HEADER TRANSFERASE/TRANSFERASE INHIBITOR 24-SEP-14 3WZE TITLE KDR IN COMPLEX WITH LIGAND SORAFENIB COMPND MOL_ID: 1; COMPND 2 MOLECULE: VASCULAR ENDOTHELIAL GROWTH FACTOR RECEPTOR 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN (UNP RESIDUES 814-940, 991-1172); COMPND 5 SYNONYM: VEGFR-2, FETAL LIVER KINASE 1, FLK-1, KINASE INSERT DOMAIN COMPND 6 RECEPTOR, KDR, PROTEIN-TYROSINE KINASE RECEPTOR FLK-1; COMPND 7 EC: 2.7.10.1; COMPND 8 ENGINEERED: YES; COMPND 9 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: KDR, FLK1, VEGFR2; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS KDR RECEPTOR KINASE, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.OKAMOTO,M.IKEMORI_KAWADA,A.INOUE,J.MATSUI REVDAT 1 27-MAY-15 3WZE 0 JRNL AUTH K.OKAMOTO,M.IKEMORI-KAWADA,A.JESTEL,K.VON KONIG,Y.FUNAHASHI, JRNL AUTH 2 T.MATSUSHIMA,A.TSURUOKA,A.INOUE,J.MATSUI JRNL TITL DISTINCT BINDING MODE OF MULTIKINASE INHIBITOR LENVATINIB JRNL TITL 2 REVEALED BY BIOCHEMICAL CHARACTERIZATION. JRNL REF ACS MED.CHEM.LETT. V. 6 89 2015 JRNL REFN ISSN 1948-5875 JRNL PMID 25589937 JRNL DOI 10.1021/ML500394M REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 67.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : 28257 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.200 REMARK 3 FREE R VALUE TEST SET COUNT : 2178 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2098 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.4340 REMARK 3 BIN FREE R VALUE SET COUNT : 170 REMARK 3 BIN FREE R VALUE : 0.3610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2402 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 107 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.67000 REMARK 3 B22 (A**2) : -0.33000 REMARK 3 B33 (A**2) : -0.16000 REMARK 3 B12 (A**2) : -0.00000 REMARK 3 B13 (A**2) : -1.23000 REMARK 3 B23 (A**2) : -0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.135 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.132 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.112 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.196 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2459 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2321 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3333 ; 1.469 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5317 ; 0.999 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 303 ; 6.143 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 102 ;31.093 ;22.941 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 403 ;12.978 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;21.858 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 362 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2769 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 583 ; 0.010 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1210 ; 5.164 ; 4.225 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1208 ; 5.142 ; 4.221 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1513 ; 6.243 ; 7.062 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1249 ; 6.632 ; 4.756 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 29.3640 23.5660 