PDB Short entry for 4A9U HEADER TRANSFERASE 28-NOV-11 4A9U TITLE CRYSTAL STRUCTURE OF HUMAN CHK2 IN COMPLEX WITH BENZIMIDAZOLE TITLE 2 CARBOXAMIDE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE CHK2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN, RESIDUES 210-531; COMPND 5 SYNONYM: CHK2 CHECKPOINT HOMOLOG, CDS1 HOMOLOG, HUCDS1, HCDS1, COMPND 6 CHECKPOINT KINASE 2; COMPND 7 EC: 2.7.11.1; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA2 PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PTHREE-E; SOURCE 11 OTHER_DETAILS: HUMAN CDNA LIBRARY KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.MATIJSSEN,M.C.SILVA-SANTISTEBAN,I.M.WESTWOOD,S.SIDDIQUE,V.CHOI, AUTHOR 2 P.SHELDRAKE,R.L.M.VAN MONTFORT,J.BLAGG REVDAT 4 20-DEC-23 4A9U 1 REMARK REVDAT 3 07-NOV-12 4A9U 1 JRNL REVDAT 2 24-OCT-12 4A9U 1 JRNL REVDAT 1 10-OCT-12 4A9U 0 JRNL AUTH C.MATIJSSEN,M.C.SILVA-SANTISTEBAN,I.M.WESTWOOD,S.SIDDIQUE, JRNL AUTH 2 V.CHOI,P.SHELDRAKE,R.L.M.VAN MONTFORT,J.BLAGG JRNL TITL BENZIMIDAZOLE INHIBITORS OF THE PROTEIN KINASE CHK2: JRNL TITL 2 CLARIFICATION OF THE BINDING MODE BY FLEXIBLE SIDE CHAIN JRNL TITL 3 DOCKING AND PROTEIN-LIGAND CRYSTALLOGRAPHY JRNL REF BIOORG.MED.CHEM. V. 20 6630 2012 JRNL REFN ISSN 0968-0896 JRNL PMID 23058106 JRNL DOI 10.1016/J.BMC.2012.09.024 REMARK 2 REMARK 2 RESOLUTION. 2.48 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : MLHL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.48 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.93 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.290 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 30202 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1548 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 40.9363 - 5.5117 0.98 2633 121 0.1778 0.2152 REMARK 3 2 5.5117 - 4.3764 0.99 2596 141 0.1442 0.1569 REMARK 3 3 4.3764 - 3.8237 0.99 2635 128 0.1546 0.1604 REMARK 3 4 3.8237 - 3.4743 0.99 2632 142 0.1821 0.2247 REMARK 3 5 3.4743 - 3.2253 0.99 2618 129 0.1849 0.2574 REMARK 3 6 3.2253 - 3.0352 0.99 2606 121 0.1933 0.2134 REMARK 3 7 3.0352 - 2.8833 0.99 2625 162 0.2086 0.2384 REMARK 3 8 2.8833 - 2.7578 0.98 2548 151 0.2182 0.2366 REMARK 3 9 2.7578 - 2.6517 0.98 2611 148 0.2348 0.2619 REMARK 3 10 2.6517 - 2.5602 0.98 2599 141 0.2674 0.2812 REMARK 3 11 2.5602 - 2.4801 0.97 2551 164 0.3098 0.3411 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.32 REMARK 3 B_SOL : 45.04 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.750 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.390 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 49.13 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.09150 REMARK 3 B22 (A**2) : 1.09150 REMARK 3 B33 (A**2) : -2.18290 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 2331 REMARK 3 ANGLE : 0.613 3141 REMARK 3 