HEADER TRANSFERASE 26-SEP-17 6EKD TITLE CRYSTAL STRUCTURE OF JNK3 IN COMPLEX WITH A PYRIDINYLIMIDAZOLE TITLE 2 INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: MITOGEN-ACTIVATED PROTEIN KINASE 10; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MAPK 10,MAP KINASE P49 3F12,STRESS-ACTIVATED PROTEIN KINASE COMPND 5 1B,SAPK1B,STRESS-ACTIVATED PROTEIN KINASE JNK3,C-JUN N-TERMINAL COMPND 6 KINASE 3; COMPND 7 EC: 2.7.11.24; COMPND 8 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: MAPK10, JNK3, JNK3A, PRKM10, SAPK1B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN KINASE ACTIVITY MAP KINASE ACTIVITY ATP BINDING PROTEIN KEYWDS 2 PHOSPHORYLATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.T.MACEDO,T.STEHLE,B.S.BLAUM REVDAT 3 17-JAN-24 6EKD 1 REMARK REVDAT 2 22-AUG-18 6EKD 1 JRNL REVDAT 1 08-AUG-18 6EKD 0 JRNL AUTH F.ANSIDERI,J.T.MACEDO,M.EITEL,A.EL-GOKHA,D.S.ZINAD, JRNL AUTH 2 C.SCARPELLINI,M.KUDOLO,D.SCHOLLMEYER,F.M.BOECKLER,B.S.BLAUM, JRNL AUTH 3 S.A.LAUFER,P.KOCH JRNL TITL STRUCTURAL OPTIMIZATION OF A PYRIDINYLIMIDAZOLE SCAFFOLD: JRNL TITL 2 SHIFTING THE SELECTIVITY FROM P38 ALPHA MITOGEN-ACTIVATED JRNL TITL 3 PROTEIN KINASE TO C-JUN N-TERMINAL KINASE 3. JRNL REF ACS OMEGA V. 3 7809 2018 JRNL REFN ESSN 2470-1343 JRNL PMID 30087925 JRNL DOI 10.1021/ACSOMEGA.8B00668 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.48 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 19867 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1046 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1459 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.3330 REMARK 3 BIN FREE R VALUE SET COUNT : 77 REMARK 3 BIN FREE R VALUE : 0.3580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2539 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 104 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.68000 REMARK 3 B22 (A**2) : -0.10000 REMARK 3 B33 (A**2) : 0.78000 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): 0.239 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.204 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.172 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.325 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2653 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2438 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3597 ; 1.513 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5650 ; 0.980 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 328 ; 7.018 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 111 ;40.301 ;24.685 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 453 ;15.145 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;23.647 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 404 ; 0.095 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2908 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 514 ; 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): 1306 ; 1.046 ; 2.488 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1305 ; 1.046 ; 2.488 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1630 ; 1.726 ; 3.723 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1631 ; 1.725 ; 3.724 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1347 ; 1.240 ; 2.614 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1347 ; 1.236 ; 2.614 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1966 ; 1.764 ; 3.869 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2996 ; 4.485 ;30.009 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2997 ; 4.484 ;30.036 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 46 A 87 REMARK 3 ORIGIN FOR THE GROUP (A): 10.5343 47.2604 14.4557 REMARK 3 T TENSOR REMARK 3 T11: 0.1480 T22: 0.2215 REMARK 3 T33: 0.0858 T12: 0.0265 REMARK 3 T13: 0.0174 T23: -0.0944 REMARK 3 L TENSOR REMARK 3 L11: 7.4423 L22: 4.0586 REMARK 3 L33: 6.2733 L12: 1.3321 REMARK 3 L13: 1.5477 L23: 0.3903 REMARK 3 S TENSOR REMARK 3 S11: 0.1709 S12: 0.0209 S13: -0.1317 REMARK 3 S21: -0.0365 S22: -0.2857 S23: 0.3093 REMARK 3 S31: 0.0582 S32: -0.3321 S33: 0.1147 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 88 A 162 REMARK 3 ORIGIN FOR THE GROUP (A): 17.0428 40.0004 6.6906 REMARK 3 T TENSOR REMARK 3 T11: 0.1232 T22: 0.2888 REMARK 3 T33: 0.1160 T12: 0.0211 REMARK 3 T13: -0.0160 T23: -0.0763 REMARK 3 L TENSOR REMARK 3 L11: 1.1635 L22: 5.8683 REMARK 3 L33: 1.3972 L12: 0.8679 REMARK 3 L13: -0.4834 L23: 0.1966 REMARK 3 S TENSOR REMARK 3 S11: -0.0748 S12: -0.0617 S13: -0.0211 REMARK 3 S21: -0.0727 S22: 0.0321 S23: -0.1337 REMARK 3 S31: -0.0301 S32: 0.0837 S33: 0.0427 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 163 A 279 REMARK 3 ORIGIN FOR THE GROUP (A): 19.3786 19.7424 6.2794 REMARK 3 T TENSOR REMARK 3 T11: 0.1235 T22: 0.3740 REMARK 3 T33: 0.0287 T12: -0.0169 REMARK 3 T13: -0.0281 T23: -0.0302 REMARK 3 L TENSOR REMARK 3 L11: 1.7464 L22: 5.2049 REMARK 3 L33: 3.1204 L12: -0.6552 REMARK 3 L13: -0.4449 L23: -0.0293 REMARK 3 S TENSOR REMARK 3 S11: -0.0682 S12: -0.5861 S13: 0.1185 REMARK 3 S21: 0.3516 S22: -0.0080 S23: -0.1574 REMARK 3 S31: -0.0786 S32: 0.5892 S33: 0.0761 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 280 A 400 REMARK 3 ORIGIN FOR THE GROUP (A): 21.8510 15.6697 3.2946 REMARK 3 T TENSOR REMARK 3 T11: 0.1585 T22: 0.3559 REMARK 3 T33: 0.0377 T12: 0.0823 REMARK 3 T13: -0.0011 T23: 0.0324 REMARK 3 L TENSOR REMARK 3 L11: 1.7875 L22: 6.1692 REMARK 3 L33: 0.9824 L12: 0.4533 REMARK 3 L13: -0.2729 L23: 0.7814 REMARK 3 S TENSOR REMARK 3 S11: -0.0422 S12: -0.1928 S13: -0.2481 REMARK 3 S21: 0.0665 S22: 0.0402 S23: -0.1689 REMARK 3 S31: 0.1861 S32: 0.3197 S33: 0.0020 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 REMARK 4 REMARK 4 6EKD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-SEP-17. REMARK 100 THE DEPOSITION ID IS D_1200006536. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-FEB-17 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 : 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20913 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 25.80 REMARK 200 R MERGE (I) : 0.13200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.15 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 2.98200 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: MOLREP REMARK 200 STARTING MODEL: 4X21 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM BIS TRIS PH 5.5, 200 MM NACL, REMARK 280 29% PEG 3350, 1 MM AMP-PCP, 0.4 MM ZWITTERGENT 3-14, 10% REMARK 280 ETHYLENE GLYCOL, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 34.44500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 34.44500 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 40.75500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 62.41000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 40.75500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 62.41000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 34.44500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 40.75500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 