HEADER TRANSFERASE 30-NOV-11 4AAA TITLE CRYSTAL STRUCTURE OF THE HUMAN CDKL2 KINASE DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLIN-DEPENDENT KINASE-LIKE 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN, RESIDUES 1-308; COMPND 5 SYNONYM: PROTEIN KINASE P56 KKIAMRE, SERINE/THREONINE-PROTEIN KINASE COMPND 6 KKIAMRE; COMPND 7 EC: 2.7.11.22; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 OTHER_DETAILS: HIS85 CONFORMATION B AND ASP84 CONFORMATION A MAY NOT COMPND 11 BE OCCUPIED SIMULTANEOUSLY. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PFB-LIC-BSE KEYWDS TRANSFERASE, PHOSPHO-MIMETIC EXPDTA X-RAY DIFFRACTION AUTHOR P.CANNING,M.VOLLMAR,C.D.O.COOPER,P.MAHAJAN,N.DAGA,G.BERRIDGE, AUTHOR 2 N.BURGESS-BROWN,J.R.C.MUNIZ,T.KROJER,F.VON DELFT,J.WEIGELT, AUTHOR 3 C.H.ARROWSMITH,A.M.EDWARDS,C.BOUNTRA,A.BULLOCK REVDAT 4 20-DEC-23 4AAA 1 REMARK REVDAT 3 30-MAR-22 4AAA 1 JRNL REMARK REVDAT 2 24-JAN-18 4AAA 1 AUTHOR REVDAT 1 21-DEC-11 4AAA 0 JRNL AUTH P.CANNING,K.PARK,J.GONCALVES,C.LI,C.J.HOWARD,T.D.SHARPE, JRNL AUTH 2 L.J.HOLT,L.PELLETIER,A.N.BULLOCK,M.R.LEROUX JRNL TITL CDKL FAMILY KINASES HAVE EVOLVED DISTINCT STRUCTURAL JRNL TITL 2 FEATURES AND CILIARY FUNCTION. JRNL REF CELL REP V. 22 885 2018 JRNL REFN ESSN 2211-1247 JRNL PMID 29420175 JRNL DOI 10.1016/J.CELREP.2017.12.083 REMARK 2 REMARK 2 RESOLUTION. 1.53 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.53 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 53.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 56974 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3041 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) : 1.53 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3479 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.63 REMARK 3 BIN R VALUE (WORKING SET) : 0.3950 REMARK 3 BIN FREE R VALUE SET COUNT : 174 REMARK 3 BIN FREE R VALUE : 0.3960 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2393 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 259 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.55000 REMARK 3 B22 (A**2) : 1.14000 REMARK 3 B33 (A**2) : -0.59000 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): 0.070 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.073 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.052 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.880 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2639 ; 0.014 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 1865 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3576 ; 1.563 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4554 ; 0.935 ; 2.997 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 331 ; 5.509 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 133 ;37.518 ;24.286 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 495 ;13.981 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;19.580 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 