44.4860 REMARK 3 T TENSOR REMARK 3 T11: 0.0247 T22: 0.0112 REMARK 3 T33: 0.0124 T12: 0.0069 REMARK 3 T13: -0.0054 T23: 0.0053 REMARK 3 L TENSOR REMARK 3 L11: 2.7455 L22: 2.9634 REMARK 3 L33: 2.7396 L12: -0.2709 REMARK 3 L13: 0.5303 L23: 0.1063 REMARK 3 S TENSOR REMARK 3 S11: -0.0662 S12: -0.1336 S13: -0.0283 REMARK 3 S21: 0.2356 S22: 0.0043 S23: -0.1394 REMARK 3 S31: 0.0985 S32: 0.0835 S33: 0.0620 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 921 A 1167 REMARK 3 ORIGIN FOR THE GROUP (A): 14.5840 24.7010 22.4460 REMARK 3 T TENSOR REMARK 3 T11: 0.0858 T22: 0.0804 REMARK 3 T33: 0.0399 T12: -0.0102 REMARK 3 T13: -0.0166 T23: -0.0041 REMARK 3 L TENSOR REMARK 3 L11: 3.3497 L22: 1.8017 REMARK 3 L33: 2.3276 L12: -0.0811 REMARK 3 L13: 0.1728 L23: 0.0328 REMARK 3 S TENSOR REMARK 3 S11: -0.0099 S12: 0.3434 S13: -0.1551 REMARK 3 S21: -0.3171 S22: -0.0822 S23: 0.1411 REMARK 3 S31: 0.1542 S32: -0.0244 S33: 0.0921 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3WZE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-SEP-14. REMARK 100 THE RCSB ID CODE IS RCSB096984. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL 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 : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99985 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30435 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 67.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 200 DATA REDUNDANCY : 2.700 REMARK 200 R MERGE (I) : 0.03100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.44800 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: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10-25% PEG 3350, NA3CITRATE, 0.1M BIS- REMARK 280 TRIS PROPANE, PH 8.0, VAPOR DIFFUSION, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 67.96050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.67850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 67.96050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 28.67850 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 ASP A 814 REMARK 465 VAL A 940 REMARK 465 ALA A 991 REMARK 465 PRO A 992 REMARK 465 GLU A 993 REMARK 465 ASP A 1064 REMARK 465 ALA A 1168 REMARK 465 GLN A 1169 REMARK 465 GLN A 1170 REMARK 465 ASP A 1171 REMARK 465 GLY A 1172 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 815 CG CD OE1 OE2 REMARK 480 LYS A 835 CD CE NZ REMARK 480 LYS A 838 CD CE NZ REMARK 480 ARG A 842 CD NE CZ NH1 NH2 REMARK 480 ASP A 994 CG OD1 OD2 REMARK 480 LEU A 995 CG CD1 CD2 REMARK 480 LYS A 997 CG CD CE NZ REMARK 480 ASP A 998 CG OD1 OD2 REMARK 480 LYS A 1023 NZ REMARK 480 LYS A 1039 CD CE NZ REMARK 480 TYR A 1054 CG CD1 CD2 CE1 CE2 CZ OH REMARK 480 LYS A 1055 CG CD CE NZ REMARK 480 VAL A 1060 CG1 REMARK 480 ARG A 1061 CD NE CZ NH1 NH2 REMARK 480 LYS A 1062 CE NZ REMARK 480 ARG A 1066 CD NE CZ NH1 NH2 REMARK 480 ARG A 1080 NE CZ NH1 NH2 REMARK 480 GLU A 1113 CG CD OE1 OE2 REMARK 480 ARG A 1117 CG CD NE CZ NH1 NH2 REMARK 480 LYS A 1120 CD CE NZ REMARK 480 GLU A 1121 CD OE1 OE2 REMARK 480 ARG A 1126 NE CZ NH1 NH2 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 857 -35.36 -130.64 REMARK 500 ARG A1027 -11.85 79.37 REMARK 500 ASP A1028 44.18 -146.12 REMARK 500 SER A1037 -161.40 -103.62 REMARK 500 TRP A1143 31.72 -95.