HEADER TRANSFERASE 12-MAR-08 3CJF TITLE CRYSTAL STRUCTURE OF VEGFR2 IN COMPLEX WITH A 3,4,5-TRIMETHOXY ANILINE TITLE 2 CONTAINING PYRIMIDINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: VASCULAR ENDOTHELIAL GROWTH FACTOR RECEPTOR 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN; RESIDUES 806-939 AND 994-1168; COMPND 5 SYNONYM: VEGFR-2, KINASE INSERT DOMAIN RECEPTOR, PROTEIN-TYROSINE COMPND 6 KINASE RECEPTOR FLK-1, CD309 ANTIGEN; 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 GENE: KDR, FLK1; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 7 OTHER_DETAILS: KID INSERT REMOVED KEYWDS VASCULAR ENDOTHELIAL GROWTH FACTOR RECEPTOR 2. VEGFR-2, KINASE INSERT KEYWDS 2 DOMAIN RECEPTOR, PROTEIN-TYROSINE KINASE RECEPTOR FLK-1, KEYWDS 3 ANGIOGENESIS, ATP-BINDING, DEVELOPMENTAL PROTEIN, DIFFERENTIATION, KEYWDS 4 GLYCOPROTEIN, HOST-VIRUS INTERACTION, IMMUNOGLOBULIN DOMAIN, KEYWDS 5 MEMBRANE, NUCLEOTIDE-BINDING, PHOSPHOPROTEIN, TRANSFERASE, KEYWDS 6 TRANSMEMBRANE, TYROSINE-PROTEIN KINASE EXPDTA X-RAY DIFFRACTION AUTHOR R.T.NOLTE REVDAT 7 15-NOV-23 3CJF 1 REMARK REVDAT 6 30-AUG-23 3CJF 1 REMARK LINK REVDAT 5 25-OCT-17 3CJF 1 REMARK REVDAT 4 23-AUG-17 3CJF 1 SOURCE REVDAT 3 13-JUL-11 3CJF 1 VERSN REVDAT 2 24-FEB-09 3CJF 1 VERSN REVDAT 1 07-OCT-08 3CJF 0 JRNL AUTH P.A.HARRIS,A.BOLOOR,M.CHEUNG,R.KUMAR,R.M.CROSBY, JRNL AUTH 2 R.G.DAVIS-WARD,A.H.EPPERLY,K.W.HINKLE,R.N.HUNTER, JRNL AUTH 3 J.H.JOHNSON,V.B.KNICK,C.P.LAUDEMAN,D.K.LUTTRELL,R.A.MOOK, JRNL AUTH 4 R.T.NOLTE,S.K.RUDOLPH,J.R.SZEWCZYK,A.T.TRUESDALE,J.M.VEAL, JRNL AUTH 5 L.WANG,J.A.STAFFORD JRNL TITL DISCOVERY OF JRNL TITL 2 5-[[4-[(2,3-DIMETHYL-2H-INDAZOL-6-YL) JRNL TITL 3 METHYLAMINO]-2-PYRIMIDINYL]AMINO]-2-METHYL-BENZENESULFONAMID JRNL TITL 4 E (PAZOPANIB), A NOVEL AND POTENT VASCULAR ENDOTHELIAL JRNL TITL 5 GROWTH FACTOR RECEPTOR INHIBITOR. JRNL REF J.MED.CHEM. V. 51 4632 2008 JRNL REFN ISSN 0022-2623 JRNL PMID 18620382 JRNL DOI 10.1021/JM800566M REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 17994 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) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.200 REMARK 3 FREE R VALUE TEST SET COUNT : 601 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 948 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 69.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.2640 REMARK 3 BIN FREE R VALUE SET COUNT : 34 REMARK 3 BIN FREE R VALUE : 0.3240 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2229 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 82 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 43.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.69 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.38000 REMARK 3 B22 (A**2) : 0.72000 REMARK 3 B33 (A**2) : -3.10000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.243 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.209 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.161 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.474 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2401 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1660 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3250 ; 1.309 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4022 ; 0.896 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 302 ;22.538 ; 5.397 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 104 ;34.311 ;22.788 