HEADER SIGNALING PROTEIN 21-JAN-20 6XV9 TITLE CRYSTAL STRUCTURE OF THE KINASE DOMAIN OF HUMAN C-KIT IN COMPLEX WITH TITLE 2 A TYPE-II INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAST/STEM CELL GROWTH FACTOR RECEPTOR KIT,MAST/STEM CELL COMPND 3 GROWTH FACTOR RECEPTOR KIT; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: PROTEIN KINASE DOMAIN (551-934 DEL[688-755]),PROTEIN KINASE COMPND 6 DOMAIN (551-934 DEL[688-755]),PROTEIN KINASE DOMAIN (551-934 DEL[688- COMPND 7 755]),PROTEIN KINASE DOMAIN (551-934 DEL[688-755]); COMPND 8 SYNONYM: SCFR,PIEBALD TRAIT PROTEIN,PBT,PROTO-ONCOGENE C-KIT, COMPND 9 TYROSINE-PROTEIN KINASE KIT,P145 C-KIT,V-KIT HARDY-ZUCKERMAN 4 FELINE COMPND 10 SARCOMA VIRAL ONCOGENE HOMOLOG,SCFR,PIEBALD TRAIT PROTEIN,PBT,PROTO- COMPND 11 ONCOGENE C-KIT,TYROSINE-PROTEIN KINASE KIT,P145 C-KIT,V-KIT HARDY- COMPND 12 ZUCKERMAN 4 FELINE SARCOMA VIRAL ONCOGENE HOMOLOG; COMPND 13 EC: 2.7.10.1,2.7.10.1; COMPND 14 ENGINEERED: YES; COMPND 15 MUTATION: 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 STAR (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS TYPE II KINASE INHIBITOR, STRUCTURE-BASED DRUG DESIGN, SIGNALING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.J.OGG,T.HOWARD,K.MCAULEY,E.A.HOYT,M.THOMAS,M.S.BODNARCHUK, AUTHOR 2 H.J.LEWIS,D.BARRATT,M.J.DEERY,G.J.L.BERNARDES,R.A.WARD,J.G.KETTLE, AUTHOR 3 M.J.WARING REVDAT 3 01-MAY-24 6XV9 1 REMARK REVDAT 2 17-JUN-20 6XV9 1 JRNL REVDAT 1 27-MAY-20 6XV9 0 JRNL AUTH K.MCAULAY,E.A.HOYT,M.THOMAS,M.SCHIMPL,M.S.BODNARCHUK, JRNL AUTH 2 H.J.LEWIS,D.BARRATT,D.BHAVSAR,D.M.ROBINSON,M.J.DEERY, JRNL AUTH 3 D.J.OGG,G.J.L.BERNARDES,R.A.WARD,M.J.WARING,J.G.KETTLE JRNL TITL ALKYNYL BENZOXAZINES AND DIHYDROQUINAZOLINES AS CYSTEINE JRNL TITL 2 TARGETING COVALENT WARHEADS AND THEIR APPLICATION IN JRNL TITL 3 IDENTIFICATION OF SELECTIVE IRREVERSIBLE KINASE INHIBITORS. JRNL REF J.AM.CHEM.SOC. V. 142 10358 2020 JRNL REFN ESSN 1520-5126 JRNL PMID 32412754 JRNL DOI 10.1021/JACS.9B13391 REMARK 2 REMARK 2 RESOLUTION. 3.38 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 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) : 3.38 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 10307 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.920 REMARK 3 FREE R VALUE TEST SET COUNT : 507 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 : 5 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.38 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.78 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.10 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2863 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2119 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2689 REMARK 3 BIN R VALUE (WORKING SET) : 0.2075 REMARK 3 BIN FREE R VALUE : 0.2773 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 6.08 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 174 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4771 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 72 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 71.33 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 84.