CHIRALITY : 0.043 366 REMARK 3 PLANARITY : 0.002 388 REMARK 3 DIHEDRAL : 13.914 852 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 209:378) REMARK 3 ORIGIN FOR THE GROUP (A): 32.9001 -35.5961 9.6312 REMARK 3 T TENSOR REMARK 3 T11: 0.2285 T22: 0.2208 REMARK 3 T33: 0.2044 T12: -0.0144 REMARK 3 T13: -0.0074 T23: 0.0003 REMARK 3 L TENSOR REMARK 3 L11: 4.3128 L22: 2.9718 REMARK 3 L33: 0.5854 L12: -3.0838 REMARK 3 L13: -0.8214 L23: 1.1042 REMARK 3 S TENSOR REMARK 3 S11: -0.2024 S12: -0.1880 S13: 0.1837 REMARK 3 S21: 0.0426 S22: 0.1649 S23: -0.2678 REMARK 3 S31: 0.0357 S32: 0.1878 S33: 0.0756 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 379:488) REMARK 3 ORIGIN FOR THE GROUP (A): 15.8287 -19.1102 15.5028 REMARK 3 T TENSOR REMARK 3 T11: 0.2717 T22: 0.2145 REMARK 3 T33: 0.4305 T12: 0.0174 REMARK 3 T13: -0.0926 T23: 0.0194 REMARK 3 L TENSOR REMARK 3 L11: 1.9619 L22: 1.1225 REMARK 3 L33: 4.8160 L12: -1.0440 REMARK 3 L13: -1.3315 L23: 0.0962 REMARK 3 S TENSOR REMARK 3 S11: 0.0761 S12: 0.1200 S13: 0.4194 REMARK 3 S21: -0.2880 S22: -0.0666 S23: -0.1696 REMARK 3 S31: -0.2938 S32: -0.1986 S33: 0.0158 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 489:512) REMARK 3 ORIGIN FOR THE GROUP (A): 21.3028 -40.0256 -8.0086 REMARK 3 T TENSOR REMARK 3 T11: 0.8857 T22: 0.6627 REMARK 3 T33: 0.3268 T12: -0.0364 REMARK 3 T13: -0.0816 T23: -0.0929 REMARK 3 L TENSOR REMARK 3 L11: 6.7941 L22: 3.9491 REMARK 3 L33: 0.7327 L12: -2.3846 REMARK 3 L13: 0.1317 L23: -1.5542 REMARK 3 S TENSOR REMARK 3 S11: -0.1931 S12: 0.3596 S13: -0.9674 REMARK 3 S21: -0.3008 S22: 0.0720 S23: 0.2278 REMARK 3 S31: -0.0732 S32: -0.4051 S33: 0.1709 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4A9U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-NOV-11. REMARK 100 THE DEPOSITION ID IS D_1290050504. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-MAR-09 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 : 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) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12692 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 60.260 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.45000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.700 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: PDB ENTRY 2WTJ REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.5, 0.2 M MAGNESIUM REMARK 280 NITRATE, 8-16% (W/V) PEG 3350 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 62.27333 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 31.13667 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 31.13667 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 62.27333 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29230 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 8.9 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 