HEADER TRANSFERASE 24-APR-20 6YTA TITLE CLK1 BOUND WITH IMIDAZOPYRIDAZINE (CPD 1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DUAL SPECIFICITY PROTEIN KINASE CLK1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CDC-LIKE KINASE 1; COMPND 5 EC: 2.7.12.1; COMPND 6 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: CLK1, CLK; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS INHIBITOR, COMPLEX, CLK1, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.SCHROEDER,A.CHAIKUAD,S.KNAPP,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 3 24-JAN-24 6YTA 1 REMARK REVDAT 2 14-OCT-20 6YTA 1 JRNL REVDAT 1 15-JUL-20 6YTA 0 JRNL AUTH M.SCHRODER,A.N.BULLOCK,O.FEDOROV,F.BRACHER,A.CHAIKUAD, JRNL AUTH 2 S.KNAPP JRNL TITL DFG-1 RESIDUE CONTROLS INHIBITOR BINDING MODE AND AFFINITY, JRNL TITL 2 PROVIDING A BASIS FOR RATIONAL DESIGN OF KINASE INHIBITOR JRNL TITL 3 SELECTIVITY. JRNL REF J.MED.CHEM. V. 63 10224 2020 JRNL REFN ISSN 0022-2623 JRNL PMID 32787076 JRNL DOI 10.1021/ACS.JMEDCHEM.0C00898 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 64.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 15708 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.275 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 833 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1155 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.54 REMARK 3 BIN R VALUE (WORKING SET) : 0.2090 REMARK 3 BIN FREE R VALUE SET COUNT : 57 REMARK 3 BIN FREE R VALUE : 0.2900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2700 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 216 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.32000 REMARK 3 B22 (A**2) : -0.25000 REMARK 3 B33 (A**2) : 0.02000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.51000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.390 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.281 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.177 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.205 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.920 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.847 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2817 ; 0.013 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2535 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3823 ; 1.855 ; 1.636 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5873 ; 1.367 ; 1.585 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 341 ; 7.399 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 146 ;34.321 ;22.466 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 468 ;14.558 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;18.202 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 363 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3251 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 607 ; 0.002 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; 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 146 A 209 REMARK 3 ORIGIN FOR THE GROUP (A): -0.0843 15.3910 21.4679 REMARK 3 T TENSOR REMARK 3 T11: 0.1405 T22: 0.1344 REMARK 3 T33: 0.0808 T12: 0.0847 REMARK 3 T13: 0.0038 T23: -0.0022 REMARK 3 L TENSOR REMARK 3 L11: 1.3106 L22: 5.7662 REMARK 3 L33: 2.0112 L12: -0.5240 REMARK 3 L13: -0.0733 L23: 2.2413 REMARK 3 S TENSOR REMARK 3 S11: 0.1441 S12: 0.3392 S13: 0.0868 REMARK 3 S21: -0.5728 S22: -0.1936 S23: 0.2673 REMARK 3 S31: -0.5064 S32: -0.2167 S33: 0.0495 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 210 A 336 REMARK 3 ORIGIN FOR THE GROUP (A): 15.1340 7.5678 21.0741 REMARK 3 T TENSOR REMARK 3 T11: 0.0777 T22: 0.0354 REMARK 3 T33: 0.0099 T12: 0.0186 REMARK 3 T13: -0.0170 T23: -0.0037 REMARK 3 L TENSOR REMARK 3 L11: 1.2502 L22: 1.4008 REMARK 3 L33: 0.8929 L12: -0.2775 REMARK 3 L13: -0.4534 L23: 0.1330 REMARK 3 S TENSOR REMARK 3 S11: -0.0037 S12: -0.0804 S13: 0.0556 REMARK 3 S21: 0.0036 S22: -0.0339 S23: 0.0332 REMARK 3 S31: -0.1030 S32: 