HEADER TRANSFERASE 11-JUL-23 8PQD TITLE C-KIT KINASE DOMAIN IN COMPLEX WITH AVAPRITINIB DERIVATIVE 10 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAST/STEM CELL GROWTH FACTOR RECEPTOR KIT; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: SCFR,PIEBALD TRAIT PROTEIN,PBT,PROTO-ONCOGENE C-KIT, COMPND 5 TYROSINE-PROTEIN KINASE KIT,P145 C-KIT,V-KIT HARDY-ZUCKERMAN 4 FELINE COMPND 6 SARCOMA VIRAL ONCOGENE HOMOLOG; COMPND 7 EC: 2.7.10.1; 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 GENE: KIT, SCFR; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS C-KIT PROTEIN KINASE, AVAPRITINIB, INHIBITOR, TYROSINE KINASE, KEYWDS 2 TRANSMEMBRANE RECEPTOR, STEM CELL FACTOR, SCF, STEM CELL FACTOR KEYWDS 3 RECEPTOR, GIST, GASTROINTESTINAL STROMAL TUMORS, P10721, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.TEUBER,M.P.MUELLER,D.RAUH REVDAT 3 13-MAR-24 8PQD 1 REMARK REVDAT 2 17-JAN-24 8PQD 1 JRNL REVDAT 1 27-DEC-23 8PQD 0 JRNL AUTH A.TEUBER,T.SCHULZ,B.S.FLETCHER,R.GONTLA,T.MUHLENBERG, JRNL AUTH 2 M.L.ZISCHINSKY,J.NIGGENABER,J.WEISNER,S.B.KLEINBOLTING, JRNL AUTH 3 J.LATEGAHN,S.SIEVERS,M.P.MULLER,S.BAUER,D.RAUH JRNL TITL AVAPRITINIB-BASED SAR STUDIES UNVEIL A BINDING POCKET IN KIT JRNL TITL 2 AND PDGFRA. JRNL REF NAT COMMUN V. 15 63 2024 JRNL REFN ESSN 2041-1723 JRNL PMID 38167404 JRNL DOI 10.1038/S41467-023-44376-8 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.99 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 108872 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5444 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 41.9900 - 4.6600 0.99 3750 197 0.1664 0.1713 REMARK 3 2 4.6600 - 3.7000 1.00 3598 190 0.1387 0.1518 REMARK 3 3 3.7000 - 3.2300 1.00 3569 188 0.1599 0.1826 REMARK 3 4 3.2300 - 2.9400 1.00 3533 185 0.1789 0.2003 REMARK 3 5 2.9400 - 2.7300 1.00 3530 186 0.1828 0.2004 REMARK 3 6 2.7300 - 2.5600 1.00 3499 185 0.1842 0.2009 REMARK 3 7 2.5600 - 2.4400 1.00 3515 185 0.1881 0.2162 REMARK 3 8 2.4400 - 2.3300 0.87 3037 159 0.1789 0.2034 REMARK 3 9 2.3300 - 2.2400 0.98 3450 182 0.1833 0.2130 REMARK 3 10 2.2400 - 2.1600 1.00 3468 182 0.1793 0.1902 REMARK 3 11 2.1600 - 2.1000 1.00 3478 184 0.1780 0.2022 REMARK 3 12 2.1000 - 2.0400 1.00 3435 180 0.1775 0.2009 REMARK 3 13 2.0400 - 1.9800 1.00 3443 182 0.1826 0.2053 REMARK 3 14 1.9800 - 1.9300 1.00 3476 183 0.1850 0.2351 REMARK 3 15 1.9300 - 1.8900 0.99 3500 184 0.1969 0.2212 REMARK 3 16 1.8900 - 1.8500 0.99 3394 179 0.1975 0.2350 REMARK 3 17 1.8500 - 1.8100 1.00 3424 180 0.1892 0.2199 REMARK 3 18 1.8100 - 1.7800 0.99 3477 183 0.1899 0.1948 REMARK 3 19 1.7800 - 1.7500 1.00 3387 178 0.1826 0.2063 REMARK 3 20 1.7500 - 1.7200 