HEADER TRANSCRIPTION/TRANSFERASE/INHIBITOR 06-JUL-15 5CEI TITLE CRYSTAL STRUCTURE OF CDK8:CYCLIN C COMPLEX WITH COMPOUND 22 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: CELL DIVISION PROTEIN KINASE 8,MEDIATOR COMPLEX SUBUNIT COMPND 6 CDK8,MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT CDK8,PROTEIN COMPND 7 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: 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_TAXID: 7108; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: CCNC; SOURCE 13 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS KINASE, INHIBITOR, CDK8, CYCLIN DEPENDENT KINASE, CYCLIN, KEYWDS 2 TRANSCRIPTION-TRANSFERASE-INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.R.KIEFER,E.V.SCHNEIDER,K.MASKOS,M.F.T.KOEHLER REVDAT 3 06-MAR-24 5CEI 1 REMARK REVDAT 2 11-MAY-16 5CEI 1 JRNL REVDAT 1 10-FEB-16 5CEI 0 JRNL AUTH M.F.KOEHLER,P.BERGERON,E.M.BLACKWOOD,K.BOWMAN,K.R.CLARK, JRNL AUTH 2 R.FIRESTEIN,J.R.KIEFER,K.MASKOS,M.L.MCCLELAND,L.ORREN, JRNL AUTH 3 L.SALPHATI,S.SCHMIDT,E.V.SCHNEIDER,J.WU,M.H.BERESINI JRNL TITL DEVELOPMENT OF A POTENT, SPECIFIC CDK8 KINASE INHIBITOR JRNL TITL 2 WHICH PHENOCOPIES CDK8/19 KNOCKOUT CELLS. JRNL REF ACS MED.CHEM.LETT. V. 7 223 2016 JRNL REFN ISSN 1948-5875 JRNL PMID 26985305 JRNL DOI 10.1021/ACSMEDCHEMLETT.5B00278 REMARK 2 REMARK 2 RESOLUTION. 2.24 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) : 2.24 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 40213 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.490 REMARK 3 FREE R VALUE TEST SET COUNT : 1402 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 47.8538 - 4.8245 0.95 3980 146 0.1744 0.2224 REMARK 3 2 4.8245 - 3.8299 0.97 3892 157 0.1392 0.1932 REMARK 3 3 3.8299 - 3.3459 0.97 3832 157 0.1544 0.1997 REMARK 3 4 3.3459 - 3.0401 0.98 3898 126 0.1676 0.2265 REMARK 3 5 3.0401 - 2.8222 0.99 3917 137 0.1748 0.2821 REMARK 3 6 2.8222 - 2.6558 0.98 3847 145 0.1889 0.2416 REMARK 3 7 2.6558 - 2.5228 0.99 3857 122 0.1924 0.2640 REMARK 3 8 2.5228 - 2.4130 0.99 3902 145 0.2038 0.2624 REMARK 3 9 2.4130 - 2.3201 1.00 3874 142 0.2275 0.2643 REMARK 3 10 2.3201 - 2.2400 0.97 3812 125 0.2877 0.3143 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) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.290 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 36.84 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.42 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 : 0.007 5319 REMARK 3 ANGLE : 0.975 7161 REMARK 3 CHIRALITY : 0.038 757 REMARK 3 PLANARITY : 0.005 903 REMARK 3 DIHEDRAL : 13.623 2005 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 0 THROUGH 126 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.0553 65.6282 54.9007 REMARK 3 T TENSOR REMARK 3 T11: 0.4133 T22: 0.2929 REMARK 3 T33: 0.3488 T12: 0.0046 REMARK 3 T13: -0.0329 T23: 0.0584 REMARK 3 L TENSOR REMARK 3 L11: 0.4773 L22: 2.1091 REMARK 3 L33: 0.8962 L12: -0.5999 REMARK 3 L13: -0.2346 L23: 0.9574 REMARK 3 S TENSOR REMARK 3 S11: 0.1553 S12: 0.2329 S13: 0.1097 REMARK 3 S21: -0.3338 S22: -0.1691 S23: 0.1572 REMARK 3 S31: -0.1700 S32: -0.1127 S33: 0.0035 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 127 THROUGH 362 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.7158 39.6219 57.5180 REMARK 3 T TENSOR REMARK 3 T11: 0.2476 T22: 0.2607 REMARK 3 T33: 0.2476 T12: 0.0159 REMARK 3 T13: -0.0285 T23: 0.0100 REMARK 3 L TENSOR REMARK 3 L11: 1.8388 L22: 2.1767 REMARK 3 L33: 1.3483 L12: 0.3439 REMARK 3 L13: -0.2458 L23: -0.0550 REMARK 3 S TENSOR REMARK 3 S11: -0.0060 S12: 0.1758 S13: -0.0566 REMARK 3 S21: -0.0603 S22: 0.0536 S23: 0.1284 REMARK 3 S31: 0.0384 S32: -0.0708 S33: -0.0547 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID -3 THROUGH 17 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.7048 64.2591 78.3370 REMARK 3 T TENSOR REMARK 3 T11: 0.2613 T22: 0.3498 REMARK 3 T33: 0.2803 T12: -0.0541 REMARK 3 T13: 0.0724 T23: -0.0112 REMARK 3 L TENSOR REMARK 3 L11: 2.6788 L22: 8.3020 REMARK 3 L33: 4.3964 L12: -2.3883 REMARK 3 L13: -0.2761 L23: 1.2535 REMARK 3 S TENSOR REMARK 3 S11: 0.1232 S12: 0.0052 S13: 0.2004 REMARK 3 S21: -0.3629 S22: 0.0649 S23: -0.0535 REMARK 3 S31: 0.1735 S32: 0.5206 S33: -0.1684 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 18 THROUGH 54 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.3998 78.5175 87.7440 REMARK 3 T TENSOR REMARK 3 T11: 0.2945 T22: 0.2683 REMARK 3 T33: 0.3322 T12: -0.0292 REMARK 3 T13: 0.0665 T23: 0.0143 REMARK 3 L TENSOR REMARK 3 L11: 2.7990 L22: 3.4194 REMARK 3 L33: 2.1121 L12: 0.1609 REMARK 3 L13: 0.0692 L23: 0.5767 REMARK 3 S TENSOR REMARK 3 S11: -0.1604 S12: -0.0456 S13: 0.3715 REMARK 3 S21: -0.1443 S22: 0.2281 S23: -0.1676 REMARK 3 S31: -0.3339 S32: 0.1604 S33: -0.0669 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 55 THROUGH 75 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7123 66.7069 80.7870 REMARK 3 T TENSOR REMARK 3 T11: 0.2460 T22: 0.2393 REMARK 3 T33: 0.2074 T12: 0.0072 REMARK 3 T13: 0.0393 T23: -0.0050 REMARK 3 L TENSOR REMARK 3 L11: 4.3582 L22: 4.5776 REMARK 3 L33: 3.1368 L12: 0.8689 REMARK 3 L13: 0.1960 L23: 0.5871 REMARK 3 S TENSOR REMARK 3 S11: -0.0450 S12: 0.0693 S13: -0.2789 REMARK 3 S21: -0.2192 S22: 0.1019 S23: -0.1935 REMARK 3 S31: 0.2288 S32: 0.1965 S33: -0.0485 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 76 THROUGH 264 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.0563 67.2481 87.3844 REMARK 3 T TENSOR REMARK 3 T11: 0.2405 T22: 0.2419 REMARK 3 T33: 0.3038 T12: -0.0385 REMARK 3 T13: 0.0299 T23: -0.0126 REMARK 3 L TENSOR REMARK 3 L11: 1.3834 L22: 1.3419 REMARK 3 L33: 2.3201 L12: -0.4417 REMARK 3 L13: -0.2862 L23: -0.3424 REMARK 3 S TENSOR REMARK 3 S11: 0.0651 S12: -0.0617 S13: 0.0435 REMARK 3 S21: -0.0651 S22: 0.0098 S23: 0.0289 REMARK 3 S31: -0.0125 S32: 0.0579 S33: -0.0821 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 5CEI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000211481. