HEADER TRANSFERASE 30-OCT-14 4WTV TITLE CRYSTAL STRUCTURE OF THE PHOSPHATIDYLINOSITOL 4-KINASE IIBETA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHATIDYLINOSITOL 4-KINASE TYPE 2-BETA,ENDOLYSIN, COMPND 3 PHOSPHATIDYLINOSITOL 4-KINASE TYPE 2-BETA; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: UNP RESIDUES 90-165,UNP RESIDUES 2-164,UNP RESIDUES 176- COMPND 6 450,UNP RESIDUES 90-165,UNP RESIDUES 2-164,UNP RESIDUES 176-450,UNP COMPND 7 RESIDUES 90-165,UNP RESIDUES 2-164,UNP RESIDUES 176-450; COMPND 8 SYNONYM: PHOSPHATIDYLINOSITOL 4-KINASE TYPE II-BETA,PI4KII-BETA,LYSIS COMPND 9 PROTEIN,LYSOZYME,MURAMIDASE,PHOSPHATIDYLINOSITOL 4-KINASE TYPE II- COMPND 10 BETA,PI4KII-BETA; COMPND 11 EC: 2.7.1.67,3.2.1.17,2.7.1.67; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS, ENTEROBACTERIA PHAGE T4; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606, 10665; SOURCE 5 GENE: PI4K2B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS LIPID KINASE, PHOSPHATIDYL INOSITOL, TRANSFERASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.KLIMA,A.BAUMLOVA,D.CHALUPSKA,E.BOURA REVDAT 3 10-JAN-24 4WTV 1 REMARK REVDAT 2 27-JUL-16 4WTV 1 JRNL REVDAT 1 15-JUL-15 4WTV 0 JRNL AUTH M.KLIMA,A.BAUMLOVA,D.CHALUPSKA,H.HREBABECKY,M.DEJMEK, JRNL AUTH 2 R.NENCKA,E.BOURA JRNL TITL THE HIGH-RESOLUTION CRYSTAL STRUCTURE OF JRNL TITL 2 PHOSPHATIDYLINOSITOL 4-KINASE II BETA AND THE CRYSTAL JRNL TITL 3 STRUCTURE OF PHOSPHATIDYLINOSITOL 4-KINASE II ALPHA JRNL TITL 4 CONTAINING A NUCLEOSIDE ANALOGUE PROVIDE A STRUCTURAL BASIS JRNL TITL 5 FOR ISOFORM-SPECIFIC INHIBITOR DESIGN. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 71 1555 2015 JRNL REFN ESSN 1399-0047 JRNL PMID 26143926 JRNL DOI 10.1107/S1399004715009505 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692) 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 96762 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4839 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 47.5346 - 5.9001 1.00 3354 178 0.1884 0.2021 REMARK 3 2 5.9001 - 4.6844 1.00 3190 167 0.1689 0.1740 REMARK 3 3 4.6844 - 4.0926 1.00 3137 166 0.1539 0.1764 REMARK 3 4 4.0926 - 3.7186 1.00 3136 165 0.1761 0.2197 REMARK 3 5 3.7186 - 3.4522 1.00 3101 163 0.1997 0.2183 REMARK 3 6 3.4522 - 3.2487 1.00 3091 162 0.2304 0.2841 REMARK 3 7 3.2487 - 3.0860 1.00 3089 163 0.2350 0.2607 REMARK 3 8 3.0860 - 2.9517 1.00 3059 161 0.2346 0.2532 REMARK 3 9 2.9517 - 2.8381 1.00 3091 163 0.2304 0.2707 REMARK 3 10 2.8381 - 2.7402 1.00 3058 161 0.2320 0.2860 REMARK 3 11 2.7402 - 2.6545 1.00 3035 159 0.2321 0.2648 REMARK 3 12 2.6545 - 2.5786 1.00 3044 161 0.2290 0.2842 REMARK 3 13 2.5786 - 2.5107 1.00 3082 