HEADER TRANSFERASE 03-AUG-15 5D10 TITLE KINASE DOMAIN OF CSRC IN COMPLEX WITH RL236 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTO-ONCOGENE TYROSINE-PROTEIN KINASE SRC; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PROTO-ONCOGENE C-SRC,PP60C-SRC,P60-SRC; COMPND 5 EC: 2.7.10.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 3 ORGANISM_COMMON: CHICKEN; SOURCE 4 ORGANISM_TAXID: 9031; SOURCE 5 GENE: SRC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS KINASE INHIBITOR, DRUG RESISTANCE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.BECKER,S.C.MAYER-WRANGOWSKI,E.JULIAN,D.RAUH REVDAT 4 10-JAN-24 5D10 1 REMARK REVDAT 3 23-SEP-15 5D10 1 JRNL REVDAT 2 09-SEP-15 5D10 1 JRNL REVDAT 1 02-SEP-15 5D10 0 JRNL AUTH J.ENGEL,A.RICHTERS,M.GETLIK,S.TOMASSI,M.KEUL,M.TERMATHE, JRNL AUTH 2 J.LATEGAHN,C.BECKER,S.MAYER-WRANGOWSKI,C.GRUTTER, JRNL AUTH 3 N.UHLENBROCK,J.KRULL,N.SCHAUMANN,S.EPPMANN,P.KIBIES, JRNL AUTH 4 F.HOFFGAARD,J.HEIL,S.MENNINGER,S.ORTIZ-CUARAN,J.M.HEUCKMANN, JRNL AUTH 5 V.TINNEFELD,R.P.ZAHEDI,M.L.SOS,C.SCHULTZ-FADEMRECHT, JRNL AUTH 6 R.K.THOMAS,S.M.KAST,D.RAUH JRNL TITL TARGETING DRUG RESISTANCE IN EGFR WITH COVALENT INHIBITORS: JRNL TITL 2 A STRUCTURE-BASED DESIGN APPROACH. JRNL REF J.MED.CHEM. V. 58 6844 2015 JRNL REFN ISSN 0022-2623 JRNL PMID 26275028 JRNL DOI 10.1021/ACS.JMEDCHEM.5B01082 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0124 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.9 REMARK 3 NUMBER OF REFLECTIONS : 17978 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) : 0.272 REMARK 3 R VALUE (WORKING SET) : 0.269 REMARK 3 FREE R VALUE : 0.359 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.000 REMARK 3 FREE R VALUE TEST SET COUNT : 750 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1450 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.91 REMARK 3 BIN R VALUE (WORKING SET) : 0.2370 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.3590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3946 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 100 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.02 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.94000 REMARK 3 B22 (A**2) : -0.93000 REMARK 3 B33 (A**2) : 1.74000 REMARK 3 B12 (A**2) : 0.72000 REMARK 3 B13 (A**2) : 0.04000 REMARK 3 B23 (A**2) : 0.03000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.311 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.492 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.334 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.297 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.824 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.680 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4143 ; 0.014 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3920 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5621 ; 