HEADER TRANSFERASE 18-MAY-20 6Z2V TITLE CLK3 A319V MUTANT BOUND WITH BETA-CARBOLINE KH-CARB13 (CPD 3) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DUAL SPECIFICITY PROTEIN KINASE CLK3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CDC-LIKE KINASE 3; COMPND 5 EC: 2.7.12.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CLK3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS INHIBITOR, COMPLEX, CLK3, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.SCHROEDER,A.CHAIKUAD,F.BRACHER,S.KNAPP,STRUCTURAL GENOMICS AUTHOR 2 CONSORTIUM (SGC) REVDAT 3 24-JAN-24 6Z2V 1 REMARK REVDAT 2 14-OCT-20 6Z2V 1 JRNL REVDAT 1 29-JUL-20 6Z2V 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. 2.60 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 11251 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) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 559 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) : 835 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3140 REMARK 3 BIN FREE R VALUE SET COUNT : 50 REMARK 3 BIN FREE R VALUE : 0.3780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2743 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 61 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.27 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.53000 REMARK 3 B22 (A**2) : 1.06000 REMARK 3 B33 (A**2) : 0.14000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.91000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.352 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.332 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 32.769 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.884 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2866 ; 0.017 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2584 ; 0.003 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3883 ; 1.788 ; 1.644 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5971 ; 1.330 ; 1.582 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 341 ; 8.779 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 162 ;31.518 ;21.790 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 479 ;18.517 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;24.278 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 355 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3276 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 646 ; 0.007 ; 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 134 A 203 REMARK 3 ORIGIN FOR THE GROUP (A): 91.2050 9.3830 86.1970 REMARK 3 T TENSOR REMARK 3 T11: 0.1807 T22: 0.2518 REMARK 3 T33: 0.1407 T12: -0.0961 REMARK 3 T13: -0.0413 T23: 0.0110 REMARK 3 L TENSOR REMARK 3 L11: 5.2859 L22: 6.1735 REMARK 3 L33: 2.4691 L12: -2.1728 REMARK 3 L13: 1.3694 L23: -0.7260 REMARK 3 S TENSOR REMARK 3 S11: 0.0276 S12: -0.1319 S13: -0.0273 REMARK 3 S21: 0.5351 S22: -0.1334 S23: -0.4385 REMARK 3 S31: -0.0202 S32: 0.4187 S33: 0.1058 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 204 A 419 REMARK 3 ORIGIN FOR THE GROUP (A): 67.3860 11.2450 95.8240 REMARK 3 T TENSOR REMARK 3 T11: 0.0196 T22: 0.0089 REMARK 3 T33: 0.0801 T12: 0.0044 REMARK 3 T13: -0.0357 T23: -0.0084 REMARK 3 L TENSOR REMARK 3 L11: 2.8616 L22: 1.9302 REMARK 3 L33: 0.9730 L12: -0.0219 REMARK 3 L13: -0.1788 L23: 0.2708 REMARK 3 S TENSOR REMARK 3 S11: -0.0162 S12: 0.0822 S13: 0.1231 REMARK 3 S21: 0.0268 S22: 0.0400 S23: 0.0629 REMARK 3 S31: -0.0199 S32: 0.0601 S33: -0.0238 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 420 A 480 REMARK 3 ORIGIN FOR THE GROUP (A): 54.7350 18.8330 98.9830 REMARK 3 T TENSOR REMARK 3 T11: 0.0663 T22: 0.0796 REMARK 3 T33: 0.3066 T12: -0.0094 REMARK 3 T13: 0.0483 T23: -0.0524 REMARK 3 L TENSOR REMARK 3 L11: 2.6788 L22: 5.6169 REMARK 3 L33: 4.0393 L12: -0.9066 REMARK 3 L13: -0.2858 L23: 1.8953 REMARK 3 S TENSOR REMARK 3 S11: 0.1385 S12: -0.0784 S13: 0.3319 REMARK 3 S21: 0.1151 S22: -0.0491 S23: 0.4423 REMARK 3 S31: -0.3827 S32: 0.0679 S33: -0.0894 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 REMARK 4 REMARK 4 6Z2V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1292108783. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-OCT-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11812 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 39.370 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.24600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.4000 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) : 2.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.20 REMARK 200 R MERGE FOR SHELL (I) : 1.31900 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: 2EU9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24% PEG 3350, 0,2M KSCN, 10% ETHYLENE REMARK 280 GLYCOL, 0.1M BIS-TRIS PROPANE, PH 6.5, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 278K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 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+1/2 REMARK 290 4555 -X+1/2,Y+1/2,-Z+1/2 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 22.99612 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.69650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 49.58227 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 22.99612 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.69650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 49.58227 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: 350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 3.0 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 SER A 125 REMARK 465 MET A 126 REMARK 465 GLN A 127 REMARK 465 SER A 128 REMARK 465 SER A 129 REMARK 465 LYS A 130 REMARK 465 ARG A 131 REMARK 465 SER A 132 REMARK 465 SER A 133 REMARK 465 TYR A 300 REMARK 465 ASN A 301 REMARK 465 GLU A 302 REMARK 465 HIS A 303 REMARK 465 LYS A 304 REMARK 465 SER A 305 REMARK 465 CYS A 306 REMARK 465 GLU A 307 REMARK 465 SER A 481 REMARK 465 PHE A 482 REMARK 465 HIS A 483 REMARK 465 THR 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 134 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 140 CG CD CE NZ REMARK 470 GLU A 154 CG CD OE1 OE2 REMARK 470 GLU A 214 CG CD OE1 OE2 REMARK 470 ASN A 215 CG OD1 ND2 REMARK 470 LYS A 216 CG CD CE NZ REMARK 470 LEU A 221 CG CD1 CD2 REMARK 470 GLU A 295 CD OE1 OE2 REMARK 470 GLN A 375 CG CD OE1 NE2 REMARK 470 LYS A 409 CG CD CE NZ REMARK 470 GLU A 416 CG CD OE1 OE2 REMARK 470 ASN A 417 CG OD1 ND2 REMARK 470 SER A 418 OG REMARK 470 SER A 419 OG REMARK 470 ARG A 422 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 425 CG CD CE NZ REMARK 470 LYS A 432 CG CD CE NZ REMARK 470 THR A 476 OG1 CG2 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 245 CD GLU A 245 OE2 0.073 REMARK 500 HIS A 469 CG HIS A 469 CD2 0.059 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 195 NE - CZ - NH1 ANGL. DEV. = -3.6 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 CYS A 146 143.33 -179.17 REMARK 500 ARG A 155 -51.29 -140.29 REMARK 500 VAL A 159 -1.93 -140.56 REMARK 500 ASP A 212 68.37 -113.17 REMARK 500 ASN A 215 32.07 71.14 REMARK 500 PRO A 256 157.03 -41.36 REMARK 500 ASN A 277 26.96 -145.28 REMARK 500 THR A 282 -5.78 87.06 REMARK 500 ASP A 283 47.59 -146.53 REMARK 500 ASP A 320 78.44 65.01 REMARK 500 THR A 333 -73.36 -81.89 REMARK 500 ALA A 336 152.96 69.72 REMARK 500 ALA A 352 -140.85 -150.75 REMARK 500 HIS A 377 22.17 -140.18 REMARK 500 LYS A 409 47.95 35.63 REMARK 500 THR A 476 160.21 -44.77 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 KHC A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K 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 DBREF 6Z2V A 127 484 UNP P49761 CLK3_HUMAN 275 632 SEQADV 6Z2V SER A 125 UNP P49761 EXPRESSION TAG SEQADV 6Z2V MET A 126 UNP P49761 EXPRESSION TAG SEQADV 6Z2V VAL A 319 UNP P49761 ALA 467 ENGINEERED MUTATION SEQRES 1 A 360 SER MET GLN SER SER LYS ARG SER SER ARG SER VAL GLU SEQRES 2 A 360 ASP ASP LYS GLU GLY HIS LEU VAL CYS ARG ILE GLY ASP SEQRES 3 A 360 TRP