PDB Short entry for 3RGF HEADER TRANSFERASE,TRANSCRIPTION 08-APR-11 3RGF TITLE CRYSTAL STRUCTURE OF HUMAN CDK8/CYCC COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLIN-DEPENDENT KINASE 8; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-403; COMPND 5 SYNONYM: CDK8, CELL DIVISION PROTEIN KINASE 8, MEDIATOR COMPLEX COMPND 6 SUBUNIT CDK8, MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT COMPND 7 CDK8, PROTEIN KINASE K35; COMPND 8 EC: 2.7.11.22, 2.7.11.23; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: CYCLIN-C; COMPND 12 CHAIN: B; COMPND 13 SYNONYM: CYCC, SRB11 HOMOLOG, HSRB11; COMPND 14 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: CDK8; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: CCNC; SOURCE 15 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 16 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS PROTEIN KINASE COMPLEX, TRANSFERASE, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR E.V.SCHNEIDER,J.BOETTCHER,M.BLAESSE,R.HUBER,K.MASKOS REVDAT 4 13-SEP-23 3RGF 1 REMARK SEQADV REVDAT 3 03-OCT-12 3RGF 1 HETSYN REVDAT 2 07-SEP-11 3RGF 1 JRNL REVDAT 1 10-AUG-11 3RGF 0 JRNL AUTH E.V.SCHNEIDER,J.BOTTCHER,M.BLAESSE,L.NEUMANN,R.HUBER, JRNL AUTH 2 K.MASKOS JRNL TITL THE STRUCTURE OF CDK8/CYCC IMPLICATES SPECIFICITY IN THE JRNL TITL 2 CDK/CYCLIN FAMILY AND REVEALS INTERACTION WITH A DEEP POCKET JRNL TITL 3 BINDER. JRNL REF J.MOL.BIOL. V. 412 251 2011 JRNL REFN ISSN 0022-2836 JRNL PMID 21806996 JRNL DOI 10.1016/J.JMB.2011.07.020 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.57 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 37691 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1885 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2630 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.2200 REMARK 3 BIN FREE R VALUE SET COUNT : 139 REMARK 3 BIN FREE R VALUE : 0.2730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4869 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 82 REMARK 3 SOLVENT ATOMS : 175 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.51000 REMARK 3 B22 (A**2) : 0.86000 REMARK 3 B33 (A**2) : -0.25000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.17000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.228 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.185 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.128 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.809 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4947 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3467 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6680 ; 1.004 ; 1.971 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8347 ; 0.802 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 583 ; 5.018 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 219 ;32.679 ;23.333 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 841 ;12.431 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;14.940 