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-FEB-12 REMARK 200 TEMPERATURE (KELVIN) : 93 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) : 0.999996 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 REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40329 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.240 REMARK 200 RESOLUTION RANGE LOW (A) : 47.843 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10300 REMARK 200 FOR THE DATA SET : 5.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.24 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.44900 REMARK 200 R SYM FOR SHELL (I) : 0.44900 REMARK 200 FOR SHELL : 1.100 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350 AND 0.20 M SODIUM REMARK 280 FORMATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 35.56400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 83.72400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.04500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 83.72400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.56400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.04500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6120 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 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 ASP A -2 REMARK 465 ASP A -1 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 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 VAL A 195 REMARK 465 ASP A 240 REMARK 465 ILE A 241 REMARK 465 LYS A 242 REMARK 465 THR A 243 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 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 LYS A 115 CG CD CE NZ REMARK 470 GLU A 357 CG CD OE1 OE2 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 LYS A 6 CD CE NZ REMARK 480 ARG A 15 NE CZ NH1 NH2 REMARK 480 GLU A 23 CG CD OE1 OE2 REMARK 480 ARG A 29 CG CD NE CZ NH1 NH2 REMARK 480 LYS A 39 CE NZ REMARK 480 ASP A 42 CG OD1 OD2 REMARK 480 LYS A 44 CG CD CE NZ REMARK 480 ASP A 46 CG OD1 OD2 REMARK 480 LYS A 47 NZ REMARK 480 ILE A 59 CD1 REMARK 480 LYS A 74 CG CD CE NZ REMARK 480 LYS A 83 CE NZ REMARK 480 LYS A 109 CE NZ REMARK 480 ARG A 112 CZ NH1 NH2 REMARK 480 GLN A 122 CD OE1 NE2 REMARK 480 LEU A 123 CG CD1 CD2 REMARK 480 ARG A 125 CG CD NE CZ NH1 NH2 REMARK 480 LYS A 185 NZ REMARK 480 ARG A 237 CZ NH1 NH2 REMARK 480 GLN A 238 CG CD OE1 NE2 REMARK 480 SER A 244 OG REMARK 480 LYS A 265 CD CE NZ REMARK 480 LYS A 271 CG CD CE NZ REMARK 480 LYS A 272 CE NZ REMARK 480 LYS A 281 CD CE NZ REMARK 480 ARG A 284 CZ NH1 NH2 REMARK 480 LYS A 295 CE NZ REMARK 480 LYS A 301 CD CE NZ REMARK 480 LYS A 303 CE NZ REMARK 480 GLN A 350 CG CD OE1 NE2 REMARK 480 LYS A 355 CD CE NZ REMARK 480 ASP B -3 CG OD1 OD2 REMARK 480 LYS B -1 CG CD CE NZ REMARK 480 LYS B 18 NZ REMARK 480 LEU B 22 CD1 CD2 REMARK 480 LYS B 23 CG CD CE NZ REMARK 480 LYS B 27 CE NZ REMARK 480 LYS B 30 CD CE NZ REMARK 480 LYS