62.27333 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 203 REMARK 465 PRO A 204 REMARK 465 LEU A 205 REMARK 465 GLY A 206 REMARK 465 SER A 207 REMARK 465 HIS A 208 REMARK 465 GLY A 229 REMARK 465 ALA A 230 REMARK 465 CYS A 231 REMARK 465 GLY A 232 REMARK 465 ARG A 254 REMARK 465 LYS A 255 REMARK 465 PHE A 256 REMARK 465 ALA A 257 REMARK 465 ILE A 258 REMARK 465 GLY A 259 REMARK 465 SER A 260 REMARK 465 ALA A 261 REMARK 465 ARG A 262 REMARK 465 GLU A 263 REMARK 465 ALA A 264 REMARK 465 GLY A 376 REMARK 465 GLU A 377 REMARK 465 GLN A 514 REMARK 465 PRO A 515 REMARK 465 SER A 516 REMARK 465 THR A 517 REMARK 465 SER A 518 REMARK 465 ARG A 519 REMARK 465 LYS A 520 REMARK 465 ARG A 521 REMARK 465 PRO A 522 REMARK 465 ARG A 523 REMARK 465 GLU A 524 REMARK 465 GLY A 525 REMARK 465 GLU A 526 REMARK 465 ALA A 527 REMARK 465 GLU A 528 REMARK 465 GLY A 529 REMARK 465 ALA A 530 REMARK 465 GLU A 531 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 MET A 209 CG SD CE REMARK 470 LYS A 224 CD CE NZ REMARK 470 LYS A 241 CE NZ REMARK 470 LYS A 245 CE NZ REMARK 470 ASP A 265 CG OD1 OD2 REMARK 470 LEU A 268 CG CD1 CD2 REMARK 470 GLU A 271 CG CD OE1 OE2 REMARK 470 GLU A 275 CG CD OE1 OE2 REMARK 470 LYS A 279 CD CE NZ REMARK 470 GLU A 295 CD OE1 OE2 REMARK 470 LYS A 373 CD CE NZ REMARK 470 MET A 381 CG SD CE REMARK 470 ARG A 382 CD NE CZ NH1 NH2 REMARK 470 ARG A 431 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 433 CG CD OE1 NE2 REMARK 470 LYS A 444 CD CE NZ REMARK 470 GLU A 454 CG CD OE1 OE2 REMARK 470 GLU A 457 CG CD OE1 OE2 REMARK 470 LYS A 494 CD CE NZ REMARK 470 GLU A 501 CD OE1 OE2 REMARK 470 GLU A 504 CD OE1 OE2 REMARK 470 SER A 505 OG REMARK 470 LEU A 508 CG CD1 CD2 REMARK 470 LEU A 512 CG CD1 CD2 REMARK 470 ALA A 513 CA C O CB 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 N LEU A 508 O HOH A 2088 0.78 REMARK 500 O LEU A 508 O HOH A 2013 1.42 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 O THR A 242 O2 EDO A 1524 2544 2.07 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 SER A 223 -149.81 -135.16 REMARK 500 ALA A 294 -138.23 -118.16 REMARK 500 ARG A 346 -0.80 79.15 REMARK 500 ASP A 347 39.55 -144.86 REMARK 500 ASP A 368 86.20 71.78 REMARK 500 LEU A 467 48.25 -92.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 2-{4-[(1-BENZYLPIPERIDIN-4-YL)METHOXY]PHENYL} REMARK 600 -1H-BENZIMIDAZOLE-6-CARBOXAMIDE IS REPRESENTED BY THE RESIDUE A9U. REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 A9U A 1516 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 1514 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1515 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE A9U A 1516 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1517 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1518 