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 722 ; 0.061 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5364 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1041 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2938 ; 1.346 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1162 ; 0.333 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4733 ; 2.394 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2009 ; 3.490 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1947 ; 5.325 ; 6.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 100 REMARK 3 ORIGIN FOR THE GROUP (A): -17.210 7.099 26.642 REMARK 3 T TENSOR REMARK 3 T11: 0.1582 T22: 0.2225 REMARK 3 T33: 0.1845 T12: -0.0456 REMARK 3 T13: 0.0378 T23: -0.0311 REMARK 3 L TENSOR REMARK 3 L11: 4.8364 L22: 1.6029 REMARK 3 L33: 0.3951 L12: -2.6601 REMARK 3 L13: 0.4294 L23: -0.4455 REMARK 3 S TENSOR REMARK 3 S11: -0.1947 S12: -0.3444 S13: 0.0227 REMARK 3 S21: 0.2502 S22: 0.1743 S23: 0.0353 REMARK 3 S31: -0.2253 S32: -0.0271 S33: 0.0204 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 101 A 353 REMARK 3 ORIGIN FOR THE GROUP (A): 14.1990 -2.2990 26.7250 REMARK 3 T TENSOR REMARK 3 T11: 0.0403 T22: 0.0338 REMARK 3 T33: 0.0122 T12: -0.0101 REMARK 3 T13: -0.0037 T23: -0.0045 REMARK 3 L TENSOR REMARK 3 L11: 2.8577 L22: 1.7789 REMARK 3 L33: 1.3817 L12: 0.5886 REMARK 3 L13: 0.0779 L23: 0.1009 REMARK 3 S TENSOR REMARK 3 S11: 0.0779 S12: -0.2217 S13: 0.0753 REMARK 3 S21: 0.1610 S22: -0.0182 S23: -0.0905 REMARK 3 S31: -0.0597 S32: 0.0114 S33: -0.0597 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 264 REMARK 3 ORIGIN FOR THE GROUP (A): -16.3570 12.2750 -2.5060 REMARK 3 T TENSOR REMARK 3 T11: 0.0228 T22: 0.0105 REMARK 3 T33: 0.0430 T12: -0.0071 REMARK 3 T13: -0.0091 T23: 0.0023 REMARK 3 L TENSOR REMARK 3 L11: 1.2113 L22: 1.6065 REMARK 3 L33: 2.6088 L12: -0.2621 REMARK 3 L13: -0.0199 L23: -0.1257 REMARK 3 S TENSOR REMARK 3 S11: 0.0900 S12: -0.0038 S13: -0.0724 REMARK 3 S21: -0.0790 S22: -0.0148 S23: 0.0735 REMARK 3 S31: 0.0987 S32: 0.0550 S33: -0.0752 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : RESIDUAL ONLY REMARK 4 REMARK 4 3RGF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-APR-11. REMARK 100 THE DEPOSITION ID IS D_1000064899. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAY-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA 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 : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37725 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 37.567 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : 0.08900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.54200 REMARK 200 R SYM FOR SHELL (I) : 0.54200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: BALBES REMARK 200 STARTING MODEL: PDB ENTRIES 1ZP2, 2I53, 2PK2, 2WH2, 2PK2, 2RK3, REMARK 200 2UZE, 2R3Q, 2R3N, 2VTH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG3350, 0.2M LITHIUM CHLORIDE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 35.30500 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 3.