HEADER TRANSFERASE 25-OCT-24 9E4V TITLE THE STRUCTURE OF HUMAN VACUOLAR PROTEIN SORTING 34 CATALYTIC DOMAIN TITLE 2 BOUND TO MES COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHATIDYLINOSITOL 3-KINASE CATALYTIC SUBUNIT TYPE 3; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: PI3-KINASE TYPE 3,PI3K TYPE 3,PTDINS-3-KINASE TYPE 3, COMPND 5 PHOSPHATIDYLINOSITOL 3-KINASE P100 SUBUNIT,PHOSPHOINOSITIDE-3-KINASE COMPND 6 CLASS 3,HVPS34; COMPND 7 EC: 2.7.1.137; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PIK3C3, VPS34; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET42_SUMO KEYWDS PHOSPHATIDYLINOSITOL 3-PHOSPHATE, LIPID REGULATOR, AUTOPHAGY, KEYWDS 2 MEMBRANE TRAFFICKING, ENDOCYTOSIS, ENZYME, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR W.O.ABIODUN,A.FULLMER,E.TSUBAKI,T.DOUKOV,J.D.MOODY REVDAT 1 06-NOV-24 9E4V 0 JRNL AUTH W.O.ABIODUN,R.DASS,A.FULLMER,J.D.SINGLETON,E.TSUBAKI, JRNL AUTH 2 J.CARTWRIGHT,C.LITCHFIELD,T.DOUKOV,M.A.PETERSON,J.D.MOODY JRNL TITL FACILE BACTERIAL PRODUCTION OF HUMAN VACUOLAR PROTEIN JRNL TITL 2 SORTING 34 ENABLES STRUCTURAL CHARACTERIZATION OF NOVEL JRNL TITL 3 INHIBITORS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.36 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.36 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.31 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 40128 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.130 REMARK 3 FREE R VALUE TEST SET COUNT : 2065 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 61.3100 - 5.8100 1.00 2755 150 0.2069 0.2164 REMARK 3 2 5.8100 - 4.6100 1.00 2611 153 0.1852 0.2445 REMARK 3 3 4.6100 - 4.0300 1.00 2591 122 0.1550 0.1959 REMARK 3 4 4.0300 - 3.6600 1.00 2572 140 0.1674 0.1734 REMARK 3 5 3.6600 - 3.4000 1.00 2531 143 0.1923 0.2284 REMARK 3 6 3.4000 - 3.2000 1.00 2547 134 0.1955 0.2459 REMARK 3 7 3.2000 - 3.0400 1.00 2535 130 0.1943 0.2145 REMARK 3 8 3.0400 - 2.9100 1.00 2507 154 0.2146 0.2518 REMARK 3 9 2.9100 - 2.7900 1.00 2513 130 0.2396 0.3022 REMARK 3 10 2.7900 - 2.7000 1.00 2557 113 0.2495 0.2648 REMARK 3 11 2.7000 - 2.6100 1.00 2505 129 0.2437 0.2495 REMARK 3 12 2.6100 - 2.5400 1.00 2498 134 0.2471 0.2536 REMARK 3 13 2.5400 - 2.4700 1.00 2506 148 0.2646 0.3309 REMARK 3 14 2.4700 - 2.4100 1.00 2483 148 0.2950 0.3293 REMARK 3 15 2.4100 - 2.3600 1.00 2500 137 0.3032 0.3576 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.310 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.195 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 53.38 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 4288 REMARK 3 ANGLE : 0.973 5794 REMARK 3 CHIRALITY : 0.055 657 REMARK 3 PLANARITY : 0.012 735 REMARK 3 DIHEDRAL : 13.954 1608 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 291 THROUGH 532 ) REMARK 3 ORIGIN FOR THE GROUP (A): 28.6981 -15.4618 4.9387 REMARK 