HEADER PHOSPHOINOSITIDE 3-KINASE GAMMA 03-OCT-00 1E8W TITLE STRUCTURE DETERMINANTS OF PHOSPHOINOSITIDE 3-KINASE INHIBITION BY TITLE 2 WORTMANNIN, LY294002, QUERCETIN, MYRICETIN AND STAUROSPORINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHATIDYLINOSITOL 3-KINASE CATALYTIC SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PI3-KINASE P110 SUBUNIT GAMMA; COMPND 5 SYNONYM: PTDINS-3-KINASE P110, PI3K; COMPND 6 EC: 2.7.1.137; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: QUERCETIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 3 ORGANISM_COMMON: WILD BOAR; SOURCE 4 ORGANISM_TAXID: 9823; SOURCE 5 CELL: NEUTROPHIL; SOURCE 6 GENE: P120S144C; SOURCE 7 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: SF9; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PACHLT-C; SOURCE 12 EXPRESSION_SYSTEM_GENE: P120S144C KEYWDS PHOSPHOINOSITIDE 3-KINASE GAMMA, SECONDARY MESSENGER GENERATION, KEYWDS 2 PI3K, PI 3K, QUERCETIN EXPDTA X-RAY DIFFRACTION AUTHOR E.H.WALKER,M.E.PACOLD,O.PERISIC,L.STEPHENS,P.T.HAWKINS,M.P.WYMANN, AUTHOR 2 R.L.WILLIAMS REVDAT 5 13-DEC-23 1E8W 1 REMARK REVDAT 4 24-OCT-18 1E8W 1 SOURCE REVDAT 3 24-FEB-09 1E8W 1 VERSN REVDAT 2 24-JUN-03 1E8W 1 REMARK DBREF SEQRES REVDAT 1 17-NOV-00 1E8W 0 JRNL AUTH E.H.WALKER,M.E.PACOLD,O.PERISIC,L.STEPHENS,P.T.HAWKINS, JRNL AUTH 2 M.P.WHYMANN,R.L.WILLIAMS JRNL TITL STRUCTURAL DETERMINATIONS OF PHOSPHOINOSITIDE 3-KINASE JRNL TITL 2 INHIBITION BY WORTMANNIN, LY294002, QUERCETIN, MYRICETIN AND JRNL TITL 3 STAUROSPORINE JRNL REF MOL.CELL V. 6 909 2000 JRNL REFN ISSN 1097-2765 JRNL PMID 11090628 JRNL DOI 10.1016/S1097-2765(05)00089-4 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.H.WALKER,O.PERISIC,C.RIED,L.STEPHENS,R.L.WILLIAMS REMARK 1 TITL STRUCTURAL INSIGHTS INTO PHOSPHOINOSITIDE 3-KINASE CATALYSIS REMARK 1 TITL 2 AND SIGNALLING REMARK 1 REF NATURE V. 402 313 1999 REMARK 1 REFN ISSN 0028-0836 REMARK 1 PMID 10580505 REMARK 1 DOI 10.1038/46319 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 62.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1791131.550 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 34614 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 SET) : 0.265 REMARK 3 FREE R VALUE : 0.330 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1706 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4724 REMARK 3 BIN R VALUE (WORKING SET) : 0.4060 REMARK 3 BIN FREE R VALUE : 0.4160 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.50 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 225 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.028 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6893 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 57.