HEADER TRANSFERASE/TRANSFERASE INHIBITOR 17-JAN-11 3QCS TITLE PHOSPHOINOSITIDE-DEPENDENT KINASE-1 (PDK1) KINASE DOMAIN WITH 6-[2- TITLE 2 AMINO-6-(4-MORPHOLINYL)-4-PYRIMIDINYL]-1H-INDAZOL-3-AMINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN, RESIDUES 73-358; COMPND 5 SYNONYM: HPDK1; COMPND 6 EC: 2.7.11.1; COMPND 7 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: PDPK1; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS AGC KINASE, SIGNAL TRANSDUCTION, ATP & PHOSPHOINOSITIDE, KEYWDS 2 PHOSPHORYLATION ON S241, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.R.MEDINA,C.J.BECKER,C.W.BLACKLEDGE,C.DUQUENNE,Y.FENG,S.W.GRANT, AUTHOR 2 D.HEERDING,W.H.LI,W.H.MILLER,S.P.ROMERIL,D.SCHERZER,A.SHU,M.A.BOBKO, AUTHOR 3 A.R.CHADDERTON,M.DUMBLE,C.M.GRADINER,S.GILBERT,Q.LIU,S.K.RABINDRAN, AUTHOR 4 V.SUDAKIN,H.XIANG,P.G.BRADY,N.CAMPOBASSO,P.WARD,J.M.AXTEN REVDAT 4 06-NOV-24 3QCS 1 REMARK LINK REVDAT 3 08-NOV-17 3QCS 1 REMARK REVDAT 2 30-MAR-11 3QCS 1 JRNL REVDAT 1 09-MAR-11 3QCS 0 JRNL AUTH J.R.MEDINA,C.J.BECKER,C.W.BLACKLEDGE,C.DUQUENNE,Y.FENG, JRNL AUTH 2 S.W.GRANT,D.HEERDING,W.H.LI,W.H.MILLER,S.P.ROMERIL, JRNL AUTH 3 D.SCHERZER,A.SHU,M.A.BOBKO,A.R.CHADDERTON,M.DUMBLE, JRNL AUTH 4 C.M.GARDINER,S.GILBERT,Q.LIU,S.K.RABINDRAN,V.SUDAKIN, JRNL AUTH 5 H.XIANG,P.G.BRADY,N.CAMPOBASSO,P.WARD,J.M.AXTEN JRNL TITL STRUCTURE-BASED DESIGN OF POTENT AND SELECTIVE JRNL TITL 2 3-PHOSPHOINOSITIDE-DEPENDENT KINASE-1 (PDK1) INHIBITORS. JRNL REF J.MED.CHEM. V. 54 1871 2011 JRNL REFN ISSN 0022-2623 JRNL PMID 21341675 JRNL DOI 10.1021/JM101527U REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.R.MEDINA,C.W.BLACKLEDGE,D.A.HEERDING,N.CAMPOBASSO,P.WARD, REMARK 1 AUTH 2 J.BRIAND,L.WRIGHT,J.M.AXTEN REMARK 1 TITL AMINOINDAZOLE PDK1 INHIBITORS: A CASE STUDY IN REMARK 1 TITL 2 FRAGMENT-BASED DRUG DISCOVERY REMARK 1 REF ACS MED. CHEM. LETT. V. 1 439 2010 REMARK 1 REFN ISSN 1948-5875 REMARK 2 REMARK 2 RESOLUTION. 2.49 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 2.49 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.54 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.140 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 14265 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.060 REMARK 3 FREE R VALUE TEST SET COUNT : 1435 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 40.5441 - 5.3545 1.00 1387 157 0.1919 0.2339 REMARK 3 2 5.3545 - 4.2515 1.00 1349 151 0.1396 0.2092 REMARK 3 3 4.2515 - 3.7145 0.99 1337 145 0.1326 0.2089 REMARK 3 4 3.7145 - 3.3751 0.99 1310 140 0.1623 0.2256 REMARK 3 5 3.3751 - 3.1333 0.99 1310 150 0.1757 0.2868 REMARK 3 6 3.1333 - 2.9486 0.96 1261 144 0.1768 0.2608 REMARK 3 7 2.9486 - 2.8010 0.96 1277 143 0.1791 0.2507 REMARK 3 8 2.8010 - 2.6791 0.93 1220 141 0.1939 0.2920 REMARK 3 9 2.6791 - 2.5759 0.92 1225 138 0.2096 0.3302 REMARK 3 10 2.5759 - 2.4871 0.88 1154 126 0.2327 0.3362 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.37 REMARK 3 B_SOL : 38.95 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.44570 REMARK 3 B22 (A**2) : -2.44570 REMARK 3 B33 (A**2) : 4.89140 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 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 : 0.005 2388 REMARK 3 ANGLE : 0.963 3210 REMARK 3 CHIRALITY : 0.063 344 REMARK 3 PLANARITY : 0.003 403 REMARK 3 DIHEDRAL : 15.904 866 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 3QCS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000063481. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUL-08 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14774 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.487 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 10.20 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : 0.48400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.9-2 M AMMONIUM SULFATE,0.1 M TRIS PH REMARK 280 9. AND 5MM ATP 15-30% GLYCEROL PLUS MOTHER LIQUOR MIXED WITH REMARK 280 INHIBITOR SERVED AS THE CRYO-PROTECTANT BEFORE BEING FROZEN IN REMARK 280 LIQUID NITROGEN, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 31.35600 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 15.67800 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 15.67800 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 31.35600 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYM. 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 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 A 3 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 GLY A 48 REMARK 465 PRO 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 PRO A 232 REMARK 465 GLU A 233 REMARK 465 SER A 234 REMARK 465 LYS A 235 REMARK 465 GLN A 236 REMARK 465 ALA A 237 REMARK 465 ARG A 238 REMARK 465 ALA A 239 REMARK 465 ASN A 240 REMARK 465 THR A 359 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 GLN A 73 CG CD OE1 NE2 REMARK 470 ARG A 75 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 303 CG CD OE1 OE2 REMARK 470 LYS A 304 CG CD CE NZ REMARK 470 GLU A 348 CG CD OE1 OE2 REMARK 470 LYS A 357 CG CD CE NZ 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 151 -163.91 -115.56 REMARK 500 ARG A 204 -7.51 74.15 REMARK 500 ASP A 205 43.01 -147.25 REMARK 500 ASP A 223 84.25 69.95 REMARK 500 GLU A 256 -9.44 -149.94 REMARK 500 CYS A 260 -173.49 -170.51 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 GOL A 360 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 361 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 363 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 365 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 366 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 368 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 369 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3Q1 A 370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3NUN RELATED DB: PDB REMARK 900 RELATED ID: 3NUS RELATED DB: PDB REMARK 900 RELATED ID: 3NUU RELATED DB: PDB REMARK 900 RELATED ID: 3NUY RELATED DB: PDB REMARK 900 RELATED ID: 3QCQ RELATED DB: PDB REMARK 900 RELATED ID: 3QCX RELATED DB: PDB REMARK 900 RELATED ID: 3QCY RELATED DB: PDB REMARK 900 RELATED ID: 3QD0 RELATED DB: PDB REMARK 900 RELATED ID: 3QD3 RELATED DB: PDB REMARK 900 RELATED ID: 3QD4 RELATED DB: PDB DBREF 3QCS A 48 359 UNP O15530 PDPK1_HUMAN 48 359 SEQRES 1 A 312 GLY PRO ALA MET ASP GLY THR ALA ALA GLU PRO ARG PRO SEQRES 2 A 312 GLY ALA GLY SER LEU GLN HIS ALA GLN PRO PRO PRO GLN SEQRES 3 A 312 PRO ARG LYS LYS ARG PRO GLU ASP PHE LYS PHE GLY LYS SEQRES 4 A 312 ILE LEU GLY GLU GLY SER PHE SER THR VAL VAL LEU ALA SEQRES 5 A 312 ARG GLU LEU ALA THR SER ARG GLU TYR ALA ILE LYS ILE SEQRES 6 A 312 LEU GLU LYS ARG HIS ILE ILE LYS GLU ASN LYS VAL PRO SEQRES 7 A 312 TYR VAL THR ARG GLU ARG ASP VAL MET SER ARG LEU ASP SEQRES 8 A 312 HIS PRO PHE PHE VAL LYS LEU TYR PHE THR PHE GLN ASP SEQRES 9 A 312 ASP GLU LYS LEU TYR PHE GLY LEU SER TYR ALA LYS ASN SEQRES 10 A 312 GLY GLU LEU LEU LYS TYR ILE ARG LYS ILE GLY SER PHE SEQRES 11 A 312 ASP GLU THR CYS THR ARG PHE TYR THR ALA GLU ILE VAL