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -8.21750 REMARK 3 B22 (A**2) : 18.02820 REMARK 3 B33 (A**2) : -9.81070 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) : 0.418 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.564 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL 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 : 0.905 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.861 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4976 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 6734 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1710 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 110 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 776 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4976 ; 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 : 617 ; 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 : 5580 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.11 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.74 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 20.23 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 186.3490 16.5433 70.5804 REMARK 3 T TENSOR REMARK 3 T11: -0.1364 T22: -0.1950 REMARK 3 T33: -0.1008 T12: -0.0307 REMARK 3 T13: -0.0468 T23: -0.0047 REMARK 3 L TENSOR REMARK 3 L11: 1.5720 L22: 5.6809 REMARK 3 L33: 1.6376 L12: -0.6468 REMARK 3 L13: 0.2729 L23: -0.8881 REMARK 3 S TENSOR REMARK 3 S11: -0.0330 S12: -0.0629 S13: -0.1197 REMARK 3 S21: 0.1544 S22: -0.0164 S23: -0.0202 REMARK 3 S31: -0.0541 S32: -0.0437 S33: 0.0494 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 180.3220 20.5427 107.0700 REMARK 3 T TENSOR REMARK 3 T11: -0.1123 T22: -0.1246 REMARK 3 T33: 0.0903 T12: -0.0125 REMARK 3 T13: -0.1128 T23: 0.1320 REMARK 3 L TENSOR REMARK 3 L11: 4.5632 L22: 4.1698 REMARK 3 L33: 1.6410 L12: -0.5942 REMARK 3 L13: -0.8152 L23: 0.1493 REMARK 3 S TENSOR REMARK 3 S11: 0.0776 S12: -0.0476 S13: 0.0493 REMARK 3 S21: 0.3158 S22: -0.0839 S23: -0.8358 REMARK 3 S31: -0.0217 S32: 0.3740 S33: 0.0063 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6XV9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1292106381. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97949 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.12 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10347 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.380 REMARK 200 RESOLUTION RANGE LOW (A) : 90.610 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.21900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.38 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.57 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.66400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.7 REMARK 200 STARTING MODEL: INTERNAL