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 411 ;17.224 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;18.243 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 346 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2678 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 511 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 475 ; 0.225 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1681 ; 0.191 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1158 ; 0.179 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1253 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 88 ; 0.150 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 14 ; 0.172 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 30 ; 0.157 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.227 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1490 ; 0.634 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 579 ; 0.127 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2317 ; 1.002 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1067 ; 1.393 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 933 ; 2.072 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 815 A 918 REMARK 3 ORIGIN FOR THE GROUP (A): 16.9370 12.7380 5.7130 REMARK 3 T TENSOR REMARK 3 T11: -0.3768 T22: -0.2480 REMARK 3 T33: -0.2872 T12: 0.0389 REMARK 3 T13: -0.0285 T23: 0.0090 REMARK 3 L TENSOR REMARK 3 L11: 4.1475 L22: 6.1376 REMARK 3 L33: 7.2860 L12: 0.5389 REMARK 3 L13: -1.0013 L23: -1.2638 REMARK 3 S TENSOR REMARK 3 S11: 0.0290 S12: 0.0018 S13: -0.1799 REMARK 3 S21: 0.2230 S22: -0.0372 S23: -0.6185 REMARK 3 S31: 0.5197 S32: 0.5172 S33: 0.0083 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 919 A 1166 REMARK 3 ORIGIN FOR THE GROUP (A): 11.1090 6.2430 32.6280 REMARK 3 T TENSOR REMARK 3 T11: -0.1657 T22: -0.2143 REMARK 3 T33: -0.2992 T12: -0.0682 REMARK 3 T13: 0.0062 T23: 0.0642 REMARK 3 L TENSOR REMARK 3 L11: 3.1188 L22: 6.5802 REMARK 3 L33: 9.2842 L12: 1.3041 REMARK 3 L13: 0.4963 L23: -4.0981 REMARK 3 S TENSOR REMARK 3 S11: -0.1294 S12: 0.0195 S13: 0.0933 REMARK 3 S21: 0.4458 S22: -0.0262 S23: -0.2271 REMARK 3 S31: -0.8359 S32: 0.3453 S33: 0.1556 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3CJF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAR-08. REMARK 100 THE DEPOSITION ID IS D_1000046848. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : SI111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18596 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.04200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 42.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 74.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.42300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 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: UNLIGANDED VEGFR2 KINASE DOMAIN SOLVED IN HOUSE - REMARK 200 SIMILAR TO PDB ENTRY 1VR2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: VAPOR DIFFUSION, HANGING DROP 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 18.71750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.39850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.37100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.39850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.71750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.37100 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 804 REMARK 465 ASP A 805 REMARK 