HEADER IMMUNE SYSTEM 02-FEB-16 5FV1 TITLE CRYSTAL STRUCTURE OF HVEGF IN COMPLEX WITH VK DOMAIN ANTIBODY COMPND MOL_ID: 1; COMPND 2 MOLECULE: VK DOMAIN ANTIBODY; COMPND 3 CHAIN: L, M; COMPND 4 FRAGMENT: VK DOMAIN ANTIBODY, RESIDUES 1-108; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: VASCULAR ENDOTHELIAL GROWTH FACTOR A; COMPND 8 CHAIN: V, W; COMPND 9 FRAGMENT: VEGF RESIDUES 27-136; COMPND 10 SYNONYM: VEGF-A, VASCULAR PERMEABILITY FACTOR, VPF, VASCULAR ENDOTHE COMPND 11 LIAL GROWTH FACTOR; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS IMMUNE SYSTEM, VEGF, DOMAIN ANTIBODY, VASCULAR ENDOTHELIAL GROWTH KEYWDS 2 FACTOR EXPDTA X-RAY DIFFRACTION AUTHOR C.CHUNG,A.WALKER REVDAT 4 15-MAY-19 5FV1 1 REMARK REVDAT 3 25-APR-18 5FV1 1 REMARK REVDAT 2 23-MAR-16 5FV1 1 JRNL REVDAT 1 17-FEB-16 5FV1 0 JRNL AUTH A.WALKER,C.CHUNG,M.NEU,M.BURMAN,T.BATUWANGALA,G.JONES, JRNL AUTH 2 C.TANG,M.STEWARD,M.MULLIN,N.TOURNIER,A.LEWIS,J.KORCZYNSKA, JRNL AUTH 3 V.CHUNG,I.CATCHPOLE JRNL TITL NOVEL INTERACTION MECHANISM OF A DOMAIN ANTIBODY BASED JRNL TITL 2 INHIBITOR OF HUMAN VASCULAR ENDOTHELIAL GROWTH FACTOR WITH JRNL TITL 3 GREATER POTENCY THAN RANIBIZUMAB AND BEVACIZUMAB AND JRNL TITL 4 IMPROVED CAPACITY OVER AFLIBERCEPT. JRNL REF J.BIOL.CHEM. V. 291 5500 2016 JRNL REFN ISSN 0021-9258 JRNL PMID 26728464 JRNL DOI 10.1074/JBC.M115.691162 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 73.56 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 20930 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.261 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1125 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1547 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.3170 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3600 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3256 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 73 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 73.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.52000 REMARK 3 B22 (A**2) : 1.84000 REMARK 3 B33 (A**2) : -1.32000 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): 0.374 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.286 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.233 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3350 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3068 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4529 ; 1.202 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7126 ; 0.712 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 406 ; 5.790 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 152 ;37.873 ;24.474 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 579 ;13.464 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;18.226 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 476 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3728 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 758 ; 0.001 ; 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): 1635 ; 5.264 ; 9.454 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1634 ; 5.261 ; 9.452 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2036 ; 7.886 ;21.246 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1715 ; 6.193 ;10.265 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 5FV1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1290064987. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-APR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22056 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 73.560 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 0.48000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG3350, 0.1M BIS TRIS PROPANE PH REMARK 280 8.5, 0.2M NA CITRATE 4C, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 30.61050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 73.56400 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 87.58550 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 30.61050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 73.56400 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 87.58550 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 30.61050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 73.56400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 87.58550 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 30.61050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 