162 0.2175 0.2335 REMARK 3 14 2.5107 - 2.4495 1.00 3043 160 0.2249 0.2697 REMARK 3 15 2.4495 - 2.3938 1.00 3033 160 0.2231 0.2865 REMARK 3 16 2.3938 - 2.3429 1.00 3032 159 0.2303 0.2709 REMARK 3 17 2.3429 - 2.2960 1.00 3041 160 0.2357 0.2658 REMARK 3 18 2.2960 - 2.2527 1.00 3026 160 0.2289 0.2937 REMARK 3 19 2.2527 - 2.2124 1.00 3045 160 0.2391 0.2720 REMARK 3 20 2.2124 - 2.1749 1.00 3030 159 0.2344 0.2729 REMARK 3 21 2.1749 - 2.1399 1.00 3031 160 0.2391 0.2684 REMARK 3 22 2.1399 - 2.1069 1.00 3038 160 0.2363 0.2976 REMARK 3 23 2.1069 - 2.0759 1.00 3014 158 0.2533 0.3470 REMARK 3 24 2.0759 - 2.0467 1.00 3008 159 0.2573 0.2843 REMARK 3 25 2.0467 - 2.0190 1.00 3061 161 0.2588 0.3018 REMARK 3 26 2.0190 - 1.9928 1.00 2993 157 0.2695 0.3024 REMARK 3 27 1.9928 - 1.9679 1.00 3024 159 0.2676 0.3006 REMARK 3 28 1.9679 - 1.9442 1.00 3017 159 0.2732 0.3027 REMARK 3 29 1.9442 - 1.9216 1.00 3020 159 0.2859 0.3638 REMARK 3 30 1.9216 - 1.9000 1.00 3000 158 0.2990 0.3288 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 : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.440 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.010 7313 REMARK 3 ANGLE : 1.246 9953 REMARK 3 CHIRALITY : 0.041 1074 REMARK 3 PLANARITY : 0.005 1267 REMARK 3 DIHEDRAL : 15.852 2671 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 4WTV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1000204493. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUL-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.28272 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS JANUARY 10, 2014 REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 96773 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 47.520 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 17.60 REMARK 200 R MERGE (I) : 0.10020 REMARK 200 R SYM (I) : 0.10320 REMARK 200 FOR THE DATA SET : 17.4200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 17.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 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: 4PLA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM MES/IMIDAZOLE PH = 6.5, 10% W/V REMARK 280 PEG 4000, 20% V/V GLYCEROL, 20 MM 1,6-HEXANEDIOL, 20 MM 1- REMARK 280 BUTANOL, 20 MM 1,2-PROPANEDIOL, 20 MM 2-PROPANOL, 20 MM 1,4- REMARK 280 BUTANEDIOL, 20 MM 1,3-PROPANEDIOL, PH 6.