HEADER TRANSFERASE 18-FEB-05 1YWN
TITLE VEGFR2 IN COMPLEX WITH A NOVEL 4-AMINO-FURO[2,3-D]PYRIMIDINE
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: VASCULAR ENDOTHELIAL GROWTH FACTOR RECEPTOR 2;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: KINASE DOMAIN;
COMPND 5 SYNONYM: VEGFR-2, KINASE INSERT DOMAIN RECEPTOR, PROTEIN-TYROSINE
COMPND 6 KINASE RECEPTOR FLK-1;
COMPND 7 EC: 2.7.1.112;
COMPND 8 ENGINEERED: YES;
COMPND 9 MUTATION: YES;
COMPND 10 OTHER_DETAILS: E990V, DELETION OF RESIDUES 940-989
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;
SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA;
SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM;
SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108;
SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: SF9;
SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS
KEYWDS TRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR Y.MIYAZAKI,S.MATSUNAGA,J.TANG,Y.MAEDA,M.NAKANO,R.J.PHILIPPE,
AUTHOR 2 M.SHIBAHARA,W.LIU,H.SATO,L.WANG,R.T.NOLTE
REVDAT 8 16-OCT-24 1YWN 1 REMARK
REVDAT 7 15-NOV-23 1YWN 1 REMARK
REVDAT 6 23-AUG-23 1YWN 1 REMARK
REVDAT 5 20-OCT-21 1YWN 1 REMARK SEQADV LINK
REVDAT 4 11-OCT-17 1YWN 1 REMARK
REVDAT 3 13-JUL-11 1YWN 1 VERSN
REVDAT 2 24-FEB-09 1YWN 1 VERSN
REVDAT 1 23-AUG-05 1YWN 0
JRNL AUTH Y.MIYAZAKI,S.MATSUNAGA,J.TANG,Y.MAEDA,M.NAKANO,R.J.PHILIPPE,
JRNL AUTH 2 M.SHIBAHARA,W.LIU,H.SATO,L.WANG,R.T.NOLTE
JRNL TITL NOVEL 4-AMINO-FURO[2,3-D]PYRIMIDINES AS TIE-2 AND VEGFR2
JRNL TITL 2 DUAL INHIBITORS
JRNL REF BIOORG.MED.CHEM.LETT. V. 15 2203 2005
JRNL REFN ISSN 0960-894X
JRNL PMID 15837294
JRNL DOI 10.1016/J.BMCL.2005.03.034
REMARK 1
REMARK 1 REFERENCE 1
REMARK 1 TITL CRYSTAL STRUCTURE OF THE KINASE DOMAIN OF HUMAN VASCULAR
REMARK 1 TITL 2 ENDOTHELIAL GROWTH FACTOR RECEPTOR 2: A KEY ENZYME IN
REMARK 1 TITL 3 ANGIOGENESIS
REMARK 1 REF STRUCTURE V. 7 319 1999
REMARK 1 REFN ISSN 0969-2126
REMARK 2
REMARK 2 RESOLUTION. 1.71 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.2.0005
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) : 1.71
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.89
REMARK 3 DATA CUTOFF (SIGMA(F)) : -3.000
REMARK 3 COMPLETENESS FOR RANGE (%) : 95.2
REMARK 3 NUMBER OF REFLECTIONS : 35577
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) : 0.206
REMARK 3 R VALUE (WORKING SET) : 0.205
REMARK 3 FREE R VALUE : 0.230
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.100
REMARK 3 FREE R VALUE TEST SET COUNT : 1139
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) : 1.71
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75
REMARK 3 REFLECTION IN BIN (WORKING SET) : 2005
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.88
REMARK 3 BIN R VALUE (WORKING SET) : 0.2270
REMARK 3 BIN FREE R VALUE SET COUNT : 63
REMARK 3 BIN FREE R VALUE : 0.2590
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 2264
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 39
REMARK 3 SOLVENT ATOMS : 209
REMARK 3
REMARK 3 B VALUES.