3 T TENSOR REMARK 3 T11: 0.5621 T22: 0.5737 REMARK 3 T33: 0.4823 T12: 0.2310 REMARK 3 T13: 0.0628 T23: 0.0584 REMARK 3 L TENSOR REMARK 3 L11: 1.8237 L22: 4.4573 REMARK 3 L33: 2.0370 L12: -0.5565 REMARK 3 L13: -1.3594 L23: 0.1867 REMARK 3 S TENSOR REMARK 3 S11: -0.1338 S12: 0.1000 S13: -0.3219 REMARK 3 S21: -0.2762 S22: -0.1260 S23: -0.2448 REMARK 3 S31: 0.6519 S32: 0.4817 S33: 0.1896 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 533 THROUGH 629 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.0197 14.8366 18.0465 REMARK 3 T TENSOR REMARK 3 T11: 0.6284 T22: 0.3066 REMARK 3 T33: 0.5286 T12: 0.0135 REMARK 3 T13: 0.1394 T23: 0.0890 REMARK 3 L TENSOR REMARK 3 L11: 1.7640 L22: 0.4499 REMARK 3 L33: 4.6909 L12: -0.5587 REMARK 3 L13: -1.2827 L23: -0.3255 REMARK 3 S TENSOR REMARK 3 S11: 0.2983 S12: 0.0369 S13: 0.4172 REMARK 3 S21: 0.2229 S22: -0.0713 S23: -0.0002 REMARK 3 S31: -1.0004 S32: 0.0635 S33: -0.2694 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 630 THROUGH 870 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.6874 -13.4758 18.9828 REMARK 3 T TENSOR REMARK 3 T11: 0.4617 T22: 0.3385 REMARK 3 T33: 0.3972 T12: -0.0546 REMARK 3 T13: 0.0342 T23: 0.0164 REMARK 3 L TENSOR REMARK 3 L11: 3.4876 L22: 1.5912 REMARK 3 L33: 2.7512 L12: -0.4133 REMARK 3 L13: -1.1753 L23: -0.1363 REMARK 3 S TENSOR REMARK 3 S11: -0.0900 S12: 0.1470 S13: -0.5262 REMARK 3 S21: 0.0407 S22: -0.0471 S23: 0.2095 REMARK 3 S31: 0.5782 S32: -0.4327 S33: 0.1143 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9E4V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-OCT-24. REMARK 100 THE DEPOSITION ID IS D_1000288280. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-DEC-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979460 REMARK 200 MONOCHROMATOR : LIQUID NITROGEN-COOLED DOUBLE REMARK 200 CRYSTAL MONOCHROMATOR, NON FIXED REMARK 200 EXIT SLIT REMARK 200 OPTICS : RH COATED COLLIMATING MIRROR, K REMARK 200 -B FOCUSING MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40128 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.360 REMARK 200 RESOLUTION RANGE LOW (A) : 61.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 26.90 REMARK 200 R MERGE (I) : 0.20510 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.2700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.36 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.44 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 26.40 REMARK 200 R MERGE FOR SHELL (I) : 3.98900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.130 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: RHOMBOHEDRAL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM MES, PH 6.0, 18% PEG3350, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 72.69850 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 57.04400 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 