HEADER TRANSFERASE/TRANSFERASE INHIBITOR 11-JAN-16 5HID TITLE BRAF KINASE DOMAIN B3AC LOOP DELETION MUTANT IN COMPLEX WITH AZ628 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE B-RAF; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PROTO-ONCOGENE B-RAF,P94,V-RAF MURINE SARCOMA VIRAL ONCOGENE COMPND 5 HOMOLOG B1; COMPND 6 EC: 2.7.11.1; COMPND 7 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: BRAF, BRAF1, RAFB1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.M.WHALEN,S.A.FOSTER,A.OZEN,M.WONGCHENKO,J.YIN,G.SCHAEFER, AUTHOR 2 J.MAYFIELD,J.CHMIELECKI,P.STEPHENS,L.ALBACKER,Y.YAN,K.SONG, AUTHOR 3 G.HATZIVASSILIOU,C.EIGENBROT,C.YU,A.S.SHAW,G.MANNING,N.J.SKELTON, AUTHOR 4 S.G.HYMOWITZ,S.MALEK REVDAT 4 27-SEP-23 5HID 1 REMARK REVDAT 3 03-AUG-16 5HID 1 TITLE REMARK REVDAT 2 20-APR-16 5HID 1 JRNL REVDAT 1 06-APR-16 5HID 0 JRNL AUTH S.A.FOSTER,D.M.WHALEN,A.OZEN,M.J.WONGCHENKO,J.YIN,I.YEN, JRNL AUTH 2 G.SCHAEFER,J.D.MAYFIELD,J.CHMIELECKI,P.J.STEPHENS, JRNL AUTH 3 L.A.ALBACKER,Y.YAN,K.SONG,G.HATZIVASSILIOU,C.EIGENBROT,C.YU, JRNL AUTH 4 A.S.SHAW,G.MANNING,N.J.SKELTON,S.G.HYMOWITZ,S.MALEK JRNL TITL ACTIVATION MECHANISM OF ONCOGENIC DELETION MUTATIONS IN JRNL TITL 2 BRAF, EGFR, AND HER2. JRNL REF CANCER CELL V. 29 477 2016 JRNL REFN ISSN 1535-6108 JRNL PMID 26996308 JRNL DOI 10.1016/J.CCELL.2016.02.010 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.5 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.86 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 19162 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) : 0.236 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.110 REMARK 3 FREE R VALUE TEST SET COUNT : 979 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.63 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.25 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2588 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2101 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2460 REMARK 3 BIN R VALUE (WORKING SET) : 0.2048 REMARK 3 BIN FREE R VALUE : 0.3136 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.95 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 128 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4214 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 82 REMARK 3 SOLVENT ATOMS : 113 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.14 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -6.57140 REMARK 3 B22 (A**2) : 6.44750 REMARK 3 B33 (A**2) : 0.12390 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.364 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 1.296 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.336 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 1.029 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.336 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4410 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 5943 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1592 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 107 