HEADER TRANSFERASE 15-FEB-16 5I5Z TITLE CDK8-CYCC IN COMPLEX WITH 8-(1-METHYL-2,2-DIOXO-2,3-DIHYDRO-1H-2L6- TITLE 2 BENZO[C]ISOTHIAZOL-5-YL)-[1,6]NAPHTHYRIDINE-2-CARBOXYLIC ACID TITLE 3 METHYLAMIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLIN-DEPENDENT KINASE 8; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN, RESIDUES 3-405; 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_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: CCNC; SOURCE 14 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 15 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS CDK8 KINASE / CYCLIN C, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.MUSIL,J.BLAGG,A.MALLINGER REVDAT 3 10-JAN-24 5I5Z 1 REMARK REVDAT 2 06-JUL-16 5I5Z 1 JRNL REVDAT 1 13-APR-16 5I5Z 0 JRNL AUTH A.MALLINGER,K.SCHIEMANN,C.RINK,J.SEJBERG,M.A.HONEY, JRNL AUTH 2 P.CZODROWSKI,M.STUBBS,O.POESCHKE,M.BUSCH,R.SCHNEIDER, JRNL AUTH 3 D.SCHWARZ,D.MUSIL,R.BURKE,K.URBAHNS,P.WORKMAN,D.WIENKE, JRNL AUTH 4 P.A.CLARKE,F.I.RAYNAUD,S.A.ECCLES,C.ESDAR,F.ROHDICH,J.BLAGG JRNL TITL 2,8-DISUBSTITUTED-1,6-NAPHTHYRIDINES AND JRNL TITL 2 4,6-DISUBSTITUTED-ISOQUINOLINES WITH POTENT, SELECTIVE JRNL TITL 3 AFFINITY FOR CDK8/19. JRNL REF ACS MED.CHEM.LETT. V. 7 573 2016 JRNL REFN ISSN 1948-5875 JRNL PMID 27326329 JRNL DOI 10.1021/ACSMEDCHEMLETT.6B00022 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 85.98 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 25840 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) : 0.239 REMARK 3 R VALUE (WORKING SET) : 0.237 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.500 REMARK 3 FREE R VALUE TEST SET COUNT : 926 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1885 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.21 REMARK 3 BIN R VALUE (WORKING SET) : 0.3650 REMARK 3 BIN FREE R VALUE SET COUNT : 63 REMARK 3 BIN FREE R VALUE : 0.4450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5064 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 49 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.13000 REMARK 3 B22 (A**2) : -0.57000 REMARK 3 B33 (A**2) : 1.70000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.586 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.321 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.257 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 25.361 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.905 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.867 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5095 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4612 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6912 ; 1.224 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10660 ; 0.933 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 606 ; 6.060 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 233 ;33.638 ;23.391 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 853 ;13.768 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;18.286 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 749 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5597 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1081 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 989 ; 0.180 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4195 ; 0.134 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2433 ; 0.166 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2593 ; 0.074 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 89 ; 0.103 ; 0.200 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): 1 ; 0.084 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 47 ; 0.154 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.080 ; 0.200 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): 3987 ; 1.655 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1218 ; 0.299 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4926 ; 2.089 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2457 ; 3.071 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1986 ; 4.332 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5I5Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000218342. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.9 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) : 1.00000 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27530 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 85.980 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.50300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 4F6S REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG3350, 0.2 M SODIUM FORMATE, PH REMARK 280 6.9, 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 35.37450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 85.97650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.64100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 85.97650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.37450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.64100 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 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 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 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 VAL A 195 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 PRO A 363 REMARK 465 PRO A 364 REMARK 465 LEU A 365 REMARK 465 LYS A 366 REMARK 465 LYS A 367 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 CG OD1 OD2 REMARK 480 LYS A 0 CG CD 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 74 CG CD CE NZ REMARK 480 LYS A 83 CE NZ REMARK 480 LYS A 92 CE NZ REMARK 480 LYS A 109 CG CD CE NZ REMARK 480 LYS A 115 CG CD CE NZ REMARK 480 LEU A 179 CG CD1 CD2 REMARK 480 ARG A 209 CD NE CZ NH1 NH2 REMARK 480 ARG A 237 CG CD NE CZ NH1 NH2 REMARK 480 SER A 244 OG REMARK 480 LYS A 265 CG CD CE NZ REMARK 480 LYS A 271 CG CD CE NZ REMARK 480 LYS A 272 CG CD CE NZ REMARK 480 ASN A 290 CG OD1 ND2 REMARK 480 LYS A 295 CD CE NZ REMARK 480 LYS A 299 CG CD CE NZ REMARK 480 LYS A 303 CE NZ REMARK 480 LYS A 355 CG CD CE NZ REMARK 480 GLU A 362 CG CD OE1 OE2 REMARK 480 LYS B -1 CD CE NZ REMARK 480 GLN B 19 CG CD OE1 NE2 REMARK 480 LYS B 23 CG CD CE NZ REMARK 480 LYS B 30 CE NZ REMARK 480 GLN B 41 CD OE1 NE2 REMARK 480 LYS B 56 CD CE NZ REMARK 480 LYS B 117 CG CD CE NZ REMARK 480 LYS B 126 CG 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 LYS B 211 CE NZ REMARK 480 ARG B 214 NE CZ NH1 NH2 REMARK 480 GLU B 225 CD OE1 OE2 REMARK 480 LYS B 236 CG CD CE NZ REMARK 480 LYS B 261 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 LYS A 0 35.22 -93.97 REMARK 500 ASP A 42 78.50 -67.59 REMARK 500 ASP A 151 48.41 -164.18 REMARK 500 GLU A 165 33.31 -93.39 REMARK 500 ALA A 177 91.43 64.17 REMARK 500 LEU A 316 45.38 -95.23 REMARK 500 ALA B 0 118.38 -39.00 REMARK 500 PHE B 120 27.85 -140.91 REMARK 500 PHE B 128 104.76 -55.58 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 68U A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 301 DBREF 5I5Z A 1 362 UNP P49336 CDK8_HUMAN 1 362 DBREF 5I5Z B 1 264 UNP P24863 CCNC_HUMAN 1 264 SEQADV 5I5Z ASP A -2 UNP P49336 EXPRESSION TAG SEQADV 5I5Z ASP A -1 UNP P49336 EXPRESSION TAG SEQADV 5I5Z LYS A 0 UNP P49336 EXPRESSION TAG SEQADV 5I5Z PRO A 363 UNP P49336 EXPRESSION TAG SEQADV 5I5Z PRO A 364 UNP P49336 EXPRESSION TAG SEQADV 5I5Z LEU A 365 UNP P49336 EXPRESSION TAG SEQADV 5I5Z LYS A 366 UNP P49336 EXPRESSION TAG SEQADV 5I5Z LYS A 367 UNP P49336 EXPRESSION TAG SEQADV 5I5Z LYS B -1 UNP P24863 EXPRESSION TAG SEQADV 5I5Z ALA B 0 UNP P24863 EXPRESSION TAG SEQRES 1 A 370 ASP ASP LYS MET ASP TYR ASP PHE LYS VAL LYS LEU SER SEQRES 2 A 370 SER GLU ARG GLU ARG VAL GLU ASP LEU PHE GLU TYR GLU SEQRES 3 A 370 GLY CYS LYS VAL GLY ARG GLY THR TYR GLY HIS VAL TYR SEQRES 4 A 370 LYS ALA LYS ARG LYS ASP GLY LYS ASP ASP LYS ASP TYR SEQRES 5 A 370 ALA LEU LYS GLN ILE GLU GLY THR GLY ILE SER MET SER SEQRES 6 A 370 ALA CYS ARG GLU ILE ALA LEU LEU ARG GLU LEU LYS HIS SEQRES 7 A 370 PRO ASN VAL ILE SER LEU GLN LYS VAL PHE LEU SER HIS SEQRES 8 A 370 ALA ASP ARG LYS VAL TRP LEU LEU PHE ASP TYR ALA GLU SEQRES 9 A 370 HIS ASP LEU TRP HIS ILE ILE LYS PHE HIS ARG ALA SER SEQRES 10 A 370 LYS ALA ASN LYS LYS PRO