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1519 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1520 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1521 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1522 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1523 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1524 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1525 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WTI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CHK2 IN COMPLEX WITH AN INHIBITOR REMARK 900 RELATED ID: 2CN8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN CHK2 IN COMPLEX WITH REMARK 900 DEBROMOHYMENIALDISINE REMARK 900 RELATED ID: 2YCF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CHECKPOINT KINASE 2 IN COMPLEX WITH INHIBITOR REMARK 900 PV1531 REMARK 900 RELATED ID: 2W0J RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CHK2 IN COMPLEX WITH NSC 109555 , A SPECIFIC REMARK 900 INHIBITOR REMARK 900 RELATED ID: 2YIR RELATED DB: PDB REMARK 900 STRUCTURAL ANALYSIS OF CHECKPOINT KINASE 2 IN COMPLEX WITH REMARK 900 INHIBITOR PV1352 REMARK 900 RELATED ID: 2WTC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CHK2 IN COMPLEX WITH AN INHIBITOR REMARK 900 RELATED ID: 4A9R RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN CHK2 IN COMPLEX WITH BENZIMIDAZOLE REMARK 900 CARBOXAMIDE INHIBITOR REMARK 900 RELATED ID: 2YIT RELATED DB: PDB REMARK 900 STRUCTURAL ANALYSIS OF CHECKPOINT KINASE 2 IN COMPLEX WITH PV1162, REMARK 900 A NOVEL INHIBITOR REMARK 900 RELATED ID: 2YCR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CHECKPOINT KINASE 2 IN COMPLEX WITH INHIBITOR REMARK 900 PV976 REMARK 900 RELATED ID: 2YCQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CHECKPOINT KINASE 2 IN COMPLEX WITH INHIBITOR REMARK 900 PV1115 REMARK 900 RELATED ID: 1GXC RELATED DB: PDB REMARK 900 FHA DOMAIN FROM HUMAN CHK2 KINASE IN COMPLEX WITH A SYNTHETIC REMARK 900 PHOSPHOPEPTIDE REMARK 900 RELATED ID: 2WTD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CHK2 IN COMPLEX WITH AN INHIBITOR REMARK 900 RELATED ID: 2XBJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CHK2 IN COMPLEX WITH AN INHIBITOR REMARK 900 RELATED ID: 2YCS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CHECKPOINT KINASE 2 IN COMPLEX WITH PV788 REMARK 900 RELATED ID: 2WTJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CHK2 IN COMPLEX WITH AN INHIBITOR REMARK 900 RELATED ID: 2XK9 RELATED DB: PDB REMARK 900 STRUCTURAL ANALYSIS OF CHECKPOINT KINASE 2 (CHK2) IN COMPLEX WITH REMARK 900 INHIBITOR PV1533 REMARK 900 RELATED ID: 2XM9 RELATED DB: PDB REMARK 900 STRUCTURE OF A SMALL MOLECULE INHIBITOR WITH THE KINASE DOMAIN OF REMARK 900 CHK2 REMARK 900 RELATED ID: 2W7X RELATED DB: PDB REMARK 900 CELLULAR INHIBITION OF CHECKPOINT KINASE 2 AND