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -11.94000 REMARK 3 B22 (A**2) : 17.21000 REMARK 3 B33 (A**2) : -5.27000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.57000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.45 REMARK 3 ESD FROM SIGMAA (A) : 0.49 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.58 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.57 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.021 REMARK 3 BOND ANGLES (DEGREES) : 1.900 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.200 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.667 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.025 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.822 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.993 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 49.51 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : QUE.PAR REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : QUE.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1E8W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-OCT-00. REMARK 100 THE DEPOSITION ID IS D_1290005097. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-99 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.25 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93 REMARK 200 MONOCHROMATOR : DIAMOND C(111) REMARK 200 OPTICS : BENT MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34614 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 62.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 3.370 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.5500 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) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.39700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.510 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS 1.0 REMARK 200 STARTING MODEL: 1QMM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 14% PEG 4000, 0.2 M LI2SO4, 0.1 M TRIS REMARK 280 PH 7.25 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 72.08100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.71750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 72.08100 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 33.71750 REMARK 290 SMTRY3 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ALA A 142 REMARK 465 ALA A 253 REMARK 465 LYS A 254 REMARK 465 LYS A 255 REMARK 465 LYS A 256 REMARK 465 SER A 257 REMARK 465 LEU A 258 REMARK 465 MET A 259 REMARK 465 ASP A 260 REMARK 465 ILE A 261 REMARK 465 PRO A 262 REMARK 465 GLU A 263 REMARK 465 SER A 264 REMARK 465 GLN A 265 REMARK 465 ASN A 266 REMARK 465 GLU A 267 REMARK 465 ARG A 268 REMARK 465 GLU A 322 REMARK 465 TRP A 323 REMARK 465 PRO A 324 