REMARK 3 B VALUE TYPE : LIKELY RESIDUAL
REMARK 3 FROM WILSON PLOT (A**2) : 25.20
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.12
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : 0.12000
REMARK 3 B22 (A**2) : 1.12000
REMARK 3 B33 (A**2) : -1.24000
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): 0.113
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.107
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.071
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.206
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2360 ; 0.012 ; 0.022
REMARK 3 BOND LENGTHS OTHERS (A): 2148 ; 0.002 ; 0.020
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3195 ; 1.485 ; 1.991
REMARK 3 BOND ANGLES OTHERS (DEGREES): 4983 ; 0.823 ; 3.000
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 277 ; 5.922 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 104 ;32.683 ;22.981
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 409 ;12.752 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;16.288 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 342 ; 0.085 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2570 ; 0.006 ; 0.020
REMARK 3 GENERAL PLANES OTHERS (A): 506 ; 0.005 ; 0.020
REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 477 ; 0.219 ; 0.200
REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2072 ; 0.188 ; 0.200
REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1165 ; 0.188 ; 0.200
REMARK 3 NON-BONDED TORSION OTHERS (A): 1208 ; 0.086 ; 0.200
REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 136 ; 0.210 ; 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): 13 ; 0.229 ; 0.200
REMARK 3 SYMMETRY VDW OTHERS (A): 61 ; 0.205 ; 0.200
REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 23 ; 0.168 ; 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): 1805 ; 1.213 ; 1.500
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 567 ; 0.218 ; 1.500
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2255 ; 1.365 ; 2.000
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1152 ; 2.214 ; 3.000
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 940 ; 3.067 ; 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 818 A 920
REMARK 3 ORIGIN FOR THE GROUP (A): 2.1180 34.2230 6.1800
REMARK 3 T TENSOR
REMARK 3 T11: -0.1108 T22: -0.0080
REMARK 3 T33: -0.0747 T12: -0.0011
REMARK 3 T13: 0.0002 T23: -0.0120
REMARK 3 L TENSOR
REMARK 3 L11: 1.9558 L22: 2.4370
REMARK 3 L33: 2.9376 L12: 0.1241
REMARK 3 L13: -0.5716 L23: 0.4925
REMARK 3 S TENSOR
REMARK 3 S11: 0.0214 S12: 0.0724 S13: 0.0571
REMARK 3 S21: -0.0612 S22: 0.0050 S23: 0.2199
REMARK 3 S31: -0.0261 S32: -0.0804 S33: -0.0265
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 1169
REMARK 3 ORIGIN FOR THE GROUP (A): 7.6840 41.4310 32.3890
REMARK 3 T TENSOR
REMARK 3 T11: -0.1049 T22: 0.0431
REMARK 3 T33: -0.1020 T12: -0.0155
REMARK 3 T13: 0.0056 T23: -0.0367
REMARK 3 L TENSOR
REMARK 3 L11: 1.7237 L22: 1.6632
REMARK 3 L33: 2.6364 L12: 0.2735
REMARK 3 L13: 0.5084 L23: 0.9058
REMARK 3 S TENSOR
REMARK 3 S11: -0.0551 S12: -0.0696 S13: -0.0434
REMARK 3 S21: 0.0610 S22: -0.0367 S23: 0.0696
REMARK 3 S31: 0.0962 S32: -0.2470 S33: 0.0918
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 1YWN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-MAR-05.
REMARK 100 THE DEPOSITION ID IS D_1000032005.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 01-MAY-01
REMARK 200 TEMPERATURE (KELVIN) : 100.0
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) : 1.0
REMARK 200 MONOCHROMATOR : SI 111
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR
REMARK 200 DATA SCALING SOFTWARE : SCALEPACK
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37357
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700
REMARK 200 RESOLUTION RANGE LOW (A) : 50.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 94.7
REMARK 200 DATA REDUNDANCY : 6.430
REMARK 200 R MERGE (I) : 0.04700
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 31.3800
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76
REMARK 200 COMPLETENESS FOR SHELL (%) : 71.8
REMARK 200 DATA REDUNDANCY IN SHELL : 4.30
REMARK 200 R MERGE FOR SHELL (I) : 0.38300
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.630
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: PDB ENTRY 1Y6A
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 48.54
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39
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 18.97650
REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 47.90150
REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.79750
REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 47.90150
REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.97650
REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.79750
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 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 CYS A 815
REMARK 465 GLU A 816
REMARK 465 ARG A 817
REMARK 465 LYS A 869
REMARK 465 GLU A 870
REMARK 465 GLY A 871
REMARK 465 ALA A 872
REMARK 465 TYR A 936
REMARK 465 LYS A 937
REMARK 465 VAL A 988
REMARK 465 ALA A 989
REMARK 465 PRO A 990
REMARK 465 GLU A 991
REMARK 465 ASP A 992
REMARK 465 LEU A 993
REMARK 465 TYR A 994
REMARK 465 LYS A 995
REMARK 465 ASP A 996
REMARK 465 PHE A 1045
REMARK 465 GLY A 1046
REMARK 465 LEU A 1047
REMARK 465 ALA A 1048
REMARK 465 ARG A 1049
REMARK 465 ASP A 1050
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT
REMARK 500
REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT.