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 291K 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 107.26500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 53.00500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 53.00500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 53.63250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 53.00500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 53.00500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 160.89750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 53.00500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.00500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 53.63250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 53.00500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.00500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 160.89750 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 107.26500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 VAL A 90 REMARK 465 THR A 91 REMARK 465 ILE A 92 REMARK 465 GLY A 93 REMARK 465 THR A 94 REMARK 465 SER A 95 REMARK 465 GLU A 96 REMARK 465 MET A 97 REMARK 465 SER A 151 REMARK 465 GLU A 152 REMARK 465 GLU A 153 REMARK 465 PRO A 154 REMARK 465 TYR A 155 REMARK 465 GLY A 156 REMARK 465 GLN A 157 REMARK 465 LEU A 158 REMARK 465 ASN A 159 REMARK 465 PRO A 160 REMARK 465 LYS A 161 REMARK 465 ALA A 221 REMARK 465 ILE A 222 REMARK 465 ASP A 223 REMARK 465 ARG A 224 REMARK 465 ALA A 225 REMARK 465 LYS A 226 REMARK 465 SER A 227 REMARK 465 ARG A 228 REMARK 465 GLY A 229 REMARK 465 LYS A 230 REMARK 465 LYS A 231 REMARK 465 TYR A 232 REMARK 465 ALA A 233 REMARK 465 LEU A 234 REMARK 465 GLU A 235 REMARK 465 LYS A 236 REMARK 465 VAL A 237 REMARK 465 PRO A 238 REMARK 465 LYS A 239 REMARK 465 VAL A 240 REMARK 465 GLY A 241 REMARK 465 ARG A 242 REMARK 465 LYS A 243 REMARK 465 PHE A 244 REMARK 465 HIS A 245 REMARK 465 ARG A 246 REMARK 465 ILE A 247 REMARK 465 GLY A 248 REMARK 465 LEU A 249 REMARK 465 LYS A 316 REMARK 465 GLN A 317 REMARK 465 LYS A 318 REMARK 465 CYS A 319 REMARK 465 GLU A 320 REMARK 465 LYS A 321 REMARK 465 GLU A 322 REMARK 465 ILE A 323 REMARK 465 ASP A 324 REMARK 465 HIS A 325 REMARK 465 LYS A 326 REMARK 465 GLU A 327 REMARK 465 SER A 328 REMARK 465 LYS A 329 REMARK 465 TRP A 330 REMARK 465 ILE A 331 REMARK 465 ASP A 332 REMARK 465 ASP A 333 REMARK 465 GLU A 334 REMARK 465 VAL B 90 REMARK 465 THR B 91 REMARK 465 ILE B 92 REMARK 465 GLY B 93 REMARK 465 THR B 94 REMARK 465 SER B 95 REMARK 465 GLU B 96 REMARK 465 GLN B 128 REMARK 465 GLY B 129 REMARK 465 SER B 130 REMARK 465 LEU B 158 REMARK 465 ASN B 159 REMARK 465 PRO B 160 REMARK 465 LYS B 161 REMARK 465 TRP B 162 REMARK 465 LEU B 1032 REMARK 465 THR B 1033 REMARK 465 LYS B 1034 REMARK 465 SER B 1035 REMARK 465 PRO B 1036 REMARK 465 SER B 1037 REMARK 465 LEU B 1038 REMARK 465 ASN B 1039 REMARK 465 ALA B 1040 REMARK 465 ALA B 1041 REMARK 465 LYS B 1042 REMARK 465 SER B 1043 REMARK 465 GLU B 1044 REMARK 465 LEU B 