62.41000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 34.44500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 40.75500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 62.41000 REMARK 290 SMTRY3 8 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: 350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15730 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 GLY A 36 REMARK 465 GLY A 37 REMARK 465 SER A 38 REMARK 465 MET A 39 REMARK 465 SER A 40 REMARK 465 LYS A 41 REMARK 465 SER A 42 REMARK 465 LYS A 43 REMARK 465 VAL A 44 REMARK 465 ASP A 45 REMARK 465 ALA A 211 REMARK 465 ARG A 212 REMARK 465 THR A 213 REMARK 465 ALA A 214 REMARK 465 GLY A 215 REMARK 465 THR A 216 REMARK 465 SER A 217 REMARK 465 PHE A 218 REMARK 465 MET A 219 REMARK 465 MET A 220 REMARK 465 THR A 221 REMARK 465 PRO A 222 REMARK 465 TYR A 223 REMARK 465 VAL A 224 REMARK 465 PRO A 365 REMARK 465 ALA A 366 REMARK 465 GLU A 367 REMARK 465 VAL A 368 REMARK 465 GLU A 369 REMARK 465 ALA A 370 REMARK 465 PRO A 371 REMARK 465 PRO A 372 REMARK 465 PRO A 373 REMARK 465 GLN A 374 REMARK 465 ILE A 375 REMARK 465 TYR A 376 REMARK 465 ASP A 377 REMARK 465 LYS A 378 REMARK 465 GLN A 379 REMARK 465 LEU A 380 REMARK 465 SER A 401 REMARK 465 GLU A 402 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 ASN A 66 OD1 ND2 REMARK 470 LYS A 68 CE NZ REMARK 470 ARG A 97 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 106 CD CE NZ REMARK 470 ARG A 107 CD NE CZ NH1 NH2 REMARK 470 LYS A 121 CE NZ REMARK 470 GLN A 158 CD OE1 NE2 REMARK 470 GLU A 160 CG CD OE1 OE2 REMARK 470 LYS A 198 CE NZ REMARK 470 VAL A 225 CG1 CG2 REMARK 470 ARG A 227 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 260 NZ REMARK 470 ARG A 266 CG CD NE CZ NH1 NH2 REMARK 470 TYR A 268 CD1 CD2 CE1 CE2 CZ OH REMARK 470 ILE A 269 CG1 CG2 CD1 REMARK 470 ASN A 273 CG OD1 ND2 REMARK 470 LYS A 274 CD CE NZ REMARK 470 GLU A 285 CD OE1 OE2 REMARK 470 LYS A 288 CD CE NZ REMARK 470 LYS A 289 CE NZ REMARK 470 GLN A 291 CG CD OE1 NE2 REMARK 470 TYR A 297 CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 299 CG CD OE1 OE2 REMARK 470 ASN A 300 CG OD1 ND2 REMARK 470 ARG A 301 CZ NH1 NH2 REMARK 470 LYS A 303 CG CD CE NZ REMARK 470 LEU A 307 CD1 CD2 REMARK 470 ASP A 321 OD1 OD2 REMARK 470 LYS A 346 CD CE NZ REMARK 470 ASP A 381 CG OD1 OD2 REMARK 470 GLU A 382 CD OE1 OE2 REMARK 470 ARG A 383 CG CD NE CZ NH1 NH2 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 188 NE - CZ - NH2 ANGL. DEV. = -3.3 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 97 67.86 -111.19 REMARK 500 GLN A 140 -53.95 -133.86 REMARK 500 ARG A 188 -9.35 79.57 REMARK 500 ASP A 267 -175.14 -170.38 REMARK 500 PRO A 284 -18.08 -48.15 REMARK 500 ASN A 300 35.07 -98.48 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 BME A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B9K A 503 DBREF 6EKD A 39 402 UNP P53779 MK10_HUMAN 39 402 SEQADV 6EKD GLY A 36 UNP P53779 EXPRESSION TAG SEQADV 6EKD GLY A 37 UNP P53779 EXPRESSION TAG SEQADV 6EKD SER A 38 UNP P53779 EXPRESSION TAG SEQRES 1 A 367 GLY GLY SER MET SER LYS SER LYS VAL ASP ASN GLN PHE SEQRES 2 A 367 TYR SER VAL GLU VAL GLY ASP SER THR PHE THR VAL LEU SEQRES 3 A 367 LYS ARG TYR GLN ASN LEU LYS PRO ILE GLY SER GLY ALA SEQRES 4 A 367 GLN GLY ILE VAL CYS ALA ALA TYR ASP ALA VAL LEU ASP SEQRES 5 A 367 ARG ASN VAL ALA ILE LYS LYS LEU SER ARG PRO PHE GLN SEQRES 6 A 367 ASN GLN THR HIS ALA LYS ARG ALA TYR ARG GLU LEU VAL SEQRES 7 A 367 LEU MET LYS CYS VAL ASN HIS LYS ASN ILE ILE SER LEU SEQRES 8 A 