HEADER SIGNALING PROTEIN 29-MAR-23 8OKU TITLE SALT-INDUCIBLE KINASE 3 IN COMPLEX WITH AN INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE SIK3; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: SALT-INDUCIBLE KINASE 3,SIK-3,SERINE/THREONINE-PROTEIN COMPND 5 KINASE QSK; COMPND 6 EC: 2.7.11.1; COMPND 7 ENGINEERED: YES; COMPND 8 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: SIK3, KIAA0999, QSK, L19; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS KINASE UBA INHIBITOR, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.G.FLOWER,P.M.LEONARD,M.B.A.C.LAMERS,P.MOLLAT REVDAT 2 24-JAN-24 8OKU 1 JRNL REVDAT 1 10-JAN-24 8OKU 0 JRNL AUTH T.TEMAL-LAIB,C.PEIXOTO,N.DESROY,E.DE LEMOS,F.BONNATERRE, JRNL AUTH 2 N.BIENVENU,O.PICOLET,E.SARTORI,D.BUCHER,M.LOPEZ-RAMOS, JRNL AUTH 3 C.ROCA MAGADAN,W.LAENEN,T.FLOWER,P.MOLLAT,O.BUGAUD, JRNL AUTH 4 R.TOUITOU,A.PEREIRA FERNANDES,S.LAVAZAIS,A.MONJARDET, JRNL AUTH 5 M.BORGONOVI,R.GOSMINI,R.BRYS,D.AMANTINI,S.DE VOS,M.ANDREWS JRNL TITL OPTIMIZATION OF SELECTIVITY AND PHARMACOKINETIC PROPERTIES JRNL TITL 2 OF SALT-INDUCIBLE KINASE INHIBITORS THAT LED TO THE JRNL TITL 3 DISCOVERY OF PAN-SIK INHIBITOR GLPG3312. JRNL REF J.MED.CHEM. V. 67 380 2024 JRNL REFN ISSN 0022-2623 JRNL PMID 38147525 JRNL DOI 10.1021/ACS.JMEDCHEM.3C01428 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 107.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 25096 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 1248 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5370 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 7 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.490 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.11 REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8OKU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-MAR-23. REMARK 100 THE DEPOSITION ID IS D_1292129452. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25156 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 107.290 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : 0.21800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.22 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 2.88700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.900 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM FORMATE PH 7.0, 12% W/V REMARK 280 PEG 3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 282.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 101.53867 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 50.76933 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 76.15400 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 25.38467 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 126.92333 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 101.53867 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 50.76933 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 25.38467 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 76.15400 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 126.92333 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: DIMERIC 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 LEU A 336 REMARK 465 LYS A 337 REMARK 465 GLU A 338 REMARK 465 GLU A 339 REMARK 465 ARG A 340 REMARK 465 GLN A 341 REMARK 465 VAL A 342 REMARK 465 ASP A 343 REMARK 465 ARG A 393 REMARK 465 LEU A 394 REMARK 465 MET B 47 REMARK 465 HIS B 48 REMARK 465 HIS B 49 