B 56 CD CE NZ REMARK 480 GLN B 60 CD OE1 NE2 REMARK 480 LYS B 79 CE NZ REMARK 480 VAL B 102 CG1 CG2 REMARK 480 LYS B 117 CD CE NZ REMARK 480 LYS B 126 CD CE NZ REMARK 480 GLU B 127 CG CD OE1 OE2 REMARK 480 ARG B 131 CG CD NE CZ NH1 NH2 REMARK 480 GLU B 137 CD OE1 OE2 REMARK 480 GLN B 164 CD OE1 NE2 REMARK 480 GLU B 169 CD OE1 OE2 REMARK 480 MET B 171 CE REMARK 480 GLN B 210 CD OE1 NE2 REMARK 480 LYS B 211 CD CE NZ REMARK 480 GLN B 215 CD OE1 NE2 REMARK 480 SER B 221 OG REMARK 480 GLU B 225 CG CD OE1 OE2 REMARK 480 LYS B 226 CE NZ REMARK 480 LYS B 236 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 O2 EDO B 307 O HOH B 401 2.13 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 TYR A 22 7.10 -152.09 REMARK 500 ASP A 46 29.59 44.46 REMARK 500 ASP A 151 39.68 -153.63 REMARK 500 LEU A 316 55.54 -90.76 REMARK 500 SER B 221 76.08 -106.34 REMARK 500 ASP B 223 97.82 -64.52 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 GLN A 238 GLU A 239 145.19 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 EDO A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 50R A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 307 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4G6L RELATED DB: PDB DBREF 5CEI A 1 403 UNP P49336 CDK8_HUMAN 1 403 DBREF 5CEI B 1 283 UNP P24863 CCNC_HUMAN 1 283 SEQADV 5CEI ASP A -2 UNP P49336 EXPRESSION TAG SEQADV 5CEI ASP A -1 UNP P49336 EXPRESSION TAG SEQADV 5CEI LYS A 0 UNP P49336 EXPRESSION TAG SEQADV 5CEI ASP B -3 UNP P24863 EXPRESSION TAG SEQADV 5CEI ASP B -2 UNP P24863 EXPRESSION TAG SEQADV 5CEI LYS B -1 UNP P24863 EXPRESSION TAG SEQADV 5CEI ALA B 0 UNP P24863 EXPRESSION TAG SEQRES 1 A 406 ASP ASP LYS MET ASP TYR ASP PHE LYS VAL LYS LEU SER SEQRES 2 A 406 SER GLU ARG GLU ARG VAL GLU ASP LEU PHE GLU TYR GLU SEQRES 3 A 406 GLY CYS LYS VAL GLY ARG GLY THR TYR GLY HIS VAL TYR SEQRES 4 A 406 LYS ALA LYS ARG LYS ASP GLY LYS ASP ASP LYS ASP TYR SEQRES 5 A 406 ALA LEU LYS GLN ILE GLU GLY THR GLY ILE SER MET SER SEQRES 6 A 406 ALA CYS ARG GLU ILE ALA LEU LEU ARG GLU LEU LYS HIS SEQRES 7 A 406 PRO ASN VAL ILE SER LEU GLN LYS VAL PHE LEU SER HIS SEQRES 8 A 406 ALA ASP ARG LYS VAL TRP LEU LEU PHE ASP TYR ALA GLU SEQRES 9 A 406 HIS ASP LEU TRP HIS ILE ILE LYS PHE HIS ARG ALA SER SEQRES 10 A 406 LYS ALA ASN LYS LYS PRO VAL GLN LEU PRO ARG GLY MET SEQRES 11 A 406 VAL LYS SER LEU LEU TYR GLN ILE LEU ASP GLY ILE HIS SEQRES 12 A 406 TYR LEU HIS ALA ASN TRP VAL LEU HIS ARG ASP LEU LYS SEQRES 13 A 406 PRO ALA ASN ILE LEU VAL MET GLY GLU GLY PRO GLU ARG SEQRES 14 A 406 GLY ARG VAL LYS ILE ALA ASP MET GLY PHE ALA ARG LEU SEQRES 15 A 406 PHE ASN SER PRO LEU LYS PRO LEU ALA ASP LEU ASP PRO SEQRES 16 A 406 VAL VAL VAL THR PHE TRP TYR ARG ALA PRO GLU LEU LEU SEQRES 17 A 406 LEU GLY ALA ARG HIS TYR THR LYS ALA ILE ASP ILE TRP SEQRES 18 A 406 ALA ILE GLY CYS ILE PHE ALA GLU LEU LEU THR SER GLU SEQRES 19 A 406 PRO ILE PHE HIS CYS ARG GLN GLU ASP ILE LYS THR SER SEQRES 20 A 