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 635 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4410 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 549 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 5011 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : 1.20 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 4.26 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.10 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|454 - A|560 } REMARK 3 ORIGIN FOR THE GROUP (A): 9.5452 -10.6545 -13.9163 REMARK 3 T TENSOR REMARK 3 T11: -0.1322 T22: -0.1391 REMARK 3 T33: 0.1048 T12: 0.0079 REMARK 3 T13: -0.0244 T23: -0.0435 REMARK 3 L TENSOR REMARK 3 L11: 2.1301 L22: 1.6233 REMARK 3 L33: 0.4361 L12: 0.0239 REMARK 3 L13: -0.0117 L23: -0.1229 REMARK 3 S TENSOR REMARK 3 S11: 0.0408 S12: 0.0859 S13: -0.1083 REMARK 3 S21: -0.1700 S22: -0.0175 S23: -0.1985 REMARK 3 S31: 0.1126 S32: 0.0896 S33: -0.0233 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { A|561 - A|722 } REMARK 3 ORIGIN FOR THE GROUP (A): -8.2205 -20.6748 -9.2886 REMARK 3 T TENSOR REMARK 3 T11: -0.1490 T22: -0.1354 REMARK 3 T33: 0.0530 T12: -0.0257 REMARK 3 T13: -0.0007 T23: 0.0077 REMARK 3 L TENSOR REMARK 3 L11: 2.0807 L22: 2.4976 REMARK 3 L33: 1.6135 L12: -0.0521 REMARK 3 L13: -0.5248 L23: -0.1289 REMARK 3 S TENSOR REMARK 3 S11: -0.0431 S12: -0.0410 S13: -0.1530 REMARK 3 S21: 0.0464 S22: 0.0026 S23: 0.1087 REMARK 3 S31: 0.1390 S32: -0.0320 S33: 0.0405 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { B|454 - B|560 } REMARK 3 ORIGIN FOR THE GROUP (A): -1.9336 10.6641 -13.9117 REMARK 3 T TENSOR REMARK 3 T11: -0.1157 T22: -0.1759 REMARK 3 T33: 0.1012 T12: -0.0023 REMARK 3 T13: 0.0369 T23: 0.0348 REMARK 3 L TENSOR REMARK 3 L11: 2.2266 L22: 1.9159 REMARK 3 L33: 0.9047 L12: 0.1730 REMARK 3 L13: 0.1250 L23: 0.5273 REMARK 3 S TENSOR REMARK 3 S11: 0.0544 S12: 0.0460 S13: 0.0226 REMARK 3 S21: -0.0489 S22: 0.0331 S23: 0.2053 REMARK 3 S31: -0.1406 S32: -0.0865 S33: -0.0875 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { B|561 - B|722 } REMARK 3 ORIGIN FOR THE GROUP (A): 14.8035 21.5233 -10.4551 REMARK 3 T TENSOR REMARK 3 T11: -0.1346 T22: -0.1587 REMARK 3 T33: 0.0589 T12: -0.0428 REMARK 3 T13: -0.0010 T23: -0.0030 REMARK 3 L TENSOR REMARK 3 L11: 2.1084 L22: 1.9887 REMARK 3 L33: 1.5324 L12: 0.1359 REMARK 3 L13: 0.5018 L23: 0.2244 REMARK 3 S TENSOR REMARK 3 S11: -0.1113 S12: -0.0104 S13: 0.1633 REMARK 3 S21: -0.0164 S22: 0.0305 S23: -0.1767 REMARK 3 S31: -0.2553 S32: 0.1574 S33: 0.0808 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5HID COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1000217067. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUL-15 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : LIQUID NITROGEN-COOLED DOUBLE REMARK 200 CRYSTAL, NON FIXED EXIT SLIT. REMARK 200 SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 47.860 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.65 REMARK 200 COMPLETENESS FOR SHELL (%) : 71.