378 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2921 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 548 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 797 ; 0.275 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1838 ; 0.178 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1259 ; 0.182 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1258 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 46 ; 0.146 ; 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): 41 ; 0.301 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 59 ; 0.213 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.161 ; 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): 5 ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7 ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 9 ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 11 ; NULL ; NULL 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 : 4 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 -4 A 34 REMARK 3 ORIGIN FOR THE GROUP (A): 29.6913 -0.3418 78.4371 REMARK 3 T TENSOR REMARK 3 T11: 0.0637 T22: 0.0487 REMARK 3 T33: 0.1753 T12: -0.0036 REMARK 3 T13: -0.0031 T23: -0.0498 REMARK 3 L TENSOR REMARK 3 L11: 0.2865 L22: 0.2296 REMARK 3 L33: 0.6576 L12: 0.1649 REMARK 3 L13: 0.3267 L23: 0.3761 REMARK 3 S TENSOR REMARK 3 S11: 0.0241 S12: 0.0941 S13: -0.1880 REMARK 3 S21: -0.0020 S22: 0.0841 S23: -0.0286 REMARK 3 S31: -0.0330 S32: 0.1439 S33: -0.1083 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 35 A 85 REMARK 3 ORIGIN FOR THE GROUP (A): 42.1659 1.5063 78.6955 REMARK 3 T TENSOR REMARK 3 T11: 0.0730 T22: 0.1328 REMARK 3 T33: 0.1132 T12: -0.0222 REMARK 3 T13: 0.0112 T23: -0.0798 REMARK 3 L TENSOR REMARK 3 L11: 1.6067 L22: 0.3998 REMARK 3 L33: 0.0824 L12: 0.4730 REMARK 3 L13: 0.3204 L23: 0.1624 REMARK 3 S TENSOR REMARK 3 S11: -0.0520 S12: 0.3794 S13: -0.3801 REMARK 3 S21: 0.1083 S22: 0.1173 S23: -0.0811 REMARK 3 S31: 0.0192 S32: 0.0788 S33: -0.0653 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 : A 86 A 165 REMARK 3 ORIGIN FOR THE GROUP (A): 34.9948 21.4350 80.3436 REMARK 3 T TENSOR REMARK 3 T11: 0.0494 T22: 0.0467 REMARK 3 T33: 0.0380 T12: -0.0032 REMARK 3 T13: 0.0021 T23: -0.0044 REMARK 3 L TENSOR REMARK 3 L11: 0.4510 L22: 0.3923 REMARK 3 L33: 0.0312 L12: 0.2257 REMARK 3 L13: 0.0044 L23: -0.0889 REMARK 3 S TENSOR REMARK 3 S11: 0.0219 S12: -0.0450 S13: 0.0161 REMARK 3 S21: -0.0198 S22: -0.0245 S23: 0.0027 REMARK 3 S31: 0.0174 S32: -0.0036 S33: 0.0026 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 166 A 303 REMARK 3 ORIGIN FOR THE GROUP (A): 42.7036 32.9002 73.0624 REMARK 3 T TENSOR REMARK 3 T11: 0.0410 T22: 0.0479 REMARK 3 T33: 0.0343 T12: -0.0063 REMARK 3 T13: -0.0042 T23: 0.0182 REMARK 3 L TENSOR REMARK 3 L11: 0.1987 L22: 0.1512 REMARK 3 L33: 0.8190 L12: -0.0279 REMARK 3 L13: 0.0659 L23: -0.1553 REMARK 3 S TENSOR REMARK 3 S11: 0.0082 S12: 0.0155 S13: 0.0705 REMARK 3 S21: 0.0115 S22: -0.0449 