1045 REMARK 465 ASP B 1046 REMARK 465 LYS B 1047 REMARK 465 ALA B 1048 REMARK 465 ILE B 1049 REMARK 465 GLY B 1050 REMARK 465 ARG B 1051 REMARK 465 ASN B 1052 REMARK 465 THR B 1053 REMARK 465 ASN B 1054 REMARK 465 GLY B 1055 REMARK 465 VAL B 1056 REMARK 465 ASN B 220 REMARK 465 ALA B 221 REMARK 465 ILE B 222 REMARK 465 ASP B 223 REMARK 465 ARG B 224 REMARK 465 ALA B 225 REMARK 465 LYS B 226 REMARK 465 SER B 227 REMARK 465 ARG B 228 REMARK 465 GLY B 229 REMARK 465 LYS B 230 REMARK 465 LYS B 231 REMARK 465 TYR B 232 REMARK 465 ALA B 233 REMARK 465 LEU B 234 REMARK 465 GLU B 235 REMARK 465 LYS B 236 REMARK 465 VAL B 237 REMARK 465 PRO B 238 REMARK 465 LYS B 239 REMARK 465 VAL B 240 REMARK 465 GLY B 241 REMARK 465 ARG B 242 REMARK 465 LYS B 243 REMARK 465 PHE B 244 REMARK 465 HIS B 245 REMARK 465 ARG B 246 REMARK 465 ILE B 247 REMARK 465 GLY B 248 REMARK 465 GLN B 317 REMARK 465 LYS B 318 REMARK 465 CYS B 319 REMARK 465 GLU B 320 REMARK 465 LYS B 321 REMARK 465 GLU B 322 REMARK 465 ILE B 323 REMARK 465 ASP B 324 REMARK 465 HIS B 325 REMARK 465 LYS B 326 REMARK 465 GLU B 327 REMARK 465 SER B 328 REMARK 465 LYS B 329 REMARK 465 TRP B 330 REMARK 465 ILE B 331 REMARK 465 ASP B 332 REMARK 465 ASP B 333 REMARK 465 GLU B 334 REMARK 465 GLU B 335 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 GLU A 118 CG CD OE1 OE2 REMARK 470 GLN A 128 CB CG CD OE1 NE2 REMARK 470 SER A 130 CB OG REMARK 470 LYS A 140 CD CE NZ REMARK 470 ARG A 141 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 164 CG CD CE NZ REMARK 470 ARG A1013 CG CD NE CZ NH1 NH2 REMARK 470 LYS A1015 CG CD CE NZ REMARK 470 LYS A1018 CG CD CE NZ REMARK 470 GLU A1021 CG CD OE1 OE2 REMARK 470 TYR A1023 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A1034 CG CD CE NZ REMARK 470 LYS A1059 CG CD CE NZ REMARK 470 ARG A1079 CZ NH1 NH2 REMARK 470 ARG A1124 NE CZ NH1 NH2 REMARK 470 ARG A1136 CD NE CZ NH1 NH2 REMARK 470 ARG A 177 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 215 CG CD OE1 OE2 REMARK 470 ASN A 220 CG OD1 ND2 REMARK 470 LYS A 284 CG CD CE NZ REMARK 470 TRP A 357 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 357 CZ3 CH2 REMARK 470 LYS A 407 CG CD CE NZ REMARK 470 MET B 97 CG SD CE REMARK 470 GLU B 118 CG CD OE1 OE2 REMARK 470 SER B 127 CB OG REMARK 470 LYS B 140 CG CD CE NZ REMARK 470 GLN B 157 CG CD OE1 NE2 REMARK 470 LYS B 164 CG CD CE NZ REMARK 470 ARG B1013 CG CD NE CZ NH1 NH2 REMARK 470 LYS B1015 CG CD CE NZ REMARK 470 LYS B1018 CG CD CE NZ REMARK 470 TYR B1024 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS B1059 CD CE NZ REMARK 470 LYS B1064 CG CD CE NZ REMARK 470 ARG B1079 CZ NH1 NH2 REMARK 470 ARG B1118 