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.520 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: 5HI2 (PARTIALLY REFINED) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, AND 0.2M POTASSIUM REMARK 280 NITRATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 24.85500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.44500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.20000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.44500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.85500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.20000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 KCAL/MOL 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 MET A 436 REMARK 465 HIS A 437 REMARK 465 HIS A 438 REMARK 465 HIS A 439 REMARK 465 HIS A 440 REMARK 465 HIS A 441 REMARK 465 GLY A 442 REMARK 465 SER A 443 REMARK 465 ARG A 444 REMARK 465 ASP A 445 REMARK 465 SER A 446 REMARK 465 SER A 447 REMARK 465 ASP A 448 REMARK 465 THR A 599 REMARK 465 VAL A 600 REMARK 465 LYS A 601 REMARK 465 SER A 602 REMARK 465 ARG A 603 REMARK 465 TRP A 604 REMARK 465 SER A 605 REMARK 465 GLY A 606 REMARK 465 SER A 607 REMARK 465 HIS A 608 REMARK 465 GLN A 609 REMARK 465 PHE A 610 REMARK 465 GLY A 723 REMARK 465 MET B 436 REMARK 465 HIS B 437 REMARK 465 HIS B 438 REMARK 465 HIS B 439 REMARK 465 HIS B 440 REMARK 465 HIS B 441 REMARK 465 GLY B 442 REMARK 465 SER B 443 REMARK 465 ARG B 444 REMARK 465 ASP B 445 REMARK 465 SER B 446 REMARK 465 SER B 447 REMARK 465 ASP B 448 REMARK 465 GLY B 723 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 LYS B 601 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 CB SER B 602 CB SER B 605 1.97 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 GLN B 609 C - N - CA ANGL. DEV. = 20.1 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 PHE A 468 -55.60 74.14 REMARK 500 TRP A 476 92.68 -163.86 REMARK 500 ARG A 575 -14.82 83.74 REMARK 500 ASP A 576 44.44 -148.29 REMARK 500 ASN A 588 -45.48 -139.14 REMARK 500 PHE B 468 -55.14 72.17 REMARK 500 TRP B 476 92.33 -164.27 REMARK 500 ARG B 575 -18.86 86.42 REMARK 500 ASP B 576 51.90 -153.49 REMARK 500 ASN B 588 -46.54 -138.64 REMARK 500 LYS B 601 -166.61 171.87 REMARK 500 ASP B 629 3.81 84.77 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 HIS B 608 GLN B 609 -130.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLN B 609 12.17 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 B1E A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B1E B 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 802 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5HI2 RELATED DB: PDB REMARK 900 BRAF KINASE DOMAIN B3AC LOOP DELETION MUTANT IN COMPLEX WITH REMARK 900 SORAFENIB REMARK 900 RELATED ID: 5HIE RELATED DB: PDB REMARK 900 BRAF KINASE DOMAIN B3AC LOOP DELETION MUTANT IN COMPLEX WITH REMARK 900 DABRAFENIB DBREF 5HID A 444 723 UNP P15056 BRAF_HUMAN 444 723 DBREF 5HID B 444 723 UNP P15056 BRAF_HUMAN 444 723 SEQADV 5HID MET A 436 UNP P15056 INITIATING METHIONINE