HEADER SIGNALING PROTEIN 21-JAN-20 6XVA TITLE CRYSTAL STRUCTURE OF THE KINASE DOMAIN OF HUMAN C-KIT IN COMPLEX WITH TITLE 2 A TYPE-II INHIBITOR BEARING AN ACRYLAMIDE 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]); COMPND 7 SYNONYM: SCFR,PIEBALD TRAIT PROTEIN,PBT,PROTO-ONCOGENE C-KIT, COMPND 8 TYROSINE-PROTEIN KINASE KIT,P145 C-KIT,V-KIT HARDY-ZUCKERMAN 4 FELINE COMPND 9 SARCOMA VIRAL ONCOGENE HOMOLOG,SCFR,PIEBALD TRAIT PROTEIN,PBT,PROTO- COMPND 10 ONCOGENE C-KIT,TYROSINE-PROTEIN KINASE KIT,P145 C-KIT,V-KIT HARDY- COMPND 11 ZUCKERMAN 4 FELINE SARCOMA VIRAL ONCOGENE HOMOLOG; COMPND 12 EC: 2.7.10.1,2.7.10.1; COMPND 13 ENGINEERED: YES; COMPND 14 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 BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: 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 M.SCHIMPL,K.MCAULEY,E.A.HOYT,M.THOMAS,M.S.BODNARCHUK,H.J.LEWIS, AUTHOR 2 D.BARRATT,M.J.DEERY,D.J.OGG,G.J.L.BERNARDES,R.A.WARD,J.G.KETTLE, AUTHOR 3 M.J.WARING REVDAT 2 17-JUN-20 6XVA 1 JRNL REVDAT 1 27-MAY-20 6XVA 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. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 67.3 REMARK 3 NUMBER OF REFLECTIONS : 22141 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.170 REMARK 3 FREE R VALUE TEST SET COUNT : 1144 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 : 50 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.37 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 14.66 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 443 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2121 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 422 REMARK 3 BIN R VALUE (WORKING SET) : 0.2100 REMARK 3 BIN FREE R VALUE : 0.2535 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.74 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 21 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 : 4600 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 75 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 51.76 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.95040 REMARK 3 B22 (A**2) : 1.81090 REMARK 3 B33 (A**2) : -5.76130 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) : 0.330 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.643 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.293 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.631 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.297 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 : 0.930 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4797 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 6489 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1646 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 794 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4797 ; 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 : 602 ; 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 : 5382 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.13 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.93 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.77 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): -16.9797 37.9049 29.1841 REMARK 3 T TENSOR REMARK 3 T11: -0.1191 T22: -0.1095 REMARK 3 T33: -0.2186 T12: 0.0492 REMARK 3 T13: 0.0326 T23: -0.0168 REMARK 3 L TENSOR REMARK 3 L11: 1.2897 L22: 1.8694 REMARK 3 L33: 3.4966 L12: -0.0678 REMARK 3 L13: 0.6283 L23: -0.4754 REMARK 3 S TENSOR REMARK 3 S11: -0.0808 S12: -0.0085 S13: 0.0077 REMARK 3 S21: -0.0053 S22: 0.0250 S23: -0.0474 REMARK 3 S31: -0.0939 S32: -0.0067 S33: 0.0558 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 19.6771 44.5194 24.9234 REMARK 3 T TENSOR REMARK 3 T11: 0.0066 T22: -0.0376 REMARK 3 T33: -0.0786 T12: 0.0642 REMARK 3 T13: -0.0007 T23: 0.0051 REMARK 3 L TENSOR REMARK 3 L11: 1.6304 L22: 5.0600 REMARK 3 L33: 1.9082 L12: 0.9535 REMARK 3 L13: 0.2382 L23: 0.0791 REMARK 3 S TENSOR REMARK 3 S11: 0.0029 S12: -0.0109 S13: -0.4016 REMARK 3 S21: -0.0041 S22: 0.0640 S23: -0.3195 REMARK 3 S31: 0.3445 S32: 0.2348 S33: -0.0668 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6XVA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1292106369. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-NOV-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97858 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 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22158 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.297 REMARK 200 RESOLUTION RANGE LOW (A) : 45.370 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.7 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 1.10100 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: AMORE REMARK 200 STARTING MODEL: INTERNAL MODEL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 % PEG4000, 20 % GLYCEROL, 10 % REMARK 280 MORPHEUS CARBOXYLIC ACIDS, 0.1 M HEPES-MOPS BUFFER PH 7.5, 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 44.06750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.37250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.02250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.37250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.06750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.02250 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 ASN A 566 REMARK 465 ASN A 567 REMARK 465 TYR A 568 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 LYS A 761 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 ASP B 572 REMARK 465 PRO B 573 REMARK 465 THR B 574 REMARK 465 GLN B 575 REMARK 465 LEU B 576 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 THR B 932 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 613 CG CD CE NZ REMARK 470 TYR A 692 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 HIS B 580 CG ND1 CD2 CE1 NE2 REMARK 470 ARG B 634 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 693 CG CD CE NZ REMARK 470 LYS B 761 CG CD CE NZ REMARK 470 ASP B 762 CG OD1 OD2 REMARK 470 PHE B 763 CG CD1 CD2 CE1 CE2 CZ 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 HIS A 580 2.67 -68.89 REMARK 500 GLU A 688 53.89 -119.82 REMARK 500 ARG A 791 -12.36 75.29 REMARK 500 ASP A 792 46.01 -144.45 REMARK 500 THR A 801 -164.12 -123.87 REMARK 500 ASP A 810 95.60 -160.13 REMARK 500 HIS B 580 3.34 -68.49 REMARK 500 ASP B 615 33.16 70.70 REMARK 500 HIS B 630 -151.57 -82.84 REMARK 500 GLU B 688 52.67 -119.67 REMARK 500 ASP B 762 