REMARK 465 LEU A 325 REMARK 465 VAL A 326 REMARK 465 ASP A 327 REMARK 465 ASP A 328 REMARK 465 CYS A 329 REMARK 465 THR A 330 REMARK 465 GLY A 331 REMARK 465 VAL A 332 REMARK 465 THR A 333 REMARK 465 GLY A 334 REMARK 465 TYR A 335 REMARK 465 HIS A 336 REMARK 465 GLU A 337 REMARK 465 GLN A 338 REMARK 465 LEU A 339 REMARK 465 THR A 340 REMARK 465 ILE A 341 REMARK 465 HIS A 342 REMARK 465 GLY A 343 REMARK 465 LYS A 344 REMARK 465 ASP A 345 REMARK 465 HIS A 346 REMARK 465 GLU A 347 REMARK 465 SER A 348 REMARK 465 VAL A 349 REMARK 465 PHE A 350 REMARK 465 THR A 351 REMARK 465 LYS A 437 REMARK 465 ALA A 438 REMARK 465 PRO A 439 REMARK 465 ALA A 440 REMARK 465 LEU A 441 REMARK 465 SER A 442 REMARK 465 GLY A 443 REMARK 465 LYS A 444 REMARK 465 THR A 445 REMARK 465 SER A 446 REMARK 465 ALA A 447 REMARK 465 GLU A 448 REMARK 465 MET A 449 REMARK 465 PRO A 450 REMARK 465 SER A 451 REMARK 465 PRO A 452 REMARK 465 GLU A 453 REMARK 465 SER A 454 REMARK 465 LYS A 455 REMARK 465 GLY A 456 REMARK 465 LYS A 457 REMARK 465 ALA A 458 REMARK 465 GLY A 489 REMARK 465 LYS A 490 REMARK 465 GLY A 491 REMARK 465 GLU A 492 REMARK 465 ASP A 493 REMARK 465 GLN A 494 REMARK 465 GLY A 495 REMARK 465 SER A 496 REMARK 465 ARG A 533 REMARK 465 PRO A 534 REMARK 465 THR A 535 REMARK 465 PRO A 536 REMARK 465 ASP A 537 REMARK 465 PRO A 538 REMARK 465 GLU A 539 REMARK 465 GLY A 540 REMARK 465 ASP A 541 REMARK 465 ARG A 542 REMARK 465 VAL A 543 REMARK 465 ARG A 544 REMARK 465 ALA A 545 REMARK 465 HIS A 967 REMARK 465 ILE A 968 REMARK 465 LEU A 969 REMARK 465 GLY A 970 REMARK 465 ASN A 971 REMARK 465 TYR A 972 REMARK 465 LYS A 973 REMARK 465 SER A 974 REMARK 465 PHE A 975 REMARK 465 LEU A 976 REMARK 465 GLY A 977 REMARK 465 ILE A 978 REMARK 465 LYS A 1095 REMARK 465 GLN A 1096 REMARK 465 GLY A 1097 REMARK 465 GLU A 1098 REMARK 465 LYS A 1099 REMARK 465 HIS A 1100 REMARK 465 SER A 1101 REMARK 465 ALA A 1102 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 TYR A 787 CE2 TYR A 787 CD2 0.097 REMARK 500 CYS A 915 CB CYS A 915 SG -0.132 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 ASP A 837 CB - CG - OD1 ANGL. DEV. = -5.9 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 ASP A 164 145.11 -37.77 REMARK 500 VAL A 165 26.13 -142.74 REMARK 500 ASP A 170 -163.72 -166.48 REMARK 500 HIS A 199 48.82 36.06 REMARK 500 SER A 204 31.92 -91.71 REMARK 500 THR A 216 106.47 -57.94 REMARK 500 ASN A 217 -92.40 69.68 REMARK 500 ASN A 218 46.64 -161.86 REMARK 500 ARG A 226 -75.78 -114.45 REMARK 500 SER A 227 -87.91 -100.20 REMARK 500 THR A 240 148.87 -39.32 REMARK 500 PRO A 241 -1.51 -57.06 REMARK 500 LEU A 245 -62.85 73.52 REMARK 500 THR A 250 48.83 -98.60 REMARK 500 LYS A 251 -43.82 -156.98 REMARK 