SEQADV 5HID HIS A 437 UNP P15056 EXPRESSION TAG SEQADV 5HID HIS A 438 UNP P15056 EXPRESSION TAG SEQADV 5HID HIS A 439 UNP P15056 EXPRESSION TAG SEQADV 5HID HIS A 440 UNP P15056 EXPRESSION TAG SEQADV 5HID HIS A 441 UNP P15056 EXPRESSION TAG SEQADV 5HID GLY A 442 UNP P15056 EXPRESSION TAG SEQADV 5HID SER A 443 UNP P15056 EXPRESSION TAG SEQADV 5HID A UNP P15056 ASN 486 DELETION SEQADV 5HID A UNP P15056 VAL 487 DELETION SEQADV 5HID A UNP P15056 THR 488 DELETION SEQADV 5HID A UNP P15056 ALA 489 DELETION SEQADV 5HID A UNP P15056 PRO 490 DELETION SEQADV 5HID ALA A 543 UNP P15056 ILE 543 ENGINEERED MUTATION SEQADV 5HID SER A 544 UNP P15056 ILE 544 ENGINEERED MUTATION SEQADV 5HID LYS A 551 UNP P15056 ILE 551 ENGINEERED MUTATION SEQADV 5HID ARG A 562 UNP P15056 GLN 562 ENGINEERED MUTATION SEQADV 5HID ASN A 588 UNP P15056 LEU 588 ENGINEERED MUTATION SEQADV 5HID SER A 630 UNP P15056 LYS 630 ENGINEERED MUTATION SEQADV 5HID GLU A 667 UNP P15056 PHE 667 ENGINEERED MUTATION SEQADV 5HID SER A 673 UNP P15056 TYR 673 ENGINEERED MUTATION SEQADV 5HID ARG A 688 UNP P15056 ALA 688 ENGINEERED MUTATION SEQADV 5HID SER A 706 UNP P15056 LEU 706 ENGINEERED MUTATION SEQADV 5HID ARG A 709 UNP P15056 GLN 709 ENGINEERED MUTATION SEQADV 5HID GLU A 713 UNP P15056 SER 713 ENGINEERED MUTATION SEQADV 5HID GLU A 716 UNP P15056 LEU 716 ENGINEERED MUTATION SEQADV 5HID GLU A 720 UNP P15056 SER 720 ENGINEERED MUTATION SEQADV 5HID SER A 722 UNP P15056 PRO 722 ENGINEERED MUTATION SEQADV 5HID GLY A 723 UNP P15056 LYS 723 ENGINEERED MUTATION SEQADV 5HID MET B 436 UNP P15056 INITIATING METHIONINE SEQADV 5HID HIS B 437 UNP P15056 EXPRESSION TAG SEQADV 5HID HIS B 438 UNP P15056 EXPRESSION TAG SEQADV 5HID HIS B 439 UNP P15056 EXPRESSION TAG SEQADV 5HID HIS B 440 UNP P15056 EXPRESSION TAG SEQADV 5HID HIS B 441 UNP P15056 EXPRESSION TAG SEQADV 5HID GLY B 442 UNP P15056 EXPRESSION TAG SEQADV 5HID SER B 443 UNP P15056 EXPRESSION TAG SEQADV 5HID B UNP P15056 ASN 486 DELETION SEQADV 5HID B UNP P15056 VAL 487 DELETION SEQADV 5HID B UNP P15056 THR 488 DELETION SEQADV 5HID B UNP P15056 ALA 489 DELETION SEQADV 5HID B UNP P15056 PRO 490 DELETION SEQADV 5HID ALA B 543 UNP P15056 ILE 543 ENGINEERED MUTATION SEQADV 5HID SER B 544 UNP P15056 ILE 544 ENGINEERED MUTATION SEQADV 5HID LYS B 551 UNP P15056 ILE 551 ENGINEERED MUTATION SEQADV 5HID ARG B 562 UNP P15056 GLN 562 ENGINEERED MUTATION SEQADV 5HID ASN B 588 UNP P15056 LEU 588 ENGINEERED MUTATION SEQADV 5HID SER B 630 UNP P15056 LYS 630 ENGINEERED MUTATION SEQADV 5HID GLU B 667 UNP P15056 PHE 667 ENGINEERED MUTATION SEQADV 5HID SER B 673 UNP P15056 TYR 673 ENGINEERED MUTATION SEQADV 5HID ARG B 688 UNP P15056 ALA 688 ENGINEERED MUTATION SEQADV 5HID SER B 706 UNP P15056 LEU 706 ENGINEERED MUTATION SEQADV 5HID ARG B 709 UNP P15056 GLN 709 ENGINEERED MUTATION SEQADV 5HID GLU B 713 UNP P15056 SER 713 ENGINEERED MUTATION SEQADV 5HID GLU B 716 UNP P15056 LEU 716 ENGINEERED MUTATION SEQADV 5HID GLU B 720 UNP P15056 SER 720 ENGINEERED MUTATION SEQADV 5HID SER B 722 UNP P15056 