1.892 ; 1.991 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9032 ; 1.187 ; 3.005 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 498 ; 8.877 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 182 ;38.370 ;23.736 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 708 ;19.510 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;17.925 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 601 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4594 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 925 ; 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): 1983 ; 1.632 ; 2.900 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1982 ; 1.632 ; 2.900 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2469 ; 2.782 ; 4.334 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5D10 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000212496. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUL-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 - 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5417 REMARK 200 MONOCHROMATOR : MULTILAYER OPTIC (OSMIC) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18728 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.9 REMARK 200 DATA REDUNDANCY : 2.390 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.1700 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) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.18300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.730 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: 2OIQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.085-0.125 MM MES, 9-11.5 % PEG20000, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 GLY A 248 REMARK 465 HIS A 249 REMARK 465 MET A 250 REMARK 465 GLN A 251 REMARK 465 THR A 252 REMARK 465 GLN A 253 REMARK 465 GLY A 254 REMARK 465 LEU A 255 REMARK 465 ALA A 256 REMARK 465 LYS A 257 REMARK 465 GLY A 276 REMARK 465 CYS A 277 REMARK 465 PHE A 278 REMARK 465 GLY A 279 REMARK 465 PHE A 307 REMARK 465 LEU A 308 REMARK 465 GLN A 309 REMARK 465 GLU A 310 REMARK 465 PHE A 405 REMARK 465 GLY A 406 REMARK 465 LEU A 407 REMARK 465 ALA A 408 REMARK 465 ARG A 409 REMARK 465 LEU A 410 REMARK 465 ILE A 411 REMARK 465 GLU A 412 REMARK 465 ASP A 413 REMARK 465 ASN A 414 REMARK 465 GLU A 415 REMARK 465 TYR A 416 REMARK 465 THR A 417 REMARK 465 ALA A 418 REMARK 465 ARG A 419 REMARK 465 GLN A 420 REMARK 465 GLY A 421 REMARK 465 ALA A 422 REMARK 465 LYS A 423 REMARK 465 PHE A 424 REMARK 465 GLY B 248 REMARK 465 HIS B 249 REMARK 465 MET B 250 REMARK 465 GLN B 251 REMARK 465 THR B 252 REMARK 465 GLN B 253 REMARK 465 GLY B 254 REMARK 465 LEU B 255 REMARK 465 ALA B 256 REMARK 465 LYS B 298 REMARK 465 PRO B 299 REMARK 465 GLY B 300 REMARK 465 THR B 301 REMARK 465 MET B 302 REMARK 465 SER B 303 REMARK 465 PRO B 304 REMARK 465 GLU B 305 REMARK 465 ALA B 306 REMARK 