0.99 3465 183 0.1854 0.2270 REMARK 3 21 1.7200 - 1.6900 0.99 3424 180 0.1897 0.2054 REMARK 3 22 1.6900 - 1.6600 0.99 3414 179 0.1970 0.2221 REMARK 3 23 1.6600 - 1.6400 0.99 3365 177 0.1952 0.2434 REMARK 3 24 1.6400 - 1.6200 1.00 3438 181 0.2016 0.2246 REMARK 3 25 1.6200 - 1.5900 0.98 3412 180 0.2129 0.2354 REMARK 3 26 1.5900 - 1.5700 0.99 3423 180 0.2244 0.2553 REMARK 3 27 1.5700 - 1.5500 0.98 3366 177 0.2379 0.2644 REMARK 3 28 1.5500 - 1.5300 0.99 3445 182 0.2534 0.2861 REMARK 3 29 1.5300 - 1.5200 0.99 3380 178 0.2711 0.2810 REMARK 3 30 1.5200 - 1.5000 0.98 3333 175 0.2941 0.3373 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.518 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.81 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 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 : 0.008 5001 REMARK 3 ANGLE : 0.864 6837 REMARK 3 CHIRALITY : 0.055 742 REMARK 3 PLANARITY : 0.008 871 REMARK 3 DIHEDRAL : 13.224 1824 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 566 THROUGH 600 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.8497 -7.4029 -14.6413 REMARK 3 T TENSOR REMARK 3 T11: 0.2024 T22: 0.2457 REMARK 3 T33: 0.2142 T12: -0.0209 REMARK 3 T13: -0.0294 T23: 0.0131 REMARK 3 L TENSOR REMARK 3 L11: 1.6655 L22: 3.0120 REMARK 3 L33: 0.9856 L12: 0.9662 REMARK 3 L13: -0.7583 L23: -0.9455 REMARK 3 S TENSOR REMARK 3 S11: 0.0196 S12: -0.0136 S13: -0.0114 REMARK 3 S21: -0.0721 S22: -0.2090 S23: -0.3950 REMARK 3 S31: -0.0158 S32: 0.1196 S33: 0.1654 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 601 THROUGH 630 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.0312 4.0197 -18.2620 REMARK 3 T TENSOR REMARK 3 T11: 0.2423 T22: 0.2471 REMARK 3 T33: 0.1930 T12: -0.0069 REMARK 3 T13: 0.0101 T23: 0.0280 REMARK 3 L TENSOR REMARK 3 L11: 4.9745 L22: 2.4349 REMARK 3 L33: 4.1810 L12: -0.3742 REMARK 3 L13: 1.1538 L23: -0.5843 REMARK 3 S TENSOR REMARK 3 S11: -0.2661 S12: 0.2048 S13: 0.0837 REMARK 3 S21: -0.1705 S22: -0.0690 S23: -0.0985 REMARK 3 S31: -0.2695 S32: 0.2070 S33: 0.2809 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 631 THROUGH 828 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.8111 1.3877 -1.8246 REMARK 3 T TENSOR REMARK 3 T11: 0.1660 T22: 0.1711 REMARK 3 T33: 0.2260 T12: 0.0395 REMARK 3 T13: -0.0304 T23: 0.0073 REMARK 3 L TENSOR REMARK 3 L11: 1.6692 L22: 0.9400 REMARK 3 L33: 3.5512 L12: 0.2478 REMARK 3 L13: 0.8518 L23: 0.2820 REMARK 3 S TENSOR REMARK 3 S11: -0.1077 S12: -0.0784 S13: 0.0892 REMARK 3 S21: 0.0122 S22: -0.0036 S23: -0.1120 REMARK 3 S31: -0.1500 S32: -0.2065 S33: 0.0836 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 829 THROUGH 931 