CG CD NE CZ NH1 NH2 REMARK 470 ARG B1136 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 284 CD CE NZ REMARK 470 LYS B 316 CD CE NZ REMARK 470 PHE B 336 CG CD1 CD2 CE1 CE2 CZ REMARK 470 TRP B 357 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 357 CZ3 CH2 REMARK 470 GLU B 376 CG CD OE1 OE2 REMARK 470 LYS B 407 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 1441 O HOH B 1442 2.05 REMARK 500 O HOH A 1427 O HOH A 1429 2.15 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 A1019 -159.60 -103.50 REMARK 500 ILE A1028 78.54 -103.85 REMARK 500 ARG A 301 60.55 39.89 REMARK 500 ASN B 98 50.18 -105.35 REMARK 500 ILE B1026 -86.30 -114.15 REMARK 500 ILE B1028 72.87 -103.89 REMARK 500 ALA B 348 -168.54 -126.36 REMARK 500 GLU B 356 -4.38 86.44 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASN A 309 TRP A 310 144.71 REMARK 500 ASN B 309 TRP B 310 142.70 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 ATP A 1201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ATP B 1201 DBREF 4WTV A 90 165 UNP Q8TCG2 P4K2B_HUMAN 90 165 DBREF 4WTV A 1001 1163 UNP P00720 ENLYS_BPT4 2 164 DBREF 4WTV A 176 450 UNP Q8TCG2 P4K2B_HUMAN 176 450 DBREF 4WTV B 90 165 UNP Q8TCG2 P4K2B_HUMAN 90 165 DBREF 4WTV B 1001 1163 UNP P00720 ENLYS_BPT4 2 164 DBREF 4WTV B 176 450 UNP Q8TCG2 P4K2B_HUMAN 176 450 SEQADV 4WTV GLY A 1011 UNP P00720 ARG 12 CONFLICT SEQADV 4WTV THR A 1053 UNP P00720 CYS 54 CONFLICT SEQADV 4WTV ALA A 1096 UNP P00720 CYS 97 CONFLICT SEQADV 4WTV ARG A 1136 UNP P00720 ILE 137 CONFLICT SEQADV 4WTV GLY B 1011 UNP P00720 ARG 12 CONFLICT SEQADV 4WTV THR B 1053 UNP P00720 CYS 54 CONFLICT SEQADV 4WTV ALA B 1096 UNP P00720 CYS 97 CONFLICT SEQADV 4WTV ARG B 1136 UNP P00720 ILE 137 CONFLICT SEQRES 1 A 514 VAL THR ILE GLY THR SER GLU MET ASN ALA PHE LEU ASP SEQRES 2 A 514 ASP PRO GLU PHE ALA ASP ILE MET LEU ARG ALA GLU GLN SEQRES 3 A 514 ALA ILE GLU VAL GLY ILE PHE PRO GLU ARG ILE SER GLN SEQRES 4 A 514 GLY SER SER GLY SER TYR PHE VAL LYS ASP PRO LYS ARG SEQRES 5 A 514 LYS ILE ILE GLY VAL PHE LYS PRO LYS SER GLU GLU PRO SEQRES 6 A 514 TYR GLY GLN LEU ASN PRO LYS TRP THR LYS TYR ASN ILE SEQRES 7 A 514 PHE GLU MET LEU ARG ILE ASP GLU GLY LEU ARG LEU LYS SEQRES 8 A 514 ILE TYR LYS ASP THR GLU GLY TYR TYR THR ILE GLY ILE SEQRES 9 A 514 GLY HIS LEU LEU THR LYS SER PRO SER LEU ASN ALA ALA SEQRES 10 A 514 LYS SER GLU LEU ASP LYS ALA ILE GLY ARG ASN THR ASN SEQRES 11 A 514 GLY VAL ILE THR LYS ASP GLU ALA GLU LYS LEU PHE ASN SEQRES 12 A 514 GLN ASP VAL ASP ALA ALA VAL ARG GLY ILE LEU ARG ASN SEQRES 13 A 514 ALA LYS LEU LYS PRO VAL TYR ASP SER LEU ASP ALA VAL SEQRES 14 A 514 ARG ARG ALA ALA LEU ILE ASN MET VAL PHE