S23: -0.0142 REMARK 3 S31: -0.0222 S32: 0.0156 S33: 0.0368 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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.U VALUES WITH TLS ADDED. RESIDUES 149 TO 160 ARE REMARK 3 DISORDERED RESIDUE HIS85 CONFORMATION B AND ASP84 CONFORMATION A REMARK 3 MAY NOT BE OCCUPIED SIMULTANEOUSLY. REMARK 4 REMARK 4 4AAA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-NOV-11. REMARK 100 THE DEPOSITION ID IS D_1290050527. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-OCT-11 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 : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53461 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 42.140 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.70 REMARK 200 R MERGE (I) : 0.14000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.90 REMARK 200 R MERGE FOR SHELL (I) : 1.14000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 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: PDB ENTRY 3NIZ REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M NACL, 0.1M TRIS PH 8.5; 25% PEG REMARK 280 3350. 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 33.90950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 41.83000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.11000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 41.83000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.90950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.11000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, THR 159 TO ASP REMARK 400 ENGINEERED RESIDUE IN CHAIN A, TYR 161 TO GLU 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 MET A -22 REMARK 465 GLY A -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 SER A -14 REMARK 465 SER A -13 REMARK 465 GLY A -12 REMARK 465 VAL A -11 REMARK 465 ASP A -10 REMARK 465 LEU A -9 REMARK 465 GLY A -8 REMARK 465 THR A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 ARG A 149 REMARK 465 THR A 150 REMARK 465 LEU A 151 REMARK 465 ALA A 152 REMARK 465 ALA A 153 REMARK 465 PRO A 154 REMARK 465 GLY A 155 REMARK 465 GLU A 156 REMARK 465 VAL A 157 REMARK 465 TYR A 158 REMARK 465 ASP A 159 REMARK 465 ASP A 160 REMARK 465 LYS A 303 REMARK 465 VAL A 304 REMARK 465 GLN A 305 REMARK 465 LYS A 306 REMARK 465 ASP A 307 REMARK 465 ALA A 308 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 33 CD CE NZ REMARK 470 LYS A 42 CD CE NZ REMARK 470 LYS A 53 CD CE NZ REMARK 470 LYS A 71 CE NZ REMARK 470 ARG A 125 CZ NH1 NH2 REMARK 470 GLU A 161 CG CD OE1 OE2 REMARK 470 VAL A 162 CG1 CG2 REMARK 470 LYS A 244 CE NZ REMARK 470 LEU A 302 CG CD1 CD2 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 A 2062 O HOH A 2070 1.64 REMARK 500 O HOH A 2073 O HOH A 2081 2.10 REMARK 500 O HOH A 2089 O HOH A 2090 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CD2 HIS A 85 O HOH A 2136 4457 2.