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 GLY A 28 REMARK 465 ARG A 29 REMARK 465 GLY A 30 REMARK 465 THR A 31 REMARK 465 TYR A 32 REMARK 465 ALA A 116 REMARK 465 ASN A 117 REMARK 465 LYS A 118 REMARK 465 LYS A 119 REMARK 465 PRO A 120 REMARK 465 VAL A 121 REMARK 465 GLN A 122 REMARK 465 LEU A 179 REMARK 465 PHE A 180 REMARK 465 ASN A 181 REMARK 465 SER A 182 REMARK 465 PRO A 183 REMARK 465 LEU A 184 REMARK 465 LYS A 185 REMARK 465 PRO A 186 REMARK 465 LEU A 187 REMARK 465 ALA A 188 REMARK 465 ASP A 189 REMARK 465 LEU A 190 REMARK 465 ASP A 191 REMARK 465 PRO A 192 REMARK 465 VAL A 193 REMARK 465 VAL A 194 REMARK 465 GLU A 239 REMARK 465 ASP A 240 REMARK 465 ILE A 241 REMARK 465 LYS A 242 REMARK 465 THR A 243 REMARK 465 SER A 244 REMARK 465 PRO A 354 REMARK 465 LYS A 355 REMARK 465 ARG A 356 REMARK 465 GLU A 357 REMARK 465 PHE A 358 REMARK 465 LEU A 359 REMARK 465 THR A 360 REMARK 465 GLU A 361 REMARK 465 GLU A 362 REMARK 465 GLU A 363 REMARK 465 PRO A 364 REMARK 465 ASP A 365 REMARK 465 ASP A 366 REMARK 465 LYS A 367 REMARK 465 GLY A 368 REMARK 465 ASP A 369 REMARK 465 LYS A 370 REMARK 465 LYS A 371 REMARK 465 ASN A 372 REMARK 465 GLN A 373 REMARK 465 GLN A 374 REMARK 465 GLN A 375 REMARK 465 GLN A 376 REMARK 465 GLN A 377 REMARK 465 GLY A 378 REMARK 465 ASN A 379 REMARK 465 ASN A 380 REMARK 465 HIS A 381 REMARK 465 THR A 382 REMARK 465 ASN A 383 REMARK 465 GLY A 384 REMARK 465 THR A 385 REMARK 465 GLY A 386 REMARK 465 HIS A 387 REMARK 465 PRO A 388 REMARK 465 GLY A 389 REMARK 465 ASN A 390 REMARK 465 GLN A 391 REMARK 465 ASP A 392 REMARK 465 SER A 393 REMARK 465 SER A 394 REMARK 465 HIS A 395 REMARK 465 THR A 396 REMARK 465 GLN A 397 REMARK 465 GLY A 398 REMARK 465 PRO A 399 REMARK 465 PRO A 400 REMARK 465 LEU A 401 REMARK 465 LYS A 402 REMARK 465 LYS A 403 REMARK 465 ASN B 265 REMARK 465 SER B 266 REMARK 465 GLU B 267 REMARK 465 GLY B 268 REMARK 465 GLU B 269 REMARK 465 GLN B 270 REMARK 465 GLY B 271 REMARK 465 PRO B 272 REMARK 465 ASN B 273 REMARK 465 GLY B 274 REMARK 465 SER B 275 REMARK 465 GLN B 276 REMARK 465 ASN B 277 REMARK 465 SER B 278 REMARK 465 SER B 279 REMARK 465 TYR B 280 REMARK 465 SER B 281 REMARK 465 GLN B 282 REMARK 465 SER B 283 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ASP A -1 N CB CG OD1 OD2 REMARK 480 LYS A 0 CB CG CD CE NZ REMARK 480 GLU A 21 CG CD OE1 OE2 REMARK 480 GLU A 23 CG CD OE1 OE2 REMARK 480 LYS A 26 CD CE NZ REMARK 480 GLY A 33 N REMARK 480 HIS A 34 CG ND1 CD2 CE1 NE2 REMARK 480 ASP A 42 CG OD1 OD2 REMARK 480 LYS A 44 CG CD CE NZ REMARK 480 LYS A 47 CG CD CE NZ REMARK 480 LYS A 52 NZ REMARK 480 GLU A 55 CG CD OE1 OE2 REMARK 480 LYS A 74 CG CD CE NZ REMARK 480 LYS A 92 CD CE NZ REMARK 480 SER A 114 OG REMARK 480 LYS A 115 CG CD CE NZ REMARK 