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.7052 -0.8979 14.4801 REMARK 3 T TENSOR REMARK 3 T11: 0.2158 T22: 0.1492 REMARK 3 T33: 0.1927 T12: 0.0340 REMARK 3 T13: -0.0475 T23: -0.0209 REMARK 3 L TENSOR REMARK 3 L11: 2.4786 L22: 1.4118 REMARK 3 L33: 2.2694 L12: -0.2359 REMARK 3 L13: 0.6611 L23: -0.0431 REMARK 3 S TENSOR REMARK 3 S11: -0.1449 S12: -0.1692 S13: 0.1958 REMARK 3 S21: 0.1357 S22: 0.0175 S23: -0.0095 REMARK 3 S31: -0.1513 S32: -0.2030 S33: 0.0913 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 566 THROUGH 630 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.1174 -3.1827 62.9896 REMARK 3 T TENSOR REMARK 3 T11: 0.2552 T22: 0.2127 REMARK 3 T33: 0.1648 T12: 0.0027 REMARK 3 T13: 0.0020 T23: -0.0050 REMARK 3 L TENSOR REMARK 3 L11: 3.4057 L22: 1.3709 REMARK 3 L33: 1.9001 L12: 1.7913 REMARK 3 L13: -1.2408 L23: -0.5720 REMARK 3 S TENSOR REMARK 3 S11: 0.2327 S12: -0.3911 S13: -0.0284 REMARK 3 S21: 0.2848 S22: -0.1843 S23: -0.0394 REMARK 3 S31: -0.1701 S32: 0.0089 S33: -0.0430 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 631 THROUGH 828 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.7037 -4.9072 47.7175 REMARK 3 T TENSOR REMARK 3 T11: 0.1868 T22: 0.1623 REMARK 3 T33: 0.1819 T12: 0.0218 REMARK 3 T13: 0.0034 T23: 0.0193 REMARK 3 L TENSOR REMARK 3 L11: 1.1131 L22: 1.1267 REMARK 3 L33: 4.2363 L12: 0.4498 REMARK 3 L13: 0.5937 L23: 0.7605 REMARK 3 S TENSOR REMARK 3 S11: 0.0191 S12: -0.1239 S13: -0.0035 REMARK 3 S21: -0.0182 S22: 0.0153 S23: -0.0235 REMARK 3 S31: -0.1809 S32: -0.1038 S33: -0.0298 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 829 THROUGH 932 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.8325 -12.0529 32.3452 REMARK 3 T TENSOR REMARK 3 T11: 0.1800 T22: 0.2304 REMARK 3 T33: 0.1534 T12: -0.0011 REMARK 3 T13: -0.0131 T23: -0.0021 REMARK 3 L TENSOR REMARK 3 L11: 3.0952 L22: 2.2594 REMARK 3 L33: 2.5977 L12: -0.6531 REMARK 3 L13: 0.5343 L23: 0.3205 REMARK 3 S TENSOR REMARK 3 S11: 0.0631 S12: 0.1484 S13: -0.0802 REMARK 3 S21: -0.1106 S22: -0.0221 S23: 0.0214 REMARK 3 S31: -0.1569 S32: 0.0972 S33: -0.0444 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 8PQD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1292130372. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-NOV-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9676 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 108916 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 48.220 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 13.90 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.1600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 14.36 