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 60 CG HIS A 60 CD2 0.057 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 A 41 96.11 -68.88 REMARK 500 LYS A 73 -117.94 56.60 REMARK 500 ARG A 125 -14.07 82.36 REMARK 500 LEU A 268 30.71 -99.23 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 5-AMINO-3-((4-(AMINOSULFONYL)PHENYL)AMINO)-N-(2, REMARK 600 6-DIFLUOROPHENYL)-1H-1,2,4-TRIAZOLE-1-CARBOTHIOAMIDE REMARK 600 (DKI): CDK12 INHIBITOR III REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DKI A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 506 REMARK 999 REMARK 999 SEQUENCE REMARK 999 TWO PHOSPHO-MIMETIC ACTIVATING MUTATIONS INTRODUCED. DBREF 4AAA A 1 308 UNP Q92772 CDKL2_HUMAN 1 308 SEQADV 4AAA MET A -22 UNP Q92772 EXPRESSION TAG SEQADV 4AAA GLY A -21 UNP Q92772 EXPRESSION TAG SEQADV 4AAA HIS A -20 UNP Q92772 EXPRESSION TAG SEQADV 4AAA HIS A -19 UNP Q92772 EXPRESSION TAG SEQADV 4AAA HIS A -18 UNP Q92772 EXPRESSION TAG SEQADV 4AAA HIS A -17 UNP Q92772 EXPRESSION TAG SEQADV 4AAA HIS A -16 UNP Q92772 EXPRESSION TAG SEQADV 4AAA HIS A -15 UNP Q92772 EXPRESSION TAG SEQADV 4AAA SER A -14 UNP Q92772 EXPRESSION TAG SEQADV 4AAA SER A -13 UNP Q92772 EXPRESSION TAG SEQADV 4AAA GLY A -12 UNP Q92772 EXPRESSION TAG SEQADV 4AAA VAL A -11 UNP Q92772 EXPRESSION TAG SEQADV 4AAA ASP A -10 UNP Q92772 EXPRESSION TAG SEQADV 4AAA LEU A -9 UNP Q92772 EXPRESSION TAG SEQADV 4AAA GLY A -8 UNP Q92772 EXPRESSION TAG SEQADV 4AAA THR A -7 UNP Q92772 EXPRESSION TAG SEQADV 4AAA GLU A -6 UNP Q92772 EXPRESSION TAG SEQADV 4AAA ASN A -5 UNP Q92772 EXPRESSION TAG SEQADV 4AAA LEU A -4 UNP Q92772 EXPRESSION TAG SEQADV 4AAA TYR A -3 UNP Q92772 EXPRESSION TAG SEQADV 4AAA PHE A -2 UNP Q92772 EXPRESSION TAG SEQADV 4AAA GLN A -1 UNP Q92772 EXPRESSION TAG SEQADV 4AAA SER A 0 UNP Q92772 EXPRESSION TAG SEQADV 4AAA ASP A 159 UNP Q92772 THR 159 ENGINEERED MUTATION SEQADV 4AAA GLU A 161 UNP Q92772 TYR 161 ENGINEERED MUTATION SEQRES 1 A 331 MET GLY HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP SEQRES 2 A 331 LEU GLY THR GLU ASN LEU TYR PHE GLN SER MET GLU LYS SEQRES 3 A 331 TYR GLU ASN LEU GLY LEU VAL GLY GLU GLY SER TYR GLY SEQRES 4 A 331 MET VAL MET LYS CYS ARG ASN LYS ASP THR GLY ARG ILE SEQRES 5 A 331 VAL ALA ILE LYS LYS PHE LEU GLU SER ASP ASP ASP LYS SEQRES 6 A 331 MET VAL LYS LYS ILE ALA MET ARG GLU ILE LYS LEU LEU SEQRES 7 A 331 LYS GLN LEU ARG HIS GLU ASN LEU VAL ASN LEU LEU GLU SEQRES 8 A 331 VAL CYS LYS LYS LYS LYS ARG TRP TYR LEU VAL PHE GLU SEQRES 9 A 331 PHE VAL ASP HIS THR ILE LEU ASP ASP LEU GLU LEU PHE SEQRES 10 A 331 PRO ASN GLY LEU ASP TYR GLN VAL VAL GLN LYS TYR LEU SEQRES 11 A 331 PHE GLN ILE ILE ASN GLY ILE GLY PHE CYS HIS SER HIS SEQRES 12 A 331 ASN ILE ILE HIS ARG ASP ILE LYS PRO GLU ASN ILE LEU SEQRES 13 A 331 VAL SER GLN SER GLY VAL VAL LYS LEU CYS ASP PHE GLY SEQRES 14 A 331 PHE ALA ARG THR LEU ALA ALA PRO GLY GLU VAL TYR ASP SEQRES 15 A 331 ASP GLU VAL ALA THR ARG TRP TYR ARG ALA PRO GLU LEU SEQRES 16 A 331 LEU VAL GLY ASP VAL LYS TYR GLY