465 PHE B 307 REMARK 465 LEU B 308 REMARK 465 GLN B 309 REMARK 465 GLU B 310 REMARK 465 ALA B 408 REMARK 465 ARG B 409 REMARK 465 LEU B 410 REMARK 465 ILE B 411 REMARK 465 GLU B 412 REMARK 465 ASP B 413 REMARK 465 ASN B 414 REMARK 465 GLU B 415 REMARK 465 TYR B 416 REMARK 465 THR B 417 REMARK 465 ALA B 418 REMARK 465 ARG B 419 REMARK 465 GLN B 420 REMARK 465 GLY B 421 REMARK 465 ALA B 422 REMARK 465 LYS B 423 REMARK 465 PHE B 424 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 268 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 272 CG CD CE NZ REMARK 470 GLN A 275 CG CD OE1 NE2 REMARK 470 LYS A 295 CG CD CE NZ REMARK 470 LEU A 297 CG CD1 CD2 REMARK 470 LYS A 315 CG CD CE NZ REMARK 470 GLU A 331 CG CD OE1 OE2 REMARK 470 ARG B 268 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 272 CG CD CE NZ REMARK 470 GLU B 331 CG CD OE1 OE2 REMARK 470 GLN B 526 CG CD OE1 NE2 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 MET A 302 OE2 GLU A 305 1.95 REMARK 500 CA SER A 372 OE1 GLN A 513 2.08 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 OD1 ASN A 397 NE ARG A 438 1455 2.08 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 LEU A 267 CA - CB - CG ANGL. DEV. = 14.4 DEGREES REMARK 500 LEU B 451 CA - CB - CG ANGL. DEV. = 15.2 DEGREES REMARK 500 ARG B 460 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 TRP A 260 -12.67 79.35 REMARK 500 LEU A 273 -58.41 -139.13 REMARK 500 THR A 289 -71.67 -126.95 REMARK 500 MET A 302 -3.61 81.18 REMARK 500 PRO A 304 47.13 -73.25 REMARK 500 ARG A 385 -5.04 86.08 REMARK 500 ASP A 386 48.13 -151.91 REMARK 500 GLU A 486 -2.65 67.46 REMARK 500 GLU B 270 -76.41 -127.78 REMARK 500 PHE B 278 19.71 45.67 REMARK 500 THR B 289 -50.17 -126.13 REMARK 500 ARG B 318 109.95 -165.20 REMARK 500 ARG B 385 -10.37 84.08 REMARK 500 ASP B 386 47.35 -148.61 REMARK 500 ASP B 404 -158.09 -87.44 REMARK 500 ARG B 438 82.92 -69.70 REMARK 500 GLU B 486 -8.04 69.93 REMARK 500 GLU B 510 -36.39 -33.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PRO A 299 GLY A 300 -56.02 REMARK 500 GLY A 300 THR A 301 38.13 REMARK 500 MET A 302 SER A 303 -88.12 REMARK 500 ALA B 403 ASP B 404 -33.11 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 563 A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 563 B 601 DBREF 5D10 A 251 533 UNP P00523 SRC_CHICK 251 533 DBREF 5D10 B 251 533 UNP P00523 SRC_CHICK 251 533 SEQADV 5D10 GLY A 248 UNP P00523 EXPRESSION TAG SEQADV 5D10 HIS A 249 UNP P00523 EXPRESSION TAG SEQADV 5D10 MET A 250 UNP P00523 EXPRESSION TAG SEQADV 5D10 MET A 338 UNP P00523 THR 338 ENGINEERED MUTATION SEQADV 5D10 CYS A 345 UNP P00523 SER 345 ENGINEERED MUTATION SEQADV 5D10 GLY B 248 UNP P00523 EXPRESSION TAG SEQADV 5D10 HIS B 249 UNP P00523 EXPRESSION TAG SEQADV 5D10 MET B 250 UNP P00523 EXPRESSION TAG SEQADV 5D10 MET B 338 UNP P00523 THR 338 ENGINEERED MUTATION SEQADV 5D10 CYS