PRO 722 ENGINEERED MUTATION SEQADV 5HID GLY B 723 UNP P15056 LYS 723 ENGINEERED MUTATION SEQRES 1 A 283 MET HIS HIS HIS HIS HIS GLY SER ARG ASP SER SER ASP SEQRES 2 A 283 ASP TRP GLU ILE PRO ASP GLY GLN ILE THR VAL GLY GLN SEQRES 3 A 283 ARG ILE GLY SER GLY SER PHE GLY THR VAL TYR LYS GLY SEQRES 4 A 283 LYS TRP HIS GLY ASP VAL ALA VAL LYS MET LEU THR PRO SEQRES 5 A 283 GLN GLN LEU GLN ALA PHE LYS ASN GLU VAL GLY VAL LEU SEQRES 6 A 283 ARG LYS THR ARG HIS VAL ASN ILE LEU LEU PHE MET GLY SEQRES 7 A 283 TYR SER THR LYS PRO GLN LEU ALA ILE VAL THR GLN TRP SEQRES 8 A 283 CYS GLU GLY SER SER LEU TYR HIS HIS LEU HIS ALA SER SEQRES 9 A 283 GLU THR LYS PHE GLU MET LYS LYS LEU ILE ASP ILE ALA SEQRES 10 A 283 ARG GLN THR ALA ARG GLY MET ASP TYR LEU HIS ALA LYS SEQRES 11 A 283 SER ILE ILE HIS ARG ASP LEU LYS SER ASN ASN ILE PHE SEQRES 12 A 283 LEU HIS GLU ASP ASN THR VAL LYS ILE GLY ASP PHE GLY SEQRES 13 A 283 LEU ALA THR VAL LYS SER ARG TRP SER GLY SER HIS GLN SEQRES 14 A 283 PHE GLU GLN LEU SER GLY SER ILE LEU TRP MET ALA PRO SEQRES 15 A 283 GLU VAL ILE ARG MET GLN ASP SER ASN PRO TYR SER PHE SEQRES 16 A 283 GLN SER ASP VAL TYR ALA PHE GLY ILE VAL LEU TYR GLU SEQRES 17 A 283 LEU MET THR GLY GLN LEU PRO TYR SER ASN ILE ASN ASN SEQRES 18 A 283 ARG ASP GLN ILE ILE GLU MET VAL GLY ARG GLY SER LEU SEQRES 19 A 283 SER PRO ASP LEU SER LYS VAL ARG SER ASN CYS PRO LYS SEQRES 20 A 283 ARG MET LYS ARG LEU MET ALA GLU CYS LEU LYS LYS LYS SEQRES 21 A 283 ARG ASP GLU ARG PRO SER PHE PRO ARG ILE LEU ALA GLU SEQRES 22 A 283 ILE GLU GLU LEU ALA ARG GLU LEU SER GLY SEQRES 1 B 283 MET HIS HIS HIS HIS HIS GLY SER ARG ASP SER SER ASP SEQRES 2 B 283 ASP TRP GLU ILE PRO ASP GLY GLN ILE THR VAL GLY GLN SEQRES 3 B 283 ARG ILE GLY SER GLY SER PHE GLY THR VAL TYR LYS GLY SEQRES 4 B 283 LYS TRP HIS GLY ASP VAL ALA VAL LYS MET LEU THR PRO SEQRES 5 B 283 GLN GLN LEU GLN ALA PHE LYS ASN GLU VAL GLY VAL LEU SEQRES 6 B 283 ARG LYS THR ARG HIS VAL ASN ILE LEU LEU PHE MET GLY SEQRES 7 B 283 TYR SER THR LYS PRO GLN LEU ALA ILE VAL THR GLN TRP SEQRES 8 B 283 CYS GLU GLY SER SER LEU TYR HIS HIS LEU HIS ALA SER SEQRES 9 B 283 GLU THR LYS PHE GLU MET LYS LYS LEU ILE ASP ILE ALA SEQRES 10 B 283 ARG GLN THR ALA ARG GLY MET ASP TYR LEU HIS ALA LYS SEQRES 11 B 283 SER ILE ILE HIS ARG ASP LEU LYS SER ASN ASN ILE PHE SEQRES 12 B 283 LEU HIS GLU ASP ASN THR VAL LYS ILE GLY ASP PHE GLY SEQRES 13 B 283 LEU ALA THR VAL LYS SER ARG TRP SER GLY SER HIS GLN SEQRES 14 B 283 PHE GLU GLN LEU SER GLY SER ILE LEU TRP MET ALA PRO SEQRES 15 B 283 GLU VAL ILE ARG MET GLN ASP SER ASN PRO TYR SER PHE SEQRES 16 B 283 GLN SER ASP VAL TYR ALA PHE GLY ILE VAL LEU TYR GLU SEQRES 17 B 283 LEU MET THR GLY GLN LEU PRO TYR SER ASN ILE ASN ASN SEQRES 18 B 283 ARG ASP GLN ILE ILE GLU MET VAL GLY ARG GLY SER LEU SEQRES 19 B 283 SER PRO ASP LEU SER LYS VAL ARG SER ASN CYS PRO LYS SEQRES 20 B 283 ARG MET LYS ARG LEU MET ALA GLU CYS LEU LYS LYS LYS SEQRES 21 B 283 ARG ASP GLU ARG PRO SER PHE PRO ARG ILE LEU ALA GLU SEQRES 22 B 283 ILE