0.0676 S33: 0.0376 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 337 A 418 REMARK 3 ORIGIN FOR THE GROUP (A): 21.7598 2.6045 -0.9769 REMARK 3 T TENSOR REMARK 3 T11: 0.2836 T22: 0.1784 REMARK 3 T33: 0.1593 T12: -0.0349 REMARK 3 T13: -0.1404 T23: 0.0963 REMARK 3 L TENSOR REMARK 3 L11: 0.5183 L22: 0.4216 REMARK 3 L33: 4.8091 L12: 0.2862 REMARK 3 L13: 0.9780 L23: -0.3374 REMARK 3 S TENSOR REMARK 3 S11: -0.2843 S12: 0.1899 S13: 0.2292 REMARK 3 S21: -0.1966 S22: 0.1902 S23: 0.2306 REMARK 3 S31: -0.4906 S32: 0.0337 S33: 0.0941 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 419 A 483 REMARK 3 ORIGIN FOR THE GROUP (A): 31.5974 0.9818 8.6275 REMARK 3 T TENSOR REMARK 3 T11: 0.0874 T22: 0.1126 REMARK 3 T33: 0.0881 T12: 0.0382 REMARK 3 T13: 0.0058 T23: -0.0018 REMARK 3 L TENSOR REMARK 3 L11: 2.9503 L22: 2.5570 REMARK 3 L33: 2.9679 L12: 0.8961 REMARK 3 L13: 0.8202 L23: -0.4315 REMARK 3 S TENSOR REMARK 3 S11: -0.1924 S12: 0.1333 S13: 0.0268 REMARK 3 S21: -0.1573 S22: -0.0202 S23: -0.3338 REMARK 3 S31: -0.1115 S32: 0.3861 S33: 0.2126 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6YTA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-APR-20. REMARK 100 THE DEPOSITION ID IS D_1292108253. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.1 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16584 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 64.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.15000 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1Z57 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 14% PEG 6K, 0.1M BICINE, PH 8.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 45.68900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.28000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.68900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.28000 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 TOTAL BURIED SURFACE AREA: 920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL 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 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 ILE A 484 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 ARG A 198 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 201 CG CD OE1 OE2 REMARK 470 GLU A 232 CG CD OE1 OE2 REMARK 470 LYS A 308 CG CD CE NZ REMARK 470 THR A 338 OG1 CG2 REMARK 470 ARG A 343 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 344 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 346 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 393 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 405 CG CD CE NZ REMARK 470 ARG A 407 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 410 CG CD CE NZ REMARK 470 ARG A 416 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 420 CG OD1 OD2 REMARK 470 LYS A 437 CG CD CE NZ REMARK 470 LYS A 473 CG CD CE NZ 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 GLU A 177 CD GLU A 177 OE1 0.078 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 ARG A 311 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES 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 ARG A 160 -30.26 -155.10 REMARK 500 ASP A 197 -66.04 -25.45 REMARK 500 GLU A 229 178.27 179.20 REMARK 500 THR A 287 -18.57 83.09 REMARK 500 SER A 299 48.61 -80.42 REMARK 500 ASP A 325 92.34 66.16 REMARK 500 THR A 338 -73.98 -55.93 REMARK 500 SER A 341 157.83 83.67 REMARK 500 ARG A 343 -53.35 -28.74 REMARK 500 SER A 357 -168.10 -161.32 REMARK 500 PHE A 379 65.37 -118.02 REMARK 500 LYS A 410 -39.68 -39.44 REMARK 500 HIS A 414 -123.60 44.22 REMARK 500 HIS A 414 -124.57 44.22 REMARK 500 ASP A 420 92.27 -63.04 REMARK 500 LEU A 458 33.21 -96.36 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 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IYZ A 702 DBREF 6YTA A 148 484 UNP P49759 CLK1_HUMAN 148 484 SEQADV 6YTA SER A 146 UNP P49759 EXPRESSION TAG SEQADV 6YTA MET A 147 UNP P49759 EXPRESSION TAG SEQADV 