B 345 UNP P00523 SER 345 ENGINEERED MUTATION SEQRES 1 A 286 GLY HIS MET GLN THR GLN GLY LEU ALA LYS ASP ALA TRP SEQRES 2 A 286 GLU ILE PRO ARG GLU SER LEU ARG LEU GLU VAL LYS LEU SEQRES 3 A 286 GLY GLN GLY CYS PHE GLY GLU VAL TRP MET GLY THR TRP SEQRES 4 A 286 ASN GLY THR THR ARG VAL ALA ILE LYS THR LEU LYS PRO SEQRES 5 A 286 GLY THR MET SER PRO GLU ALA PHE LEU GLN GLU ALA GLN SEQRES 6 A 286 VAL MET LYS LYS LEU ARG HIS GLU LYS LEU VAL GLN LEU SEQRES 7 A 286 TYR ALA VAL VAL SER GLU GLU PRO ILE TYR ILE VAL MET SEQRES 8 A 286 GLU TYR MET SER LYS GLY CYS LEU LEU ASP PHE LEU LYS SEQRES 9 A 286 GLY GLU MET GLY LYS TYR LEU ARG LEU PRO GLN LEU VAL SEQRES 10 A 286 ASP MET ALA ALA GLN ILE ALA SER GLY MET ALA TYR VAL SEQRES 11 A 286 GLU ARG MET ASN TYR VAL HIS ARG ASP LEU ARG ALA ALA SEQRES 12 A 286 ASN ILE LEU VAL GLY GLU ASN LEU VAL CYS LYS VAL ALA SEQRES 13 A 286 ASP PHE GLY LEU ALA ARG LEU ILE GLU ASP ASN GLU TYR SEQRES 14 A 286 THR ALA ARG GLN GLY ALA LYS PHE PRO ILE LYS TRP THR SEQRES 15 A 286 ALA PRO GLU ALA ALA LEU TYR GLY ARG PHE THR ILE LYS SEQRES 16 A 286 SER ASP VAL TRP SER PHE GLY ILE LEU LEU THR GLU LEU SEQRES 17 A 286 THR THR LYS GLY ARG VAL PRO TYR PRO GLY MET VAL ASN SEQRES 18 A 286 ARG GLU VAL LEU ASP GLN VAL GLU ARG GLY TYR ARG MET SEQRES 19 A 286 PRO CYS PRO PRO GLU CYS PRO GLU SER LEU HIS ASP LEU SEQRES 20 A 286 MET CYS GLN CYS TRP ARG LYS ASP PRO GLU GLU ARG PRO SEQRES 21 A 286 THR PHE GLU TYR LEU GLN ALA PHE LEU GLU ASP TYR PHE SEQRES 22 A 286 THR SER THR GLU PRO GLN TYR GLN PRO GLY GLU ASN LEU SEQRES 1 B 286 GLY HIS MET GLN THR GLN GLY LEU ALA LYS ASP ALA TRP SEQRES 2 B 286 GLU ILE PRO ARG GLU SER LEU ARG LEU GLU VAL LYS LEU SEQRES 3 B 286 GLY GLN GLY CYS PHE GLY GLU VAL TRP MET GLY THR TRP SEQRES 4 B 286 ASN GLY THR THR ARG VAL ALA ILE LYS THR LEU LYS PRO SEQRES 5 B 286 GLY THR MET SER PRO GLU ALA PHE LEU GLN GLU ALA GLN SEQRES 6 B 286 VAL MET LYS LYS LEU ARG HIS GLU LYS LEU VAL GLN LEU SEQRES 7 B 286 TYR ALA VAL VAL SER GLU GLU PRO ILE TYR ILE VAL MET SEQRES 8 B 286 GLU TYR MET SER LYS GLY CYS LEU LEU ASP PHE LEU LYS SEQRES 9 B 286 GLY GLU MET GLY LYS TYR LEU ARG LEU PRO GLN LEU VAL SEQRES 10 B 286 ASP MET ALA ALA GLN ILE ALA SER GLY MET ALA TYR VAL SEQRES 11 B 286 GLU ARG MET ASN TYR VAL HIS ARG ASP LEU ARG ALA ALA SEQRES 12 B 286 ASN ILE LEU VAL GLY GLU ASN LEU VAL CYS LYS VAL ALA SEQRES 13 B 286 ASP PHE GLY LEU ALA ARG LEU ILE GLU ASP ASN GLU TYR SEQRES 14 B 286 THR ALA ARG GLN GLY ALA LYS PHE PRO ILE LYS TRP THR SEQRES 15 B 286 ALA PRO GLU ALA ALA LEU TYR GLY ARG PHE THR ILE LYS SEQRES 16 B 286 SER ASP VAL TRP SER PHE GLY ILE LEU LEU THR GLU LEU SEQRES 17 B 286 THR THR LYS GLY ARG VAL PRO TYR PRO GLY MET VAL ASN SEQRES 18 B 286 ARG GLU VAL LEU ASP GLN VAL GLU ARG GLY TYR ARG MET SEQRES 19 B 286 PRO CYS PRO PRO GLU CYS PRO GLU SER LEU HIS ASP LEU SEQRES 20 B 286 MET CYS GLN CYS TRP