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.020 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6 MG/ML, 10% PEG6000, 200 MM LICL, 100 REMARK 280 MM TRIS, PH 8.0, CRYO-PROTECTED WITH 20% PEG400 IN RESERVOIR REMARK 280 DIRECTLY ADDED TO CRYSTALLIZATION DROP, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 285.15K 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 29.69500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 96.44500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.68500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 96.44500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.69500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.68500 REMARK 290 SMTRY3 4 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 548 REMARK 465 SER A 549 REMARK 465 MET A 550 REMARK 465 PRO A 551 REMARK 465 MET A 552 REMARK 465 TYR A 553 REMARK 465 GLU A 554 REMARK 465 VAL A 555 REMARK 465 GLN A 556 REMARK 465 TRP A 557 REMARK 465 LYS A 558 REMARK 465 VAL A 559 REMARK 465 VAL A 560 REMARK 465 GLU A 561 REMARK 465 GLU A 562 REMARK 465 SER A 563 REMARK 465 ASN A 564 REMARK 465 GLY A 565 REMARK 465 TYR A 752 REMARK 465 LYS A 753 REMARK 465 VAL A 754 REMARK 465 ALA A 755 REMARK 465 PRO A 756 REMARK 465 GLU A 757 REMARK 465 ASP A 758 REMARK 465 LEU A 759 REMARK 465 TYR A 760 REMARK 465 THR A 932 REMARK 465 ASN A 933 REMARK 465 HIS A 934 REMARK 465 GLY B 548 REMARK 465 SER B 549 REMARK 465 MET B 550 REMARK 465 PRO B 551 REMARK 465 MET B 552 REMARK 465 TYR B 553 REMARK 465 GLU B 554 REMARK 465 VAL B 555 REMARK 465 GLN B 556 REMARK 465 TRP B 557 REMARK 465 LYS B 558 REMARK 465 VAL B 559 REMARK 465 VAL B 560 REMARK 465 GLU B 561 REMARK 465 GLU B 562 REMARK 465 SER B 563 REMARK 465 ASN B 564 REMARK 465 GLY B 565 REMARK 465 VAL B 754 REMARK 465 ALA B 755 REMARK 465 PRO B 756 REMARK 465 GLU B 757 REMARK 465 ASP B 758 REMARK 465 LEU B 759 REMARK 465 TYR B 760 REMARK 465 LYS B 761 REMARK 465 ASN B 933 REMARK 465 HIS B 934 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 A 626 CG CD CE NZ REMARK 470 LYS A 761 CG CD CE NZ REMARK 470 ASP A 762 CG OD1 OD2 REMARK 470 LYS A 818 CG CD CE NZ REMARK 470 ASN A 819 CG OD1 ND2 REMARK 470 ASP A 820 CG OD1 OD2 REMARK 470 SER A 821 OG REMARK 470 LYS A 826 CG CD CE NZ REMARK 470 ASN A 828 CG OD1 ND2 REMARK 470 LYS A 926 CG CD CE NZ REMARK 470 SER A 931 OG REMARK 470 ASN B 566 CG OD1 ND2 REMARK 470 LYS B 593 CG CD CE NZ REMARK 470 ILE B 612 CG1 CG2 CD1 REMARK 470 LYS B 613 CG CD CE NZ REMARK 470 SER B 614 OG REMARK 470 ASP B 687 CG OD1 OD2 REMARK 470 LYS B 693 CG CD CE NZ REMARK 470 ASP B 762 CG OD1 OD2 REMARK 470 PHE B 763 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 