REMARK 500
REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE
REMARK 500 SG CYS A 1005 O HOH A 202 2.13
REMARK 500 O PRO A 819 O HOH A 193 2.19
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: TORSION ANGLES
REMARK 500
REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS:
REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;
REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).
REMARK 500
REMARK 500 STANDARD TABLE:
REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2)
REMARK 500
REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI-
REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400
REMARK 500
REMARK 500 M RES CSSEQI PSI PHI
REMARK 500 LYS A 856 -9.26 75.28
REMARK 500 ALA A 858 49.41 -83.07
REMARK 500 ARG A1025 -17.60 82.87
REMARK 500 ASP A1026 59.51 -146.56
REMARK 500 SER A1035 -168.18 -108.28
REMARK 500 ARG A1078 38.47 34.33
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 LIF A 301
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 1VR2 RELATED DB: PDB
REMARK 900 VEGFR2 KINASE DOMAIN - UNLIGANDED STRUCTURE
REMARK 900 RELATED ID: 1Y6A RELATED DB: PDB
REMARK 900 VEGFR2 IN COMPLEX WITH A 2-ANILINO-5-ARYL-OXAZOLE INHIBITOR
REMARK 900 RELATED ID: 1Y6B RELATED DB: PDB
REMARK 900 VEGFR2 IN COMPLEX WITH A 2-ANILINO-5-ARYL-OXAZOLE INHIBITOR
REMARK 999
REMARK 999 SEQUENCE
REMARK 999 DELETION OF RESIDUES 938-987 (CORRESPONDS TO DBREF 940-989)
DBREF 1YWN A 804 1169 UNP P35968 VGFR2_HUMAN 806 1171
SEQADV 1YWN VAL A 988 UNP P35968 GLU 990 ENGINEERED MUTATION
SEQADV 1YWN PTR A 1052 UNP P35968 TYR 1054 MODIFIED RESIDUE
SEQADV 1YWN PTR A 1057 UNP P35968 TYR 1059 MODIFIED RESIDUE
SEQRES 1 A 316 MET ASP PRO ASP GLU LEU PRO LEU ASP GLU HIS CYS GLU
SEQRES 2 A 316 ARG LEU PRO TYR ASP ALA SER LYS TRP GLU PHE PRO ARG
SEQRES 3 A 316 ASP ARG LEU LYS LEU GLY LYS PRO LEU GLY ARG GLY ALA
SEQRES 4 A 316 PHE GLY GLN VAL ILE GLU ALA ASP ALA PHE GLY ILE ASP
SEQRES 5 A 316 LYS THR ALA THR CYS ARG THR VAL ALA VAL LYS MET LEU
SEQRES 6 A 316 LYS GLU GLY ALA THR HIS SER GLU HIS ARG ALA LEU MET
SEQRES 7 A 316 SER GLU LEU LYS ILE LEU ILE HIS ILE GLY HIS HIS LEU
SEQRES 8 A 316 ASN VAL VAL ASN LEU LEU GLY ALA CYS THR LYS PRO GLY
SEQRES 9 A 316 GLY PRO LEU MET VAL ILE VAL GLU PHE CYS LYS PHE GLY
SEQRES 10 A 316 ASN LEU SER THR TYR LEU ARG SER LYS ARG ASN GLU PHE
SEQRES 11 A 316 VAL PRO TYR LYS VAL ALA PRO GLU ASP LEU TYR LYS ASP
SEQRES 12 A 316 PHE LEU THR LEU GLU HIS LEU ILE CYS TYR SER PHE GLN
SEQRES 13 A 316 VAL ALA LYS GLY MET GLU PHE LEU ALA SER ARG LYS CYS
SEQRES 14 A 316 ILE HIS ARG ASP LEU ALA ALA ARG ASN ILE LEU LEU SER
SEQRES 15 A 316 GLU LYS ASN VAL VAL LYS ILE CYS ASP PHE GLY LEU ALA