MODEL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 % PEG4000, 20 % GLYCEROL, 10 % REMARK 280 MORPHEUS HALOGENS, 0.1 M IMIDAZOLE-MES BUFFER PH 6.5, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 293K 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 44.81600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.52100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.30700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.52100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.81600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.30700 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 547 REMARK 465 SER A 548 REMARK 465 HIS 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 THR A 932 REMARK 465 ASN A 933 REMARK 465 HIS A 934 REMARK 465 GLY B 547 REMARK 465 SER B 548 REMARK 465 HIS 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 ASN B 566 REMARK 465 ASN B 567 REMARK 465 TYR B 568 REMARK 465 SER B 569 REMARK 465 TYR B 570 REMARK 465 ILE B 571 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 THR B 932 REMARK 465 ASN B 933 REMARK 465 HIS B 934 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 615 -3.03 -57.11 REMARK 500 ARG A 791 -5.84 72.93 REMARK 500 ASP A 792 47.61 -150.92 REMARK 500 THR A 801 -169.69 -115.67 REMARK 500 ASP B 615 7.04 51.32 REMARK 500 ARG B 791 -9.43 75.50 REMARK 500 ASP B 792 49.01 -151.04 REMARK 500 THR B 801 -166.23 -123.55 REMARK 500 ASN B 843 -0.20 -140.68 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 O35 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue O35 B 1001 DBREF 6XV9 A 551 687 UNP P10721 KIT_HUMAN 551 687 DBREF 6XV9 A 766 934 UNP P10721 KIT_HUMAN 766 934 DBREF 6XV9 B 551 687 UNP P10721 KIT_HUMAN 551 687 DBREF 6XV9 B 766 934 UNP P10721 KIT_HUMAN 766 934 SEQADV 6XV9 GLY A 547 UNP P10721 EXPRESSION TAG SEQADV 6XV9 SER A 548 UNP P10721 EXPRESSION TAG SEQADV 6XV9 HIS A 549 UNP P10721 EXPRESSION TAG SEQADV 6XV9 MET A 550 UNP P10721 EXPRESSION TAG SEQADV 6XV9 SER A 563 UNP P10721 ILE 563 ENGINEERED MUTATION SEQADV 6XV9 SER A 569 UNP P10721 VAL 569 ENGINEERED MUTATION SEQADV 6XV9 GLN A 609 UNP P10721 TYR 609 ENGINEERED MUTATION SEQADV 6XV9 SER A 631 UNP P10721 LEU 631 ENGINEERED MUTATION SEQADV 6XV9 GLU A 651 UNP P10721 MET 651 ENGINEERED MUTATION SEQADV 6XV9 HIS A 662 UNP P10721 ILE 662 ENGINEERED MUTATION SEQADV 6XV9 GLU A 688 UNP P10721 LINKER SEQADV 6XV9 PHE A 689 UNP P10721 LINKER SEQADV 6XV9 VAL A 690 UNP P10721 LINKER SEQADV 6XV9 PRO A 691 UNP P10721 LINKER SEQADV 6XV9 TYR A 692 UNP P10721 LINKER SEQADV 6XV9 LYS A 693 UNP P10721 LINKER SEQADV 6XV9 VAL A 694 UNP P10721 LINKER SEQADV 6XV9 ALA A 695 UNP P10721 LINKER SEQADV 6XV9 PRO A 696 UNP P10721 LINKER SEQADV 6XV9 GLU A 757 UNP P10721 LINKER SEQADV 6XV9 ASP A 758 UNP P10721 LINKER SEQADV 6XV9 LEU A 759 UNP P10721 LINKER SEQADV 6XV9 TYR A 760 UNP P10721 LINKER SEQADV 6XV9 LYS A 761 UNP P10721 LINKER SEQADV 6XV9 ASP A 762 UNP P10721 LINKER SEQADV 6XV9 PHE A 763 UNP P10721 