367 LEU ASN VAL PHE THR PRO GLN LYS THR LEU GLU GLU PHE SEQRES 9 A 367 GLN ASP VAL TYR LEU VAL MET GLU LEU MET ASP ALA ASN SEQRES 10 A 367 LEU CYS GLN VAL ILE GLN MET GLU LEU ASP HIS GLU ARG SEQRES 11 A 367 MET SER TYR LEU LEU TYR GLN MET LEU CYS GLY ILE LYS SEQRES 12 A 367 HIS LEU HIS SER ALA GLY ILE ILE HIS ARG ASP LEU LYS SEQRES 13 A 367 PRO SER ASN ILE VAL VAL LYS SER ASP CYS THR LEU LYS SEQRES 14 A 367 ILE LEU ASP PHE GLY LEU ALA ARG THR ALA GLY THR SER SEQRES 15 A 367 PHE MET MET THR PRO TYR VAL VAL THR ARG TYR TYR ARG SEQRES 16 A 367 ALA PRO GLU VAL ILE LEU GLY MET GLY TYR LYS GLU ASN SEQRES 17 A 367 VAL ASP ILE TRP SER VAL GLY CYS ILE MET GLY GLU MET SEQRES 18 A 367 VAL ARG HIS LYS ILE LEU PHE PRO GLY ARG ASP TYR ILE SEQRES 19 A 367 ASP GLN TRP ASN LYS VAL ILE GLU GLN LEU GLY THR PRO SEQRES 20 A 367 CYS PRO GLU PHE MET LYS LYS LEU GLN PRO THR VAL ARG SEQRES 21 A 367 ASN TYR VAL GLU ASN ARG PRO LYS TYR ALA GLY LEU THR SEQRES 22 A 367 PHE PRO LYS LEU PHE PRO ASP SER LEU PHE PRO ALA ASP SEQRES 23 A 367 SER GLU HIS ASN LYS LEU LYS ALA SER GLN ALA ARG ASP SEQRES 24 A 367 LEU LEU SER LYS MET LEU VAL ILE ASP PRO ALA LYS ARG SEQRES 25 A 367 ILE SER VAL ASP ASP ALA LEU GLN HIS PRO TYR ILE ASN SEQRES 26 A 367 VAL TRP TYR ASP PRO ALA GLU VAL GLU ALA PRO PRO PRO SEQRES 27 A 367 GLN ILE TYR ASP LYS GLN LEU ASP GLU ARG GLU HIS THR SEQRES 28 A 367 ILE GLU GLU TRP LYS GLU LEU ILE TYR LYS GLU VAL MET SEQRES 29 A 367 ASN SER GLU HET BME A 501 4 HET EDO A 502 4 HET B9K A 503 27 HETNAM BME BETA-MERCAPTOETHANOL HETNAM EDO 1,2-ETHANEDIOL HETNAM B9K 4-(4-METHYL-2-METHYLSULFANYL-1~{H}-IMIDAZOL-5-YL)-~{N}- HETNAM 2 B9K (4-MORPHOLIN-4-YLPHENYL)PYRIDIN-2-AMINE HETSYN EDO ETHYLENE GLYCOL FORMUL 2 BME C2 H6 O S FORMUL 3 EDO C2 H6 O2 FORMUL 4 B9K C20 H23 N5 O S FORMUL 5 HOH *104(H2 O) HELIX 1 AA1 ASN A 101 VAL A 118 1 18 HELIX 2 AA2 LEU A 153 GLN A 158 1 6 HELIX 3 AA3 ASP A 162 ALA A 183 1 22 HELIX 4 AA4 LYS A 191 SER A 193 5 3 HELIX 5 AA5 ALA A 231 LEU A 236 1 6 HELIX 6 AA6 ASN A 243 HIS A 259 1 17 HELIX 7 AA7 ASP A 267 GLY A 280 1 14 HELIX 8 AA8 PHE A 286 LEU A 290 5 5 HELIX 9 AA9 GLN A 291 ASN A 300 1 10 HELIX 10 AB1 THR A 308 PHE A 313 1 6 HELIX 11 AB2 PRO A 314 PHE A 318 5 5 HELIX 12 AB3 SER A 322 LEU A 340 1 19 HELIX 13 AB4 ASP A 343 ARG A 347 5 5 HELIX 14 AB5 SER A 349 HIS A 356 1 8 HELIX 15 AB6 HIS A 356 VAL A 361 1 6 HELIX 16 AB7 THR A 386 ASN A 400 1 15 SHEET 1 AA1 2 PHE A 48 VAL A 53 0 SHEET 2 AA1 2 SER A 56 LEU A 61 -1 O PHE A 58 N VAL A 51 SHEET 1 AA2 5 TYR A 64 GLY A 73 0 SHEET 2 AA2 5 GLY A 76 ASP A 83 -1 O ALA A 80 N LYS A 68 SHEET 3 AA2 5 ARG A 88 LEU A 95 -1 O ILE A 92 N CYS A 79 SHEET 4 AA2 5 VAL A 142 GLU A 147 -1 O LEU A 144 N LYS A 93 SHEET 5 AA2 5 LEU A 126 PHE A 130 -1 N LEU A 127 O VAL A 145 SHEET 1 AA3 3 ALA A 151 ASN A 152 0 SHEET 2 AA3 3 ILE A 195 VAL A 197 -1 O VAL A 197 N ALA A 151 SHEET 3 AA3 3 LEU A 203 ILE A 205 -1 O LYS A 204 N VAL A 196 SSBOND 1 CYS A 283 CYS A 283 1555 4555 2.19 LINK SG CYS A 201 S2 BME A 501 1555 1555 2.04 SITE 1 AC1 5 MET A 159 ARG A 165 LYS A 198 SER A 199 SITE 2 AC1 5 CYS A 201 SITE 1 AC2 1 HOH A 649 SITE 1 AC3 12 SER A 72 GLY A 73 VAL A 78 MET A 146 SITE 2 AC3 12 GLU A 147 LEU A 148 MET A 149 ASN A 152 SITE 3 AC3 12 GLN A 155 LEU A 206 HOH A 641 HOH A 661 CRYST1 81.510 124.820 68.890 90.00 90.00 90.00 C 2 2 21 8 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 0.012268 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008012 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014516 0.00000