POTENTIATION OF REMARK 900 CYTOTOXIC DRUGS BY NOVEL CHK2 INHIBITOR PV1019 REMARK 900 RELATED ID: 2CN5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN CHK2 IN COMPLEX WITH ADP REMARK 900 RELATED ID: 2YIQ RELATED DB: PDB REMARK 900 STRUCTURAL ANALYSIS OF CHECKPOINT KINASE 2 IN COMPLEX WITH REMARK 900 INHIBITOR PV1322 REMARK 900 RELATED ID: 2XM8 RELATED DB: PDB REMARK 900 CO-CRYSTAL STRUCTURE OF A SMALL MOLECULE INHIBITOR BOUND TO THE REMARK 900 KINASE DOMAIN OF CHK2 REMARK 900 RELATED ID: 4A9T RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN CHK2 IN COMPLEX WITH BENZIMIDAZOLE REMARK 900 CARBOXAMIDE INHIBITOR REMARK 900 RELATED ID: 4A9S RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN CHK2 IN COMPLEX WITH BENZIMIDAZOLE REMARK 900 CARBOXAMIDE INHIBITOR DBREF 4A9U A 210 531 UNP O96017 CHK2_HUMAN 210 531 SEQADV 4A9U GLY A 203 UNP O96017 EXPRESSION TAG SEQADV 4A9U PRO A 204 UNP O96017 EXPRESSION TAG SEQADV 4A9U LEU A 205 UNP O96017 EXPRESSION TAG SEQADV 4A9U GLY A 206 UNP O96017 EXPRESSION TAG SEQADV 4A9U SER A 207 UNP O96017 EXPRESSION TAG SEQADV 4A9U HIS A 208 UNP O96017 EXPRESSION TAG SEQADV 4A9U MET A 209 UNP O96017 EXPRESSION TAG SEQRES 1 A 329 GLY PRO LEU GLY SER HIS MET SER VAL TYR PRO LYS ALA SEQRES 2 A 329 LEU ARG ASP GLU TYR ILE MET SER LYS THR LEU GLY SER SEQRES 3 A 329 GLY ALA CYS GLY GLU VAL LYS LEU ALA PHE GLU ARG LYS SEQRES 4 A 329 THR CYS LYS LYS VAL ALA ILE LYS ILE ILE SER LYS ARG SEQRES 5 A 329 LYS PHE ALA ILE GLY SER ALA ARG GLU ALA ASP PRO ALA SEQRES 6 A 329 LEU ASN VAL GLU THR GLU ILE GLU ILE LEU LYS LYS LEU SEQRES 7 A 329 ASN HIS PRO CYS ILE ILE LYS ILE LYS ASN PHE PHE ASP SEQRES 8 A 329 ALA GLU ASP TYR TYR ILE VAL LEU GLU LEU MET GLU GLY SEQRES 9 A 329 GLY GLU LEU PHE ASP LYS VAL VAL GLY ASN LYS ARG LEU SEQRES 10 A 329 LYS GLU ALA THR CYS LYS LEU TYR PHE TYR GLN MET LEU SEQRES 11 A 329 LEU ALA VAL GLN TYR LEU HIS GLU ASN GLY ILE ILE HIS SEQRES 12 A 329 ARG ASP LEU LYS PRO GLU ASN VAL LEU LEU SER SER GLN SEQRES 13 A 329 GLU GLU ASP CYS LEU ILE LYS ILE THR ASP PHE GLY HIS SEQRES 14 A 329 SER LYS ILE LEU GLY GLU THR SER LEU MET ARG THR LEU SEQRES 15 A 329 CYS GLY THR PRO THR TYR LEU ALA PRO GLU VAL LEU VAL SEQRES 16 A 329 SER VAL GLY THR ALA GLY TYR ASN ARG ALA VAL ASP CYS SEQRES 17 A 329 TRP SER LEU GLY VAL ILE LEU PHE ILE CYS LEU SER GLY SEQRES 18 A 329 TYR PRO PRO PHE SER GLU HIS ARG THR GLN VAL SER LEU SEQRES 19 A 329 LYS ASP GLN ILE THR SER GLY LYS TYR ASN PHE ILE PRO SEQRES 20 A 329 GLU VAL TRP ALA GLU VAL SER GLU LYS ALA LEU ASP LEU SEQRES 21 A 329 VAL LYS LYS LEU LEU VAL VAL ASP PRO LYS ALA ARG PHE SEQRES 22 A 329 THR THR GLU GLU ALA LEU ARG HIS PRO TRP LEU GLN ASP SEQRES 23 A 329 GLU ASP MET LYS ARG LYS PHE GLN ASP LEU LEU SER GLU SEQRES 24 A 329 GLU ASN GLU SER THR ALA LEU PRO GLN VAL LEU ALA GLN SEQRES 25 A 