LINKER SEQADV 6XV9 LEU A 764 UNP P10721 LINKER SEQADV 6XV9 THR A 765 UNP P10721 LINKER SEQADV 6XV9 HIS A 768 UNP P10721 ASP 768 ENGINEERED MUTATION SEQADV 6XV9 ASN A 804 UNP P10721 ARG 804 ENGINEERED MUTATION SEQADV 6XV9 ASP A 825 UNP P10721 VAL 825 ENGINEERED MUTATION SEQADV 6XV9 SER A 844 UNP P10721 CYS 844 ENGINEERED MUTATION SEQADV 6XV9 SER A 890 UNP P10721 LEU 890 ENGINEERED MUTATION SEQADV 6XV9 TYR A 894 UNP P10721 HIS 894 ENGINEERED MUTATION SEQADV 6XV9 ASP A 912 UNP P10721 LEU 912 ENGINEERED MUTATION SEQADV 6XV9 ASP A 923 UNP P10721 LEU 923 ENGINEERED MUTATION SEQADV 6XV9 GLY B 547 UNP P10721 EXPRESSION TAG SEQADV 6XV9 SER B 548 UNP P10721 EXPRESSION TAG SEQADV 6XV9 HIS B 549 UNP P10721 EXPRESSION TAG SEQADV 6XV9 MET B 550 UNP P10721 EXPRESSION TAG SEQADV 6XV9 SER B 563 UNP P10721 ILE 563 ENGINEERED MUTATION SEQADV 6XV9 SER B 569 UNP P10721 VAL 569 ENGINEERED MUTATION SEQADV 6XV9 GLN B 609 UNP P10721 TYR 609 ENGINEERED MUTATION SEQADV 6XV9 SER B 631 UNP P10721 LEU 631 ENGINEERED MUTATION SEQADV 6XV9 GLU B 651 UNP P10721 MET 651 ENGINEERED MUTATION SEQADV 6XV9 HIS B 662 UNP P10721 ILE 662 ENGINEERED MUTATION SEQADV 6XV9 GLU B 688 UNP P10721 LINKER SEQADV 6XV9 PHE B 689 UNP P10721 LINKER SEQADV 6XV9 VAL B 690 UNP P10721 LINKER SEQADV 6XV9 PRO B 691 UNP P10721 LINKER SEQADV 6XV9 TYR B 692 UNP P10721 LINKER SEQADV 6XV9 LYS B 693 UNP P10721 LINKER SEQADV 6XV9 VAL B 754 UNP P10721 LINKER SEQADV 6XV9 ALA B 755 UNP P10721 LINKER SEQADV 6XV9 PRO B 756 UNP P10721 LINKER SEQADV 6XV9 GLU B 757 UNP P10721 LINKER SEQADV 6XV9 ASP B 758 UNP P10721 LINKER SEQADV 6XV9 LEU B 759 UNP P10721 LINKER SEQADV 6XV9 TYR B 760 UNP P10721 LINKER SEQADV 6XV9 LYS B 761 UNP P10721 LINKER SEQADV 6XV9 ASP B 762 UNP P10721 LINKER SEQADV 6XV9 PHE B 763 UNP P10721 LINKER SEQADV 6XV9 LEU B 764 UNP P10721 LINKER SEQADV 6XV9 THR B 765 UNP P10721 LINKER SEQADV 6XV9 HIS B 768 UNP P10721 ASP 768 ENGINEERED MUTATION SEQADV 6XV9 ASN B 804 UNP P10721 ARG 804 ENGINEERED MUTATION SEQADV 6XV9 ASP B 825 UNP P10721 VAL 825 ENGINEERED MUTATION SEQADV 6XV9 SER B 844 UNP P10721 CYS 844 ENGINEERED MUTATION SEQADV 6XV9 SER B 890 UNP P10721 LEU 890 ENGINEERED MUTATION SEQADV 6XV9 TYR B 894 UNP P10721 HIS 894 ENGINEERED MUTATION SEQADV 6XV9 ASP B 912 UNP P10721 LEU 912 ENGINEERED MUTATION SEQADV 6XV9 ASP B 923 UNP P10721 LEU 923 ENGINEERED MUTATION SEQRES 1 A 328 GLY SER HIS MET PRO MET TYR GLU VAL GLN TRP LYS VAL SEQRES 2 A 328 VAL GLU GLU SER ASN GLY ASN ASN TYR SER TYR ILE ASP SEQRES 3 A 328 PRO THR GLN LEU PRO TYR ASP HIS LYS TRP GLU PHE PRO SEQRES 4 A 328 ARG ASN ARG LEU SER PHE GLY LYS THR LEU GLY ALA GLY SEQRES 5 A 328 ALA PHE GLY LYS VAL VAL GLU ALA THR ALA GLN GLY LEU SEQRES 6 A 328 ILE LYS SER ASP ALA ALA MET THR VAL ALA VAL LYS MET SEQRES 7 A 328 LEU LYS PRO SER ALA HIS SER THR GLU ARG GLU ALA LEU SEQRES 8 A 328 MET SER GLU LEU LYS VAL LEU SER TYR LEU GLY ASN HIS SEQRES 9 A 328 GLU ASN ILE VAL ASN LEU LEU GLY ALA CYS THR HIS GLY