406 ASN PRO TYR HIS HIS ASP GLN LEU ASP ARG ILE PHE ASN SEQRES 21 A 406 VAL MET GLY PHE PRO ALA ASP LYS ASP TRP GLU ASP ILE SEQRES 22 A 406 LYS LYS MET PRO GLU HIS SER THR LEU MET LYS ASP PHE SEQRES 23 A 406 ARG ARG ASN THR TYR THR ASN CYS SER LEU ILE LYS TYR SEQRES 24 A 406 MET GLU LYS HIS LYS VAL LYS PRO ASP SER LYS ALA PHE SEQRES 25 A 406 HIS LEU LEU GLN LYS LEU LEU THR MET ASP PRO ILE LYS SEQRES 26 A 406 ARG ILE THR SER GLU GLN ALA MET GLN ASP PRO TYR PHE SEQRES 27 A 406 LEU GLU ASP PRO LEU PRO THR SER ASP VAL PHE ALA GLY SEQRES 28 A 406 CYS GLN ILE PRO TYR PRO LYS ARG GLU PHE LEU THR GLU SEQRES 29 A 406 GLU GLU PRO ASP ASP LYS GLY ASP LYS LYS ASN GLN GLN SEQRES 30 A 406 GLN GLN GLN GLY ASN ASN HIS THR ASN GLY THR GLY HIS SEQRES 31 A 406 PRO GLY ASN GLN ASP SER SER HIS THR GLN GLY PRO PRO SEQRES 32 A 406 LEU LYS LYS SEQRES 1 B 287 ASP ASP LYS ALA MET ALA GLY ASN PHE TRP GLN SER SER SEQRES 2 B 287 HIS TYR LEU GLN TRP ILE LEU ASP LYS GLN ASP LEU LEU SEQRES 3 B 287 LYS GLU ARG GLN LYS ASP LEU LYS PHE LEU SER GLU GLU SEQRES 4 B 287 GLU TYR TRP LYS LEU GLN ILE PHE PHE THR ASN VAL ILE SEQRES 5 B 287 GLN ALA LEU GLY GLU HIS LEU LYS LEU ARG GLN GLN VAL SEQRES 6 B 287 ILE ALA THR ALA THR VAL TYR PHE LYS ARG PHE TYR ALA SEQRES 7 B 287 ARG TYR SER LEU LYS SER ILE ASP PRO VAL LEU MET ALA SEQRES 8 B 287 PRO THR CYS VAL PHE LEU ALA SER LYS VAL GLU GLU PHE SEQRES 9 B 287 GLY VAL VAL SER ASN THR ARG LEU ILE ALA ALA ALA THR SEQRES 10 B 287 SER VAL LEU LYS THR ARG PHE SER TYR ALA PHE PRO LYS SEQRES 11 B 287 GLU PHE PRO TYR ARG MET ASN HIS ILE LEU GLU CYS GLU SEQRES 12 B 287 PHE TYR LEU LEU GLU LEU MET ASP CYS CYS LEU ILE VAL SEQRES 13 B 287 TYR HIS PRO TYR ARG PRO LEU LEU GLN TYR VAL GLN ASP SEQRES 14 B 287 MET GLY GLN GLU ASP MET LEU LEU PRO LEU ALA TRP ARG SEQRES 15 B 287 ILE VAL ASN ASP THR TYR ARG THR ASP LEU CYS LEU LEU SEQRES 16 B 287 TYR PRO PRO PHE MET ILE ALA LEU ALA CYS LEU HIS VAL SEQRES 17 B 287 ALA CYS VAL VAL GLN GLN LYS ASP ALA ARG GLN TRP PHE SEQRES 18 B 287 ALA GLU LEU SER VAL ASP MET GLU LYS ILE LEU GLU ILE SEQRES 19 B 287 ILE ARG VAL ILE LEU LYS LEU TYR GLU GLN TRP LYS ASN SEQRES 20 B 287 PHE ASP GLU ARG LYS GLU MET ALA THR ILE LEU SER LYS SEQRES 21 B 287 MET PRO LYS PRO LYS PRO PRO PRO ASN SER GLU GLY GLU SEQRES 22 B 287 GLN GLY PRO ASN GLY SER GLN ASN SER SER TYR SER GLN SEQRES 23 B 287 SER HET EDO A 501 4 HET EDO A 502 4 HET EDO A 503 4 HET EDO A 504 4 HET FMT A 505 3 HET FMT A 506 3 HET FMT A 507 3 HET 50R A 508 21 HET EDO A 509 4 HET EDO B 301 4 HET EDO B 302 4 HET FMT B 303 3 HET FMT B 304 3 HET FMT B 305 3 HET FMT B 306 3 HET EDO B 307 4 HETNAM EDO 1,2-ETHANEDIOL HETNAM FMT FORMIC ACID HETNAM 50R 4-(4-IODOPHENOXY)-N-METHYLTHIENO[2,3-C]PYRIDINE-2- HETNAM 2 50R CARBOXAMIDE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO 8(C2 H6 O2) FORMUL 7 FMT 7(C H2 O2) FORMUL 10 50R C15 H11 I N2 O2 S FORMUL 19 HOH *180(H2 O) HELIX 1 AA1 ASP A 2 ARG A 13 1 12 HELIX 2 AA2 ARG A 15 