500 PHE A 270 -151.39 -129.39 REMARK 500 VAL A 271 156.02 173.88 REMARK 500 ASN A 289 30.02 -92.19 REMARK 500 SER A 353 -152.89 -89.22 REMARK 500 LEU A 354 -158.39 -143.55 REMARK 500 ASP A 356 102.36 -40.21 REMARK 500 CYS A 357 70.29 -168.09 REMARK 500 PRO A 371 -6.65 -53.61 REMARK 500 ALA A 377 -170.25 -50.78 REMARK 500 ASP A 378 67.06 60.49 REMARK 500 ARG A 398 -165.24 -124.80 REMARK 500 TRP A 410 -53.47 -153.78 REMARK 500 LEU A 461 -43.91 -144.02 REMARK 500 PHE A 473 16.36 82.84 REMARK 500 ASP A 509 84.86 -68.87 REMARK 500 CYS A 524 -92.19 -55.39 REMARK 500 HIS A 525 78.90 -160.66 REMARK 500 ASP A 562 167.84 -42.07 REMARK 500 PHE A 578 44.72 -103.19 REMARK 500 LYS A 587 5.90 -62.94 REMARK 500 ASP A 632 -163.52 -79.96 REMARK 500 SER A 753 81.86 175.10 REMARK 500 GLU A 755 -11.29 -150.08 REMARK 500 SER A 760 133.09 -31.46 REMARK 500 ASN A 776 -89.98 -51.53 REMARK 500 ASN A 778 -70.14 -109.52 REMARK 500 PHE A 783 138.67 165.89 REMARK 500 ASP A 788 73.31 -151.19 REMARK 500 LEU A 823 51.13 -90.06 REMARK 500 SER A 824 178.46 179.07 REMARK 500 ASP A 874 -99.13 -18.38 REMARK 500 VAL A 896 -109.57 -76.85 REMARK 500 ASN A 898 52.20 -97.42 REMARK 500 ILE A 944 35.17 -145.18 REMARK 500 GLU A 956 19.45 -66.18 REMARK 500 REMARK 500 THIS ENTRY HAS 59 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 HIS A 693 0.09 SIDE CHAIN REMARK 500 TYR A 720 0.07 SIDE CHAIN 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 QUE A2095 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1E7U RELATED DB: PDB REMARK 900 STRUCTURE DETERMINANTS OF PHOSPHOINOSITIDE 3-KINASE INHIBITION BY REMARK 900 WORTMANNIN, LY294002, QUERCETIN, MYRICETIN AND STAUROSPORINE REMARK 900 RELATED ID: 1E7V RELATED DB: PDB REMARK 900 STRUCTURE DETERMINANTS OF PHOSPHOINOSITIDE 3-KINASE INHIBITION BY REMARK 900 WORTMANNIN, LY294002, QUERCETIN, MYRICETIN AND STAUROSPORINE REMARK 900 RELATED ID: 1E8X RELATED DB: PDB REMARK 900 STRUCTURAL INSIGHTS INTO PHOSHOINOSITIDE 3-KINASE ENZYMATIC REMARK 900 MECHANISM AND SIGNALLING REMARK 900 RELATED ID: 1QMM RELATED DB: PDB REMARK 900 STRUCTURAL INSIGHTS INTO PHOSHOINOSITIDE 3-KINASE ENZYMATIC REMARK 900 MECHANISM AND SIGNALLING REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE NATIVE PROTEIN WAS MUTATED BY DELETION OF RESIDUES REMARK 999 1-143. THE RESIDUE 143 LISTED HERE IS FROM THE HIS-TAG, REMARK 999 AFTER THROMBIN CLEAVAGE. ALSO RESEQUENCING OF THE REMARK 999 ORIGINAL CLONE SHOWED THAT RESIDUE 505 IS REALLY ALA, REMARK 999 NOT ARG AS REPORTED IN THE SWS DATABASE. DBREF 1E8W A 143 1102 UNP O02697 P11G_PIG 143 1102 SEQADV 1E8W ALA A 143 UNP O02697 PRO 143 EXPRESSION TAG SEQADV 1E8W ALA A 505 UNP O02697 ARG 505 CONFLICT SEQRES 1 A 961 ALA ALA SER GLU GLU