SEQRES 10 A 328 GLY PRO THR LEU VAL ILE THR GLU TYR CYS CYS TYR GLY SEQRES 11 A 328 ASP LEU LEU ASN PHE LEU ARG ARG LYS ARG ASP GLU PHE SEQRES 12 A 328 VAL PRO TYR LYS VAL ALA PRO GLU ASP LEU TYR LYS ASP SEQRES 13 A 328 PHE LEU THR LEU GLU HIS LEU LEU SER PHE SER TYR GLN SEQRES 14 A 328 VAL ALA LYS GLY MET ALA PHE LEU ALA SER LYS ASN CYS SEQRES 15 A 328 ILE HIS ARG ASP LEU ALA ALA ARG ASN ILE LEU LEU THR SEQRES 16 A 328 HIS GLY ASN ILE THR LYS ILE CYS ASP PHE GLY LEU ALA SEQRES 17 A 328 ARG ASP ILE LYS ASN ASP SER ASN TYR VAL ASP LYS GLY SEQRES 18 A 328 ASN ALA ARG LEU PRO VAL LYS TRP MET ALA PRO GLU SER SEQRES 19 A 328 ILE PHE ASN SER VAL TYR THR PHE GLU SER ASP VAL TRP SEQRES 20 A 328 SER TYR GLY ILE PHE LEU TRP GLU LEU PHE SER LEU GLY SEQRES 21 A 328 SER SER PRO TYR PRO GLY MET PRO VAL ASP SER LYS PHE SEQRES 22 A 328 TYR LYS MET ILE LYS GLU GLY PHE ARG MET SER SER PRO SEQRES 23 A 328 GLU TYR ALA PRO ALA GLU MET TYR ASP ILE MET LYS THR SEQRES 24 A 328 CYS TRP ASP ALA ASP PRO ASP LYS ARG PRO THR PHE LYS SEQRES 25 A 328 GLN ILE VAL GLN ASP ILE GLU LYS GLN ILE SER GLU SER SEQRES 26 A 328 THR ASN HIS SEQRES 1 B 328 GLY SER HIS MET PRO MET TYR GLU VAL GLN TRP LYS VAL SEQRES 2 B 328 VAL GLU GLU SER ASN GLY ASN ASN TYR SER TYR ILE ASP SEQRES 3 B 328 PRO THR GLN LEU PRO TYR ASP HIS LYS TRP GLU PHE PRO SEQRES 4 B 328 ARG ASN ARG LEU SER PHE GLY LYS THR LEU GLY ALA GLY SEQRES 5 B 328 ALA PHE GLY LYS VAL VAL GLU ALA THR ALA GLN GLY LEU SEQRES 6 B 328 ILE LYS SER ASP ALA ALA MET THR VAL ALA VAL LYS MET SEQRES 7 B 328 LEU LYS PRO SER ALA HIS SER THR GLU ARG GLU ALA LEU SEQRES 8 B 328 MET SER GLU LEU LYS VAL LEU SER TYR LEU GLY ASN HIS SEQRES 9 B 328 GLU ASN ILE VAL ASN LEU LEU GLY ALA CYS THR HIS GLY SEQRES 10 B 328 GLY PRO THR LEU VAL ILE THR GLU TYR CYS CYS TYR GLY SEQRES 11 B 328 ASP LEU LEU ASN PHE LEU ARG ARG LYS ARG ASP GLU PHE SEQRES 12 B 328 VAL PRO TYR LYS VAL ALA PRO GLU ASP LEU TYR LYS ASP SEQRES 13 B 328 PHE LEU THR LEU GLU HIS LEU LEU SER PHE SER TYR GLN SEQRES 14 B 328 VAL ALA LYS GLY MET ALA PHE LEU ALA SER LYS ASN CYS SEQRES 15 B 328 ILE HIS ARG ASP LEU ALA ALA ARG ASN ILE LEU LEU THR SEQRES 16 B 328 HIS GLY ASN ILE THR LYS ILE CYS ASP PHE GLY LEU ALA SEQRES 17 B 328 ARG ASP ILE LYS ASN ASP SER ASN TYR VAL ASP LYS GLY SEQRES 18 B 328 ASN ALA ARG LEU PRO VAL LYS TRP MET ALA PRO GLU SER SEQRES 19 B 328 ILE PHE ASN SER VAL TYR THR PHE GLU SER ASP VAL TRP SEQRES 20 B 328 SER TYR GLY ILE PHE LEU TRP GLU LEU PHE SER LEU GLY SEQRES 21 B 328 SER SER PRO TYR PRO GLY MET PRO VAL ASP SER LYS PHE SEQRES 22 B 328 TYR LYS MET ILE LYS GLU GLY PHE ARG MET SER SER PRO SEQRES 23 B 328 GLU TYR ALA PRO ALA GLU MET TYR ASP ILE MET LYS THR SEQRES 24 B 328 CYS TRP ASP ALA ASP PRO ASP LYS ARG PRO THR PHE LYS SEQRES 25 B 328 GLN ILE VAL GLN ASP ILE GLU LYS GLN ILE SER GLU SER SEQRES 26 B 328 THR ASN HIS HET O35 A1001 36 HET O35 B1001 36 HETNAM O35 ~{N}-[3-[(DIMETHYLAMINO)METHYL]-5-METHYL-PHENYL]-2-[3- HETNAM 2 