394 SHEET 1 AA4 4 PHE B 198 ALA B 200 0 SHEET 2 AA4 4 LEU B 206 ARG B 210 -1 O LEU B 208 N LYS B 199 SHEET 3 AA4 4 GLU B 243 GLN B 249 -1 O LEU B 246 N LYS B 209 SHEET 4 AA4 4 PHE B 234 ARG B 240 -1 N HIS B 235 O GLN B 247 SHEET 1 AA5 5 CYS B 342 SER B 343 0 SHEET 2 AA5 5 PHE B 330 LYS B 336 -1 N ILE B 335 O SER B 343 SHEET 3 AA5 5 CYS B 259 MET B 265 -1 N VAL B 260 O LYS B 336 SHEET 4 AA5 5 SER B 399 HIS B 404 -1 O PHE B 402 N LEU B 261 SHEET 5 AA5 5 ALA B 410 ILE B 415 -1 O TRP B 413 N LEU B 401 SHEET 1 AA6 2 HIS B 393 ILE B 396 0 SHEET 2 AA6 2 LYS B 419 PRO B 422 -1 O THR B 421 N GLU B 394 LINK OD2 ASP A 416 MN MN A 506 1555 1555 2.30 LINK O3G ATP A 504 MN MN A 506 1555 1555 1.88 LINK O1A ATP A 504 MN MN A 506 1555 1555 1.96 LINK MN MN A 506 O HOH A 649 1555 1555 2.11 LINK OD2 ASP B 416 MN MN B 507 1555 1555 2.00 LINK PG BATP B 505 MN MN B 507 1555 1555 2.44 LINK O1GBATP B 505 MN MN B 507 1555 1555 2.59 LINK O2GBATP B 505 MN MN B 507 1555 1555 1.87 LINK O3BBATP B 505 MN MN B 507 1555 1555 2.78 LINK O1AAATP B 505 MN MN B 507 1555 1555 2.16 LINK O1ABATP B 505 MN MN B 507 1555 1555 2.15 LINK MN MN B 507 O HOH B 650 1555 1555 2.47 CRYST1 72.160 97.524 192.056 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 0.013858 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010254 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005207 0.00000