GLN MET GLY SEQRES 15 A 514 GLU THR GLY VAL ALA GLY PHE THR ASN SER LEU ARG MET SEQRES 16 A 514 LEU GLN GLN LYS ARG TRP ASP GLU ALA ALA VAL ASN LEU SEQRES 17 A 514 ALA LYS SER ARG TRP TYR ASN GLN THR PRO ASN ARG ALA SEQRES 18 A 514 LYS ARG VAL ILE THR THR PHE ARG THR GLY THR TRP ASP SEQRES 19 A 514 ALA TYR LYS ASN LEU GLY ARG GLY CYS LEU ILE PRO ASN SEQRES 20 A 514 GLN GLY TYR LEU SER GLU ALA GLY ALA TYR LEU VAL ASP SEQRES 21 A 514 ASN LYS LEU HIS LEU SER ILE VAL PRO LYS THR LYS VAL SEQRES 22 A 514 VAL TRP LEU VAL SER GLU THR PHE ASN TYR ASN ALA ILE SEQRES 23 A 514 ASP ARG ALA LYS SER ARG GLY LYS LYS TYR ALA LEU GLU SEQRES 24 A 514 LYS VAL PRO LYS VAL GLY ARG LYS PHE HIS ARG ILE GLY SEQRES 25 A 514 LEU PRO PRO LYS ILE GLY SER PHE GLN LEU PHE VAL GLU SEQRES 26 A 514 GLY TYR LYS GLU ALA GLU TYR TRP LEU ARG LYS PHE GLU SEQRES 27 A 514 ALA ASP PRO LEU PRO GLU ASN ILE ARG LYS GLN PHE GLN SEQRES 28 A 514 SER GLN PHE GLU ARG LEU VAL ILE LEU ASP TYR ILE ILE SEQRES 29 A 514 ARG ASN THR ASP ARG GLY ASN ASP ASN TRP LEU VAL ARG SEQRES 30 A 514 TYR GLU LYS GLN LYS CYS GLU LYS GLU ILE ASP HIS LYS SEQRES 31 A 514 GLU SER LYS TRP ILE ASP ASP GLU GLU PHE LEU ILE LYS SEQRES 32 A 514 ILE ALA ALA ILE ASP ASN GLY LEU ALA PHE PRO PHE LYS SEQRES 33 A 514 HIS PRO ASP GLU TRP ARG ALA TYR PRO PHE HIS TRP ALA SEQRES 34 A 514 TRP LEU PRO GLN ALA LYS VAL PRO PHE SER GLU GLU ILE SEQRES 35 A 514 ARG ASN LEU ILE LEU PRO TYR ILE SER ASP MET ASN PHE SEQRES 36 A 514 VAL GLN ASP LEU CYS GLU ASP LEU TYR GLU LEU PHE LYS SEQRES 37 A 514 THR ASP LYS GLY PHE ASP LYS ALA THR PHE GLU SER GLN SEQRES 38 A 514 MET SER VAL MET ARG GLY GLN ILE LEU ASN LEU THR GLN SEQRES 39 A 514 ALA LEU ARG ASP GLY LYS SER PRO PHE GLN LEU VAL GLN SEQRES 40 A 514 ILE PRO CYS VAL ILE VAL GLU SEQRES 1 B 514 VAL THR ILE GLY THR SER GLU MET ASN ALA PHE LEU ASP SEQRES 2 B 514 ASP PRO GLU PHE ALA ASP ILE MET LEU ARG ALA GLU GLN SEQRES 3 B 514 ALA ILE GLU VAL GLY ILE PHE PRO GLU ARG ILE SER GLN SEQRES 4 B 514 GLY SER SER GLY SER TYR PHE VAL LYS ASP PRO LYS ARG SEQRES 5 B 514 LYS ILE ILE GLY VAL PHE LYS PRO LYS SER GLU GLU PRO SEQRES 6 B 514 TYR GLY GLN LEU ASN PRO LYS TRP THR LYS TYR ASN ILE SEQRES 7 B 514 PHE GLU MET LEU ARG ILE ASP GLU GLY LEU ARG LEU LYS SEQRES 8 B 514 ILE TYR LYS ASP THR GLU GLY TYR TYR THR ILE GLY ILE SEQRES 9 B 514 GLY HIS LEU LEU THR LYS SER PRO SER LEU ASN ALA ALA SEQRES 10 B 514 LYS SER GLU LEU ASP LYS ALA ILE GLY ARG ASN THR ASN SEQRES 11 B 514 GLY VAL ILE THR LYS ASP GLU ALA GLU LYS LEU PHE ASN SEQRES 12 B 514 GLN ASP VAL ASP ALA ALA VAL ARG GLY ILE LEU ARG ASN SEQRES 13 B 514 ALA LYS LEU LYS PRO VAL TYR ASP SER LEU ASP ALA VAL SEQRES 14 B 