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 DTT A 1203 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BAX A 1201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 1202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DTT A 1203 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WZD RELATED DB: PDB DBREF 3WZE A 814 1172 UNP P35968 VGFR2_HUMAN 814 1172 SEQADV 3WZE VAL A 940 UNP P35968 THR 940 ENGINEERED MUTATION SEQADV 3WZE A UNP P35968 LYS 941 DELETION SEQADV 3WZE A UNP P35968 GLY 942 DELETION SEQADV 3WZE A UNP P35968 ALA 943 DELETION SEQADV 3WZE A UNP P35968 ARG 944 DELETION SEQADV 3WZE A UNP P35968 PHE 945 DELETION SEQADV 3WZE A UNP P35968 ARG 946 DELETION SEQADV 3WZE A UNP P35968 GLN 947 DELETION SEQADV 3WZE A UNP P35968 GLY 948 DELETION SEQADV 3WZE A UNP P35968 LYS 949 DELETION SEQADV 3WZE A UNP P35968 ASP 950 DELETION SEQADV 3WZE A UNP P35968 TYR 951 DELETION SEQADV 3WZE A UNP P35968 VAL 952 DELETION SEQADV 3WZE A UNP P35968 GLY 953 DELETION SEQADV 3WZE A UNP P35968 ALA 954 DELETION SEQADV 3WZE A UNP P35968 ILE 955 DELETION SEQADV 3WZE A UNP P35968 PRO 956 DELETION SEQADV 3WZE A UNP P35968 VAL 957 DELETION SEQADV 3WZE A UNP P35968 ASP 958 DELETION SEQADV 3WZE A UNP P35968 LEU 959 DELETION SEQADV 3WZE A UNP P35968 LYS 960 DELETION SEQADV 3WZE A UNP P35968 ARG 961 DELETION SEQADV 3WZE A UNP P35968 ARG 962 DELETION SEQADV 3WZE A UNP P35968 LEU 963 DELETION SEQADV 3WZE A UNP P35968 ASP 964 DELETION SEQADV 3WZE A UNP P35968 SER 965 DELETION SEQADV 3WZE A UNP P35968 ILE 966 DELETION SEQADV 3WZE A UNP P35968 THR 967 DELETION SEQADV 3WZE A UNP P35968 SER 968 DELETION SEQADV 3WZE A UNP P35968 SER 969 DELETION SEQADV 3WZE A UNP P35968 GLN 970 DELETION SEQADV 3WZE A UNP P35968 SER 971 DELETION SEQADV 3WZE A UNP P35968 SER 972 DELETION SEQADV 3WZE A UNP P35968 ALA 973 DELETION SEQADV 3WZE A UNP P35968 SER 974 DELETION SEQADV 3WZE A UNP P35968 SER 975 DELETION SEQADV 3WZE A UNP P35968 GLY 976 DELETION SEQADV 3WZE A UNP P35968 PHE 977 DELETION SEQADV 3WZE A UNP P35968 VAL 978 DELETION SEQADV 3WZE A UNP P35968 GLU 979 DELETION SEQADV 3WZE A UNP P35968 GLU 980 DELETION SEQADV 3WZE A UNP P35968 LYS 981 DELETION SEQADV 3WZE A UNP P35968 SER 982 DELETION SEQADV 3WZE A UNP P35968 LEU 983 DELETION SEQADV 3WZE A UNP P35968 SER 984 DELETION SEQADV 3WZE A UNP P35968 ASP 985 DELETION SEQADV 3WZE A UNP P35968 GLU 987 DELETION SEQADV 3WZE A UNP P35968 GLU 988 DELETION SEQADV 3WZE A UNP P35968 GLU 989 DELETION SEQADV 3WZE A UNP P35968 GLU 990 DELETION SEQRES 1 A 309 ASP GLU HIS CYS GLU ARG LEU PRO TYR ASP ALA SER LYS SEQRES 2 A 309 TRP GLU PHE PRO ARG ASP ARG LEU LYS LEU GLY LYS PRO SEQRES 3 A 309 LEU GLY ARG GLY ALA PHE GLY GLN VAL ILE GLU ALA ASP SEQRES 4 A 309 ALA PHE GLY ILE ASP LYS THR ALA THR CYS ARG THR VAL SEQRES 5 A 309 ALA VAL LYS MET LEU LYS GLU GLY ALA THR HIS SER GLU SEQRES 6 A 309 HIS ARG ALA LEU MET SER GLU LEU LYS ILE LEU ILE HIS SEQRES 7 A 309 ILE GLY HIS HIS LEU ASN VAL VAL ASN LEU LEU GLY ALA SEQRES 8 A 309 CYS THR LYS PRO GLY GLY PRO