480 ARG A 178 CB CG CD NE CZ NH1 NH2 REMARK 480 ARG A 237 CG CD NE CZ NH1 NH2 REMARK 480 GLN A 238 CG CD OE1 NE2 REMARK 480 ASN A 245 N CB CG OD1 ND2 REMARK 480 LYS A 265 CE NZ REMARK 480 LYS A 295 NZ REMARK 480 LYS A 301 CG CD CE NZ REMARK 480 LYS A 303 CD CE NZ REMARK 480 GLN A 350 CG CD OE1 NE2 REMARK 480 GLN B 19 CG CD OE1 NE2 REMARK 480 LYS B 27 CG CD CE NZ REMARK 480 LYS B 56 CD CE NZ REMARK 480 ARG B 58 CG CD NE CZ NH1 NH2 REMARK 480 LYS B 79 NZ REMARK 480 ARG B 131 CD NE CZ NH1 NH2 REMARK 480 GLU B 169 CG CD OE1 OE2 REMARK 480 LYS B 211 CG CD CE NZ REMARK 480 GLN B 215 CD OE1 NE2 REMARK 480 VAL B 222 CG1 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 ASP A 45 114.66 172.94 REMARK 500 ASP A 151 45.02 -159.92 REMARK 500 SER B 221 66.37 -102.27 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 BAX A 465 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 466 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 467 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 468 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 469 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 284 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 285 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 286 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 287 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 288 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 289 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 290 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 291 DBREF 3RGF A 1 403 UNP P49336 CDK8_HUMAN 1 403 DBREF 3RGF B 1 283 UNP P24863 CCNC_HUMAN 1 283 SEQADV 3RGF ASP A -1 UNP P49336 EXPRESSION TAG SEQADV 3RGF LYS A 0 UNP P49336 EXPRESSION TAG SEQADV 3RGF LYS B -1 UNP P24863 EXPRESSION TAG SEQADV 3RGF ALA B 0 UNP P24863 EXPRESSION TAG SEQRES 1 A 405 ASP LYS MET ASP TYR ASP PHE LYS VAL LYS LEU SER SER SEQRES 2 A 405 GLU ARG GLU ARG VAL GLU ASP LEU PHE GLU TYR GLU GLY SEQRES 3 A 405 CYS LYS VAL GLY ARG GLY THR TYR GLY HIS VAL TYR LYS SEQRES 4 A 405 ALA LYS ARG LYS ASP GLY LYS ASP ASP LYS ASP TYR ALA SEQRES 5 A 405 LEU LYS GLN ILE GLU GLY THR GLY ILE SER MET SER ALA SEQRES 6 A 405 CYS ARG GLU ILE ALA LEU LEU ARG GLU LEU LYS HIS PRO SEQRES 7 A 405 ASN VAL ILE SER LEU GLN LYS VAL PHE LEU SER HIS ALA SEQRES 8 A 405 ASP ARG LYS VAL TRP LEU LEU PHE ASP TYR ALA GLU HIS SEQRES 9 A 405 ASP LEU TRP HIS ILE ILE LYS PHE HIS ARG ALA SER LYS SEQRES 10 A 405 ALA ASN LYS LYS PRO VAL GLN LEU PRO ARG GLY MET VAL SEQRES 11 A 405 LYS SER LEU LEU TYR GLN ILE LEU ASP GLY ILE HIS TYR SEQRES 12 A 405 LEU HIS ALA ASN TRP VAL LEU HIS ARG ASP LEU LYS PRO SEQRES 13 A 405 ALA ASN ILE LEU VAL MET GLY GLU GLY PRO GLU ARG GLY SEQRES 14 A 405 ARG VAL LYS ILE ALA ASP MET GLY PHE ALA ARG LEU PHE SEQRES 15 A 405 ASN SER PRO LEU LYS PRO LEU ALA ASP LEU ASP PRO VAL SEQRES 16 A 405 VAL VAL THR PHE TRP TYR ARG ALA PRO GLU LEU LEU LEU SEQRES 17 A 405 GLY ALA ARG HIS