465 PRO A 806 REMARK 465 ASP A 807 REMARK 465 GLU A 808 REMARK 465 LEU A 809 REMARK 465 PRO A 810 REMARK 465 LEU A 811 REMARK 465 ASP A 812 REMARK 465 GLU A 813 REMARK 465 HIS A 814 REMARK 465 ASP A 992 REMARK 465 LEU A 993 REMARK 465 TYR A 994 REMARK 465 PHE A 1045 REMARK 465 GLY A 1046 REMARK 465 ASP A 1054 REMARK 465 PRO A 1055 REMARK 465 ASP A 1056 REMARK 465 TYR A 1057 REMARK 465 VAL A 1058 REMARK 465 ARG A 1059 REMARK 465 LYS A 1060 REMARK 465 GLY A 1061 REMARK 465 ASP A 1062 REMARK 465 ALA A 1063 REMARK 465 ARG A 1064 REMARK 465 LEU A 1065 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 GLU A 816 CG CD OE1 OE2 REMARK 470 ARG A 840 CG CD NE CZ NH1 NH2 REMARK 470 PHE A 843 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ILE A1051 CG1 CG2 CD1 REMARK 470 TYR A1052 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A1053 CG CD CE NZ 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 ARG A 817 -34.03 164.05 REMARK 500 ARG A 817 -28.77 164.00 REMARK 500 ALA A 842 -2.14 -54.38 REMARK 500 LYS A 856 -20.28 73.87 REMARK 500 LYS A 856 -5.40 75.29 REMARK 500 LEU A 868 -164.73 -62.48 REMARK 500 GLU A 870 85.45 -63.24 REMARK 500 ALA A 872 -83.19 -124.50 REMARK 500 THR A 873 128.78 5.78 REMARK 500 ASP A1026 63.55 -155.72 REMARK 500 ILE A1051 97.01 -55.29 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 ALA A 872 THR A 873 -141.24 REMARK 500 ILE A 1051 TYR A 1052 -148.22 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 SO4 A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAV A1167 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1VR2 RELATED DB: PDB REMARK 900 RELATED STRUCTURE OF THE UNLIGANDED VERSION OF THE PROTEIN REMARK 900 RELATED ID: 1Y6A RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VEGFR2 IN COMPLEX WITH A 2-ANILINO-5- ARYL- REMARK 900 OXAZOLE INHIBITOR REMARK 900 RELATED ID: 1Y6B RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VEGFR2 IN COMPLEX WITH A 2-ANILINO-5- ARYL- REMARK 900 OXAZOLE INHIBITOR REMARK 900 RELATED ID: 1YWN RELATED DB: PDB REMARK 900 VEGFR2 IN COMPLEX WITH A NOVEL 4-AMINO-FURO[2,3-D]PYRIMIDINE REMARK 900 RELATED ID: 3CJG RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VEGFR2 IN COMPLEX WITH A 3,4,5-TRIMETHOXY REMARK 900 ANILINE CONTAINING PYRIMIDINE, KIM REMARK 999 REMARK 999 SEQUENCE REMARK 999 K -> N CONFLICT IN UNP ENTRY P35968 DBREF 3CJF A 804 937 UNP P35968 VGFR2_HUMAN 806 939 DBREF 3CJF A 992 1166 UNP P35968 VGFR2_HUMAN 994 1168 SEQADV 3CJF ASN A 833 UNP P35968 LYS 835 SEE REMARK 999 SEQRES 1 A 309 MET ASP PRO ASP GLU LEU PRO LEU ASP GLU HIS CYS GLU SEQRES 2 A 309 ARG LEU PRO TYR ASP ALA SER LYS TRP GLU PHE PRO ARG SEQRES 3 A 309 ASP ARG LEU ASN LEU GLY LYS PRO LEU GLY ARG GLY ALA SEQRES 4 A 309 PHE GLY GLN VAL ILE GLU ALA ASP ALA PHE GLY ILE ASP SEQRES 5 A 309 LYS THR ALA THR CSO ARG THR VAL ALA VAL LYS MET LEU SEQRES 6 A 309 LYS GLU GLY ALA THR HIS SER GLU HIS ARG ALA LEU MET SEQRES 7 A 309 SER GLU LEU LYS ILE LEU ILE HIS ILE GLY HIS HIS LEU SEQRES 8 A 309 ASN VAL VAL ASN LEU LEU GLY ALA CYS THR LYS PRO GLY SEQRES 9 A 309 GLY PRO LEU MET VAL ILE VAL GLU PHE CYS LYS PHE GLY SEQRES 10 A 309 ASN LEU SER THR TYR LEU ARG SER LYS ARG ASN GLU PHE SEQRES 11 A 309 VAL PRO TYR LYS ASP LEU TYR LYS ASP PHE LEU THR LEU SEQRES 12 A 309 GLU HIS LEU ILE CSO TYR SER PHE GLN VAL ALA LYS GLY SEQRES 13 A 309 MET GLU PHE LEU ALA SER ARG LYS CSO ILE HIS ARG ASP SEQRES 14 A 309 