THR LEU ALA PHE GLN ARG GLN LEU SEQRES 2 A 961 ASN ALA LEU ILE GLY TYR ASP VAL THR ASP VAL SER ASN SEQRES 3 A 961 VAL HIS ASP ASP GLU LEU GLU PHE THR ARG ARG ARG LEU SEQRES 4 A 961 VAL THR PRO ARG MET ALA GLU VAL ALA GLY ARG ASP PRO SEQRES 5 A 961 LYS LEU TYR ALA MET HIS PRO TRP VAL THR SER LYS PRO SEQRES 6 A 961 LEU PRO GLU TYR LEU LEU LYS LYS ILE THR ASN ASN CYS SEQRES 7 A 961 VAL PHE ILE VAL ILE HIS ARG SER THR THR SER GLN THR SEQRES 8 A 961 ILE LYS VAL SER ALA ASP ASP THR PRO GLY THR ILE LEU SEQRES 9 A 961 GLN SER PHE PHE THR LYS MET ALA LYS LYS LYS SER LEU SEQRES 10 A 961 MET ASP ILE PRO GLU SER GLN ASN GLU ARG ASP PHE VAL SEQRES 11 A 961 LEU ARG VAL CYS GLY ARG ASP GLU TYR LEU VAL GLY GLU SEQRES 12 A 961 THR PRO ILE LYS ASN PHE GLN TRP VAL ARG GLN CYS LEU SEQRES 13 A 961 LYS ASN GLY GLU GLU ILE HIS LEU VAL LEU ASP THR PRO SEQRES 14 A 961 PRO ASP PRO ALA LEU ASP GLU VAL ARG LYS GLU GLU TRP SEQRES 15 A 961 PRO LEU VAL ASP ASP CYS THR GLY VAL THR GLY TYR HIS SEQRES 16 A 961 GLU GLN LEU THR ILE HIS GLY LYS ASP HIS GLU SER VAL SEQRES 17 A 961 PHE THR VAL SER LEU TRP ASP CYS ASP ARG LYS PHE ARG SEQRES 18 A 961 VAL LYS ILE ARG GLY ILE ASP ILE PRO VAL LEU PRO ARG SEQRES 19 A 961 THR ALA ASP LEU THR VAL PHE VAL GLU ALA ASN ILE GLN SEQRES 20 A 961 TYR GLY GLN GLN VAL LEU CYS GLN ARG ARG THR SER PRO SEQRES 21 A 961 LYS PRO PHE THR GLU GLU VAL LEU TRP ASN VAL TRP LEU SEQRES 22 A 961 GLU PHE SER ILE LYS ILE LYS ASP LEU PRO LYS GLY ALA SEQRES 23 A 961 LEU LEU ASN LEU GLN ILE TYR CYS GLY LYS ALA PRO ALA SEQRES 24 A 961 LEU SER GLY LYS THR SER ALA GLU MET PRO SER PRO GLU SEQRES 25 A 961 SER LYS GLY LYS ALA GLN LEU LEU TYR TYR VAL ASN LEU SEQRES 26 A 961 LEU LEU ILE ASP HIS ARG PHE LEU LEU ARG HIS GLY GLU SEQRES 27 A 961 TYR VAL LEU HIS MET TRP GLN LEU SER GLY LYS GLY GLU SEQRES 28 A 961 ASP GLN GLY SER PHE ASN ALA ASP LYS LEU THR SER ALA SEQRES 29 A 961 THR ASN PRO ASP LYS GLU ASN SER MET SER ILE SER ILE SEQRES 30 A 961 LEU LEU ASP ASN TYR CYS HIS PRO ILE ALA LEU PRO LYS SEQRES 31 A 961 HIS ARG PRO THR PRO ASP PRO GLU GLY ASP ARG VAL ARG SEQRES 32 A 961 ALA GLU MET PRO ASN GLN LEU ARG LYS GLN LEU GLU ALA SEQRES 33 A 961 ILE ILE ALA THR ASP PRO LEU ASN PRO LEU THR ALA GLU SEQRES 34 A 961 ASP LYS GLU LEU LEU TRP HIS PHE ARG TYR GLU SER LEU SEQRES 35 A 961 LYS ASP PRO LYS ALA TYR PRO LYS LEU PHE SER SER VAL SEQRES 36 A 961 LYS TRP GLY GLN GLN GLU ILE VAL ALA LYS THR TYR GLN SEQRES 37 A 961 LEU LEU ALA LYS ARG GLU VAL TRP ASP GLN SER ALA LEU SEQRES 38 A 961 ASP VAL GLY LEU THR MET GLN LEU LEU ASP CYS ASN PHE SEQRES 39 A 961 SER ASP GLU ASN VAL ARG ALA ILE ALA VAL GLN LYS LEU SEQRES 40 A 961 GLU SER LEU GLU ASP ASP ASP VAL LEU HIS TYR LEU LEU SEQRES 41 A 961 GLN LEU