514 ARG ARG ALA ALA LEU ILE ASN MET VAL PHE GLN MET GLY SEQRES 15 B 514 GLU THR GLY VAL ALA GLY PHE THR ASN SER LEU ARG MET SEQRES 16 B 514 LEU GLN GLN LYS ARG TRP ASP GLU ALA ALA VAL ASN LEU SEQRES 17 B 514 ALA LYS SER ARG TRP TYR ASN GLN THR PRO ASN ARG ALA SEQRES 18 B 514 LYS ARG VAL ILE THR THR PHE ARG THR GLY THR TRP ASP SEQRES 19 B 514 ALA TYR LYS ASN LEU GLY ARG GLY CYS LEU ILE PRO ASN SEQRES 20 B 514 GLN GLY TYR LEU SER GLU ALA GLY ALA TYR LEU VAL ASP SEQRES 21 B 514 ASN LYS LEU HIS LEU SER ILE VAL PRO LYS THR LYS VAL SEQRES 22 B 514 VAL TRP LEU VAL SER GLU THR PHE ASN TYR ASN ALA ILE SEQRES 23 B 514 ASP ARG ALA LYS SER ARG GLY LYS LYS TYR ALA LEU GLU SEQRES 24 B 514 LYS VAL PRO LYS VAL GLY ARG LYS PHE HIS ARG ILE GLY SEQRES 25 B 514 LEU PRO PRO LYS ILE GLY SER PHE GLN LEU PHE VAL GLU SEQRES 26 B 514 GLY TYR LYS GLU ALA GLU TYR TRP LEU ARG LYS PHE GLU SEQRES 27 B 514 ALA ASP PRO LEU PRO GLU ASN ILE ARG LYS GLN PHE GLN SEQRES 28 B 514 SER GLN PHE GLU ARG LEU VAL ILE LEU ASP TYR ILE ILE SEQRES 29 B 514 ARG ASN THR ASP ARG GLY ASN ASP ASN TRP LEU VAL ARG SEQRES 30 B 514 TYR GLU LYS GLN LYS CYS GLU LYS GLU ILE ASP HIS LYS SEQRES 31 B 514 GLU SER LYS TRP ILE ASP ASP GLU GLU PHE LEU ILE LYS SEQRES 32 B 514 ILE ALA ALA ILE ASP ASN GLY LEU ALA PHE PRO PHE LYS SEQRES 33 B 514 HIS PRO ASP GLU TRP ARG ALA TYR PRO PHE HIS TRP ALA SEQRES 34 B 514 TRP LEU PRO GLN ALA LYS VAL PRO PHE SER GLU GLU ILE SEQRES 35 B 514 ARG ASN LEU ILE LEU PRO TYR ILE SER ASP MET ASN PHE SEQRES 36 B 514 VAL GLN ASP LEU CYS GLU ASP LEU TYR GLU LEU PHE LYS SEQRES 37 B 514 THR ASP LYS GLY PHE ASP LYS ALA THR PHE GLU SER GLN SEQRES 38 B 514 MET SER VAL MET ARG GLY GLN ILE LEU ASN LEU THR GLN SEQRES 39 B 514 ALA LEU ARG ASP GLY LYS SER PRO PHE GLN LEU VAL GLN SEQRES 40 B 514 ILE PRO CYS VAL ILE VAL GLU HET ATP A1201 86 HET ATP B1201 86 HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE FORMUL 3 ATP 2(C10 H16 N5 O13 P3) FORMUL 5 HOH *279(H2 O) HELIX 1 AA1 ASP A 103 VAL A 119 1 17 HELIX 2 AA2 ASN A 1001 GLY A 1011 1 11 HELIX 3 AA3 SER A 1037 GLY A 1050 1 14 HELIX 4 AA4 THR A 1058 ARG A 1079 1 22 HELIX 5 AA5 LYS A 1082 LEU A 1090 1 9 HELIX 6 AA6 ASP A 1091 GLY A 1106 1 16 HELIX 7 AA7 GLY A 1106 GLY A 1112 1 7 HELIX 8 AA8 PHE A 1113 GLN A 1122 1 10 HELIX 9 AA9 ARG A 1124 LYS A 1134 1 11 HELIX 10 AB1 SER A 1135 THR A 1141 1 7 HELIX 11 AB2 THR A 1141 GLY A 1155 1 15 HELIX 12 AB3 TRP A 1157 ASN A 1162 1 6 HELIX 13 AB4 GLN A 184 HIS A 200 1 17 HELIX 14 AB5 ALA A 266 PHE A 273 1 8 HELIX 15 AB6 PRO A 279 ILE A 300 1 22 HELIX 16 AB7 PHE A 362 VAL A 372 5 11 HELIX 17 AB8 SER A 375 SER A 387 1 13 HELIX 18 AB9 ASP A 388 LYS A 404 1 17 HELIX 