818 CG CD CE NZ REMARK 470 SER B 821 OG REMARK 470 LYS B 826 CG CD CE NZ REMARK 470 ASN B 828 CG OD1 ND2 REMARK 470 LYS B 878 CG CD CE NZ REMARK 470 LYS B 926 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 1111 O HOH A 1162 2.12 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 ASP A 762 64.40 -118.50 REMARK 500 ARG A 791 -1.79 76.17 REMARK 500 ASP A 792 50.17 -145.63 REMARK 500 THR A 801 -167.68 -128.08 REMARK 500 ASP A 810 86.97 64.35 REMARK 500 ASN A 828 59.90 -143.03 REMARK 500 ARG B 791 -0.04 75.73 REMARK 500 ASP B 792 50.21 -146.32 REMARK 500 ASP B 810 89.50 62.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1417 DISTANCE = 6.23 ANGSTROMS DBREF 8PQD A 551 687 UNP P10721 KIT_HUMAN 551 687 DBREF 8PQD A 766 934 UNP P10721 KIT_HUMAN 766 934 DBREF 8PQD B 551 687 UNP P10721 KIT_HUMAN 551 687 DBREF 8PQD B 766 934 UNP P10721 KIT_HUMAN 766 934 SEQADV 8PQD GLY A 548 UNP P10721 EXPRESSION TAG SEQADV 8PQD SER A 549 UNP P10721 EXPRESSION TAG SEQADV 8PQD MET A 550 UNP P10721 EXPRESSION TAG SEQADV 8PQD SER A 563 UNP P10721 ILE 563 ENGINEERED MUTATION SEQADV 8PQD SER A 569 UNP P10721 VAL 569 ENGINEERED MUTATION SEQADV 8PQD GLN A 609 UNP P10721 TYR 609 ENGINEERED MUTATION SEQADV 8PQD SER A 631 UNP P10721 LEU 631 ENGINEERED MUTATION SEQADV 8PQD GLU A 651 UNP P10721 MET 651 ENGINEERED MUTATION SEQADV 8PQD HIS A 662 UNP P10721 ILE 662 ENGINEERED MUTATION SEQADV 8PQD GLU A 688 UNP P10721 LINKER SEQADV 8PQD PHE A 689 UNP P10721 LINKER SEQADV 8PQD VAL A 690 UNP P10721 LINKER SEQADV 8PQD PRO A 691 UNP P10721 LINKER SEQADV 8PQD TYR A 752 UNP P10721 LINKER SEQADV 8PQD LYS A 753 UNP P10721 LINKER SEQADV 8PQD VAL A 754 UNP P10721 LINKER SEQADV 8PQD ALA A 755 UNP P10721 LINKER SEQADV 8PQD PRO A 756 UNP P10721 LINKER SEQADV 8PQD GLU A 757 UNP P10721 LINKER SEQADV 8PQD ASP A 758 UNP P10721 LINKER SEQADV 8PQD LEU A 759 UNP P10721 LINKER SEQADV 8PQD TYR A 760 UNP P10721 LINKER SEQADV 8PQD LYS A 761 UNP P10721 LINKER SEQADV 8PQD ASP A 762 UNP P10721 LINKER SEQADV 8PQD PHE A 763 UNP P10721 LINKER SEQADV 8PQD LEU A 764 UNP P10721 LINKER SEQADV 8PQD THR A 765 UNP P10721 LINKER SEQADV 8PQD HIS A 768 UNP P10721 ASP 768 ENGINEERED MUTATION SEQADV 8PQD ASN A 804 UNP P10721 ARG 804 ENGINEERED MUTATION SEQADV 8PQD ASP A 825 UNP P10721 VAL 825 ENGINEERED MUTATION SEQADV 8PQD SER A 844 UNP P10721 CYS 844 ENGINEERED MUTATION SEQADV 8PQD SER A 890 UNP P10721 LEU 890 ENGINEERED MUTATION SEQADV 8PQD TYR A 894 UNP P10721 HIS 894 ENGINEERED MUTATION SEQADV 8PQD ASP A 912 UNP P10721 LEU 912 ENGINEERED MUTATION SEQADV 8PQD ASP A 923 UNP P10721 LEU 923 ENGINEERED MUTATION SEQADV 8PQD GLY B 548 UNP P10721 EXPRESSION