LYS ALA VAL ASP VAL SEQRES 17 A 331 TRP ALA ILE GLY CYS LEU VAL THR GLU MET PHE MET GLY SEQRES 18 A 331 GLU PRO LEU PHE PRO GLY ASP SER ASP ILE ASP GLN LEU SEQRES 19 A 331 TYR HIS ILE MET MET CYS LEU GLY ASN LEU ILE PRO ARG SEQRES 20 A 331 HIS GLN GLU LEU PHE ASN LYS ASN PRO VAL PHE ALA GLY SEQRES 21 A 331 VAL ARG LEU PRO GLU ILE LYS GLU ARG GLU PRO LEU GLU SEQRES 22 A 331 ARG ARG TYR PRO LYS LEU SER GLU VAL VAL ILE ASP LEU SEQRES 23 A 331 ALA LYS LYS CYS LEU HIS ILE ASP PRO ASP LYS ARG PRO SEQRES 24 A 331 PHE CYS ALA GLU LEU LEU HIS HIS ASP PHE PHE GLN MET SEQRES 25 A 331 ASP GLY PHE ALA GLU ARG PHE SER GLN GLU LEU GLN LEU SEQRES 26 A 331 LYS VAL GLN LYS ASP ALA HET DKI A 500 28 HET EDO A 501 4 HET EDO A 502 4 HET EDO A 503 4 HET EDO A 504 4 HET EDO A 505 4 HET EDO A 506 4 HETNAM DKI 5-AMINO-3-{[4-(AMINOSULFONYL)PHENYL]AMINO}-N-(2,6- HETNAM 2 DKI DIFLUOROPHENYL)-1H-1,2,4-TRIAZOLE-1-CARBOTHIOAMIDE HETNAM EDO 1,2-ETHANEDIOL HETSYN DKI CDK 1/2 INHIBITOR HETSYN EDO ETHYLENE GLYCOL FORMUL 2 DKI C15 H13 F2 N7 O2 S2 FORMUL 3 EDO 6(C2 H6 O2) FORMUL 9 HOH *259(H2 O) HELIX 1 1 SER A 0 GLU A 2 5 3 HELIX 2 2 GLY A 11 SER A 14 5 4 HELIX 3 3 ASP A 41 LEU A 58 1 18 HELIX 4 4 ILE A 87 PHE A 94 1 8 HELIX 5 5 ASP A 99 HIS A 120 1 22 HELIX 6 6 LYS A 128 GLU A 130 5 3 HELIX 7 7 ALA A 169 VAL A 174 1 6 HELIX 8 8 LYS A 181 GLY A 198 1 18 HELIX 9 9 SER A 206 GLY A 219 1 14 HELIX 10 10 ILE A 222 ASN A 232 1 11 HELIX 11 11 PRO A 233 ALA A 236 5 4 HELIX 12 12 PRO A 248 TYR A 253 1 6 HELIX 13 13 SER A 257 LEU A 268 1 12 HELIX 14 14 ASP A 271 ARG A 275 5 5 HELIX 15 15 PHE A 277 HIS A 283 5 7 HELIX 16 16 HIS A 284 MET A 289 1 6 HELIX 17 17 GLY A 291 LEU A 302 1 12 SHEET 1 AA 5 TYR A 4 LEU A 9 0 SHEET 2 AA 5 VAL A 18 ASN A 23 -1 O LYS A 20 N LEU A 7 SHEET 3 AA 5 ILE A 29 LEU A 36 -1 O VAL A 30 N CYS A 21 SHEET 4 AA 5 ARG A 75 GLU A 81 -1 O TRP A 76 N PHE A 35 SHEET 5 AA 5 LEU A 66 LYS A 72 -1 N LEU A 67 O VAL A 79 SHEET 1 AB 3 HIS A 85 THR A 86 0 SHEET 2 AB 3 ILE A 132 VAL A 134 -1 O VAL A 134 N HIS A 85 SHEET 3 AB 3 VAL A 140 LEU A 142 -1 O LYS A 141 N LEU A 133 SITE 1 AC1 19 VAL A 10 GLY A 11 TYR A 15 VAL A 18 SITE 2 AC1 19 VAL A 64 GLU A 81 PHE A 82 VAL A 83 SITE 3 AC1 19 ASP A 84 THR A 86 ASP A 89 GLU A 130 SITE 4 AC1 19 LEU A 133 CYS A 143 ASP A 144 EDO A 501 SITE 5 AC1 19 HOH A2016 HOH A2022 HOH A2024 SITE 1 AC2 7 PHE A 80 CYS A 143 ASP A 144 DKI A 500 SITE 2 AC2 7 HOH A2158 HOH A2257 HOH A2258 SITE 1 AC3 4 ASP A 89 GLU A 92 SER A 119 HIS A 120 SITE 1 AC4 5 ILE A 243 LYS A 244 ARG A 246 HOH A2199 SITE 2 AC4 5 HOH A2212 SITE 1 AC5 4 ASN A 220 LEU A 221 PRO A 223 HOH A2095 SITE 1 AC6 3 MET A 1 TYR A 4 ASN A 6 SITE 1 AC7 6 GLY A 27 ILE A 29 ASP A 273 PHE A 277 SITE 2 AC7 6 HOH A2046 HOH A2234 CRYST1 67.819 70.220 83.660 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 0.014745 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014241 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011953 0.00000