HEADER TRANSFERASE 08-SEP-11 4A06 TITLE HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH ALLOSTERIC ACTIVATOR PS114 TITLE 2 BOUND TO THE PIF-POCKET COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 50-359; COMPND 5 SYNONYM: HPDK1; COMPND 6 EC: 2.7.11.1; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PFASTBAC KEYWDS TRANSFERASE, ALLOSTERIC SITE EXPDTA X-RAY DIFFRACTION AUTHOR J.O.SCHULZE,L.A.LOPEZ-GARCIA,W.FROEHNER,H.ZHANG,J.NAVRATIL,V.HINDIE, AUTHOR 2 S.ZEUZEM,P.M.ALZARI,S.NEIMANIS,M.ENGEL,R.M.BIONDI REVDAT 2 20-DEC-23 4A06 1 REMARK LINK REVDAT 1 07-DEC-11 4A06 0 JRNL AUTH L.A.LOPEZ-GARCIA,J.O.SCHULZE,W.FROHNER,H.ZHANG,E.SUSS, JRNL AUTH 2 N.WEBER,J.NAVRATIL,S.AMON,V.HINDIE,S.ZEUZEM,T.J.JORGENSEN, JRNL AUTH 3 P.M.ALZARI,S.NEIMANIS,M.ENGEL,R.M.BIONDI JRNL TITL ALLOSTERIC REGULATION OF PROTEIN KINASE PKCZETA BY THE JRNL TITL 2 N-TERMINAL C1 DOMAIN AND SMALL COMPOUNDS TO THE PIF-POCKET. JRNL REF CHEM.BIOL. V. 18 1463 2011 JRNL REFN ISSN 1074-5521 JRNL PMID 22118680 JRNL DOI 10.1016/J.CHEMBIOL.2011.08.010 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.53 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.6 REMARK 3 NUMBER OF REFLECTIONS : 19306 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.600 REMARK 3 FREE R VALUE TEST SET COUNT : 309 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 36.5324 - 2.5197 0.92 9378 161 0.1588 0.1874 REMARK 3 2 2.5197 - 2.0000 0.96 9619 148 0.1644 0.2243 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 : 0.83 REMARK 3 K_SOL : 0.40 REMARK 3 B_SOL : 58.50 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.770 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.72 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.19380 REMARK 3 B22 (A**2) : 1.94480 REMARK 3 B33 (A**2) : -1.75100 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.86160 REMARK 3 B23 (A**2) : 0.00000 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 : 0.006 2361 REMARK 3 ANGLE : 1.095 3214 REMARK 3 CHIRALITY : 0.073 356 REMARK 3 PLANARITY : 0.005 400 REMARK 3 DIHEDRAL : 12.654 861 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 75:99) REMARK 3 ORIGIN FOR THE GROUP (A): 13.1388 -19.9931 -7.3757 REMARK 3 T TENSOR REMARK 3 T11: 0.0761 T22: 0.1686 REMARK 3 T33: 0.1479 T12: -0.0155 REMARK 3 T13: -0.0218 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 4.2296 L22: 1.1220 REMARK 3 L33: 0.1343 L12: -1.5305 REMARK 3 L13: -0.5590 L23: 0.0289 REMARK 3 S TENSOR REMARK 3 S11: 0.0392 S12: 0.0662 S13: 0.6727 REMARK 3 S21: 0.1357 S22: -0.0975 S23: -0.1617 REMARK 3 S31: -0.1734 S32: 0.0569 S33: 0.0539 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 100:123) REMARK 3 ORIGIN FOR THE GROUP (A): 14.5627 -15.9997 -9.4736 REMARK 3 T TENSOR REMARK 3 T11: 0.1555 T22: 0.2540 REMARK 3 T33: 0.1297 T12: -0.1094 REMARK 3 T13: -0.0182 T23: -0.0417 REMARK 3 L TENSOR REMARK 3 L11: 2.0934 L22: 0.8903 REMARK 3 L33: 0.5103 L12: 1.1809 REMARK 3 L13: -0.0868 L23: -0.2220 REMARK 3 S TENSOR REMARK 3 S11: 0.2159 S12: -0.5567 S13: -0.0782 REMARK 3 S21: 0.3431 S22: -0.1936 S23: -0.1687 REMARK 3 