57.04400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 36.34925 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 57.04400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 57.04400 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 109.04775 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 57.04400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 57.04400 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 36.34925 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 57.04400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 57.04400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 109.04775 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 72.69850 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 278 REMARK 465 GLY B 279 REMARK 465 HIS B 280 REMARK 465 HIS B 281 REMARK 465 HIS B 282 REMARK 465 HIS B 283 REMARK 465 HIS B 284 REMARK 465 HIS B 285 REMARK 465 HIS B 286 REMARK 465 HIS B 287 REMARK 465 HIS B 288 REMARK 465 HIS B 289 REMARK 465 ALA B 290 REMARK 465 THR B 418 REMARK 465 LYS B 419 REMARK 465 LYS B 420 REMARK 465 ASP B 421 REMARK 465 SER B 422 REMARK 465 GLN B 423 REMARK 465 SER B 424 REMARK 465 SER B 425 REMARK 465 VAL B 426 REMARK 465 SER B 427 REMARK 465 GLU B 428 REMARK 465 ASN B 429 REMARK 465 VAL B 430 REMARK 465 SER B 431 REMARK 465 ASN B 432 REMARK 465 SER B 433 REMARK 465 GLY B 434 REMARK 465 ILE B 435 REMARK 465 ASN B 436 REMARK 465 SER B 437 REMARK 465 ALA B 438 REMARK 465 GLU B 439 REMARK 465 ILE B 440 REMARK 465 ASP B 441 REMARK 465 SER B 442 REMARK 465 SER B 443 REMARK 465 GLN B 444 REMARK 465 ILE B 445 REMARK 465 ILE B 446 REMARK 465 THR B 447 REMARK 465 SER B 448 REMARK 465 PRO B 449 REMARK 465 LEU B 450 REMARK 465 PRO B 451 REMARK 465 SER B 452 REMARK 465 VAL B 453 REMARK 465 SER B 454 REMARK 465 SER B 455 REMARK 465 PRO B 456 REMARK 465 PRO B 457 REMARK 465 PRO B 458 REMARK 465 ALA B 459 REMARK 465 SER B 460 REMARK 465 LYS B 461 REMARK 465 THR B 462 REMARK 465 LYS B 463 REMARK 465 GLU B 464 REMARK 465 VAL B 465 REMARK 465 PRO B 466 REMARK 465 ASP B 467 REMARK 465 GLY B 468 REMARK 465 GLU B 469 REMARK 465 PHE B 871 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ALA B 291 CB REMARK 470 THR B 292 OG1 CG2 REMARK 470 ARG B 293 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 294 OD1 OD2 REMARK 470 ILE B 298 CD1 REMARK 470 ILE B 299 CD1 REMARK 470 THR B 305 OG1 CG2 REMARK 470 THR B 309 OG1 CG2 REMARK 470 LYS B 318 CG CD CE NZ REMARK 470 TYR B 322 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS B 328 CG CD CE NZ REMARK 470 LYS B 335 NZ REMARK 470 CYS B 336 O REMARK 470 ASP B 340 CG OD1 OD2 REMARK 470 LYS B 346 CG CD CE NZ REMARK 470 GLU B 350 CD OE1 OE2 REMARK 470 LYS B 354 CG CD CE NZ REMARK 470 HIS B 370 CG ND1 CD2 CE1 NE2 REMARK 470 GLU B 390 CG CD OE1 OE2 REMARK 470 GLU B 416 CD OE1 