TAG SEQADV 8PQD SER B 549 UNP P10721 EXPRESSION TAG SEQADV 8PQD MET B 550 UNP P10721 EXPRESSION TAG SEQADV 8PQD SER B 563 UNP P10721 ILE 563 ENGINEERED MUTATION SEQADV 8PQD SER B 569 UNP P10721 VAL 569 ENGINEERED MUTATION SEQADV 8PQD GLN B 609 UNP P10721 TYR 609 ENGINEERED MUTATION SEQADV 8PQD SER B 631 UNP P10721 LEU 631 ENGINEERED MUTATION SEQADV 8PQD GLU B 651 UNP P10721 MET 651 ENGINEERED MUTATION SEQADV 8PQD HIS B 662 UNP P10721 ILE 662 ENGINEERED MUTATION SEQADV 8PQD GLU B 688 UNP P10721 LINKER SEQADV 8PQD PHE B 689 UNP P10721 LINKER SEQADV 8PQD VAL B 690 UNP P10721 LINKER SEQADV 8PQD PRO B 691 UNP P10721 LINKER SEQADV 8PQD TYR B 692 UNP P10721 LINKER SEQADV 8PQD LYS B 693 UNP P10721 LINKER SEQADV 8PQD VAL B 754 UNP P10721 LINKER SEQADV 8PQD ALA B 755 UNP P10721 LINKER SEQADV 8PQD PRO B 756 UNP P10721 LINKER SEQADV 8PQD GLU B 757 UNP P10721 LINKER SEQADV 8PQD ASP B 758 UNP P10721 LINKER SEQADV 8PQD LEU B 759 UNP P10721 LINKER SEQADV 8PQD TYR B 760 UNP P10721 LINKER SEQADV 8PQD LYS B 761 UNP P10721 LINKER SEQADV 8PQD ASP B 762 UNP P10721 LINKER SEQADV 8PQD PHE B 763 UNP P10721 LINKER SEQADV 8PQD LEU B 764 UNP P10721 LINKER SEQADV 8PQD THR B 765 UNP P10721 LINKER SEQADV 8PQD HIS B 768 UNP P10721 ASP 768 ENGINEERED MUTATION SEQADV 8PQD ASN B 804 UNP P10721 ARG 804 ENGINEERED MUTATION SEQADV 8PQD ASP B 825 UNP P10721 VAL 825 ENGINEERED MUTATION SEQADV 8PQD SER B 844 UNP P10721 CYS 844 ENGINEERED MUTATION SEQADV 8PQD SER B 890 UNP P10721 LEU 890 ENGINEERED MUTATION SEQADV 8PQD TYR B 894 UNP P10721 HIS 894 ENGINEERED MUTATION SEQADV 8PQD ASP B 912 UNP P10721 LEU 912 ENGINEERED MUTATION SEQADV 8PQD ASP B 923 UNP P10721 LEU 923 ENGINEERED MUTATION SEQRES 1 A 327 GLY SER MET PRO MET TYR GLU VAL GLN TRP LYS VAL VAL SEQRES 2 A 327 GLU GLU SER ASN GLY ASN ASN TYR SER TYR ILE ASP PRO SEQRES 3 A 327 THR GLN LEU PRO TYR ASP HIS LYS TRP GLU PHE PRO ARG SEQRES 4 A 327 ASN ARG LEU SER PHE GLY LYS THR LEU GLY ALA GLY ALA SEQRES 5 A 327 PHE GLY LYS VAL VAL GLU ALA THR ALA GLN GLY LEU ILE SEQRES 6 A 327 LYS SER ASP ALA ALA MET THR VAL ALA VAL LYS MET LEU SEQRES 7 A 327 LYS PRO SER ALA HIS SER THR GLU ARG GLU ALA LEU MET SEQRES 8 A 327 SER GLU LEU LYS VAL LEU SER TYR LEU GLY ASN HIS GLU SEQRES 9 A 327 ASN ILE VAL ASN LEU LEU GLY ALA CYS THR HIS GLY GLY SEQRES 10 A 327 PRO THR LEU VAL ILE THR GLU TYR CYS CYS TYR GLY ASP SEQRES 11 A 327 LEU LEU ASN PHE LEU ARG ARG LYS ARG ASP GLU PHE VAL SEQRES 12 A 327 PRO TYR LYS VAL ALA PRO GLU ASP LEU TYR LYS ASP PHE SEQRES 13 A 327 LEU THR LEU GLU HIS LEU LEU SER PHE SER TYR GLN VAL SEQRES 14 A 327 ALA LYS GLY MET ALA PHE LEU ALA SER LYS ASN CYS ILE SEQRES 15 A 327 HIS ARG