LEU A 19 1 5 HELIX 3 AA3 SER A 60 ARG A 71 1 12 HELIX 4 AA4 LEU A 104 SER A 114 1 11 HELIX 5 AA5 GLY A 126 ASN A 145 1 20 HELIX 6 AA6 LYS A 153 ALA A 155 5 3 HELIX 7 AA7 ARG A 178 SER A 182 5 5 HELIX 8 AA8 ALA A 201 LEU A 206 1 6 HELIX 9 AA9 THR A 212 SER A 230 1 19 HELIX 10 AB1 HIS A 248 GLY A 260 1 13 HELIX 11 AB2 TRP A 267 MET A 273 5 7 HELIX 12 AB3 GLU A 275 PHE A 283 1 9 HELIX 13 AB4 ARG A 284 THR A 289 5 6 HELIX 14 AB5 SER A 292 HIS A 300 1 9 HELIX 15 AB6 SER A 306 LEU A 316 1 11 HELIX 16 AB7 ASP A 319 ARG A 323 5 5 HELIX 17 AB8 THR A 325 GLN A 331 1 7 HELIX 18 AB9 ASP A 332 GLU A 337 5 6 HELIX 19 AC1 ASN B 4 GLN B 7 5 4 HELIX 20 AC2 SER B 8 ILE B 15 1 8 HELIX 21 AC3 ASP B 17 GLN B 26 1 10 HELIX 22 AC4 LYS B 27 PHE B 31 5 5 HELIX 23 AC5 SER B 33 LEU B 55 1 23 HELIX 24 AC6 ARG B 58 TYR B 76 1 19 HELIX 25 AC7 ASP B 82 GLU B 98 1 17 HELIX 26 AC8 SER B 104 PHE B 120 1 17 HELIX 27 AC9 ARG B 131 MET B 146 1 16 HELIX 28 AD1 PRO B 155 GLY B 167 1 13 HELIX 29 AD2 GLN B 168 TYR B 184 1 17 HELIX 30 AD3 ASP B 187 TYR B 192 1 6 HELIX 31 AD4 PRO B 193 GLN B 209 1 17 HELIX 32 AD5 ALA B 213 GLU B 219 1 7 HELIX 33 AD6 ASP B 223 PHE B 244 1 22 HELIX 34 AD7 ASP B 245 MET B 257 1 13 SHEET 1 AA1 3 PHE A 20 GLU A 21 0 SHEET 2 AA1 3 GLY A 33 ARG A 40 -1 O LYS A 39 N GLU A 21 SHEET 3 AA1 3 LYS A 26 ARG A 29 -1 N GLY A 28 O VAL A 35 SHEET 1 AA2 5 PHE A 20 GLU A 21 0 SHEET 2 AA2 5 GLY A 33 ARG A 40 -1 O LYS A 39 N GLU A 21 SHEET 3 AA2 5 ASP A 48 ILE A 54 -1 O LEU A 51 N TYR A 36 SHEET 4 AA2 5 LYS A 92 ASP A 98 -1 O LEU A 95 N LYS A 52 SHEET 5 AA2 5 LEU A 81 SER A 87 -1 N PHE A 85 O TRP A 94 SHEET 1 AA3 3 HIS A 102 ASP A 103 0 SHEET 2 AA3 3 ILE A 157 VAL A 159 -1 O VAL A 159 N HIS A 102 SHEET 3 AA3 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 -1.62 SITE 1 AC1 4 ARG A 71 GLU A 72 SER B 9 GLN B 13 SITE 1 AC2 1 TYR A 141 SITE 1 AC3 6 GLU A 17 PHE A 20 GLU A 21 TYR A 22 SITE 2 AC3 6 GLU A 23 LYS A 41 SITE 1 AC4 3 LYS A 301 VAL A 302 LYS A 303 SITE 1 AC5 5 LYS A 52 GLU A 66 ALA A 172 ASP A 173 SITE 2 AC5 5 50R A 508 SITE 1 AC6 3 GLU A 165 ARG A 166 ARG A 168 SITE 1 AC7 2 ARG A 168 SER A 343 SITE 1 AC8 15 VAL A 27 TYR A 32 VAL A 35 ALA A 50 SITE 2 AC8 15 LYS A 52 ILE A 79 TYR A 99 ALA A 100 SITE 3 AC8 15 ASP A 103 ALA A 155 LEU A 158 ASP A 173 SITE 4 AC8 15 ARG A 356 FMT A 505 HOH A 668 SITE 1 AC9 4 ASP A 305 HIS A 310 LYS B 242 ASN B 243 SITE 1 AD1 1 HOH B 414 SITE 1 AD2 4 GLU B 35 GLU B 239 GLN B 240 ASN B 243 SITE 1 AD3 4 ALA B 0 ALA B 2 VAL B 152 ARG B 157 SITE 1 AD4 4 PHE B 31 SER B 255 LYS B 256 MET B 257 SITE 1 AD5 2 ARG B 58 GLN B 59 SITE 1 AD6 2 LEU B 57 GLN B 59 SITE 1 AD7 6 ILE B 42 ASN B 46 TRP B 241 PHE B 244 SITE 2 AD7 6 GLU B 246 HOH B 401 CRYST1 71.128 70.090 167.448 90.00 90.00 90.00 P 21 21 21 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 0.014059 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014267 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005972 0.00000