S31: -0.1602 S32: 0.1369 S33: -0.0052 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 124:142) REMARK 3 ORIGIN FOR THE GROUP (A): 17.3502 -13.5704 -23.6671 REMARK 3 T TENSOR REMARK 3 T11: 0.1500 T22: 0.1649 REMARK 3 T33: 0.1659 T12: -0.0218 REMARK 3 T13: 0.0142 T23: -0.0221 REMARK 3 L TENSOR REMARK 3 L11: 0.8540 L22: 2.8112 REMARK 3 L33: 2.4800 L12: -0.3428 REMARK 3 L13: -0.9912 L23: 1.7009 REMARK 3 S TENSOR REMARK 3 S11: 0.1352 S12: -0.0791 S13: 0.2866 REMARK 3 S21: -0.0773 S22: -0.2437 S23: 0.4395 REMARK 3 S31: -0.3994 S32: -0.1258 S33: 0.0856 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 143:166) REMARK 3 ORIGIN FOR THE GROUP (A): 13.2290 -17.9085 -13.4060 REMARK 3 T TENSOR REMARK 3 T11: 0.1109 T22: 0.1308 REMARK 3 T33: 0.1308 T12: -0.0149 REMARK 3 T13: 0.0121 T23: -0.0235 REMARK 3 L TENSOR REMARK 3 L11: 0.9502 L22: 1.1283 REMARK 3 L33: 0.8341 L12: 0.1297 REMARK 3 L13: -0.0268 L23: 0.1997 REMARK 3 S TENSOR REMARK 3 S11: 0.0311 S12: 0.0082 S13: 0.2033 REMARK 3 S21: -0.1044 S22: -0.2113 S23: 0.0366 REMARK 3 S31: -0.1200 S32: -0.0463 S33: 0.0828 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 167:243) REMARK 3 ORIGIN FOR THE GROUP (A): 23.5861 -23.9858 -28.3553 REMARK 3 T TENSOR REMARK 3 T11: 0.0737 T22: 0.0692 REMARK 3 T33: 0.1160 T12: 0.0055 REMARK 3 T13: -0.0185 T23: -0.0034 REMARK 3 L TENSOR REMARK 3 L11: 1.0140 L22: 0.0788 REMARK 3 L33: 1.5762 L12: -0.1461 REMARK 3 L13: -0.1745 L23: 0.2814 REMARK 3 S TENSOR REMARK 3 S11: -0.0238 S12: -0.0429 S13: 0.0144 REMARK 3 S21: 0.0815 S22: 0.0068 S23: 0.0676 REMARK 3 S31: -0.0135 S32: -0.0529 S33: 0.0266 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 244:331) REMARK 3 ORIGIN FOR THE GROUP (A): 36.6767 -25.4066 -33.4107 REMARK 3 T TENSOR REMARK 3 T11: 0.0723 T22: 0.0587 REMARK 3 T33: 0.1264 T12: 0.0126 REMARK 3 T13: -0.0153 T23: 0.0016 REMARK 3 L TENSOR REMARK 3 L11: 1.2532 L22: 0.6878 REMARK 3 L33: 1.0467 L12: 0.1300 REMARK 3 L13: 0.6402 L23: -0.0032 REMARK 3 S TENSOR REMARK 3 S11: 0.0251 S12: 0.1024 S13: -0.0889 REMARK 3 S21: -0.0416 S22: -0.0616 S23: -0.2275 REMARK 3 S31: 0.0400 S32: 0.1210 S33: 0.0399 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 332:359) REMARK 3 ORIGIN FOR THE GROUP (A): 18.6488 -33.2240 -38.3869 REMARK 3 T TENSOR REMARK 3 T11: 0.1006 T22: 0.1273 REMARK 3 T33: 0.1717 T12: -0.0267 REMARK 3 T13: -0.0164 T23: -0.0383 REMARK 3 L TENSOR REMARK 3 L11: 1.3629 L22: 0.5960 REMARK 3 L33: 1.5774 L12: -0.1507 REMARK 3 L13: -0.3708 L23: -0.0217 REMARK 3 S TENSOR REMARK 3 S11: -0.2025 S12: 0.2348 S13: -0.3158 REMARK 3 S21: -0.1782 S22: 0.0617 S23: 0.1630 REMARK 3 S31: 0.1483 S32: -0.2675 S33: 0.1231 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE CARBOXYL GROUP ON PS114 (A06) IS REMARK 3 UNRESOLVED AND NOT INCLUDED. REMARK 4 REMARK 4 4A06 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-SEP-11. REMARK 100 THE DEPOSITION ID IS D_1290049579. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19306 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 37.