SEQRES 16 A 316 ARG ASP ILE PTR LYS ASP PRO ASP PTR VAL ARG LYS GLY
SEQRES 17 A 316 ASP ALA ARG LEU PRO LEU LYS TRP MET ALA PRO GLU THR
SEQRES 18 A 316 ILE PHE ASP ARG VAL TYR THR ILE GLN SER ASP VAL TRP
SEQRES 19 A 316 SER PHE GLY VAL LEU LEU TRP GLU ILE PHE SER LEU GLY
SEQRES 20 A 316 ALA SER PRO TYR PRO GLY VAL LYS ILE ASP GLU GLU PHE
SEQRES 21 A 316 CYS ARG ARG LEU LYS GLU GLY THR ARG MET ARG ALA PRO
SEQRES 22 A 316 ASP TYR THR THR PRO GLU MET TYR GLN THR MET LEU ASP
SEQRES 23 A 316 CYS TRP HIS GLY GLU PRO SER GLN ARG PRO THR PHE SER
SEQRES 24 A 316 GLU LEU VAL GLU HIS LEU GLY ASN LEU LEU GLN ALA ASN
SEQRES 25 A 316 ALA GLN GLN ASP
MODRES 1YWN PTR A 1052 TYR O-PHOSPHOTYROSINE
MODRES 1YWN PTR A 1057 TYR O-PHOSPHOTYROSINE
HET PTR A1052 16
HET PTR A1057 16
HET LIF A 301 39
HETNAM PTR O-PHOSPHOTYROSINE
HETNAM LIF N-{4-[4-AMINO-6-(4-METHOXYPHENYL)FURO[2,3-D]PYRIMIDIN-
HETNAM 2 LIF 5-YL]PHENYL}-N'-[2-FLUORO-5-(TRIFLUOROMETHYL)
HETNAM 3 LIF PHENYL]UREA
HETSYN PTR PHOSPHONOTYROSINE
HETSYN LIF N-(4-{4-AMINO-6-[4-(METHYLOXY)PHENYL]FURO[2,3-
HETSYN 2 LIF D]PYRIMIDIN-5-YL}PHENYL)-N'-[2-FLUORO-5-
HETSYN 3 LIF (TRIFLUOROMETHYL)PHENYL]UREA
FORMUL 1 PTR 2(C9 H12 N O6 P)
FORMUL 2 LIF C27 H19 F4 N5 O3
FORMUL 3 HOH *209(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 ARG A 930 PHE A 933 5 4
HELIX 6 6 THR A 999 ARG A 1020 1 22
HELIX 7 7 ALA A 1028 ARG A 1030 5 3
HELIX 8 8 GLU A 1036 ASN A 1038 5 3
HELIX 9 9 LEU A 1065 MET A 1070 5 6
HELIX 10 10 ALA A 1071 ARG A 1078 1 8
HELIX 11 11 THR A 1081 SER A 1098 1 18
HELIX 12 12 ASP A 1110 GLY A 1120 1 11
HELIX 13 13 THR A 1130 TRP A 1141 1 12
HELIX 14 14 GLU A 1144 ARG A 1148 5 5
HELIX 15 15 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 VAL A 846 N GLY A 839
SHEET 3 A 5 CYS A 860 MET A 867 -1 O ARG A 861 N ALA A 851
SHEET 4 A 5 MET A 911 GLU A 915 -1 O VAL A 912 N LYS A 866
SHEET 5 A 5 LEU A 899 CYS A 903 -1 N LEU A 900 O ILE A 913
SHEET 1 B 2 ILE A1032 LEU A1034 0
SHEET 2 B 2 VAL A1040 ILE A1042 -1 O LYS A1041 N LEU A1033
LINK C ILE A1051 N PTR A1052 1555 1555 1.34
LINK C PTR A1052 N LYS A1053 1555 1555 1.33
LINK C ASP A1056 N PTR A1057 1555 1555 1.33
LINK C PTR A1057 N VAL A1058 1555 1555 1.33
SITE 1 AC1 18 HOH A 127 LEU A 838 GLY A 839 ARG A 840
SITE 2 AC1 18 GLY A 841 VAL A 846 ALA A 864 GLU A 883
SITE 3 AC1 18 VAL A 896 VAL A 897 GLU A 915 PHE A 916
SITE 4 AC1 18 CYS A 917 LEU A1017 HIS A1024 ILE A1042
SITE 5 AC1 18 CYS A1043 ASP A1044
CRYST1 37.953 95.595 95.803 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 0.026348 0.000000 0.000000 0.00000
SCALE2 0.000000 0.010461 0.000000 0.00000
SCALE3 0.000000 0.000000 0.010438 0.00000