6YTA ALA A 432 UNP P49759 ARG 432 CONFLICT SEQRES 1 A 339 SER MET HIS LEU ILE CYS GLN SER GLY ASP VAL LEU SER SEQRES 2 A 339 ALA ARG TYR GLU ILE VAL ASP THR LEU GLY GLU GLY ALA SEQRES 3 A 339 PHE GLY LYS VAL VAL GLU CYS ILE ASP HIS LYS ALA GLY SEQRES 4 A 339 GLY ARG HIS VAL ALA VAL LYS ILE VAL LYS ASN VAL ASP SEQRES 5 A 339 ARG TYR CYS GLU ALA ALA ARG SER GLU ILE GLN VAL LEU SEQRES 6 A 339 GLU HIS LEU ASN THR THR ASP PRO ASN SER THR PHE ARG SEQRES 7 A 339 CYS VAL GLN MET LEU GLU TRP PHE GLU HIS HIS GLY HIS SEQRES 8 A 339 ILE CYS ILE VAL PHE GLU LEU LEU GLY LEU SER THR TYR SEQRES 9 A 339 ASP PHE ILE LYS GLU ASN GLY PHE LEU PRO PHE ARG LEU SEQRES 10 A 339 ASP HIS ILE ARG LYS MET ALA TYR GLN ILE CYS LYS SER SEQRES 11 A 339 VAL ASN PHE LEU HIS SER ASN LYS LEU THR HIS THR ASP SEQRES 12 A 339 LEU LYS PRO GLU ASN ILE LEU PHE VAL GLN SER ASP TYR SEQRES 13 A 339 THR GLU ALA TYR ASN PRO LYS ILE LYS ARG ASP GLU ARG SEQRES 14 A 339 THR LEU ILE ASN PRO ASP ILE LYS VAL VAL ASP PHE GLY SEQRES 15 A 339 SER ALA THR TYR ASP ASP GLU HIS HIS SER THR LEU VAL SEQRES 16 A 339 SER THR ARG HIS TYR ARG ALA PRO GLU VAL ILE LEU ALA SEQRES 17 A 339 LEU GLY TRP SER GLN PRO CYS ASP VAL TRP SER ILE GLY SEQRES 18 A 339 CYS ILE LEU ILE GLU TYR TYR LEU GLY PHE THR VAL PHE SEQRES 19 A 339 PRO THR HIS ASP SER LYS GLU HIS LEU ALA MET MET GLU SEQRES 20 A 339 ARG ILE LEU GLY PRO LEU PRO LYS HIS MET ILE GLN LYS SEQRES 21 A 339 THR ARG LYS ARG LYS TYR PHE HIS HIS ASP ARG LEU ASP SEQRES 22 A 339 TRP ASP GLU HIS SER SER ALA GLY ARG TYR VAL SER ARG SEQRES 23 A 339 ALA CYS LYS PRO LEU LYS GLU PHE MET LEU SER GLN ASP SEQRES 24 A 339 VAL GLU HIS GLU ARG LEU PHE ASP LEU ILE GLN LYS MET SEQRES 25 A 339 LEU GLU TYR ASP PRO ALA LYS ARG ILE THR LEU ARG GLU SEQRES 26 A 339 ALA LEU LYS HIS PRO PHE PHE ASP LEU LEU LYS LYS SER SEQRES 27 A 339 ILE HET EDO A 701 4 HET IYZ A 702 23 HETNAM EDO 1,2-ETHANEDIOL HETNAM IYZ 1-(3-{6-[(CYCLOPROPYLMETHYL)AMINO]IMIDAZO[1,2- HETNAM 2 IYZ B]PYRIDAZIN-3-YL}PHENYL)ETHANONE HETSYN EDO ETHYLENE GLYCOL HETSYN IYZ IMIDAZOPYRIDAZIN 1 FORMUL 2 EDO C2 H6 O2 FORMUL 3 IYZ C18 H18 N4 O FORMUL 4 HOH *216(H2 O) HELIX 1 AA1 MET A 147 CYS A 151 5 5 HELIX 2 AA2 VAL A 196 ASP A 217 1 22 HELIX 3 AA3 SER A 247 ASN A 255 1 9 HELIX 4 AA4 ARG A 261 ASN A 282 1 22 HELIX 5 AA5 LYS A 290 GLU A 292 5 3 HELIX 6 AA6 THR A 342 ARG A 346 5 5 HELIX 7 AA7 ALA A 347 LEU A 352 1 6 HELIX 8 AA8 GLN A 358 GLY A 375 1 18 HELIX 9 AA9 ASP A 383 GLY A 396 1 14 HELIX 10 AB1 PRO A 399 THR A 406 1 8 HELIX 11 AB2 LYS A 408 LYS A 410 5 3 HELIX 12 AB3 SER A 423 CYS A 433 1 11 HELIX 13 AB4 PRO A 435 MET A 440 5 6 HELIX 14 AB5 ASP A 444 LEU A 458 1 15 HELIX 15 AB6 THR A 467 LEU A 472 1 6 HELIX 16 AB7 LYS A 473 LYS A 482 5 10 SHEET 1 AA1 6 VAL A 156 LEU A 157 0 SHEET 2 AA1 6 TYR A 161 GLU A 169 -1 O TYR A 161 N LEU A 157 SHEET 3 AA1 6 GLY A 173 ASP A 180 -1 O GLU A 177 N ASP A 165 SHEET 4 AA1 6 HIS A 187 VAL A 193 -1 O ILE A 192 N LYS A 174 SHEET 5 AA1 6 HIS A 236 GLU A 242 -1 O PHE A 241 N ALA A 189 SHEET 6 AA1 6 MET A 227 HIS A 233 -1 N PHE A 231 O CYS A 238 SHEET 1 AA2 2 LEU A 284 THR A 285 0 SHEET 2 AA2 2 THR A 330 TYR A 331 -1 O THR A 330 N THR A 285 SHEET 1 AA3 2 ILE A 294 PHE A 296 0 SHEET 2 AA3 2 ILE A 321 VAL A 323 -1 O LYS A 322 N LEU A 295 SHEET 1 AA4 2 TYR A 301 ASN A 306 0 SHEET 2 AA4 2 ARG A 311 LEU A 316 -1 O THR A 315 N THR A 302 SHEET 1 AA5 2 PHE A 412 HIS A 413 0 SHEET 2 AA5 2 ARG A 416 LEU A 417 -1 O ARG A 416 N HIS A 413 SITE 1 AC1 5 THR A 216 SER A 281 ASN A 282 HOH A 831 SITE 2 AC1 5 HOH A 986 SITE 1 AC2 12 LEU A 167 ALA A 189 LYS A 191 PHE A 241 SITE 2 AC2 12 GLU A 242 LEU A 244 GLY A 245 SER A 247 SITE 3 AC2 12 GLU A 292 LEU A 295 ASP A 325 HOH A 939 CRYST1 91.378 64.560 72.519 90.00 117.55 90.00 C 1 2 1 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 0.010944 0.000000 0.005709 0.00000 SCALE2 0.000000 0.015489 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015553 0.00000