ARG LYS ASP PRO GLU GLU ARG PRO SEQRES 21 B 286 THR PHE GLU TYR LEU GLN ALA PHE LEU GLU ASP TYR PHE SEQRES 22 B 286 THR SER THR GLU PRO GLN TYR GLN PRO GLY GLU ASN LEU HET 563 A 601 32 HET 563 B 601 32 HETNAM 563 N-[4-({4-(4-METHYLPIPERAZIN-1-YL)-6-[(5-METHYL-1H- HETNAM 2 563 PYRAZOL-3-YL)AMINO]PYRIMIDIN-2-YL}OXY)PHENYL]PROP-2- HETNAM 3 563 ENAMIDE FORMUL 3 563 2(C22 H26 N8 O2) FORMUL 5 HOH *100(H2 O) HELIX 1 AA1 PRO A 263 GLU A 265 5 3 HELIX 2 AA2 GLN A 312 LYS A 316 1 5 HELIX 3 AA3 CYS A 345 GLY A 352 1 8 HELIX 4 AA4 GLU A 353 LEU A 358 5 6 HELIX 5 AA5 ARG A 359 MET A 380 1 22 HELIX 6 AA6 ARG A 388 ALA A 390 5 3 HELIX 7 AA7 GLU A 396 LEU A 398 5 3 HELIX 8 AA8 PRO A 425 THR A 429 5 5 HELIX 9 AA9 ALA A 430 GLY A 437 1 8 HELIX 10 AB1 THR A 440 THR A 457 1 18 HELIX 11 AB2 VAL A 467 GLY A 478 1 12 HELIX 12 AB3 PRO A 488 TRP A 499 1 12 HELIX 13 AB4 ASP A 502 ARG A 506 5 5 HELIX 14 AB5 THR A 508 ASP A 518 1 11 HELIX 15 AB6 ASP A 518 THR A 523 1 6 HELIX 16 AB7 PRO B 263 GLU B 265 5 3 HELIX 17 AB8 GLN B 312 LYS B 316 5 5 HELIX 18 AB9 CYS B 345 LYS B 351 1 7 HELIX 19 AC1 GLU B 353 LEU B 358 5 6 HELIX 20 AC2 ARG B 359 ASN B 381 1 23 HELIX 21 AC3 ARG B 388 ALA B 390 5 3 HELIX 22 AC4 GLU B 396 LEU B 398 5 3 HELIX 23 AC5 PRO B 425 THR B 429 5 5 HELIX 24 AC6 ALA B 430 GLY B 437 1 8 HELIX 25 AC7 THR B 440 THR B 457 1 18 HELIX 26 AC8 VAL B 467 ARG B 477 1 11 HELIX 27 AC9 PRO B 488 TRP B 499 1 12 HELIX 28 AD1 ASP B 502 ARG B 506 5 5 HELIX 29 AD2 THR B 508 ASP B 518 1 11 HELIX 30 AD3 ASP B 518 THR B 523 1 6 SHEET 1 AA1 5 LEU A 267 LYS A 272 0 SHEET 2 AA1 5 VAL A 281 TRP A 286 -1 O MET A 283 N GLU A 270 SHEET 3 AA1 5 THR A 290 LEU A 297 -1 O ILE A 294 N TRP A 282 SHEET 4 AA1 5 ILE A 334 MET A 338 -1 O MET A 338 N ALA A 293 SHEET 5 AA1 5 LEU A 325 VAL A 329 -1 N ALA A 327 O VAL A 337 SHEET 1 AA2 2 ILE A 392 VAL A 394 0 SHEET 2 AA2 2 CYS A 400 VAL A 402 -1 O LYS A 401 N LEU A 393 SHEET 1 AA3 5 LEU B 267 GLY B 274 0 SHEET 2 AA3 5 VAL B 281 TRP B 286 -1 O VAL B 281 N LEU B 273 SHEET 3 AA3 5 THR B 290 THR B 296 -1 O VAL B 292 N GLY B 284 SHEET 4 AA3 5 TYR B 335 MET B 338 -1 O MET B 338 N ALA B 293 SHEET 5 AA3 5 LEU B 325 VAL B 329 -1 N VAL B 329 O TYR B 335 SHEET 1 AA4 2 ILE B 392 VAL B 394 0 SHEET 2 AA4 2 CYS B 400 VAL B 402 -1 O LYS B 401 N LEU B 393 CISPEP 1 GLU A 305 ALA A 306 0 14.34 CISPEP 2 GLU A 332 PRO A 333 0 -3.78 CISPEP 3 GLU B 332 PRO B 333 0 -0.23 CISPEP 4 GLY B 406 LEU B 407 0 8.87 SITE 1 AC1 8 GLN A 275 ALA A 293 GLU A 339 TYR A 340 SITE 2 AC1 8 MET A 341 GLY A 344 LEU A 393 ASP A 404 SITE 1 AC2 8 LEU B 273 VAL B 281 GLU B 339 TYR B 340 SITE 2 AC2 8 MET B 341 SER B 342 GLY B 344 LEU B 393 CRYST1 41.900 63.500 76.600 79.20 88.10 90.10 P 1 2 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 0.023866 0.000042 -0.000814 0.00000 SCALE2 0.000000 0.015748 -0.003007 0.00000 SCALE3 0.000000 0.000000 0.013298 0.00000