VAL GLN ALA VAL LYS PHE GLU PRO TYR HIS ASP SEQRES 42 A 961 SER ALA LEU ALA ARG PHE LEU LEU LYS ARG GLY LEU ARG SEQRES 43 A 961 ASN LYS ARG ILE GLY HIS PHE LEU PHE TRP PHE LEU ARG SEQRES 44 A 961 SER GLU ILE ALA GLN SER ARG HIS TYR GLN GLN ARG PHE SEQRES 45 A 961 ALA VAL ILE LEU GLU ALA TYR LEU ARG GLY CYS GLY THR SEQRES 46 A 961 ALA MET LEU HIS ASP PHE THR GLN GLN VAL GLN VAL ILE SEQRES 47 A 961 ASP MET LEU GLN LYS VAL THR ILE ASP ILE LYS SER LEU SEQRES 48 A 961 SER ALA GLU LYS TYR ASP VAL SER SER GLN VAL ILE SER SEQRES 49 A 961 GLN LEU LYS GLN LYS LEU GLU ASN LEU GLN ASN LEU ASN SEQRES 50 A 961 LEU PRO GLN SER PHE ARG VAL PRO TYR ASP PRO GLY LEU SEQRES 51 A 961 LYS ALA GLY ALA LEU VAL ILE GLU LYS CYS LYS VAL MET SEQRES 52 A 961 ALA SER LYS LYS LYS PRO LEU TRP LEU GLU PHE LYS CYS SEQRES 53 A 961 ALA ASP PRO THR ALA LEU SER ASN GLU THR ILE GLY ILE SEQRES 54 A 961 ILE PHE LYS HIS GLY ASP ASP LEU ARG GLN ASP MET LEU SEQRES 55 A 961 ILE LEU GLN ILE LEU ARG ILE MET GLU SER ILE TRP GLU SEQRES 56 A 961 THR GLU SER LEU ASP LEU CYS LEU LEU PRO TYR GLY CYS SEQRES 57 A 961 ILE SER THR GLY ASP LYS ILE GLY MET ILE GLU ILE VAL SEQRES 58 A 961 LYS ASP ALA THR THR ILE ALA LYS ILE GLN GLN SER THR SEQRES 59 A 961 VAL GLY ASN THR GLY ALA PHE LYS ASP GLU VAL LEU SER SEQRES 60 A 961 HIS TRP LEU LYS GLU LYS CYS PRO ILE GLU GLU LYS PHE SEQRES 61 A 961 GLN ALA ALA VAL GLU ARG PHE VAL TYR SER CYS ALA GLY SEQRES 62 A 961 TYR CYS VAL ALA THR PHE VAL LEU GLY ILE GLY ASP ARG SEQRES 63 A 961 HIS ASN ASP ASN ILE MET ILE SER GLU THR GLY ASN LEU SEQRES 64 A 961 PHE HIS ILE ASP PHE GLY HIS ILE LEU GLY ASN TYR LYS SEQRES 65 A 961 SER PHE LEU GLY ILE ASN LYS GLU ARG VAL PRO PHE VAL SEQRES 66 A 961 LEU THR PRO ASP PHE LEU PHE VAL MET GLY THR SER GLY SEQRES 67 A 961 LYS LYS THR SER LEU HIS PHE GLN LYS PHE GLN ASP VAL SEQRES 68 A 961 CYS VAL LYS ALA TYR LEU ALA LEU ARG HIS HIS THR ASN SEQRES 69 A 961 LEU LEU ILE ILE LEU PHE SER MET MET LEU MET THR GLY SEQRES 70 A 961 MET PRO GLN LEU THR SER LYS GLU ASP ILE GLU TYR ILE SEQRES 71 A 961 ARG ASP ALA LEU THR VAL GLY LYS SER GLU GLU ASP ALA SEQRES 72 A 961 LYS LYS TYR PHE LEU ASP GLN ILE GLU VAL CYS ARG ASP SEQRES 73 A 961 LYS GLY TRP THR VAL GLN PHE ASN TRP PHE LEU HIS LEU SEQRES 74 A 961 VAL LEU GLY ILE LYS GLN GLY GLU LYS HIS SER ALA HET QUE A2095 22 HETNAM QUE 3,5,7,3',4'-PENTAHYDROXYFLAVONE HETSYN QUE QUERCETIN FORMUL 2 QUE C15 H10 O7 HELIX 1 1 SER A 144 GLY A 159 1 16 HELIX 2 2 ASP A 171 GLY A 190 1 20 HELIX 3 3 ASP A 192 HIS A 199 1 8 HELIX 4 4 PRO A 208 LYS A 213 1 6 HELIX 5 5 GLY A 242 THR A 250 1 9 HELIX 6 6 PRO A 286 ASN A 289 5 4 HELIX 7 7 PHE A 290 ASN A 299 1 10 HELIX 8 8 ASP A 312 GLU A 317 5 6 HELIX 9 9 LYS A 421 LEU A 423 5 3 HELIX 