ASP LEU ALA ALA ARG ASN ILE LEU LEU THR HIS SEQRES 16 A 327 GLY ASN ILE THR LYS ILE CYS ASP PHE GLY LEU ALA ARG SEQRES 17 A 327 ASP ILE LYS ASN ASP SER ASN TYR VAL ASP LYS GLY ASN SEQRES 18 A 327 ALA ARG LEU PRO VAL LYS TRP MET ALA PRO GLU SER ILE SEQRES 19 A 327 PHE ASN SER VAL TYR THR PHE GLU SER ASP VAL TRP SER SEQRES 20 A 327 TYR GLY ILE PHE LEU TRP GLU LEU PHE SER LEU GLY SER SEQRES 21 A 327 SER PRO TYR PRO GLY MET PRO VAL ASP SER LYS PHE TYR SEQRES 22 A 327 LYS MET ILE LYS GLU GLY PHE ARG MET SER SER PRO GLU SEQRES 23 A 327 TYR ALA PRO ALA GLU MET TYR ASP ILE MET LYS THR CYS SEQRES 24 A 327 TRP ASP ALA ASP PRO ASP LYS ARG PRO THR PHE LYS GLN SEQRES 25 A 327 ILE VAL GLN ASP ILE GLU LYS GLN ILE SER GLU SER THR SEQRES 26 A 327 ASN HIS SEQRES 1 B 327 GLY SER MET PRO MET TYR GLU VAL GLN TRP LYS VAL VAL SEQRES 2 B 327 GLU GLU SER ASN GLY ASN ASN TYR SER TYR ILE ASP PRO SEQRES 3 B 327 THR GLN LEU PRO TYR ASP HIS LYS TRP GLU PHE PRO ARG SEQRES 4 B 327 ASN ARG LEU SER PHE GLY LYS THR LEU GLY ALA GLY ALA SEQRES 5 B 327 PHE GLY LYS VAL VAL GLU ALA THR ALA GLN GLY LEU ILE SEQRES 6 B 327 LYS SER ASP ALA ALA MET THR VAL ALA VAL LYS MET LEU SEQRES 7 B 327 LYS PRO SER ALA HIS SER THR GLU ARG GLU ALA LEU MET SEQRES 8 B 327 SER GLU LEU LYS VAL LEU SER TYR LEU GLY ASN HIS GLU SEQRES 9 B 327 ASN ILE VAL ASN LEU LEU GLY ALA CYS THR HIS GLY GLY SEQRES 10 B 327 PRO THR LEU VAL ILE THR GLU TYR CYS CYS TYR GLY ASP SEQRES 11 B 327 LEU LEU ASN PHE LEU ARG ARG LYS ARG ASP GLU PHE VAL SEQRES 12 B 327 PRO TYR LYS VAL ALA PRO GLU ASP LEU TYR LYS ASP PHE SEQRES 13 B 327 LEU THR LEU GLU HIS LEU LEU SER PHE SER TYR GLN VAL SEQRES 14 B 327 ALA LYS GLY MET ALA PHE LEU ALA SER LYS ASN CYS ILE SEQRES 15 B 327 HIS ARG ASP LEU ALA ALA ARG ASN ILE LEU LEU THR HIS SEQRES 16 B 327 GLY ASN ILE THR LYS ILE CYS ASP PHE GLY LEU ALA ARG SEQRES 17 B 327 ASP ILE LYS ASN ASP SER ASN TYR VAL ASP LYS GLY ASN SEQRES 18 B 327 ALA ARG LEU PRO VAL LYS TRP MET ALA PRO GLU SER ILE SEQRES 19 B 327 PHE ASN SER VAL TYR THR PHE GLU SER ASP VAL TRP SER SEQRES 20 B 327 TYR GLY ILE PHE LEU TRP GLU LEU PHE SER LEU GLY SER SEQRES 21 B 327 SER PRO TYR PRO GLY MET PRO VAL ASP SER LYS PHE TYR SEQRES 22 B 327 LYS MET ILE LYS GLU GLY PHE ARG MET SER SER PRO GLU SEQRES 23 B 327 TYR ALA PRO ALA GLU MET TYR ASP ILE MET LYS THR CYS SEQRES 24 B 327 TRP ASP ALA ASP PRO ASP LYS ARG PRO THR PHE LYS GLN SEQRES 25 B 327 ILE VAL GLN ASP ILE GLU LYS GLN ILE SER GLU SER THR SEQRES 26 B 327 ASN HIS HET 9VV A1001 44 HET 9VV B1001 40 HETNAM 9VV ~{N}-[(1~{S})-1-(4-FLUOROPHENYL)-1-[2-[4-[6-(1- HETNAM 2 9VV METHYLPYRAZOL-4-YL)PYRROLO[2,1-F][1,2,4]TRIAZIN-4- HETNAM 3 9VV