19 AC1 ASP A 410 ASP A 434 1 25 HELIX 20 AC2 SER A 437 VAL A 442 1 6 HELIX 21 AC3 ASP B 103 VAL B 119 1 17 HELIX 22 AC4 SER B 151 GLU B 153 5 3 HELIX 23 AC5 ASN B 1001 GLY B 1011 1 11 HELIX 24 AC6 THR B 1058 ARG B 1079 1 22 HELIX 25 AC7 LYS B 1082 LEU B 1090 1 9 HELIX 26 AC8 ASP B 1091 GLY B 1112 1 22 HELIX 27 AC9 PHE B 1113 GLN B 1122 1 10 HELIX 28 AD1 ARG B 1124 LYS B 1134 1 11 HELIX 29 AD2 SER B 1135 THR B 1141 1 7 HELIX 30 AD3 THR B 1141 GLY B 1155 1 15 HELIX 31 AD4 TRP B 1157 ASN B 1162 1 6 HELIX 32 AD5 GLN B 184 HIS B 200 1 17 HELIX 33 AD6 ALA B 266 ASP B 276 1 11 HELIX 34 AD7 PRO B 279 ILE B 300 1 22 HELIX 35 AD8 PHE B 362 VAL B 372 5 11 HELIX 36 AD9 SER B 375 SER B 387 1 13 HELIX 37 AE1 ASP B 388 LYS B 404 1 17 HELIX 38 AE2 ASP B 410 GLY B 435 1 26 HELIX 39 AE3 SER B 437 VAL B 442 1 6 SHEET 1 AA1 5 GLU A 124 ARG A 125 0 SHEET 2 AA1 5 TYR A 134 LYS A 137 -1 O PHE A 135 N GLU A 124 SHEET 3 AA1 5 ILE A 143 PRO A 149 -1 O GLY A 145 N VAL A 136 SHEET 4 AA1 5 LYS A 252 LEU A 258 -1 O GLN A 257 N VAL A 146 SHEET 5 AA1 5 THR A 207 LEU A 212 -1 N LEU A 212 O LYS A 252 SHEET 1 AA2 3 ARG A1013 LYS A1018 0 SHEET 2 AA2 3 TYR A1024 GLY A1027 -1 O THR A1025 N TYR A1017 SHEET 3 AA2 3 HIS A1030 THR A1033 -1 O LEU A1032 N TYR A1024 SHEET 1 AA3 3 LYS A 264 GLU A 265 0 SHEET 2 AA3 3 TRP A 310 TYR A 314 -1 O VAL A 312 N LYS A 264 SHEET 3 AA3 3 ILE A 338 ALA A 342 -1 O ALA A 341 N LEU A 311 SHEET 1 AA4 5 GLU B 124 ARG B 125 0 SHEET 2 AA4 5 TYR B 134 LYS B 137 -1 O PHE B 135 N GLU B 124 SHEET 3 AA4 5 ILE B 143 PRO B 149 -1 O ILE B 144 N VAL B 136 SHEET 4 AA4 5 LYS B 252 LEU B 258 -1 O GLN B 257 N VAL B 146 SHEET 5 AA4 5 THR B 207 LEU B 212 -1 N VAL B 210 O GLY B 254 SHEET 1 AA5 2 TYR B1017 LYS B1018 0 SHEET 2 AA5 2 TYR B1024 THR B1025 -1 O THR B1025 N TYR B1017 SHEET 1 AA6 3 LYS B 264 GLU B 265 0 SHEET 2 AA6 3 TRP B 310 TYR B 314 -1 O VAL B 312 N LYS B 264 SHEET 3 AA6 3 ILE B 338 ALA B 342 -1 O ALA B 341 N LEU B 311 SITE 1 AC1 16 SER A 133 VAL A 146 LYS A 148 GLN A 257 SITE 2 AC1 16 LEU A 258 PHE A 259 VAL A 260 ILE A 343 SITE 3 AC1 16 ASP A 344 HOH A1322 HOH A1367 HOH A1426 SITE 4 AC1 16 HOH A1433 TYR B 268 ARG B 271 LYS B 272 SITE 1 AC2 18 ARG A 271 LYS A 272 SER B 131 SER B 133 SITE 2 AC2 18 PHE B 135 VAL B 146 LYS B 148 GLN B 257 SITE 3 AC2 18 LEU B 258 PHE B 259 VAL B 260 ILE B 343 SITE 4 AC2 18 ASP B 344 HOH B1349 HOH B1360 HOH B1399 SITE 5 AC2 18 HOH B1436 HOH B1446 CRYST1 106.010 106.010 214.530 90.00 90.00 90.00 P 41 21 2 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009433 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009433 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004661 0.00000