20.97 41.17 REMARK 500 ARG B 791 -12.76 76.72 REMARK 500 ASP B 792 45.13 -144.16 REMARK 500 THR B 801 -164.06 -123.04 REMARK 500 CYS B 809 -168.14 -129.58 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 O2K A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue O2K B 1001 DBREF 6XVA A 551 687 UNP P10721 KIT_HUMAN 551 687 DBREF 6XVA A 766 934 UNP P10721 KIT_HUMAN 766 934 DBREF 6XVA B 551 687 UNP P10721 KIT_HUMAN 551 687 DBREF 6XVA B 766 934 UNP P10721 KIT_HUMAN 766 934 SEQADV 6XVA GLY A 547 UNP P10721 EXPRESSION TAG SEQADV 6XVA SER A 548 UNP P10721 EXPRESSION TAG SEQADV 6XVA HIS A 549 UNP P10721 EXPRESSION TAG SEQADV 6XVA MET A 550 UNP P10721 EXPRESSION TAG SEQADV 6XVA SER A 563 UNP P10721 ILE 563 ENGINEERED MUTATION SEQADV 6XVA SER A 569 UNP P10721 VAL 569 ENGINEERED MUTATION SEQADV 6XVA GLN A 609 UNP P10721 TYR 609 ENGINEERED MUTATION SEQADV 6XVA SER A 631 UNP P10721 LEU 631 ENGINEERED MUTATION SEQADV 6XVA GLU A 651 UNP P10721 MET 651 ENGINEERED MUTATION SEQADV 6XVA HIS A 662 UNP P10721 ILE 662 ENGINEERED MUTATION SEQADV 6XVA GLU A 688 UNP P10721 LINKER SEQADV 6XVA PHE A 689 UNP P10721 LINKER SEQADV 6XVA VAL A 690 UNP P10721 LINKER SEQADV 6XVA PRO A 691 UNP P10721 LINKER SEQADV 6XVA TYR A 692 UNP P10721 LINKER SEQADV 6XVA LYS A 753 UNP P10721 LINKER SEQADV 6XVA VAL A 754 UNP P10721 LINKER SEQADV 6XVA ALA A 755 UNP P10721 LINKER SEQADV 6XVA PRO A 756 UNP P10721 LINKER SEQADV 6XVA GLU A 757 UNP P10721 LINKER SEQADV 6XVA ASP A 758 UNP P10721 LINKER SEQADV 6XVA LEU A 759 UNP P10721 LINKER SEQADV 6XVA TYR A 760 UNP P10721 LINKER SEQADV 6XVA LYS A 761 UNP P10721 LINKER SEQADV 6XVA ASP A 762 UNP P10721 LINKER SEQADV 6XVA PHE A 763 UNP P10721 LINKER SEQADV 6XVA LEU A 764 UNP P10721 LINKER SEQADV 6XVA THR A 765 UNP P10721 LINKER SEQADV 6XVA HIS A 768 UNP P10721 ASP 768 ENGINEERED MUTATION SEQADV 6XVA ASN A 804 UNP P10721 ARG 804 ENGINEERED MUTATION SEQADV 6XVA ASP A 825 UNP P10721 VAL 825 ENGINEERED MUTATION SEQADV 6XVA SER A 844 UNP P10721 CYS 844 ENGINEERED MUTATION SEQADV 6XVA SER A 890 UNP P10721 LEU 890 ENGINEERED MUTATION SEQADV 6XVA TYR A 894 UNP P10721 HIS 894 ENGINEERED MUTATION SEQADV 6XVA ASP A 912 UNP P10721 LEU 912 ENGINEERED MUTATION SEQADV 6XVA ASP A 923 UNP P10721 LEU 923 ENGINEERED MUTATION SEQADV 6XVA GLY B 547 UNP P10721 EXPRESSION TAG SEQADV 6XVA SER B 548 UNP P10721 EXPRESSION TAG SEQADV 6XVA HIS B 549 UNP P10721 EXPRESSION TAG SEQADV 6XVA MET B 550 UNP P10721 EXPRESSION TAG SEQADV 6XVA SER B 563 UNP P10721 ILE 563 ENGINEERED MUTATION SEQADV 6XVA SER B 569 UNP P10721 VAL 569 ENGINEERED MUTATION SEQADV 6XVA GLN B 609 UNP P10721 TYR 609 ENGINEERED MUTATION SEQADV 6XVA SER B 631 UNP P10721 LEU 631 ENGINEERED MUTATION SEQADV 6XVA GLU B 651 UNP P10721 MET 651 ENGINEERED MUTATION SEQADV 6XVA HIS B 662 UNP P10721 ILE 662 ENGINEERED MUTATION SEQADV 6XVA GLU B 688 UNP P10721 LINKER SEQADV 6XVA PHE B 689 UNP P10721 LINKER SEQADV 6XVA VAL B 690 UNP P10721 LINKER SEQADV 6XVA PRO B 691 UNP P10721 LINKER SEQADV 6XVA TYR B 692 UNP P10721 LINKER SEQADV 6XVA LYS B 693 UNP P10721 LINKER SEQADV 6XVA VAL B 754 UNP P10721 LINKER SEQADV 6XVA ALA B 755 UNP P10721 LINKER SEQADV 6XVA PRO B 756 UNP P10721 LINKER SEQADV 6XVA GLU B 757 UNP