VAL GLN LEU PRO ARG GLY MET SEQRES 11 A 370 VAL LYS SER LEU LEU TYR GLN ILE LEU ASP GLY ILE HIS SEQRES 12 A 370 TYR LEU HIS ALA ASN TRP VAL LEU HIS ARG ASP LEU LYS SEQRES 13 A 370 PRO ALA ASN ILE LEU VAL MET GLY GLU GLY PRO GLU ARG SEQRES 14 A 370 GLY ARG VAL LYS ILE ALA ASP MET GLY PHE ALA ARG LEU SEQRES 15 A 370 PHE ASN SER PRO LEU LYS PRO LEU ALA ASP LEU ASP PRO SEQRES 16 A 370 VAL VAL VAL THR PHE TRP TYR ARG ALA PRO GLU LEU LEU SEQRES 17 A 370 LEU GLY ALA ARG HIS TYR THR LYS ALA ILE ASP ILE TRP SEQRES 18 A 370 ALA ILE GLY CYS ILE PHE ALA GLU LEU LEU THR SER GLU SEQRES 19 A 370 PRO ILE PHE HIS CYS ARG GLN GLU ASP ILE LYS THR SER SEQRES 20 A 370 ASN PRO TYR HIS HIS ASP GLN LEU ASP ARG ILE PHE ASN SEQRES 21 A 370 VAL MET GLY PHE PRO ALA ASP LYS ASP TRP GLU ASP ILE SEQRES 22 A 370 LYS LYS MET PRO GLU HIS SER THR LEU MET LYS ASP PHE SEQRES 23 A 370 ARG ARG ASN THR TYR THR ASN CYS SER LEU ILE LYS TYR SEQRES 24 A 370 MET GLU LYS HIS LYS VAL LYS PRO ASP SER LYS ALA PHE SEQRES 25 A 370 HIS LEU LEU GLN LYS LEU LEU THR MET ASP PRO ILE LYS SEQRES 26 A 370 ARG ILE THR SER GLU GLN ALA MET GLN ASP PRO TYR PHE SEQRES 27 A 370 LEU GLU ASP PRO LEU PRO THR SER ASP VAL PHE ALA GLY SEQRES 28 A 370 CYS GLN ILE PRO TYR PRO LYS ARG GLU PHE LEU THR GLU SEQRES 29 A 370 GLU PRO PRO LEU LYS LYS SEQRES 1 B 266 LYS ALA MET ALA GLY ASN PHE TRP GLN SER SER HIS TYR SEQRES 2 B 266 LEU GLN TRP ILE LEU ASP LYS GLN ASP LEU LEU LYS GLU SEQRES 3 B 266 ARG GLN LYS ASP LEU LYS PHE LEU SER GLU GLU GLU TYR SEQRES 4 B 266 TRP LYS LEU GLN ILE PHE PHE THR ASN VAL ILE GLN ALA SEQRES 5 B 266 LEU GLY GLU HIS LEU LYS LEU ARG GLN GLN VAL ILE ALA SEQRES 6 B 266 THR ALA THR VAL TYR PHE LYS ARG PHE TYR ALA ARG TYR SEQRES 7 B 266 SER LEU LYS SER ILE ASP PRO VAL LEU MET ALA PRO THR SEQRES 8 B 266 CYS VAL PHE LEU ALA SER LYS VAL GLU GLU PHE GLY VAL SEQRES 9 B 266 VAL SER ASN THR ARG LEU ILE ALA ALA ALA THR SER VAL SEQRES 10 B 266 LEU LYS THR ARG PHE SER TYR ALA PHE PRO LYS GLU PHE SEQRES 11 B 266 PRO TYR ARG MET ASN HIS ILE LEU GLU CYS GLU PHE TYR SEQRES 12 B 266 LEU LEU GLU LEU MET ASP CYS CYS LEU ILE VAL TYR HIS SEQRES 13 B 266 PRO TYR ARG PRO LEU LEU GLN TYR VAL GLN ASP MET GLY SEQRES 14 B 266 GLN GLU ASP MET LEU LEU PRO LEU ALA TRP ARG ILE VAL SEQRES 15 B 266 ASN ASP THR TYR ARG THR ASP LEU CYS LEU LEU TYR PRO SEQRES 16 B 266 PRO PHE MET ILE ALA LEU ALA CYS LEU HIS VAL ALA CYS SEQRES 17 B 266 VAL VAL GLN GLN LYS ASP ALA ARG GLN TRP PHE ALA GLU SEQRES 18 B 266 LEU SER VAL ASP MET GLU LYS ILE LEU GLU ILE ILE ARG SEQRES 19 B 266 VAL ILE LEU LYS LEU TYR GLU GLN TRP LYS ASN PHE ASP SEQRES 20 B 266 GLU ARG LYS GLU MET ALA THR ILE LEU SER LYS MET PRO SEQRES 21 B 266 LYS PRO LYS PRO PRO PRO HET 68U A 401 26 HET FMT A 402 3 HET FMT B 301 3 HETNAM 68U N-METHYL-8-(1-METHYL-2,2-DIOXO-2,3-DIHYDRO-1H- HETNAM 2 68U 2LAMBDA~6~,1-BENZOTHIAZOL-5-YL)-1,6-NAPHTHYRIDINE-2- HETNAM 3 68U CARBOXAMIDE HETNAM FMT FORMIC ACID FORMUL 3 68U C18 H16 N4 O3 S FORMUL 4 FMT 2(C H2 O2) FORMUL 6 HOH *49(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 ALA A 116 1 13 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 TRP B 14 1 7 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 LYS B 56 1 24 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 210 1 18 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 GLY A 30 -1 N VAL A 27 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 TYR A 49 ILE A 54 -1 O TYR A 49 N ALA A 38 SHEET 4 AA2 5 LYS A 92 ASP A 98 -1 O PHE A 97 N ALA A 50 SHEET 5 AA2 5 LEU A 81 SER A 87 -1 N GLN A 82 O LEU A 96 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 -2.75 SITE 1 AC1 14 VAL A 27 TYR A 32 VAL A 35 ALA A 50 SITE 2 AC1 14 LYS A 52 PHE A 97 ASP A 98 ALA A 100 SITE 3 AC1 14 ASP A 103 HIS A 106 ALA A 155 LEU A 158 SITE 4 AC1 14 ARG A 356 HOH A 511 SITE 1 AC2 3 LYS A 83 VAL A 84 ASP B 147 SITE 1 AC3 2 ALA B 0 ARG B 157 CRYST1 70.749 71.282 171.953 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 0.014134 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014029 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005816 0.00000