329 PRO SER THR SER ARG LYS ARG PRO ARG GLU GLY GLU ALA SEQRES 26 A 329 GLU GLY ALA GLU HET NO3 A1514 4 HET EDO A1515 4 HET A9U A1516 26 HET EDO A1517 4 HET EDO A1518 4 HET EDO A1519 4 HET EDO A1520 4 HET EDO A1521 4 HET EDO A1522 4 HET EDO A1523 4 HET EDO A1524 4 HET CL A1525 1 HETNAM NO3 NITRATE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM A9U 2-{4-[(1-BENZYLPIPERIDIN-4-YL)METHOXY]PHENYL}-1H- HETNAM 2 A9U BENZIMIDAZOLE-6-CARBOXAMIDE HETNAM CL CHLORIDE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 NO3 N O3 1- FORMUL 3 EDO 9(C2 H6 O2) FORMUL 4 A9U C27 H28 N4 O2 FORMUL 13 CL CL 1- FORMUL 14 HOH *88(H2 O) HELIX 1 1 PRO A 213 GLU A 219 1 7 HELIX 2 2 PRO A 266 LEU A 280 1 15 HELIX 3 3 LEU A 309 VAL A 314 1 6 HELIX 4 4 GLY A 315 LYS A 317 5 3 HELIX 5 5 LYS A 320 ASN A 341 1 22 HELIX 6 6 LYS A 349 GLU A 351 5 3 HELIX 7 7 THR A 378 GLY A 386 1 9 HELIX 8 8 ALA A 392 VAL A 399 1 8 HELIX 9 9 ARG A 406 GLY A 423 1 18 HELIX 10 10 SER A 435 GLY A 443 1 9 HELIX 11 11 ILE A 448 ALA A 453 1 6 HELIX 12 12 SER A 456 LEU A 467 1 12 HELIX 13 13 THR A 476 ARG A 482 1 7 HELIX 14 14 HIS A 483 GLN A 487 5 5 HELIX 15 15 ASP A 488 GLU A 504 1 17 SHEET 1 AA 5 TYR A 220 GLY A 227 0 SHEET 2 AA 5 VAL A 234 GLU A 239 -1 O VAL A 234 N LEU A 226 SHEET 3 AA 5 LYS A 244 SER A 252 -1 O LYS A 244 N GLU A 239 SHEET 4 AA 5 ASP A 296 LEU A 301 -1 O TYR A 297 N ILE A 251 SHEET 5 AA 5 ILE A 288 ASP A 293 -1 N LYS A 289 O VAL A 300 SHEET 1 AB 3 GLY A 307 GLU A 308 0 SHEET 2 AB 3 VAL A 353 LEU A 355 -1 N LEU A 355 O GLY A 307 SHEET 3 AB 3 ILE A 364 ILE A 366 -1 O LYS A 365 N LEU A 354 SHEET 1 AC 2 ILE A 343 ILE A 344 0 SHEET 2 AC 2 LYS A 373 ILE A 374 -1 O LYS A 373 N ILE A 344 SITE 1 AC1 5 LEU A 375 GLY A 403 TYR A 404 ASN A 405 SITE 2 AC1 5 ARG A 406 SITE 1 AC2 6 LEU A 277 LYS A 278 LEU A 280 LYS A 287 SITE 2 AC2 6 ILE A 288 HOH A2015 SITE 1 AC3 11 LYS A 249 LEU A 301 MET A 304 GLU A 305 SITE 2 AC3 11 GLY A 307 GLU A 308 LEU A 354 GLN A 358 SITE 3 AC3 11 THR A 367 ASP A 368 HOH A2025 SITE 1 AC4 3 LYS A 278 ILE A 288 ASN A 290 SITE 1 AC5 7 LYS A 465 PHE A 475 GLU A 479 ARG A 482 SITE 2 AC5 7 HIS A 483 PRO A 484 HOH A2082 SITE 1 AC6 4 GLU A 219 ASN A 290 PHE A 291 PHE A 292 SITE 1 AC7 3 ARG A 346 VAL A 408 HOH A2085 SITE 1 AC8 5 LYS A 214 GLU A 479 ARG A 482 HOH A2003 SITE 2 AC8 5 HOH A2079 SITE 1 AC9 2 GLN A 336 ARG A 482 SITE 1 BC1 7 ARG A 240 LYS A 241 GLY A 400 LYS A 472 SITE 2 BC1 7 HOH A2071 HOH A2086 HOH A2087 SITE 1 BC2 6 THR A 242 LYS A 244 GLU A 429 SER A 435 SITE 2 BC2 6 LEU A 436 LYS A 437 SITE 1 BC3 3 VAL A 211 TYR A 212 ARG A 406 CRYST1 91.070 91.070 93.410 90.00 90.00 120.00 P 32 2 1 6 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 0.010981 0.006340 0.000000 0.00000 SCALE2 0.000000 0.012679 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010705 0.00000