10 10 ASN A 498 THR A 503 5 6 HELIX 11 11 PRO A 548 ALA A 560 1 13 HELIX 12 12 THR A 568 PHE A 578 1 11 HELIX 13 13 PHE A 578 LEU A 583 1 6 HELIX 14 14 LYS A 584 LYS A 587 5 4 HELIX 15 15 ALA A 588 PHE A 593 1 6 HELIX 16 16 GLN A 600 LYS A 613 1 14 HELIX 17 17 ARG A 614 GLN A 619 1 6 HELIX 18 18 ASP A 623 ASP A 632 1 10 HELIX 19 19 ASP A 637 GLU A 649 1 13 HELIX 20 20 GLU A 652 LEU A 660 1 9 HELIX 21 21 TYR A 659 VAL A 667 1 9 HELIX 22 22 LYS A 668 GLU A 670 5 3 HELIX 23 23 SER A 675 ARG A 687 1 13 HELIX 24 24 ASN A 688 SER A 706 1 19 HELIX 25 25 TYR A 709 ARG A 722 1 14 HELIX 26 26 GLY A 725 SER A 751 1 27 HELIX 27 27 SER A 760 ASN A 776 1 17 HELIX 28 28 ILE A 798 CYS A 801 5 4 HELIX 29 29 ASP A 837 GLU A 858 1 22 HELIX 30 30 ILE A 888 VAL A 896 1 9 HELIX 31 31 GLU A 905 CYS A 915 1 11 HELIX 32 32 ILE A 917 GLN A 922 1 6 HELIX 33 33 VAL A 925 LEU A 942 1 18 HELIX 34 34 HIS A 948 ASP A 950 5 3 HELIX 35 35 THR A 988 MET A 995 1 8 HELIX 36 36 SER A 1003 HIS A 1022 1 20 HELIX 37 37 HIS A 1023 MET A 1039 1 17 HELIX 38 38 SER A 1044 LEU A 1055 1 12 HELIX 39 39 SER A 1060 LYS A 1078 1 19 HELIX 40 40 TRP A 1080 LEU A 1090 1 11 SHEET 1 A 4 SER A 230 SER A 236 0 SHEET 2 A 4 CYS A 219 HIS A 225 -1 N ILE A 224 O GLN A 231 SHEET 3 A 4 HIS A 304 LEU A 307 1 N LEU A 305 O VAL A 223 SHEET 4 A 4 LEU A 272 VAL A 274 -1 N ARG A 273 O VAL A 306 SHEET 1 B 4 GLU A 407 LEU A 409 0 SHEET 2 B 4 VAL A 363 ASP A 369 -1 N ILE A 368 O VAL A 408 SHEET 3 B 4 SER A 515 LEU A 520 -1 N LEU A 519 O LYS A 364 SHEET 4 B 4 GLY A 478 HIS A 483 -1 N LEU A 482 O ILE A 516 SHEET 1 C 4 GLN A 392 ARG A 397 0 SHEET 2 C 4 VAL A 381 TYR A 389 -1 N TYR A 389 O GLN A 392 SHEET 3 C 4 LEU A 428 CYS A 435 -1 N TYR A 434 O PHE A 382 SHEET 4 C 4 LEU A 460 LEU A 467 -1 N LEU A 466 O LEU A 429 SHEET 1 D 4 LEU A 811 PHE A 815 0 SHEET 2 D 4 ILE A 828 HIS A 834 -1 N PHE A 832 O LEU A 811 SHEET 3 D 4 ILE A 876 GLU A 880 -1 N ILE A 879 O ILE A 831 SHEET 4 D 4 CYS A 869 GLY A 873 -1 N GLY A 873 O ILE A 876 SHEET 1 E 3 ALA A 885 THR A 887 0 SHEET 2 E 3 ILE A 952 SER A 955 -1 N ILE A 954 O THR A 886 SHEET 3 E 3 LEU A 960 HIS A 962 -1 N PHE A 961 O MET A 953 SHEET 1 F 2 LYS A 360 ILE A 365 0 SHEET 2 F 2 VAL A 412 LYS A 419 -1 N ILE A 418 O PHE A 361 SHEET 1 G 2 PHE A 783 VAL A 785 0 SHEET 2 G 2 ASP A 788 ALA A 793 -1 N ALA A 793 O PHE A 783 SITE 1 AC1 10 TRP A 812 LYS A 833 TYR A 867 ILE A 879 SITE 2 AC1 10 GLU A 880 ILE A 881 VAL A 882 MET A 953 SITE 3 AC1 10 ILE A 963 ASP A 964 CRYST1 144.162 67.435 106.701 90.00 95.87 90.00 C 1 2 1 4 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 0.006937 0.000000 0.000713 0.00000 SCALE2 0.000000 0.014829 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009421 0.00000