LEU ALA ALA ARG ASN ILE LEU LEU SER GLU LYS ASN VAL SEQRES 15 A 309 VAL LYS ILE CSO ASP PHE GLY LEU ALA ARG ASP ILE TYR SEQRES 16 A 309 LYS ASP PRO ASP TYR VAL ARG LYS GLY ASP ALA ARG LEU SEQRES 17 A 309 PRO LEU LYS TRP MET ALA PRO GLU THR ILE PHE ASP ARG SEQRES 18 A 309 VAL TYR THR ILE GLN SER ASP VAL TRP SER PHE GLY VAL SEQRES 19 A 309 LEU LEU TRP GLU ILE PHE SER LEU GLY ALA SER PRO TYR SEQRES 20 A 309 PRO GLY VAL LYS ILE ASP GLU GLU PHE CSO ARG ARG LEU SEQRES 21 A 309 LYS GLU GLY THR ARG MET ARG ALA PRO ASP TYR THR THR SEQRES 22 A 309 PRO GLU MET TYR GLN THR MET LEU ASP CYS TRP HIS GLY SEQRES 23 A 309 GLU PRO SER GLN ARG PRO THR PHE SER GLU LEU VAL GLU SEQRES 24 A 309 HIS LEU GLY ASN LEU LEU GLN ALA ASN ALA MODRES 3CJF CSO A 860 CYS S-HYDROXYCYSTEINE MODRES 3CJF CSO A 1005 CYS S-HYDROXYCYSTEINE MODRES 3CJF CSO A 1022 CYS S-HYDROXYCYSTEINE MODRES 3CJF CSO A 1043 CYS S-HYDROXYCYSTEINE MODRES 3CJF CSO A 1114 CYS S-HYDROXYCYSTEINE HET CSO A 860 14 HET CSO A1005 7 HET CSO A1022 7 HET CSO A1043 7 HET CSO A1114 7 HET SO4 A 1 5 HET SO4 A 2 5 HET SO4 A 3 5 HET SO4 A 4 5 HET SAV A1167 30 HETNAM CSO S-HYDROXYCYSTEINE HETNAM SO4 SULFATE ION HETNAM SAV N~4~-(3-METHYL-1H-INDAZOL-6-YL)-N~2~-(3,4,5- HETNAM 2 SAV TRIMETHOXYPHENYL)PYRIMIDINE-2,4-DIAMINE FORMUL 1 CSO 5(C3 H7 N O3 S) FORMUL 2 SO4 4(O4 S 2-) FORMUL 6 SAV C21 H22 N6 O3 FORMUL 7 HOH *82(H2 O) HELIX 1 1 ASP A 821 GLU A 826 1 6 HELIX 2 2 PRO A 828 ASP A 830 5 3 HELIX 3 3 THR A 873 GLY A 891 1 19 HELIX 4 4 ASN A 921 LYS A 929 1 9 HELIX 5 5 THR A 999 ARG A 1020 1 22 HELIX 6 6 ALA A 1028 ARG A 1030 5 3 HELIX 7 7 PRO A 1066 MET A 1070 5 5 HELIX 8 8 ALA A 1071 ARG A 1078 1 8 HELIX 9 9 THR A 1081 SER A 1098 1 18 HELIX 10 10 ASP A 1110 GLY A 1120 1 11 HELIX 11 11 THR A 1130 TRP A 1141 1 12 HELIX 12 12 GLU A 1144 ARG A 1148 5 5 HELIX 13 13 THR A 1150 ALA A 1166 1 17 SHEET 1 A 5 LEU A 832 ARG A 840 0 SHEET 2 A 5 GLN A 845 PHE A 852 -1 O GLU A 848 N GLY A 835 SHEET 3 A 5 CSO A 860 MET A 867 -1 O VAL A 865 N ILE A 847 SHEET 4 A 5 MET A 911 GLU A 915 -1 O VAL A 914 N ALA A 864 SHEET 5 A 5 LEU A 899 CYS A 903 -1 N LEU A 900 O ILE A 913 SHEET 1 B 2 ILE A1023 HIS A1024 0 SHEET 2 B 2 ALA A1048 ARG A1049 -1 O ARG A1049 N ILE A1023 SHEET 1 C 2 ILE A1032 LEU A1034 0 SHEET 2 C 2 VAL A1040 ILE A1042 -1 O LYS A1041 N LEU A1033 LINK C THR A 859 N ACSO A 860 1555 1555 1.33 LINK C THR A 859 N BCSO A 860 1555 1555 1.34 LINK C ACSO A 860 N AARG A 861 1555 1555 1.33 LINK C BCSO A 860 N BARG A 861 1555 1555 1.34 LINK C ILE A1004 N CSO A1005 1555 1555 1.34 LINK C CSO A1005 N TYR A1006 1555 1555 1.33 LINK C LYS A1021 N CSO A1022 1555 1555 1.33 LINK C CSO A1022 N ILE A1023 1555 1555 1.33 LINK C ILE A1042 N CSO A1043 1555 1555 1.33 LINK C CSO A1043 N ASP A1044 1555 1555 1.33 LINK C PHE A1113 N CSO A1114 1555 1555 1.33 LINK C CSO A1114 N ARG A1115 1555 1555 1.34 SITE 1 AC1 5 LYS A 824 GLU A 826 PHE A 827 ILE A 854 SITE 2 AC1 5 LEU A 900 SITE 1 AC2 2 ARG A 930 SER A1102 SITE 1 AC3 3 HIS A 874 ARG A1116 THR A1121 SITE 1 AC4 3 HIS A 889 ARG A1020 ARG A1124 SITE 1 AC5 9 LEU A 838 VAL A 846 ALA A 864 GLU A 915 SITE 2 AC5 9 PHE A 916 CYS A 917 LYS A 918 LEU A1033 SITE 3 AC5 9 CSO A1043 CRYST1 37.435 94.742 96.797 90.00 90.00 90.00 P 21 21 21 4 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 0.026713 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010555 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010331 0.00000