GLU GLU LEU ALA ARG GLU LEU SER GLY HET B1E A 801 34 HET PEG A 802 7 HET B1E B 801 34 HET PEG B 802 7 HETNAM B1E 3-(2-CYANOPROPAN-2-YL)-N-{4-METHYL-3-[(3-METHYL-4-OXO- HETNAM 2 B1E 3,4-DIHYDROQUINAZOLIN-6-YL)AMINO]PHENYL}BENZAMIDE HETNAM PEG DI(HYDROXYETHYL)ETHER FORMUL 3 B1E 2(C27 H25 N5 O2) FORMUL 4 PEG 2(C4 H10 O3) FORMUL 7 HOH *113(H2 O) HELIX 1 AA1 GLN A 494 ARG A 506 1 13 HELIX 2 AA2 LEU A 537 ALA A 543 1 7 HELIX 3 AA3 GLU A 549 LYS A 570 1 22 HELIX 4 AA4 LYS A 578 ASN A 580 5 3 HELIX 5 AA5 SER A 616 MET A 620 5 5 HELIX 6 AA6 ALA A 621 ARG A 626 1 6 HELIX 7 AA7 SER A 634 GLY A 652 1 19 HELIX 8 AA8 ASN A 661 ARG A 671 1 11 HELIX 9 AA9 ASP A 677 VAL A 681 5 5 HELIX 10 AB1 PRO A 686 LYS A 698 1 13 HELIX 11 AB2 LYS A 700 ARG A 704 5 5 HELIX 12 AB3 SER A 706 SER A 722 1 17 HELIX 13 AB4 GLN B 494 ARG B 506 1 13 HELIX 14 AB5 LEU B 537 HIS B 542 1 6 HELIX 15 AB6 GLU B 549 LYS B 570 1 22 HELIX 16 AB7 LYS B 578 ASN B 580 5 3 HELIX 17 AB8 SER B 616 MET B 620 5 5 HELIX 18 AB9 ALA B 621 MET B 627 1 7 HELIX 19 AC1 SER B 634 GLY B 652 1 19 HELIX 20 AC2 ASN B 661 ARG B 671 1 11 HELIX 21 AC3 ASP B 677 VAL B 681 5 5 HELIX 22 AC4 PRO B 686 LEU B 697 1 12 HELIX 23 AC5 LYS B 700 ARG B 704 5 5 HELIX 24 AC6 SER B 706 SER B 722 1 17 SHEET 1 AA1 5 THR A 458 SER A 465 0 SHEET 2 AA1 5 GLY A 469 LYS A 475 -1 O LYS A 475 N THR A 458 SHEET 3 AA1 5 ASP A 479 LEU A 485 -1 O VAL A 480 N GLY A 474 SHEET 4 AA1 5 LEU A 525 GLN A 530 -1 O LEU A 525 N LEU A 485 SHEET 5 AA1 5 PHE A 516 SER A 520 -1 N MET A 517 O VAL A 528 SHEET 1 AA2 3 GLY A 534 SER A 536 0 SHEET 2 AA2 3 ILE A 582 HIS A 585 -1 O LEU A 584 N SER A 535 SHEET 3 AA2 3 THR A 589 ILE A 592 -1 O LYS A 591 N PHE A 583 SHEET 1 AA3 5 THR B 458 SER B 465 0 SHEET 2 AA3 5 GLY B 469 LYS B 475 -1 O LYS B 475 N THR B 458 SHEET 3 AA3 5 ASP B 479 LEU B 485 -1 O VAL B 480 N GLY B 474 SHEET 4 AA3 5 LEU B 525 GLN B 530 -1 O LEU B 525 N LEU B 485 SHEET 5 AA3 5 PHE B 516 SER B 520 -1 N MET B 517 O VAL B 528 SHEET 1 AA4 3 GLY B 534 SER B 536 0 SHEET 2 AA4 3 ILE B 582 HIS B 585 -1 O LEU B 584 N SER B 535 SHEET 3 AA4 3 THR B 589 ILE B 592 -1 O LYS B 591 N PHE B 583 CISPEP 1 LYS A 522 PRO A 523 0 -1.06 CISPEP 2 LYS B 522 PRO B 523 0 -0.80 SITE 1 AC1 14 ILE A 463 ALA A 481 LYS A 483 GLU A 501 SITE 2 AC1 14 VAL A 504 LEU A 514 THR A 529 GLN A 530 SITE 3 AC1 14 CYS A 532 ILE A 592 GLY A 593 ASP A 594 SITE 4 AC1 14 PHE A 595 TRP B 604 SITE 1 AC2 8 GLN A 456 LYS A 475 TRP A 476 HIS A 477 SITE 2 AC2 8 GLY A 478 HOH A 907 LEU B 711 GLU B 715 SITE 1 AC3 14 ILE B 463 ALA B 481 LYS B 483 GLU B 501 SITE 2 AC3 14 LEU B 514 THR B 529 GLN B 530 TRP B 531 SITE 3 AC3 14 CYS B 532 HIS B 574 ILE B 592 GLY B 593 SITE 4 AC3 14 ASP B 594 PHE B 595 SITE 1 AC4 5 GLN B 456 TRP B 476 HIS B 477 GLY B 478 SITE 2 AC4 5 HOH B 922 CRYST1 49.710 100.400 108.890 90.00 90.00 90.00 P 21 21 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 0.020117 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009960 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009184 0.00000