REMARK 465 HIS B 50 REMARK 465 HIS B 51 REMARK 465 HIS B 52 REMARK 465 HIS B 53 REMARK 465 LEU B 54 REMARK 465 VAL B 55 REMARK 465 PRO B 56 REMARK 465 ARG B 57 REMARK 465 LEU B 336 REMARK 465 LYS B 337 REMARK 465 GLU B 338 REMARK 465 GLU B 339 REMARK 465 ARG B 340 REMARK 465 GLN B 341 REMARK 465 VAL B 342 REMARK 465 ASP B 343 REMARK 465 THR B 391 REMARK 465 LEU B 392 REMARK 465 ARG B 393 REMARK 465 LEU B 394 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 LEU A 54 REMARK 475 VAL A 55 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 ARG A 57 CB CG CD NE CZ NH1 NH2 REMARK 480 LYS A 220 CB CG CD CE NZ REMARK 480 LYS A 243 CB CG CD CE NZ REMARK 480 GLN A 269 CG CD OE1 NE2 REMARK 480 GLU A 309 CG CD OE1 OE2 REMARK 480 LYS A 313 CG CD CE NZ REMARK 480 LYS B 74 CG CD CE NZ REMARK 480 LYS B 109 CD CE NZ REMARK 480 ARG B 112 CG CD NE CZ NH1 NH2 REMARK 480 LYS B 220 CD CE NZ REMARK 480 ARG B 368 CB CG CD NE CZ NH1 NH2 REMARK 480 ARG B 385 CB CG CD NE CZ NH1 NH2 REMARK 480 LYS B 387 CG CD CE NZ REMARK 480 ARG B 388 CB CG CD NE CZ NH1 NH2 REMARK 480 LYS B 390 CB CG CD CE NZ 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 SER A 307 NE2 GLN A 310 2.02 REMARK 500 O VAL B 299 NH1 ARG B 305 2.17 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 NH1 ARG A 281 O MET A 286 11454 2.19 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 B 274 NE - CZ - NH1 ANGL. DEV. = -3.1 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 TYR A 65 -12.38 82.52 REMARK 500 ASP A 69 -67.56 -108.65 REMARK 500 ARG A 187 -7.19 73.83 REMARK 500 ASP A 206 74.79 59.49 REMARK 500 PHE A 207 31.48 -82.46 REMARK 500 LEU A 345 73.59 61.23 REMARK 500 ASN A 346 86.87 -67.05 REMARK 500 MET A 356 5.59 -69.53 REMARK 500 ARG B 187 -1.25 73.61 REMARK 500 ASP B 206 70.69 56.62 REMARK 500 PHE B 207 38.26 -81.92 REMARK 500 ASN B 346 72.94 51.82 REMARK 500 MET B 356 0.76 -66.49 REMARK 500 REMARK 500 REMARK: NULL DBREF 8OKU A 60 394 UNP Q9Y2K2 SIK3_HUMAN 60 394 DBREF 8OKU B 60 394 UNP Q9Y2K2 SIK3_HUMAN 60 394 SEQADV 8OKU MET A 47 UNP Q9Y2K2 INITIATING METHIONINE SEQADV 8OKU HIS A 48 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU HIS A 49 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU HIS A 50 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU HIS A 51 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU HIS A 52 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU HIS A 53 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU LEU A 54 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU VAL A 55 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU PRO A 56 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU ARG A 57 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU GLY A 58 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU SER A 59 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU ASP A 221 UNP Q9Y2K2 THR 221 ENGINEERED MUTATION SEQADV 8OKU MET B 47 UNP Q9Y2K2 INITIATING METHIONINE SEQADV 8OKU HIS B 48 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU HIS B 49 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU HIS B 50 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU HIS B 51 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU HIS B 52 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU HIS B 53 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU LEU B 54 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU VAL B 55 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU PRO B 56 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU ARG B 57 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU GLY B 58 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU SER B 59 UNP Q9Y2K2 EXPRESSION TAG SEQADV 8OKU ASP B 221 UNP Q9Y2K2 THR 221 ENGINEERED MUTATION SEQRES 1 A 348 MET HIS HIS HIS HIS HIS HIS LEU VAL PRO ARG GLY SER SEQRES 2 A 348 PRO ALA ARG ILE GLY TYR TYR GLU ILE ASP ARG THR ILE SEQRES 3 A 348 GLY LYS GLY ASN PHE ALA VAL VAL LYS ARG ALA THR HIS SEQRES 4 A 348 LEU VAL THR LYS ALA LYS VAL ALA ILE LYS ILE ILE ASP SEQRES 5 A 348 LYS THR GLN LEU ASP GLU GLU ASN LEU LYS LYS ILE PHE SEQRES 6 A 348 ARG GLU VAL GLN ILE MET LYS MET LEU CYS HIS PRO HIS SEQRES 7 A 348 ILE ILE ARG LEU TYR GLN VAL MET GLU THR GLU ARG MET SEQRES 8 A 348 ILE TYR LEU VAL THR GLU TYR ALA SER GLY GLY GLU ILE SEQRES 9 A 348 PHE ASP HIS LEU VAL ALA HIS GLY ARG MET ALA GLU LYS SEQRES 10 A 348 GLU ALA ARG ARG LYS PHE LYS GLN ILE VAL THR ALA VAL SEQRES 11 A 348 TYR PHE CYS HIS CYS ARG ASN ILE VAL HIS ARG ASP LEU SEQRES 12 A 348 LYS ALA GLU ASN LEU LEU LEU ASP ALA ASN LEU ASN ILE SEQRES 13 A 348 LYS ILE ALA ASP PHE GLY PHE SER ASN LEU PHE THR PRO SEQRES 14 A 348 GLY GLN LEU LEU LYS ASP TRP CYS GLY SER PRO PRO TYR SEQRES 15 A 348 ALA ALA PRO GLU LEU PHE GLU GLY LYS GLU TYR ASP GLY SEQRES 16 A 348 PRO LYS VAL ASP ILE TRP SER LEU GLY VAL VAL LEU TYR SEQRES 17 A 348 VAL LEU VAL CYS GLY ALA LEU PRO PHE ASP GLY SER THR SEQRES 18 A 348 LEU GLN ASN LEU ARG ALA ARG VAL LEU SER GLY LYS PHE SEQRES 19 A 348 ARG ILE PRO PHE PHE MET SER THR GLU CYS GLU HIS LEU SEQRES 20 A 348 ILE ARG HIS MET LEU VAL LEU ASP PRO ASN LYS ARG LEU SEQRES 21 A 348 SER MET GLU GLN ILE CYS LYS HIS LYS TRP MET LYS LEU SEQRES 22 A 348 GLY ASP ALA ASP PRO ASN PHE ASP ARG LEU ILE ALA GLU SEQRES 23 A 348 CYS GLN GLN LEU LYS GLU GLU ARG GLN VAL ASP PRO LEU SEQRES 24 A 348 ASN GLU ASP VAL LEU LEU ALA MET GLU ASP MET GLY LEU SEQRES 25 A 348 ASP LYS GLU GLN THR LEU GLN SER LEU ARG SER ASP ALA SEQRES 26 A 348 TYR ASP HIS TYR SER ALA ILE TYR SER LEU LEU CYS ASP SEQRES 27 A 348 ARG HIS LYS ARG HIS LYS THR LEU ARG LEU SEQRES 1 B 348 MET HIS HIS HIS HIS HIS HIS LEU VAL PRO ARG GLY SER SEQRES 2 B 348 PRO ALA ARG ILE GLY TYR TYR GLU ILE ASP ARG THR ILE SEQRES 3 B 348 GLY LYS GLY ASN PHE ALA VAL VAL LYS ARG ALA THR HIS SEQRES 4 B 348 LEU VAL THR LYS ALA LYS VAL ALA ILE LYS ILE ILE ASP SEQRES 5 B 348 LYS THR GLN LEU ASP GLU GLU ASN LEU LYS LYS ILE PHE SEQRES 6 B 348 ARG GLU VAL GLN ILE MET LYS MET LEU CYS HIS PRO HIS SEQRES 7 B 348 ILE ILE ARG LEU TYR GLN VAL MET GLU THR GLU ARG MET SEQRES 8 B 348 ILE TYR LEU VAL THR GLU TYR ALA SER GLY GLY GLU ILE SEQRES 9 B 348 PHE ASP HIS LEU VAL ALA HIS GLY ARG MET ALA GLU LYS SEQRES 10 B 348 GLU ALA ARG ARG LYS PHE LYS GLN ILE VAL THR ALA VAL SEQRES 11 B 348 TYR PHE CYS HIS CYS ARG ASN ILE VAL HIS ARG ASP LEU SEQRES 12 B 348 LYS ALA GLU ASN LEU LEU LEU ASP ALA ASN LEU ASN ILE SEQRES 13 B 348 LYS ILE ALA ASP PHE GLY PHE SER ASN LEU PHE THR PRO SEQRES 14 B 348 GLY GLN LEU LEU LYS ASP TRP CYS GLY SER PRO PRO TYR SEQRES 15 B 348 ALA ALA PRO GLU LEU PHE GLU GLY LYS GLU TYR ASP GLY SEQRES 16 B 348 PRO LYS VAL ASP ILE TRP SER LEU GLY VAL VAL LEU TYR SEQRES 17 B 348 VAL LEU VAL CYS GLY ALA LEU PRO PHE ASP GLY SER THR SEQRES 18 B 348 LEU GLN ASN LEU ARG ALA ARG VAL LEU SER GLY