YL]PIPERAZIN-1-YL]PYRIMIDIN-5-YL]ETHYL]ETHANAMIDE FORMUL 3 9VV 2(C28 H29 F N10 O) FORMUL 5 HOH *602(H2 O) HELIX 1 AA1 ASP A 572 LEU A 576 5 5 HELIX 2 AA2 ASP A 579 GLU A 583 5 5 HELIX 3 AA3 PRO A 585 ASN A 587 5 3 HELIX 4 AA4 HIS A 630 GLY A 648 1 19 HELIX 5 AA5 ASP A 677 ARG A 686 1 10 HELIX 6 AA6 ASP A 687 PHE A 689 5 3 HELIX 7 AA7 THR A 765 LYS A 786 1 22 HELIX 8 AA8 ALA A 794 ARG A 796 5 3 HELIX 9 AA9 HIS A 802 ASN A 804 5 3 HELIX 10 AB1 PRO A 832 MET A 836 5 5 HELIX 11 AB2 ALA A 837 SER A 844 1 8 HELIX 12 AB3 THR A 847 SER A 864 1 18 HELIX 13 AB4 ASP A 876 GLY A 886 1 11 HELIX 14 AB5 PRO A 896 TRP A 907 1 12 HELIX 15 AB6 ASP A 910 ARG A 914 5 5 HELIX 16 AB7 THR A 916 SER A 931 1 16 HELIX 17 AB8 ASP B 572 LEU B 576 5 5 HELIX 18 AB9 ASP B 579 GLU B 583 5 5 HELIX 19 AC1 PRO B 585 ASN B 587 5 3 HELIX 20 AC2 HIS B 630 GLY B 648 1 19 HELIX 21 AC3 ASP B 677 ARG B 686 1 10 HELIX 22 AC4 ASP B 687 PHE B 689 5 3 HELIX 23 AC5 THR B 765 LYS B 786 1 22 HELIX 24 AC6 ALA B 794 ARG B 796 5 3 HELIX 25 AC7 HIS B 802 ASN B 804 5 3 HELIX 26 AC8 PRO B 832 MET B 836 5 5 HELIX 27 AC9 ALA B 837 SER B 844 1 8 HELIX 28 AD1 THR B 847 SER B 864 1 18 HELIX 29 AD2 ASP B 876 GLY B 886 1 11 HELIX 30 AD3 PRO B 896 TRP B 907 1 12 HELIX 31 AD4 ASP B 910 ARG B 914 5 5 HELIX 32 AD5 THR B 916 SER B 931 1 16 SHEET 1 AA1 5 LEU A 589 ALA A 597 0 SHEET 2 AA1 5 GLY A 601 GLN A 609 -1 O GLU A 605 N GLY A 592 SHEET 3 AA1 5 ALA A 617 LEU A 625 -1 O MET A 618 N ALA A 608 SHEET 4 AA1 5 LEU A 667 GLU A 671 -1 O THR A 670 N ALA A 621 SHEET 5 AA1 5 LEU A 656 CYS A 660 -1 N LEU A 657 O ILE A 669 SHEET 1 AA2 2 CYS A 788 ILE A 789 0 SHEET 2 AA2 2 ARG A 815 ASP A 816 -1 O ARG A 815 N ILE A 789 SHEET 1 AA3 2 ILE A 798 THR A 801 0 SHEET 2 AA3 2 ILE A 805 ILE A 808 -1 O LYS A 807 N LEU A 799 SHEET 1 AA4 2 TYR A 823 VAL A 824 0 SHEET 2 AA4 2 VAL A 845 TYR A 846 -1 O TYR A 846 N TYR A 823 SHEET 1 AA5 5 LEU B 589 ALA B 597 0 SHEET 2 AA5 5 GLY B 601 LYS B 613 -1 O GLU B 605 N GLY B 592 SHEET 3 AA5 5 ALA B 616 LEU B 625 -1 O VAL B 620 N ALA B 606 SHEET 4 AA5 5 LEU B 667 GLU B 671 -1 O VAL B 668 N LYS B 623 SHEET 5 AA5 5 LEU B 656 CYS B 660 -1 N LEU B 657 O ILE B 669 SHEET 1 AA6 2 CYS B 788 ILE B 789 0 SHEET 2 AA6 2 ARG B 815 ASP B 816 -1 O ARG B 815 N ILE B 789 SHEET 1 AA7 2 ILE B 798 THR B 801 0 SHEET 2 AA7 2 ILE B 805 ILE B 808 -1 O LYS B 807 N LEU B 799 SHEET 1 AA8 2 TYR B 823 VAL B 824 0 SHEET 2 AA8 2 VAL B 845 TYR B 846 -1 O TYR B 846 N TYR B 823 CRYST1 59.390 59.370 192.890 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 0.016838 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016844 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005184 0.00000