LEU MET VAL ILE VAL GLU SEQRES 9 A 309 PHE CYS LYS PHE GLY ASN LEU SER THR TYR LEU ARG SER SEQRES 10 A 309 LYS ARG ASN GLU PHE VAL PRO TYR LYS VAL ALA PRO GLU SEQRES 11 A 309 ASP LEU TYR LYS ASP PHE LEU THR LEU GLU HIS LEU ILE SEQRES 12 A 309 CYS TYR SER PHE GLN VAL ALA LYS GLY MET GLU PHE LEU SEQRES 13 A 309 ALA SER ARG LYS CYS ILE HIS ARG ASP LEU ALA ALA ARG SEQRES 14 A 309 ASN ILE LEU LEU SER GLU LYS ASN VAL VAL LYS ILE CYS SEQRES 15 A 309 ASP PHE GLY LEU ALA ARG ASP ILE TYR LYS ASP PRO ASP SEQRES 16 A 309 TYR VAL ARG LYS GLY ASP ALA ARG LEU PRO LEU LYS TRP SEQRES 17 A 309 MET ALA PRO GLU THR ILE PHE ASP ARG VAL TYR THR ILE SEQRES 18 A 309 GLN SER ASP VAL TRP SER PHE GLY VAL LEU LEU TRP GLU SEQRES 19 A 309 ILE PHE SER LEU GLY ALA SER PRO TYR PRO GLY VAL LYS SEQRES 20 A 309 ILE ASP GLU GLU PHE CYS ARG ARG LEU LYS GLU GLY THR SEQRES 21 A 309 ARG MET ARG ALA PRO ASP TYR THR THR PRO GLU MET TYR SEQRES 22 A 309 GLN THR MET LEU ASP CYS TRP HIS GLY GLU PRO SER GLN SEQRES 23 A 309 ARG PRO THR PHE SER GLU LEU VAL GLU HIS LEU GLY ASN SEQRES 24 A 309 LEU LEU GLN ALA ASN ALA GLN GLN ASP GLY HET BAX A1201 32 HET ACT A1202 4 HET DTT A1203 8 HETNAM BAX 4-{4-[({[4-CHLORO-3-(TRIFLUOROMETHYL) HETNAM 2 BAX PHENYL]AMINO}CARBONYL)AMINO]PHENOXY}-N-METHYLPYRIDINE- HETNAM 3 BAX 2-CARBOXAMIDE HETNAM ACT ACETATE ION HETNAM DTT 2,3-DIHYDROXY-1,4-DITHIOBUTANE HETSYN BAX SORAFENIB HETSYN DTT 1,4-DITHIOTHREITOL FORMUL 2 BAX C21 H16 CL F3 N4 O3 FORMUL 3 ACT C2 H3 O2 1- FORMUL 4 DTT C4 H10 O2 S2 FORMUL 5 HOH *107(H2 O) HELIX 1 1 ASP A 823 GLU A 828 1 6 HELIX 2 2 PRO A 830 ASP A 832 5 3 HELIX 3 3 THR A 875 GLY A 893 1 19 HELIX 4 4 ASN A 923 SER A 930 1 8 HELIX 5 5 THR A 1001 ARG A 1022 1 22 HELIX 6 6 ALA A 1030 ARG A 1032 5 3 HELIX 7 7 GLU A 1038 ASN A 1040 5 3 HELIX 8 8 PHE A 1047 ARG A 1051 5 5 HELIX 9 9 PRO A 1068 MET A 1072 5 5 HELIX 10 10 ALA A 1073 ARG A 1080 1 8 HELIX 11 11 THR A 1083 SER A 1100 1 18 HELIX 12 12 ASP A 1112 GLY A 1122 1 11 HELIX 13 13 THR A 1132 TRP A 1143 1 12 HELIX 14 14 GLU A 1146 ARG A 1150 5 5 HELIX 15 15 THR A 1152 ASN A 1167 1 16 SHEET 1 A 5 LEU A 834 ARG A 842 0 SHEET 2 A 5 GLY A 846 PHE A 854 -1 O GLU A 850 N GLY A 837 SHEET 3 A 5 CYS A 862 LEU A 870 -1 O ARG A 863 N ALA A 853 SHEET 4 A 5 MET A 913 GLU A 917 -1 O VAL A 914 N LYS A 868 SHEET 5 A 5 LEU A 901 CYS A 905 -1 N LEU A 902 O ILE A 915 SHEET 1 B 2 ILE A1034 LEU A1036 0 SHEET 2 B 2 VAL A1042 ILE A1044 -1 O LYS A1043 N LEU A1035 SHEET 1 C 2 VAL A1060 ARG A1061 0 SHEET 2 C 2 ARG A1066 LEU A1067 -1 O LEU A1067 N VAL A1060 LINK SG CYS A 862 S1 DTT A1203 1555 1555 2.08 SITE 1 AC1 18 LEU A 840 VAL A 848 ALA A 866 GLU A 885 SITE 2 AC1 18 ILE A 892 VAL A 898 VAL A 899 VAL A 916 SITE 3 AC1 18 GLU A 917 PHE A 918 CYS A 919 LYS A 920 SITE 4 AC1 18 HIS A1026 ILE A1044 CYS A1045 ASP A1046 SITE 5 AC1 18 PHE A1047 HOH A3089 SITE 1 AC2 2 GLN A1011 ASN A1040 SITE 1 AC3 3 ASP A 852 CYS A 862 HIS A 876 CRYST1 135.921 57.357 52.170 90.00 94.17 90.00 C 1 2 1 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 0.007357 0.000000 0.000536 0.00000 SCALE2 0.000000 0.017435 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019219 0.00000