OE2 REMARK 470 GLU B 472 CG CD OE1 OE2 REMARK 470 GLU B 502 OE2 REMARK 470 LYS B 512 CG CD CE NZ REMARK 470 THR B 513 OG1 REMARK 470 LYS B 530 CE NZ REMARK 470 ARG B 539 CZ NH1 NH2 REMARK 470 LEU B 555 CD1 REMARK 470 GLU B 562 CD OE1 OE2 REMARK 470 ASP B 579 OD1 OD2 REMARK 470 GLU B 581 CG CD OE1 OE2 REMARK 470 LYS B 582 CD CE NZ REMARK 470 GLU B 626 OE2 REMARK 470 LYS B 636 NZ REMARK 470 LYS B 660 CE NZ REMARK 470 LYS B 678 NZ REMARK 470 GLU B 697 OE2 REMARK 470 GLU B 711 CG CD OE1 OE2 REMARK 470 ASN B 712 CG OD1 ND2 REMARK 470 GLU B 720 CD OE1 OE2 REMARK 470 ASP B 761 OD1 OD2 REMARK 470 LYS B 771 CE NZ REMARK 470 LEU B 773 CG CD1 CD2 REMARK 470 LYS B 781 NZ REMARK 470 GLN B 791 CD OE1 NE2 REMARK 470 GLU B 793 CG CD OE1 OE2 REMARK 470 GLN B 796 CB CG CD OE1 NE2 REMARK 470 GLU B 797 CG CD OE1 OE2 REMARK 470 ARG B 799 NH1 NH2 REMARK 470 LYS B 800 CG CD CE NZ REMARK 470 ARG B 811 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 825 OD2 REMARK 470 LYS B 841 NZ REMARK 470 GLU B 853 CG CD OE1 OE2 REMARK 470 GLU B 854 OE1 REMARK 470 GLN B 860 CG CD OE1 NE2 REMARK 470 VAL B 867 CG1 CG2 REMARK 470 HIS B 868 CG ND1 CD2 CE1 NE2 REMARK 470 LEU B 870 CD1 CD2 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 ASN B 338 92.10 -68.67 REMARK 500 ASP B 510 73.75 -150.60 REMARK 500 ASN B 584 32.31 71.27 REMARK 500 LEU B 590 70.70 25.37 REMARK 500 GLU B 596 87.18 -157.39 REMARK 500 SER B 699 149.49 -177.61 REMARK 500 ALA B 708 58.45 -152.49 REMARK 500 SER B 710 111.60 -166.81 REMARK 500 ASP B 761 81.40 56.77 REMARK 500 PHE B 762 59.07 -98.79 REMARK 500 GLU B 834 63.76 -150.54 REMARK 500 LEU B 848 -8.59 -57.66 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 ARG B 536 0.08 SIDE CHAIN REMARK 500 ARG B 602 0.11 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PEG B 905 REMARK 610 PEG B 911 REMARK 610 PEG B 912 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 9DKP RELATED DB: PDB DBREF 9E4V B 290 871 UNP Q8NEB9 PK3C3_HUMAN 290 871 SEQADV 9E4V MET B 278 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V GLY B 279 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V HIS B 280 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V HIS B 281 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V HIS B 282 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V HIS B 283 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V HIS B 284 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V HIS B 285 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V HIS B 286 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V HIS B 287 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V HIS B 288 UNP Q8NEB9 EXPRESSION TAG SEQADV 9E4V HIS B 289 UNP Q8NEB9 EXPRESSION TAG SEQRES 1 B 594 MET GLY HIS HIS HIS HIS HIS HIS HIS HIS HIS HIS ALA SEQRES 2 B 594 ALA THR ARG ASP GLN LEU ASN ILE ILE VAL SER