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 5.600 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.30000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.600 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: PDB ENTRY 3HRC REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.2 M NA CITRATE, 0.1 M HEPES PH 7.5, REMARK 280 10 MM DTT. 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 74.19500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.05000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 74.19500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.05000 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, GLN 288 TO ALA REMARK 400 ENGINEERED RESIDUE IN CHAIN A, TYR 292 TO GLY 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 GLY A 49 REMARK 465 ALA A 50 REMARK 465 MET A 51 REMARK 465 ASP A 52 REMARK 465 GLY A 53 REMARK 465 THR A 54 REMARK 465 ALA A 55 REMARK 465 ALA A 56 REMARK 465 GLU A 57 REMARK 465 PRO A 58 REMARK 465 ARG A 59 REMARK 465 PRO A 60 REMARK 465 GLY A 61 REMARK 465 ALA A 62 REMARK 465 GLY A 63 REMARK 465 SER A 64 REMARK 465 LEU A 65 REMARK 465 GLN A 66 REMARK 465 HIS A 67 REMARK 465 ALA A 68 REMARK 465 GLN A 69 REMARK 465 PRO A 70 REMARK 465 PRO A 71 REMARK 465 PRO A 72 REMARK 465 GLN A 73 REMARK 465 PRO A 74 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 ARG A 75 N CA CB CG CD NE CZ REMARK 470 ARG A 75 NH1 NH2 REMARK 470 ARG A 78 CD NE CZ NH1 NH2 REMARK 470 LYS A 83 NZ REMARK 470 GLU A 90 CD OE1 OE2 REMARK 470 PHE A 93 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 116 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 120 CG CD CE NZ REMARK 470 LYS A 123 CD CE NZ REMARK 470 LYS A 144 NZ REMARK 470 GLU A 153 CG CD OE1 OE2 REMARK 470 LYS A 163 CD CE NZ REMARK 470 LYS A 173 CE NZ REMARK 470 LYS A 199 CE NZ REMARK 470 GLU A 215 CD OE1 OE2 REMARK 470 LYS A 235 CD CE NZ REMARK 470 ARG A 238 CD NE CZ NH1 NH2 REMARK 470 GLU A 256 CD OE1 OE2 REMARK 470 LYS A 257 CD CE NZ REMARK 470 LYS A 296 NZ REMARK 470 GLU A 298 CD OE1 OE2 REMARK 470 GLU A 303 CD OE1 OE2 REMARK 470 LYS A 323 NZ REMARK 470 GLU A 328 CD OE1 OE2 REMARK 470 GLU A 343 CD OE1 OE2 REMARK 470 LYS A 357 CD CE NZ REMARK 470 THR A 359 CA C O CB OG1 CG2 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 A 122 69.63 20.33 REMARK 500 ARG A 204 -10.07 74.62 REMARK 500 ASP A 223 74.67 74.25 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 PS114 (A06): ALLOSTERIC ACTIVATOR PS114 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 A06 A 600 REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE A06 A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 700 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 820 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 860 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 870 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1H1W RELATED DB: PDB REMARK 900 HIGH RESOLUTION CRYSTAL STRUCTURE OF THE HUMAN PDK1 CATALYTIC DOMAIN REMARK 900 RELATED ID: 1UU3 RELATED DB: PDB REMARK 900 STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH LY333531 REMARK 900 RELATED ID: 1W1G RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE PDK1 PLECKSTRIN HOMOLOGY (PH) DOMAIN BOUND REMARK 900 TO DIC4-PHOSPHATIDYLINOSITOL (3,4,5)- TRISPHOSPHATE REMARK 900 RELATED ID: 2BIY RELATED DB: PDB REMARK 900 STRUCTURE OF PDK1-S241A MUTANT KINASE DOMAIN REMARK 900 RELATED ID: 1W1H RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE PDK1 PLECKSTRIN HOMOLOGY (PH) DOMAIN REMARK 900 RELATED ID: 1UU8 RELATED DB: PDB REMARK 900 STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH BIM-1 REMARK 900 RELATED ID: 1OKY RELATED DB: PDB REMARK 900 STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH STAUROSPORINE REMARK 900 RELATED ID: 1UU9 RELATED DB: PDB REMARK 900 STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH BIM-3 REMARK 900 RELATED ID: 1Z5M RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF N1-[3-[[5-BROMO-2-[[3-[(1- REMARK 900 PYRROLIDINYLCARBONYL)AMINO]PHENYL]AMINO]-4-PYRIMIDINYL] AMINO] REMARK 900 PROPYL]-2,2-DIMETHYLPROPANEDIAMIDECOMPLEXED WITH HUMAN PDK1 REMARK 900 RELATED ID: 1OKZ RELATED DB: PDB REMARK 900 STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH UCN-01 REMARK 900 RELATED ID: 1W1D RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE PDK1 PLECKSTRIN HOMOLOGY (PH) DOMAIN BOUND REMARK 900 TO INOSITOL (1,3,4,5)-TETRAKISPHOSPHATE REMARK 900 RELATED ID: 2XCH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PDK1 IN COMPLEX WITH A PYRAZOLOQUINAZOLINE REMARK 900 INHIBITOR REMARK 900 RELATED ID: 2VKI RELATED DB: PDB REMARK 900 STRUCTURE OF THE PDK1 PH DOMAIN K465E MUTANT REMARK 900 RELATED ID: 2XCK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PDK1 IN COMPLEX WITH A PYRAZOLOQUINAZOLINE REMARK 900 INHIBITOR REMARK 900 RELATED ID: 1UU7 RELATED DB: PDB REMARK 900 STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH BIM-2 REMARK 900 RELATED ID: 1UVR RELATED DB: PDB REMARK 900 STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH BIM-8 REMARK 900 RELATED ID: 4A07 RELATED DB: PDB REMARK 900 HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH ALLOSTERIC ACTIVATOR PS171 REMARK 900 BOUND TO THE PIF-POCKET DBREF 4A06 A 50 359 UNP O15530 PDPK1_HUMAN 50 359 SEQADV 4A06 GLY A 49 UNP O15530 EXPRESSION TAG SEQADV 4A06 GLY A 288 UNP O15530 TYR 288 ENGINEERED MUTATION SEQADV 4A06 ALA A 292 UNP O15530 GLN 292 ENGINEERED MUTATION SEQRES 1 A 311 GLY ALA MET ASP GLY THR ALA ALA GLU PRO ARG PRO GLY SEQRES 2 A 311 ALA GLY SER LEU GLN HIS ALA GLN PRO PRO PRO GLN PRO SEQRES 3 A 311 ARG LYS LYS ARG PRO GLU ASP PHE LYS PHE GLY LYS ILE SEQRES 4 A 311 LEU GLY GLU GLY SER PHE SER THR VAL VAL LEU ALA ARG SEQRES 5 A 311 GLU LEU ALA THR SER ARG GLU TYR ALA ILE LYS ILE LEU SEQRES 6 A 311 GLU LYS ARG HIS ILE ILE LYS GLU ASN LYS VAL PRO TYR SEQRES 7 A 311 VAL THR ARG GLU ARG ASP VAL MET SER ARG LEU ASP HIS SEQRES 8 A 311 PRO PHE PHE VAL LYS LEU TYR PHE THR PHE GLN ASP ASP SEQRES 9 A 311 GLU LYS LEU TYR PHE GLY LEU SER TYR ALA LYS ASN GLY SEQRES 10 A 311 GLU LEU LEU LYS TYR ILE ARG LYS ILE GLY SER PHE ASP SEQRES 11 A 311 GLU THR CYS THR ARG PHE TYR THR ALA GLU ILE VAL SER SEQRES 12 A 311 ALA LEU GLU TYR LEU HIS