O35 METHOXY-5-(7-METHOXYQUINOLIN-4-YL)OXY-PYRIDIN-2- HETNAM 3 O35 YL]ETHANAMIDE FORMUL 3 O35 2(C28 H30 N4 O4) HELIX 1 AA1 PRO A 585 ASN A 587 5 3 HELIX 2 AA2 HIS A 630 GLY A 648 1 19 HELIX 3 AA3 ASP A 677 ARG A 686 1 10 HELIX 4 AA4 ASP A 687 PHE A 689 5 3 HELIX 5 AA5 PRO A 696 ASP A 762 5 7 HELIX 6 AA6 THR A 765 LYS A 786 1 22 HELIX 7 AA7 ALA A 794 ARG A 796 5 3 HELIX 8 AA8 PHE A 811 ARG A 815 5 5 HELIX 9 AA9 PRO A 832 MET A 836 5 5 HELIX 10 AB1 ALA A 837 SER A 844 1 8 HELIX 11 AB2 THR A 847 SER A 864 1 18 HELIX 12 AB3 ASP A 876 GLU A 885 1 10 HELIX 13 AB4 PRO A 896 TRP A 907 1 12 HELIX 14 AB5 ASP A 910 ARG A 914 5 5 HELIX 15 AB6 THR A 916 GLU A 930 1 15 HELIX 16 AB7 PRO B 585 ASN B 587 5 3 HELIX 17 AB8 HIS B 630 GLY B 648 1 19 HELIX 18 AB9 LEU B 678 ARG B 686 1 9 HELIX 19 AC1 ASP B 687 PHE B 689 5 3 HELIX 20 AC2 THR B 765 LYS B 786 1 22 HELIX 21 AC3 ALA B 794 ARG B 796 5 3 HELIX 22 AC4 PHE B 811 ARG B 815 5 5 HELIX 23 AC5 PRO B 832 MET B 836 5 5 HELIX 24 AC6 ALA B 837 SER B 844 1 8 HELIX 25 AC7 THR B 847 SER B 864 1 18 HELIX 26 AC8 ASP B 876 GLU B 885 1 10 HELIX 27 AC9 PRO B 896 TRP B 907 1 12 HELIX 28 AD1 ASP B 910 ARG B 914 5 5 HELIX 29 AD2 THR B 916 GLU B 930 1 15 SHEET 1 AA1 5 LEU A 589 ALA A 597 0 SHEET 2 AA1 5 GLY A 601 ALA A 608 -1 O GLU A 605 N GLY A 592 SHEET 3 AA1 5 MET A 618 LEU A 625 -1 O VAL A 622 N VAL A 604 SHEET 4 AA1 5 LEU A 667 GLU A 671 -1 O VAL A 668 N LYS A 623 SHEET 5 AA1 5 LEU A 656 CYS A 660 -1 N LEU A 657 O ILE A 669 SHEET 1 AA2 2 ILE A 798 THR A 801 0 SHEET 2 AA2 2 ILE A 805 ILE A 808 -1 O ILE A 805 N THR A 801 SHEET 1 AA3 2 VAL A 824 LYS A 826 0 SHEET 2 AA3 2 ALA A 829 LEU A 831 -1 O LEU A 831 N VAL A 824 SHEET 1 AA4 5 LEU B 589 ALA B 597 0 SHEET 2 AA4 5 GLY B 601 ALA B 608 -1 O GLU B 605 N GLY B 592 SHEET 3 AA4 5 MET B 618 LEU B 625 -1 O MET B 618 N ALA B 608 SHEET 4 AA4 5 LEU B 667 GLU B 671 -1 O VAL B 668 N LYS B 623 SHEET 5 AA4 5 LEU B 656 CYS B 660 -1 N LEU B 657 O ILE B 669 SHEET 1 AA5 3 GLY B 676 ASP B 677 0 SHEET 2 AA5 3 ILE B 798 THR B 801 -1 O LEU B 800 N GLY B 676 SHEET 3 AA5 3 ILE B 805 ILE B 808 -1 O LYS B 807 N LEU B 799 SHEET 1 AA6 2 VAL B 824 LYS B 826 0 SHEET 2 AA6 2 ALA B 829 LEU B 831 -1 O LEU B 831 N VAL B 824 SITE 1 AC1 19 LEU A 595 VAL A 603 ALA A 621 LYS A 623 SITE 2 AC1 19 GLU A 640 LEU A 644 ILE A 653 VAL A 668 SITE 3 AC1 19 THR A 670 GLU A 671 TYR A 672 CYS A 673 SITE 4 AC1 19 GLY A 676 HIS A 790 LEU A 799 ILE A 808 SITE 5 AC1 19 CYS A 809 ASP A 810 PHE A 811 SITE 1 AC2 20 VAL B 603 ALA B 621 LYS B 623 GLU B 640 SITE 2 AC2 20 LEU B 644 ILE B 653 VAL B 654 VAL B 668 SITE 3 AC2 20 THR B 670 GLU B 671 TYR B 672 CYS B 673 SITE 4 AC2 20 GLY B 676 CYS B 788 HIS B 790 LEU B 799 SITE 5 AC2 20 ILE B 808 CYS B 809 ASP B 810 PHE B 811 CRYST1 89.632 90.614 87.042 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 0.011157 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011036 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011489 0.00000