TYR THR LYS ALA ILE ASP ILE TRP ALA SEQRES 18 A 405 ILE GLY CYS ILE PHE ALA GLU LEU LEU THR SER GLU PRO SEQRES 19 A 405 ILE PHE HIS CYS ARG GLN GLU ASP ILE LYS THR SER ASN SEQRES 20 A 405 PRO TYR HIS HIS ASP GLN LEU ASP ARG ILE PHE ASN VAL SEQRES 21 A 405 MET GLY PHE PRO ALA ASP LYS ASP TRP GLU ASP ILE LYS SEQRES 22 A 405 LYS MET PRO GLU HIS SER THR LEU MET LYS ASP PHE ARG SEQRES 23 A 405 ARG ASN THR TYR THR ASN CYS SER LEU ILE LYS TYR MET SEQRES 24 A 405 GLU LYS HIS LYS VAL LYS PRO ASP SER LYS ALA PHE HIS SEQRES 25 A 405 LEU LEU GLN LYS LEU LEU THR MET ASP PRO ILE LYS ARG SEQRES 26 A 405 ILE THR SER GLU GLN ALA MET GLN ASP PRO TYR PHE LEU SEQRES 27 A 405 GLU ASP PRO LEU PRO THR SER ASP VAL PHE ALA GLY CYS SEQRES 28 A 405 GLN ILE PRO TYR PRO LYS ARG GLU PHE LEU THR GLU GLU SEQRES 29 A 405 GLU PRO ASP ASP LYS GLY ASP LYS LYS ASN GLN GLN GLN SEQRES 30 A 405 GLN GLN GLY ASN ASN HIS THR ASN GLY THR GLY HIS PRO SEQRES 31 A 405 GLY ASN GLN ASP SER SER HIS THR GLN GLY PRO PRO LEU SEQRES 32 A 405 LYS LYS SEQRES 1 B 285 LYS ALA MET ALA GLY ASN PHE TRP GLN SER SER HIS TYR SEQRES 2 B 285 LEU GLN TRP ILE LEU ASP LYS GLN ASP LEU LEU LYS GLU SEQRES 3 B 285 ARG GLN LYS ASP LEU LYS PHE LEU SER GLU GLU GLU TYR SEQRES 4 B 285 TRP LYS LEU GLN ILE PHE PHE THR ASN VAL ILE GLN ALA SEQRES 5 B 285 LEU GLY GLU HIS LEU LYS LEU ARG GLN GLN VAL ILE ALA SEQRES 6 B 285 THR ALA THR VAL TYR PHE LYS ARG PHE TYR ALA ARG TYR SEQRES 7 B 285 SER LEU LYS SER ILE ASP PRO VAL LEU MET ALA PRO THR SEQRES 8 B 285 CYS VAL PHE LEU ALA SER LYS VAL GLU GLU PHE GLY VAL SEQRES 9 B 285 VAL SER ASN THR ARG LEU ILE ALA ALA ALA THR SER VAL SEQRES 10 B 285 LEU LYS THR ARG PHE SER TYR ALA PHE PRO LYS GLU PHE SEQRES 11 B 285 PRO TYR ARG MET ASN HIS ILE LEU GLU CYS GLU PHE TYR SEQRES 12 B 285 LEU LEU GLU LEU MET ASP CYS CYS LEU ILE VAL TYR HIS SEQRES 13 B 285 PRO TYR ARG PRO LEU LEU GLN TYR VAL GLN ASP MET GLY SEQRES 14 B 285 GLN GLU ASP MET LEU LEU PRO LEU ALA TRP ARG ILE VAL SEQRES 15 B 285 ASN ASP THR TYR ARG THR ASP LEU CYS LEU LEU TYR PRO SEQRES 16 B 285 PRO PHE MET ILE ALA LEU ALA CYS LEU HIS VAL ALA CYS SEQRES 17 B 285 VAL VAL GLN GLN LYS ASP ALA ARG GLN TRP PHE ALA GLU SEQRES 18 B 285 LEU SER VAL ASP MET GLU LYS ILE LEU GLU ILE ILE ARG SEQRES 19 B 285 VAL ILE LEU LYS LEU TYR GLU GLN TRP LYS ASN PHE ASP SEQRES 20 B 285 GLU ARG LYS GLU MET ALA THR ILE LEU SER LYS MET PRO SEQRES 21 B 285 LYS PRO LYS PRO PRO PRO ASN SER GLU GLY GLU GLN GLY SEQRES 22 B 285 PRO ASN GLY SER GLN ASN SER SER TYR SER GLN SER HET BAX A 465 32 HET EDO A 466 4 HET EDO A 467 4 HET EDO A 468 4 HET EDO A 469 4 HET EDO B 284 4 HET EDO B 285 4 HET GOL B 286 6 HET EDO B 287 4 HET EDO B 288 4 HET EDO B 289 4 HET EDO B 290 4 HET EDO B 291 4 HETNAM BAX 4-{4-[({[4-CHLORO-3-(TRIFLUOROMETHYL) HETNAM 2 BAX PHENYL]AMINO}CARBONYL)AMINO]PHENOXY}-N-METHYLPYRIDINE- HETNAM 3 BAX 2-CARBOXAMIDE HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETSYN BAX SORAFENIB HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 BAX C21 H16 CL F3 N4 O3 FORMUL 4 EDO 11(C2 H6 O2) FORMUL 10 GOL C3 H8 O3 FORMUL 16 HOH *175(H2 O) HELIX 1 1 ASP A 2 ARG A 13 1 12 HELIX 2 2 ARG A 15 LEU A 19 1 5 HELIX 3 3 SER A 60 LEU A 73 1 14 HELIX 4 4 LEU A 104 LYS A 115 1 12 HELIX 5 5 PRO A 124 ASN A 145 1 22 HELIX 6 6 LYS A 153 ALA A 155 5 3 HELIX 7 7 ALA A 201 LEU A 206 1 6 HELIX 8 8 THR A 212 SER A 230 1 19 HELIX 9 9 HIS A 248 GLY A 260 1 13 HELIX 10 10 TRP A 267 MET A 273 5 7 HELIX 11 11 GLU A 275 PHE A 283 1 9 HELIX 12 12 ARG A 284 THR A 289 5 6 HELIX 13 13 SER A 292 LYS A 299 1 8 HELIX 14 14 SER A 306 LEU A 316 1 11 HELIX 15 15 ASP A 319 ARG A 323 5 5 HELIX 16 16 THR A 325 GLN A 331 1 7 HELIX 17 17 ASP A 332 LEU A 336 5 5 HELIX 18 18 ASN B 4 GLN B 7 5 4 HELIX 19 19 SER B 8 ILE B 15 1 8 HELIX 20 20 ASP B 17 GLN B 26 1 10 HELIX 21 21 LYS B 27 PHE B 31 5 5 HELIX 22 22 SER B 33 LEU B 55 1 23 HELIX 23 23 ARG B 58 TYR B 76 1 19 HELIX 24 24 ASP B 82 GLU B 98 1 17 HELIX 25 25 SER B 104 PHE B 120 1 17 HELIX 26 26 ARG B 131 MET B 146 1 16 HELIX 27 27 PRO B 155 GLY B 167 1 13 HELIX 28 28 GLN B 168 TYR B 184 1 17 HELIX 29 29 ASP B 187 TYR B 192 1 6 HELIX 30 30 PRO B 193 GLN B 209 1 17 HELIX 31 31 ALA B 213 GLU B 219 1 7 HELIX 32 32 ASP B 223 PHE B 244 1 22 HELIX 33 33 ASP B 245 MET B 257 1 13 SHEET 1 A 5 PHE A 20 GLU A 21 0 SHEET 2 A 5 HIS A 34 ARG A 40 -1 O LYS A 39 N GLU A 21 SHEET 3 A 5 TYR A 49 GLN A 53 -1 O TYR A 49 N ALA A 38 SHEET 4 A 5 LYS A 92 ASP A 98 -1 O PHE A 97 N ALA A 50 SHEET 5 A 5 LYS A 83 SER A 87 -1 N SER A 87 O LYS A 92 SHEET 1 B 3 HIS A 102 ASP A 103 0 SHEET 2 B 3 ILE A 157 VAL A 159 -1 O VAL A 159 N HIS A 102 SHEET 3 B 3 VAL A 169 ILE A 171 -1 O LYS A 170 N LEU A 158 CISPEP 1 ASP A 338 PRO A 339 0 -2.73 SITE 1 AC1 19 ALA A 50 LYS A 52 GLU A 66 LEU A 70 SITE 2 AC1 19 LEU A 73 VAL A 78 ILE A 79 PHE A 97 SITE 3 AC1 19 ASP A 98 TYR A 99 ALA A 100 GLU A 101 SITE 4 AC1 19 LEU A 142 VAL A 147 HIS A 149 ILE A 171 SITE 5 AC1 19 ALA A 172 ASP A 173 PHE A 176 SITE 1 AC2 5 TRP A 267 MET A 273 ASP A 319 PRO A 320 SITE 2 AC2 5 HOH A 489 SITE 1 AC3 3 PRO A 341 THR A 342 SER A 343 SITE 1 AC4 2 ARG A 125 LYS A 303 SITE 1 AC5 3 HIS A 75 PRO A 76 HOH A 508 SITE 1 AC6 6 GLN B 41 THR B 45 THR B 66 PHE B 69 SITE 2 AC6 6 LYS B 70 TYR B 184 SITE 1 AC7 5 ASP A 2 PHE A 5 TYR B 76 SER B 77 SITE 2 AC7 5 LYS B 79 SITE 1 AC8 5 ASN B 46 ARG B 185 TRP B 241 PHE B 244 SITE 2 AC8 5 GLU B 246 SITE 1 AC9 4 GLU B 53 LEU B 57 GLN B 59 ILE B 62 SITE 1 BC1 3 GLN B 13 TRP B 14 ARG B 75 SITE 1 BC2 2 ASN B 133 HIS B 134 SITE 1 BC3 4 ARG B 25 GLU B 34 TYR B 37 TRP B 38 SITE 1 BC4 6 ALA B 0 ALA B 2 GLN B 60 VAL B 152 SITE 2 BC4 6 ARG B 157 HOH B 342 CRYST1 70.690 70.610 79.140 90.00 108.31 90.00 P 1 21 1 2 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 0.014146 0.000000 0.004681 0.00000 SCALE2 0.000000 0.014162 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013310 0.00000