GLY LYS GLY ILE ILE HIS ARG SEQRES 13 A 311 ASP LEU LYS PRO GLU ASN ILE LEU LEU ASN GLU ASP MET SEQRES 14 A 311 HIS ILE GLN ILE THR ASP PHE GLY THR ALA LYS VAL LEU SEQRES 15 A 311 SER PRO GLU SER LYS GLN ALA ARG ALA ASN SEP PHE VAL SEQRES 16 A 311 GLY THR ALA GLN TYR VAL SER PRO GLU LEU LEU THR GLU SEQRES 17 A 311 LYS SER ALA CYS LYS SER SER ASP LEU TRP ALA LEU GLY SEQRES 18 A 311 CYS ILE ILE TYR GLN LEU VAL ALA GLY LEU PRO PRO PHE SEQRES 19 A 311 ARG ALA GLY ASN GLU GLY LEU ILE PHE ALA LYS ILE ILE SEQRES 20 A 311 LYS LEU GLU TYR ASP PHE PRO GLU LYS PHE PHE PRO LYS SEQRES 21 A 311 ALA ARG ASP LEU VAL GLU LYS LEU LEU VAL LEU ASP ALA SEQRES 22 A 311 THR LYS ARG LEU GLY CYS GLU GLU MET GLU GLY TYR GLY SEQRES 23 A 311 PRO LEU LYS ALA HIS PRO PHE PHE GLU SER VAL THR TRP SEQRES 24 A 311 GLU ASN LEU HIS GLN GLN THR PRO PRO LYS LEU THR MODRES 4A06 SEP A 241 SER PHOSPHOSERINE HET SEP A 241 10 HET ATP A 500 31 HET A06 A 600 19 HET DMS A 700 4 HET CL A 800 1 HET CL A 810 1 HET CL A 820 1 HET CL A 830 1 HET CL A 840 1 HET CL A 850 1 HET CL A 860 2 HET CL A 870 1 HETNAM SEP PHOSPHOSERINE HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM A06 (3S)-4-(5-CHLORO-1H-BENZIMIDAZOL-2-YL)-3-(4- HETNAM 2 A06 CHLOROPHENYL)BUTANOIC ACID HETNAM DMS DIMETHYL SULFOXIDE HETNAM CL CHLORIDE ION HETSYN SEP PHOSPHONOSERINE FORMUL 1 SEP C3 H8 N O6 P FORMUL 2 ATP C10 H16 N5 O13 P3 FORMUL 3 A06 C17 H14 CL2 N2 O2 FORMUL 4 DMS C2 H6 O S FORMUL 5 CL 8(CL 1-) FORMUL 13 HOH *106(H2 O) HELIX 1 1 LYS A 115 GLU A 121 1 7 HELIX 2 2 LYS A 123 SER A 135 1 13 HELIX 3 3 LEU A 167 ILE A 174 1 8 HELIX 4 4 GLU A 179 LYS A 199 1 21 HELIX 5 5 PRO A 251 GLU A 256 1 6 HELIX 6 6 SER A 262 ALA A 277 1 16 HELIX 7 7 GLU A 287 ILE A 295 1 9 HELIX 8 8 PRO A 307 LEU A 316 1 10 HELIX 9 9 TYR A 333 ALA A 338 1 6 SHEET 1 A 5 PHE A 82 GLY A 91 0 SHEET 2 A 5 SER A 94 GLU A 101 -1 O LEU A 98 N GLY A 85 SHEET 3 A 5 ARG A 106 GLU A 114 -1 O ILE A 110 N VAL A 97 SHEET 4 A 5 LYS A 154 LEU A 159 -1 O LEU A 159 N ALA A 109 SHEET 5 A 5 PHE A 147 ASP A 151 -1 N PHE A 147 O GLY A 158 SHEET 1 B 3 GLY A 165 GLU A 166 0 SHEET 2 B 3 ILE A 211 ASN A 214 -1 O LEU A 213 N GLY A 165 SHEET 3 B 3 HIS A 218 ILE A 221 -1 O GLN A 220 N LEU A 212 SHEET 1 C 2 ILE A 201 ILE A 202 0 SHEET 2 C 2 LYS A 228 VAL A 229 -1 O LYS A 228 N ILE A 202 LINK C ASN A 240 N SEP A 241 1555 1555 1.33 LINK C SEP A 241 N PHE A 242 1555 1555 1.33 SITE 1 AC1 14 GLY A 89 GLY A 91 SER A 92 SER A 94 SITE 2 AC1 14 VAL A 96 ALA A 109 LYS A 111 SER A 160 SITE 3 AC1 14 ALA A 162 GLU A 166 LEU A 212 HOH A2057 SITE 4 AC1 14 HOH A2105 HOH A2106 SITE 1 AC2 4 ILE A 119 ARG A 131 TYR A 156 PHE A 157 SITE 1 AC3 10 THR A 104 SER A 105 HIS A 139 PRO A 140 SITE 2 AC3 10 TRP A 347 GLU A 348 ASN A 349 LEU A 350 SITE 3 AC3 10 HIS A 351 HOH A2042 SITE 1 AC4 1 TYR A 299 SITE 1 AC5 1 ASP A 311 SITE 1 AC6 2 PHE A 242 GLY A 244 CRYST1 148.390 44.100 47.300 90.00 100.07 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 0.006739 0.000000 0.001197 0.00000 SCALE2 0.000000 0.022676 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021472 0.00000