LEU GLN GLU ARG TYR GLU ILE VAL GLY ASN LEU GLY SEQRES 4 A 360 GLU GLY THR PHE GLY LYS VAL VAL GLU CYS LEU ASP HIS SEQRES 5 A 360 ALA ARG GLY LYS SER GLN VAL ALA LEU LYS ILE ILE ARG SEQRES 6 A 360 ASN VAL GLY LYS TYR ARG GLU ALA ALA ARG LEU GLU ILE SEQRES 7 A 360 ASN VAL LEU LYS LYS ILE LYS GLU LYS ASP LYS GLU ASN SEQRES 8 A 360 LYS PHE LEU CYS VAL LEU MET SER ASP TRP PHE ASN PHE SEQRES 9 A 360 HIS GLY HIS MET CYS ILE ALA PHE GLU LEU LEU GLY LYS SEQRES 10 A 360 ASN THR PHE GLU PHE LEU LYS GLU ASN ASN PHE GLN PRO SEQRES 11 A 360 TYR PRO LEU PRO HIS VAL ARG HIS MET ALA TYR GLN LEU SEQRES 12 A 360 CYS HIS ALA LEU ARG PHE LEU HIS GLU ASN GLN LEU THR SEQRES 13 A 360 HIS THR ASP LEU LYS PRO GLU ASN ILE LEU PHE VAL ASN SEQRES 14 A 360 SER GLU PHE GLU THR LEU TYR ASN GLU HIS LYS SER CYS SEQRES 15 A 360 GLU GLU LYS SER VAL LYS ASN THR SER ILE ARG VAL VAL SEQRES 16 A 360 ASP PHE GLY SER ALA THR PHE ASP HIS GLU HIS HIS THR SEQRES 17 A 360 THR ILE VAL ALA THR ARG HIS TYR ARG PRO PRO GLU VAL SEQRES 18 A 360 ILE LEU GLU LEU GLY TRP ALA GLN PRO CYS ASP VAL TRP SEQRES 19 A 360 SER ILE GLY CYS ILE LEU PHE GLU TYR TYR ARG GLY PHE SEQRES 20 A 360 THR LEU PHE GLN THR HIS GLU ASN ARG GLU HIS LEU VAL SEQRES 21 A 360 MET MET GLU LYS ILE LEU GLY PRO ILE PRO SER HIS MET SEQRES 22 A 360 ILE HIS ARG THR ARG LYS GLN LYS TYR PHE TYR LYS GLY SEQRES 23 A 360 GLY LEU VAL TRP ASP GLU ASN SER SER ASP GLY ARG TYR SEQRES 24 A 360 VAL LYS GLU ASN CYS LYS PRO LEU LYS SER TYR MET LEU SEQRES 25 A 360 GLN ASP SER LEU GLU HIS VAL GLN LEU PHE ASP LEU MET SEQRES 26 A 360 ARG ARG MET LEU GLU PHE ASP PRO ALA GLN ARG ILE THR SEQRES 27 A 360 LEU ALA GLU ALA LEU LEU HIS PRO PHE PHE ALA GLY LEU SEQRES 28 A 360 THR PRO GLU GLU ARG SER PHE HIS THR HET KHC A 501 24 HET K A 502 1 HET EDO A 503 4 HETNAM KHC (4~{S})-7,8-BIS(CHLORANYL)-9-METHYL-1-OXIDANYLIDENE- HETNAM 2 KHC SPIRO[2,4-DIHYDROPYRIDO[3,4-B]INDOLE-3,4'-PIPERIDINE]- HETNAM 3 KHC 4-CARBONITRILE HETNAM K POTASSIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 KHC C17 H16 CL2 N4 O FORMUL 3 K K 1+ FORMUL 4 EDO C2 H6 O2 FORMUL 5 HOH *61(H2 O) HELIX 1 AA1 VAL A 191 ASP A 212 1 22 HELIX 2 AA2 ASN A 242 ASN A 250 1 9 HELIX 3 AA3 PRO A 256 GLU A 276 1 21 HELIX 4 AA4 LYS A 285 GLU A 287 5 3 HELIX 5 AA5 THR A 337 ARG A 341 5 5 HELIX 6 AA6 PRO A 342 LEU A 347 1 6 HELIX 7 AA7 GLN A 353 GLY A 370 1 18 HELIX 8 AA8 GLU A 378 LEU A 390 1 13 HELIX 9 AA9 PRO A 394 THR A 401 1 8 HELIX 10 AB1 LYS A 403 LYS A 405 5 3 HELIX 11 AB2 SER A 418 CYS A 428 1 11 HELIX 12 AB3 PRO A 430 MET A 435 5 6 HELIX 13 AB4 SER A 439 LEU A 453 1 15 HELIX 14 AB5 THR A 462 LEU A 467 1 6 HELIX 15 AB6 LEU A 468 GLY A 474 5 7 SHEET 1 AA1 2 GLU A 137 ASP A 138 0 SHEET 2 AA1 2 LEU A 144 VAL A 145 -1 O VAL A 145 N GLU A 137 SHEET 1 AA2 6 TRP A 151 LEU A 152 0 SHEET 2 AA2 6 TYR A 156 GLU A 164 -1 O TYR A 156 N LEU A 152 SHEET 3 AA2 6 GLY A 168 ASP A 175 -1 O GLU A 172 N VAL A 159 SHEET 4 AA2 6 SER A 181 ILE A 188 -1 O ILE A 187 N LYS A 169 SHEET 5 AA2 6 HIS A 231 GLU A 237 -1 O PHE A 236 N ALA A 184 SHEET 6 AA2 6 MET A 222 PHE A 228 -1 N PHE A 228 O HIS A 231 SHEET 1 AA3 2 LEU A 279 THR A 280 0 SHEET 2 AA3 2 THR A 325 PHE A 326 -1 O THR A 325 N THR A 280 SHEET 1 AA4 2 ILE A 289 PHE A 291 0 SHEET 2 AA4 2 ILE A 316 VAL A 318 -1 O ARG A 317 N LEU A 290 SHEET 1 AA5 2 PHE A 296 GLU A 297 0 SHEET 2 AA5 2 SER A 310 VAL A 311 -1 O SER A 310 N GLU A 297 SHEET 1 AA6 2 PHE A 407 TYR A 408 0 SHEET 2 AA6 2 GLY A 411 LEU A 412 -1 O GLY A 411 N TYR A 408 SITE 1 AC1 10 LEU A 162 GLY A 163 VAL A 170 LYS A 186 SITE 2 AC1 10 GLU A 237 LEU A 239 ASN A 288 LEU A 290 SITE 3 AC1 10 ASP A 320 HOH A 603 SITE 1 AC2 2 HIS A 339 HIS A 377 SITE 1 AC3 6 HIS A 339 CYS A 362 GLU A 366 THR A 372 SITE 2 AC3 6 LEU A 373 PHE A 374 CRYST1 84.376 45.393 106.334 90.00 111.16 90.00 I 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 0.011852 0.000000 0.004587 0.00000 SCALE2 0.000000 0.022030 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010084 0.00000