TYR PRO SEQRES 3 B 594 PRO THR LYS GLN LEU THR TYR GLU GLU GLN ASP LEU VAL SEQRES 4 B 594 TRP LYS PHE ARG TYR TYR LEU THR ASN GLN GLU LYS ALA SEQRES 5 B 594 LEU THR LYS PHE LEU LYS CYS VAL ASN TRP ASP LEU PRO SEQRES 6 B 594 GLN GLU ALA LYS GLN ALA LEU GLU LEU LEU GLY LYS TRP SEQRES 7 B 594 LYS PRO MET ASP VAL GLU ASP SER LEU GLU LEU LEU SER SEQRES 8 B 594 SER HIS TYR THR ASN PRO THR VAL ARG ARG TYR ALA VAL SEQRES 9 B 594 ALA ARG LEU ARG GLN ALA ASP ASP GLU ASP LEU LEU MET SEQRES 10 B 594 TYR LEU LEU GLN LEU VAL GLN ALA LEU LYS TYR GLU ASN SEQRES 11 B 594 PHE ASP ASP ILE LYS ASN GLY LEU GLU PRO THR LYS LYS SEQRES 12 B 594 ASP SER GLN SER SER VAL SER GLU ASN VAL SER ASN SER SEQRES 13 B 594 GLY ILE ASN SER ALA GLU ILE ASP SER SER GLN ILE ILE SEQRES 14 B 594 THR SER PRO LEU PRO SER VAL SER SER PRO PRO PRO ALA SEQRES 15 B 594 SER LYS THR LYS GLU VAL PRO ASP GLY GLU ASN LEU GLU SEQRES 16 B 594 GLN ASP LEU CYS THR PHE LEU ILE SER ARG ALA CYS LYS SEQRES 17 B 594 ASN SER THR LEU ALA ASN TYR LEU TYR TRP TYR VAL ILE SEQRES 18 B 594 VAL GLU CYS GLU ASP GLN ASP THR GLN GLN ARG ASP PRO SEQRES 19 B 594 LYS THR HIS GLU MET TYR LEU ASN VAL MET ARG ARG PHE SEQRES 20 B 594 SER GLN ALA LEU LEU LYS GLY ASP LYS SER VAL ARG VAL SEQRES 21 B 594 MET ARG SER LEU LEU ALA ALA GLN GLN THR PHE VAL ASP SEQRES 22 B 594 ARG LEU VAL HIS LEU MET LYS ALA VAL GLN ARG GLU SER SEQRES 23 B 594 GLY ASN ARG LYS LYS LYS ASN GLU ARG LEU GLN ALA LEU SEQRES 24 B 594 LEU GLY ASP ASN GLU LYS MET ASN LEU SER ASP VAL GLU SEQRES 25 B 594 LEU ILE PRO LEU PRO LEU GLU PRO GLN VAL LYS ILE ARG SEQRES 26 B 594 GLY ILE ILE PRO GLU THR ALA THR LEU PHE LYS SER ALA SEQRES 27 B 594 LEU MET PRO ALA GLN LEU PHE PHE LYS THR GLU ASP GLY SEQRES 28 B 594 GLY LYS TYR PRO VAL ILE PHE LYS HIS GLY ASP ASP LEU SEQRES 29 B 594 ARG GLN ASP GLN LEU ILE LEU GLN ILE ILE SER LEU MET SEQRES 30 B 594 ASP LYS LEU LEU ARG LYS GLU ASN LEU ASP LEU LYS LEU SEQRES 31 B 594 THR PRO TYR LYS VAL LEU ALA THR SER THR LYS HIS GLY SEQRES 32 B 594 PHE MET GLN PHE ILE GLN SER VAL PRO VAL ALA GLU VAL SEQRES 33 B 594 LEU ASP THR GLU GLY SER ILE GLN ASN PHE PHE ARG LYS SEQRES 34 B 594 TYR ALA PRO SER GLU ASN GLY PRO ASN GLY ILE SER ALA SEQRES 35 B 594 GLU VAL MET ASP THR TYR VAL LYS SER CYS ALA GLY TYR SEQRES 36 B 594 CYS VAL ILE THR TYR ILE LEU GLY VAL GLY ASP ARG HIS SEQRES 37 B 594 LEU ASP ASN LEU LEU LEU THR LYS THR GLY LYS LEU PHE SEQRES 38 B 594 HIS ILE ASP PHE GLY TYR ILE LEU GLY ARG ASP PRO LYS SEQRES 39 B 594 PRO LEU PRO PRO PRO MET LYS LEU ASN LYS GLU MET VAL SEQRES 40 B 594 GLU GLY MET GLY GLY THR GLN SER GLU GLN TYR GLN GLU SEQRES 41 B 594 PHE ARG LYS GLN CYS TYR THR ALA PHE LEU HIS LEU ARG SEQRES 42 B 594 ARG TYR SER ASN LEU ILE LEU ASN LEU PHE SER LEU MET SEQRES 43 B 594 VAL ASP ALA ASN ILE PRO ASP ILE ALA LEU GLU PRO ASP SEQRES 44 B 594 LYS THR VAL LYS LYS VAL GLN ASP LYS