P10721 LINKER SEQADV 6XVA ASP B 758 UNP P10721 LINKER SEQADV 6XVA LEU B 759 UNP P10721 LINKER SEQADV 6XVA TYR B 760 UNP P10721 LINKER SEQADV 6XVA LYS B 761 UNP P10721 LINKER SEQADV 6XVA ASP B 762 UNP P10721 LINKER SEQADV 6XVA PHE B 763 UNP P10721 LINKER SEQADV 6XVA LEU B 764 UNP P10721 LINKER SEQADV 6XVA THR B 765 UNP P10721 LINKER SEQADV 6XVA HIS B 768 UNP P10721 ASP 768 ENGINEERED MUTATION SEQADV 6XVA ASN B 804 UNP P10721 ARG 804 ENGINEERED MUTATION SEQADV 6XVA ASP B 825 UNP P10721 VAL 825 ENGINEERED MUTATION SEQADV 6XVA SER B 844 UNP P10721 CYS 844 ENGINEERED MUTATION SEQADV 6XVA SER B 890 UNP P10721 LEU 890 ENGINEERED MUTATION SEQADV 6XVA TYR B 894 UNP P10721 HIS 894 ENGINEERED MUTATION SEQADV 6XVA ASP B 912 UNP P10721 LEU 912 ENGINEERED MUTATION SEQADV 6XVA 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 O2K A1001 38 HET O2K B1001 38 HETNAM O2K ~{N}-[[3-[2-[3-METHOXY-5-(7-METHOXYQUINOLIN-4-YL)OXY- HETNAM 2 O2K PYRIDIN-2-YL]ETHANOYLAMINO]-5-METHYL- HETNAM 3 O2K PHENYL]METHYL]PROPANAMIDE FORMUL 3 O2K 2(C29 H30 N4 O5) FORMUL 5 HOH *75(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 THR A 765 LYS A 786 1 22 HELIX 7 AA7 ALA A 794 ARG A 796 5 3 HELIX 8 AA8 HIS A 802 ASN A 804 5 3 HELIX 9 AA9 PHE A 811 ARG A 815 5 5 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 GLU A 885 1 10 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 579 GLU B 583 5 5 HELIX 18 AB9 PRO B 585 ASN B 587 5 3 HELIX 19 AC1 HIS B 630 GLY B 648 1 19 HELIX 20 AC2 ASP B 677 ARG B 686 1 10 HELIX 21 AC3 THR B 765 LYS B 786 1 22 HELIX 22 AC4 ALA B 794 ARG B 796 5 3 HELIX 23 AC5 HIS B 802 ASN B 804 5 3 HELIX 24 AC6 PHE B 811 ARG B 815 5 5 HELIX 25 AC7 PRO B 832 MET B 836 5 5 HELIX 26 AC8 ALA B 837 SER B 844 1 8 HELIX 27 AC9 THR B 847 SER B 864 1 18 HELIX 28 AD1 ASP B 876 GLU B 885 1 10 HELIX 29 AD2 PRO B 896 TRP B 907 1 12 HELIX 30 AD3 ASP B 910 ARG B 914 5 5 HELIX 31 AD4 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 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 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 ILE A 798 LEU A 800 0 SHEET 2 AA2 2 THR A 806 ILE A 808 -1 O LYS A 807 N LEU A 799 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 VAL B 603 N GLY B 596 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 THR B 670 N ALA B 621 SHEET 5 AA4 5 LEU B 656 CYS B 660 -1 N LEU B 657 O ILE B 669 SHEET 1 AA5 2 ILE B 798 LEU B 800 0 SHEET 2 AA5 2 THR B 806 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 ALA B 829 N LYS B 826 SITE 1 AC1 17 LEU A 595 VAL A 603 ALA A 621 LYS A 623 SITE 2 AC1 17 GLU A 640 VAL A 654 VAL A 668 THR A 670 SITE 3 AC1 17 GLU A 671 TYR A 672 CYS A 673 GLY A 676 SITE 4 AC1 17 LEU A 799 ILE A 808 CYS A 809 ASP A 810 SITE 5 AC1 17 PHE A 811 SITE 1 AC2 18 LEU B 595 VAL B 603 ALA B 621 LYS B 623 SITE 2 AC2 18 GLU B 640 ILE B 653 VAL B 654 VAL B 668 SITE 3 AC2 18 THR B 670 GLU B 671 TYR B 672 CYS B 673 SITE 4 AC2 18 GLY B 676 LEU B 799 ILE B 808 CYS B 809 SITE 5 AC2 18 ASP B 810 PHE B 811 CRYST1 88.135 90.045 90.745 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 0.011346 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011106 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011020 0.00000