HEADER TRANSFERASE 24-APR-20 6YTG TITLE CLK1 BOUND WITH BETA-CARBOLINE KH-CARB13 (CPD 3) 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,K.HUBER,F.BRACHER,S.KNAPP,STRUCTURAL GENOMICS AUTHOR 2 CONSORTIUM (SGC) REVDAT 3 24-JAN-24 6YTG 1 REMARK REVDAT 2 14-OCT-20 6YTG 1 JRNL REVDAT 1 15-JUL-20 6YTG 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. 1.95 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 67.46 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 27146 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.261 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1425 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2023 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.95 REMARK 3 BIN R VALUE (WORKING SET) : 0.2200 REMARK 3 BIN FREE R VALUE SET COUNT : 91 REMARK 3 BIN FREE R VALUE : 0.2480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2677 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 233 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.06 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.43000 REMARK 3 B22 (A**2) : 0.36000 REMARK 3 B33 (A**2) : -0.23000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.27000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.179 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.172 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.126 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.418 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.890 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2807 ; 0.015 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2555 ; 0.004 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3808 ; 1.737 ; 1.645 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5921 ; 1.405 ; 1.595 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 331 ; 6.715 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 149 ;30.777 ;21.879 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 481 ;15.016 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;19.894 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 357 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3232 ; 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 : 2 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 336 REMARK 3 ORIGIN FOR THE GROUP (A): 4.4818 9.4682 22.3844 REMARK 3 T TENSOR REMARK 3 T11: 0.0095 T22: 0.0113 REMARK 3 T33: 0.0480 T12: 0.0055 REMARK 3 T13: -0.0128 T23: -0.0165 REMARK 3 L TENSOR REMARK 3 L11: 2.3869 L22: 2.3879 REMARK 3 L33: 1.8413 L12: -1.6423 REMARK 3 L13: -1.2409 L23: 0.6557 REMARK 3 S TENSOR REMARK 3 S11: 0.0467 S12: -0.0133 S13: 0.1839 REMARK 3 S21: -0.0603 S22: -0.1017 S23: -0.0159 REMARK 3 S31: -0.1156 S32: -0.0146 S33: 0.0550 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 337 A 483 REMARK 3 ORIGIN FOR THE GROUP (A): 21.5511 1.4875 4.6999 REMARK 3 T TENSOR REMARK 3 T11: 0.1248 T22: 0.0426 REMARK 3 T33: 0.0811 T12: 0.0046 REMARK 3 T13: 0.0464 T23: 0.0278 REMARK 3 L TENSOR REMARK 3 L11: 2.0184 L22: 2.4974 REMARK 3 L33: 4.8109 L12: 1.0998 REMARK 3 L13: -0.8195 L23: -0.3345 REMARK 3 S TENSOR REMARK 3 S11: -0.2149 S12: 0.0992 S13: 0.0198 REMARK 3 S21: -0.4707 S22: 0.0615 S23: -0.1119 REMARK 3 S31: -0.0533 S32: 0.2501 S33: 0.1534 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 6YTG 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_1292108261. 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 PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.1 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29054 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 67.460 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : 0.41300 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 (%): 51.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17% 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 46.46400 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.08500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 46.46400 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.08500 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: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 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 ASN A 306 REMARK 465 PRO A 307 REMARK 465 LYS A 308 REMARK 465 ILE A 309 REMARK 465 LYS A 310 REMARK 465 ARG A 311 REMARK 465 ASP A 312 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 GLU A 254 CG CD OE1 OE2 REMARK 470 ARG A 261 CG CD NE CZ NH1 NH2 REMARK 470 THR A 302 OG1 CG2 REMARK 470 TYR A 305 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 343 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 410 CG CD CE NZ REMARK 470 HIS A 414 CG ND1 CD2 CE1 NE2 REMARK 470 ASP A 415 CG OD1 OD2 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 OD1 ASP A 325 O HOH A 601 2.11 REMARK 500 O HOH A 616 O HOH A 799 2.15 REMARK 500 O HOH A 684 O HOH A 814 2.19 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 GLU A 201 CD GLU A 201 OE2 -0.104 REMARK 500 SER A 423 C SER A 423 O 0.184 REMARK 500 SER A 424 CB SER A 424 OG 0.109 REMARK 500 GLU A 446 CD GLU A 446 OE1 0.107 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 151 41.70 -149.53 REMARK 500 ARG A 160 -30.11 -156.05 REMARK 500 THR A 287 -10.78 85.54 REMARK 500 ASP A 325 76.10 66.81 REMARK 500 SER A 341 153.49 81.17 REMARK 500 ARG A 343 -64.06 -12.95 REMARK 500 SER A 357 -149.31 -158.90 REMARK 500 PHE A 379 70.40 -114.78 REMARK 500 LYS A 408 47.29 -82.80 REMARK 500 HIS A 414 -136.94 38.28 REMARK 500 ASP A 415 60.09 -110.29 REMARK 500 LYS A 482 46.21 -89.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 833 DISTANCE = 5.97 ANGSTROMS 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 KHC A 502 DBREF 6YTG A 148 484 UNP P49759 CLK1_HUMAN 148 484 SEQADV 6YTG SER A 146 UNP P49759 EXPRESSION TAG SEQADV 6YTG MET A 147 UNP P49759 EXPRESSION TAG SEQADV 6YTG 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 KHC A 501 24 HET KHC A 502 24 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 FORMUL 2 KHC 2(C17 H16 CL2 N4 O) FORMUL 4 HOH *233(H2 O) HELIX 1 AA1 SER A 146 CYS A 151 5 6 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 SER A 281 1 21 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 SER A 357 GLY A 375 1 19 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 481 5 9 SHEET 1 AA1 6 VAL A 156 LEU A 157 0 SHEET 2 AA1 6 TYR A 161 GLY A 170 -1 O TYR A 161 N LEU A 157 SHEET 3 AA1 6 GLY A 173 ASP A 180 -1 O VAL A 175 N GLY A 168 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 ILE A 239 N LYS A 191 SHEET 6 AA1 6 MET A 227 HIS A 233 -1 N GLU A 229 O VAL A 240 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 GLU A 303 0 SHEET 2 AA4 2 ARG A 314 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 14 GLY A 168 PHE A 172 VAL A 175 ALA A 189 SITE 2 AC1 14 LYS A 191 PHE A 241 GLU A 242 LEU A 244 SITE 3 AC1 14 GLU A 292 ASN A 293 LEU A 295 ASP A 325 SITE 4 AC1 14 HOH A 629 HOH A 725 SITE 1 AC2 12 ARG A 204 SER A 205 GLN A 208 SER A 328 SITE 2 AC2 12 ALA A 329 THR A 330 GLU A 334 ALA A 353 SITE 3 AC2 12 ARG A 407 LYS A 408 LYS A 410 HOH A 806 CRYST1 92.928 64.170 80.809 90.00 123.41 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 0.010761 0.000000 0.007097 0.00000 SCALE2 0.000000 0.015584 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014824 0.00000