PHE ARG LEU ASP SEQRES 45 B 594 LEU SER ASP GLU GLU ALA VAL HIS TYR MET GLN SER LEU SEQRES 46 B 594 ILE ASP GLU SER VAL HIS ALA LEU PHE HET MES B 901 25 HET PG4 B 902 31 HET DMS B 903 10 HET PEG B 904 17 HET PEG B 905 12 HET GOL B 906 14 HET CL B 907 1 HET CL B 908 1 HET CL B 909 1 HET CL B 910 1 HET PEG B 911 9 HET PEG B 912 10 HET K B 913 1 HET K B 914 1 HET K B 915 1 HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM DMS DIMETHYL SULFOXIDE HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETNAM K POTASSIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MES C6 H13 N O4 S FORMUL 3 PG4 C8 H18 O5 FORMUL 4 DMS C2 H6 O S FORMUL 5 PEG 4(C4 H10 O3) FORMUL 7 GOL C3 H8 O3 FORMUL 8 CL 4(CL 1-) FORMUL 14 K 3(K 1+) FORMUL 17 HOH *91(H2 O) HELIX 1 AA1 ALA B 291 SER B 301 1 11 HELIX 2 AA2 THR B 309 PHE B 319 1 11 HELIX 3 AA3 ARG B 320 THR B 324 5 5 HELIX 4 AA4 GLN B 326 LYS B 328 5 3 HELIX 5 AA5 ALA B 329 CYS B 336 1 8 HELIX 6 AA6 LEU B 341 TRP B 355 1 15 HELIX 7 AA7 ASP B 359 LEU B 367 1 9 HELIX 8 AA8 ASN B 373 ARG B 385 1 13 HELIX 9 AA9 ASP B 388 LEU B 403 1 16 HELIX 10 AB1 LYS B 404 GLU B 406 5 3 HELIX 11 AB2 ASN B 407 GLY B 414 1 8 HELIX 12 AB3 ASP B 474 CYS B 484 1 11 HELIX 13 AB4 ASN B 486 ASP B 503 1 18 HELIX 14 AB5 ASP B 503 ASP B 510 1 8 HELIX 15 AB6 ASP B 510 LYS B 530 1 21 HELIX 16 AB7 ASP B 532 GLN B 560 1 29 HELIX 17 AB8 ASN B 565 ASP B 579 1 15 HELIX 18 AB9 PRO B 606 ALA B 609 5 4 HELIX 19 AC1 LEU B 641 GLU B 661 1 21 HELIX 20 AC2 VAL B 690 GLU B 697 1 8 HELIX 21 AC3 SER B 699 ALA B 708 1 10 HELIX 22 AC4 GLY B 713 ILE B 717 5 5 HELIX 23 AC5 SER B 718 GLY B 740 1 23 HELIX 24 AC6 ASN B 780 MET B 787 1 8 HELIX 25 AC7 SER B 792 TYR B 812 1 21 HELIX 26 AC8 TYR B 812 LEU B 822 1 11 HELIX 27 AC9 ILE B 828 LEU B 833 1 6 HELIX 28 AD1 GLU B 834 ASP B 836 5 3 HELIX 29 AD2 LYS B 837 ARG B 847 1 11 HELIX 30 AD3 SER B 851 LEU B 870 1 20 SHEET 1 AA1 4 ILE B 591 LEU B 593 0 SHEET 2 AA1 4 GLU B 596 ILE B 604 -1 O ILE B 601 N ILE B 591 SHEET 3 AA1 4 ALA B 619 THR B 625 -1 O LYS B 624 N GLY B 603 SHEET 4 AA1 4 THR B 610 LEU B 611 -1 N THR B 610 O GLN B 620 SHEET 1 AA2 6 ILE B 591 LEU B 593 0 SHEET 2 AA2 6 GLU B 596 ILE B 604 -1 O ILE B 601 N ILE B 591 SHEET 3 AA2 6 ALA B 619 THR B 625 -1 O LYS B 624 N GLY B 603 SHEET 4 AA2 6 LYS B 630 HIS B 637 -1 O PHE B 635 N ALA B 619 SHEET 5 AA2 6 HIS B 679 GLN B 683 -1 O MET B 682 N ILE B 634 SHEET 6 AA2 6 VAL B 672 ALA B 674 -1 N LEU B 673 O PHE B 681 SHEET 1 AA3 3 VAL B 688 PRO B 689 0 SHEET 2 AA3 3 LEU B 749 LEU B 751 -1 O LEU B 751 N VAL B 688 SHEET 3 AA3 3 LEU B 757 HIS B 759 -1 O PHE B 758 N LEU B 750 CRYST1 114.088 114.088 145.397 90.00 90.00 90.00 P 41 21 2 8 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 0.008765 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008765 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006878 0.00000