LYS PHE SEQRES 19 B 348 ARG ILE PRO PHE PHE MET SER THR GLU CYS GLU HIS LEU SEQRES 20 B 348 ILE ARG HIS MET LEU VAL LEU ASP PRO ASN LYS ARG LEU SEQRES 21 B 348 SER MET GLU GLN ILE CYS LYS HIS LYS TRP MET LYS LEU SEQRES 22 B 348 GLY ASP ALA ASP PRO ASN PHE ASP ARG LEU ILE ALA GLU SEQRES 23 B 348 CYS GLN GLN LEU LYS GLU GLU ARG GLN VAL ASP PRO LEU SEQRES 24 B 348 ASN GLU ASP VAL LEU LEU ALA MET GLU ASP MET GLY LEU SEQRES 25 B 348 ASP LYS GLU GLN THR LEU GLN SER LEU ARG SER ASP ALA SEQRES 26 B 348 TYR ASP HIS TYR SER ALA ILE TYR SER LEU LEU CYS ASP SEQRES 27 B 348 ARG HIS LYS ARG HIS LYS THR LEU ARG LEU HET VRU A 401 32 HET VRU B 401 32 HETNAM VRU ~{N}-ETHYL-4-[5-[1-(2-HYDROXYETHYL)PYRAZOL-4- HETNAM 2 VRU YL]BENZIMIDAZOL-1-YL]-2,6-DIMETHOXY-BENZAMIDE FORMUL 3 VRU 2(C23 H25 N5 O4) FORMUL 5 HOH *7(H2 O) HELIX 1 AA1 THR A 100 LEU A 102 5 3 HELIX 2 AA2 ASP A 103 LEU A 120 1 18 HELIX 3 AA3 ILE A 150 GLY A 158 1 9 HELIX 4 AA4 ALA A 161 ARG A 182 1 22 HELIX 5 AA5 LYS A 190 GLU A 192 5 3 HELIX 6 AA6 SER A 225 ALA A 229 5 5 HELIX 7 AA7 ALA A 230 GLY A 236 1 7 HELIX 8 AA8 ASP A 240 GLY A 259 1 20 HELIX 9 AA9 THR A 267 GLY A 278 1 12 HELIX 10 AB1 SER A 287 LEU A 298 1 12 HELIX 11 AB2 SER A 307 HIS A 314 1 8 HELIX 12 AB3 HIS A 314 LEU A 319 1 6 HELIX 13 AB4 ASP A 323 CYS A 333 1 11 HELIX 14 AB5 ASN A 346 MET A 356 1 11 HELIX 15 AB6 ASP A 359 ASP A 370 1 12 HELIX 16 AB7 ASP A 373 ARG A 388 1 16 HELIX 17 AB8 THR B 100 LEU B 102 5 3 HELIX 18 AB9 ASP B 103 LEU B 120 1 18 HELIX 19 AC1 ILE B 150 GLY B 158 1 9 HELIX 20 AC2 ALA B 161 ARG B 182 1 22 HELIX 21 AC3 LYS B 190 GLU B 192 5 3 HELIX 22 AC4 ASP B 206 SER B 210 5 5 HELIX 23 AC5 ALA B 230 GLY B 236 1 7 HELIX 24 AC6 ASP B 240 GLY B 259 1 20 HELIX 25 AC7 THR B 267 GLY B 278 1 12 HELIX 26 AC8 SER B 287 LEU B 298 1 12 HELIX 27 AC9 ASP B 301 ARG B 305 5 5 HELIX 28 AD1 SER B 307 LYS B 313 1 7 HELIX 29 AD2 HIS B 314 LEU B 319 1 6 HELIX 30 AD3 ASP B 323 CYS B 333 1 11 HELIX 31 AD4 ASN B 346 MET B 356 1 11 HELIX 32 AD5 ASP B 359 ASP B 370 1 12 HELIX 33 AD6 ASP B 373 HIS B 389 1 17 SHEET 1 AA1 6 ARG A 62 ILE A 63 0 SHEET 2 AA1 6 TYR A 66 LYS A 74 -1 O TYR A 66 N ILE A 63 SHEET 3 AA1 6 ALA A 78 HIS A 85 -1 O VAL A 80 N ILE A 72 SHEET 4 AA1 6 LYS A 91 ASP A 98 -1 O VAL A 92 N ALA A 83 SHEET 5 AA1 6 MET A 137 GLU A 143 -1 O LEU A 140 N LYS A 95 SHEET 6 AA1 6 LEU A 128 GLU A 133 -1 N MET A 132 O TYR A 139 SHEET 1 AA2 3 GLY A 148 GLU A 149 0 SHEET 2 AA2 3 LEU A 194 LEU A 196 -1 O LEU A 196 N GLY A 148 SHEET 3 AA2 3 ILE A 202 ILE A 204 -1 O LYS A 203 N LEU A 195 SHEET 1 AA3 2 ILE A 184 VAL A 185 0 SHEET 2 AA3 2 ASN A 211 LEU A 212 -1 O ASN A 211 N VAL A 185 SHEET 1 AA4 5 TYR B 66 LYS B 74 0 SHEET 2 AA4 5 ALA B 78 HIS B 85 -1 O VAL B 80 N ILE B 72 SHEET 3 AA4 5 LYS B 91 ASP B 98 -1 O VAL B 92 N ALA B 83 SHEET 4 AA4 5 MET B 137 GLU B 143 -1 O THR B 142 N ALA B 93 SHEET 5 AA4 5 LEU B 128 GLU B 133 -1 N MET B 132 O TYR B 139 SHEET 1 AA5 3 GLY B 148 GLU B 149 0 SHEET 2 AA5 3 LEU B 194 LEU B 196 -1 O LEU B 196 N GLY B 148 SHEET 3 AA5 3 ILE B 202 ILE B 204 -1 O LYS B 203 N LEU B 195 SHEET 1 AA6 2 ILE B 184 VAL B 185 0 SHEET 2 AA6 2 ASN B 211 LEU B 212 -1 O ASN B 211 N VAL B 185 CRYST1 174.553 174.553 152.308 90.00 90.00 120.00 P 65 2 2 24 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 0.005729 0.003308 0.000000 0.00000 SCALE2 0.000000 0.006615 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006566 0.00000