SEQRES 12 A 312 SER ALA LEU GLU TYR LEU HIS GLY LYS GLY ILE ILE HIS SEQRES 13 A 312 ARG ASP LEU LYS PRO GLU ASN ILE LEU LEU ASN GLU ASP SEQRES 14 A 312 MET HIS ILE GLN ILE THR ASP PHE GLY THR ALA LYS VAL SEQRES 15 A 312 LEU SER PRO GLU SER LYS GLN ALA ARG ALA ASN SEP PHE SEQRES 16 A 312 VAL GLY THR ALA GLN TYR VAL SER PRO GLU LEU LEU THR SEQRES 17 A 312 GLU LYS SER ALA CYS LYS SER SER ASP LEU TRP ALA LEU SEQRES 18 A 312 GLY CYS ILE ILE TYR GLN LEU VAL ALA GLY LEU PRO PRO SEQRES 19 A 312 PHE ARG ALA GLY ASN GLU TYR LEU ILE PHE GLN LYS ILE SEQRES 20 A 312 ILE LYS LEU GLU TYR ASP PHE PRO GLU LYS PHE PHE PRO SEQRES 21 A 312 LYS ALA ARG ASP LEU VAL GLU LYS LEU LEU VAL LEU ASP SEQRES 22 A 312 ALA THR LYS ARG LEU GLY CYS GLU GLU MET GLU GLY TYR SEQRES 23 A 312 GLY PRO LEU LYS ALA HIS PRO PHE PHE GLU SER VAL THR SEQRES 24 A 312 TRP GLU ASN LEU HIS GLN GLN THR PRO PRO LYS LEU THR MODRES 3QCS SEP A 241 SER PHOSPHOSERINE HET SEP A 241 10 HET GOL A 360 6 HET GOL A 361 6 HET GOL A 363 6 HET GOL A 365 6 HET SO4 A 366 5 HET SO4 A 368 5 HET SO4 A 369 5 HET 3Q1 A 370 23 HET SO4 A 2 5 HET SO4 A 3 5 HETNAM SEP PHOSPHOSERINE HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETNAM 3Q1 6-[2-AMINO-6-(MORPHOLIN-4-YL)PYRIMIDIN-4-YL]-2H- HETNAM 2 3Q1 INDAZOL-3-AMINE HETSYN SEP PHOSPHONOSERINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 SEP C3 H8 N O6 P FORMUL 2 GOL 4(C3 H8 O3) FORMUL 6 SO4 5(O4 S 2-) FORMUL 9 3Q1 C15 H17 N7 O FORMUL 12 HOH *20(H2 O) HELIX 1 1 ARG A 78 GLU A 80 5 3 HELIX 2 2 LYS A 115 GLU A 121 1 7 HELIX 3 3 LYS A 123 LEU A 137 1 15 HELIX 4 4 GLU A 166 GLY A 175 1 10 HELIX 5 5 ASP A 178 LYS A 199 1 22 HELIX 6 6 THR A 245 VAL A 249 5 5 HELIX 7 7 SER A 250 LYS A 257 1 8 HELIX 8 8 CYS A 260 GLY A 278 1 19 HELIX 9 9 ASN A 286 LEU A 297 1 12 HELIX 10 10 PHE A 306 LEU A 317 1 12 HELIX 11 11 ASP A 320 ARG A 324 5 5 HELIX 12 12 CYS A 327 GLU A 331 5 5 HELIX 13 13 GLY A 332 ALA A 338 1 7 HELIX 14 14 HIS A 339 GLU A 343 5 5 HELIX 15 15 ASN A 349 GLN A 353 5 5 SHEET 1 A 5 PHE A 82 GLU A 90 0 SHEET 2 A 5 THR A 95 GLU A 101 -1 O VAL A 96 N GLY A 89 SHEET 3 A 5 GLU A 107 GLU A 114 -1 O ILE A 112 N THR A 95 SHEET 4 A 5 LYS A 154 LEU A 159 -1 O LEU A 155 N LEU A 113 SHEET 5 A 5 LEU A 145 GLN A 150 -1 N TYR A 146 O GLY A 158 SHEET 1 B 2 ILE A 201 ILE A 202 0 SHEET 2 B 2 LYS A 228 VAL A 229 -1 O LYS A 228 N ILE A 202 SHEET 1 C 2 ILE A 211 LEU A 213 0 SHEET 2 C 2 ILE A 219 ILE A 221 -1 O GLN A 220 N LEU A 212 LINK C SEP A 241 N PHE A 242 1555 1555 1.33 SITE 1 AC1 6 SO4 A 2 ARG A 106 GLU A 107 TYR A 146 SITE 2 AC1 6 SER A 160 TYR A 161 SITE 1 AC2 3 PHE A 84 GLU A 194 LYS A 337 SITE 1 AC3 5 LYS A 154 TYR A 156 GLU A 328 GLU A 331 SITE 2 AC3 5 GLY A 332 SITE 1 AC4 10 ALA A 103 THR A 104 SER A 105 HIS A 139 SITE 2 AC4 10 SER A 191 TRP A 347 GLU A 348 ASN A 349 SITE 3 AC4 10 LEU A 350 HIS A 351 SITE 1 AC5 4 LYS A 83 THR A 346 TRP A 347 GLU A 348 SITE 1 AC6 3 ARG A 75 ARG A 136 LYS A 199 SITE 1 AC7 5 LYS A 76 ARG A 131 THR A 148 PHE A 149 SITE 2 AC7 5 GLN A 150 SITE 1 AC8 12 GLU A 90 GLY A 91 VAL A 96 ALA A 109 SITE 2 AC8 12 LYS A 111 GLU A 130 SER A 160 TYR A 161 SITE 3 AC8 12 ALA A 162 LEU A 212 THR A 222 ASP A 223 SITE 1 AC9 5 SO4 A 3 ARG A 106 PRO A 140 HIS A 351 SITE 2 AC9 5 GOL A 360 SITE 1 BC1 2 SO4 A 2 TYR A 146 CRYST1 123.848 123.848 47.034 90.00 90.00 120.00 P 32 2 1 6 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 0.008074 0.004662 0.000000 0.00000 SCALE2 0.000000 0.009324 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021261 0.00000