73.56400 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 87.58550 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, M, V, W 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 ARG M 108 REMARK 465 ALA V 1 REMARK 465 PRO V 2 REMARK 465 MET V 3 REMARK 465 ALA V 4 REMARK 465 GLU V 5 REMARK 465 GLY V 6 REMARK 465 GLY V 7 REMARK 465 GLY V 8 REMARK 465 GLN V 9 REMARK 465 ASN V 10 REMARK 465 HIS V 11 REMARK 465 HIS V 12 REMARK 465 GLU V 13 REMARK 465 ASP V 109 REMARK 465 ARG V 110 REMARK 465 HIS V 111 REMARK 465 HIS V 112 REMARK 465 HIS V 113 REMARK 465 HIS V 114 REMARK 465 HIS V 115 REMARK 465 HIS V 116 REMARK 465 ALA W 1 REMARK 465 PRO W 2 REMARK 465 MET W 3 REMARK 465 ALA W 4 REMARK 465 GLU W 5 REMARK 465 GLY W 6 REMARK 465 GLY W 7 REMARK 465 GLY W 8 REMARK 465 GLN W 9 REMARK 465 ASN W 10 REMARK 465 HIS W 11 REMARK 465 HIS W 12 REMARK 465 HIS W 113 REMARK 465 HIS W 114 REMARK 465 HIS W 115 REMARK 465 HIS W 116 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 ARG L 108 CG CD NE CZ NH1 NH2 REMARK 470 LYS M 45 CE NZ REMARK 470 PHE V 17 O REMARK 470 ARG W 110 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CYS W 26 CA - CB - SG ANGL. DEV. = -14.6 DEGREES REMARK 500 CYS W 68 CA - CB - SG ANGL. DEV. = -12.3 DEGREES 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 ALA L 84 -179.63 -175.98 REMARK 500 CYS V 26 115.86 -30.63 REMARK 500 PRO V 85 -61.16 -28.70 REMARK 500 GLN W 87 -51.70 -123.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5FV2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HVEGF IN COMPLEX WITH VH DOMAIN ANTIBODY REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUAL C-TERMINAL POLYHIS PURIFICATION TAG DBREF 5FV1 L 1 108 PDB 5FV1 5FV1 1 108 DBREF 5FV1 M 1 108 PDB 5FV1 5FV1 1 108 DBREF 5FV1 V 1 110 UNP P15692 VEGFA_HUMAN 27 136 DBREF 5FV1 W 1 110 UNP P15692 VEGFA_HUMAN 27 136 SEQADV 5FV1 HIS V 111 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS V 112 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS V 113 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS V 114 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS V 115 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS V 116 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS W 111 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS W 112 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS W 113 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS W 114 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS W 115 UNP P15692 EXPRESSION TAG SEQADV 5FV1 HIS W 116 UNP P15692 EXPRESSION TAG SEQRES 1 L 108 ASP ILE GLN MET THR GLN SER PRO SER SER LEU SER ALA SEQRES 2 L 108 SER VAL GLY ASP ARG VAL THR ILE THR CYS ARG ALA SER SEQRES 3 L 108 GLN TRP ILE GLY PRO GLU LEU LYS TRP TYR GLN GLN LYS SEQRES 4 L 108 PRO GLY LYS ALA PRO LYS LEU LEU ILE TYR HIS GLY SER SEQRES 5 L 108 ILE LEU GLN SER GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 108 GLY SER GLY THR ASP PHE THR LEU THR ILE SER SER LEU SEQRES 7 L 108 GLN PRO GLU ASP PHE ALA THR TYR TYR CYS GLN GLN TYR SEQRES 8 L 108 MET TYR TYR PRO HIS THR PHE GLY GLN GLY THR LYS VAL SEQRES 9 L 108 GLU ILE LYS ARG SEQRES 1 M 108 ASP ILE GLN MET THR GLN SER PRO SER SER LEU SER ALA SEQRES 2 M 108 SER VAL GLY ASP ARG VAL THR ILE THR CYS ARG ALA SER SEQRES 3 M 108 GLN TRP ILE GLY PRO GLU LEU LYS TRP TYR GLN GLN LYS SEQRES 4 M 108 PRO GLY LYS ALA PRO LYS LEU LEU ILE TYR HIS GLY SER SEQRES 5 M 108 ILE LEU GLN SER GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 M 108 GLY SER GLY THR ASP PHE THR LEU THR ILE SER SER LEU SEQRES 7 M 108 GLN PRO GLU ASP PHE ALA THR TYR TYR CYS GLN GLN TYR SEQRES 8 M 108 MET TYR TYR PRO HIS THR PHE GLY GLN GLY THR LYS VAL SEQRES 9 M 108 GLU ILE LYS ARG SEQRES 1 V 116 ALA PRO MET ALA GLU GLY GLY GLY GLN ASN HIS HIS GLU SEQRES 2 V 116 VAL VAL LYS PHE MET ASP VAL TYR GLN ARG SER TYR CYS SEQRES 3 V 116 HIS PRO ILE GLU THR LEU VAL ASP ILE PHE GLN GLU TYR SEQRES 4 V 116 PRO ASP GLU ILE GLU TYR ILE PHE LYS PRO SER CYS VAL SEQRES 5 V 116 PRO LEU MET ARG CYS GLY GLY CYS CYS ASN ASP GLU GLY SEQRES 6 V 116 LEU GLU CYS VAL PRO THR GLU GLU SER ASN ILE THR MET SEQRES 7 V 116 GLN ILE MET ARG ILE LYS PRO HIS GLN GLY GLN HIS ILE SEQRES 8 V 116 GLY GLU MET SER PHE LEU GLN HIS ASN LYS CYS GLU CYS SEQRES 9 V 116 ARG PRO LYS LYS ASP ARG HIS HIS HIS HIS HIS HIS SEQRES 1 W 116 ALA PRO MET ALA GLU GLY GLY GLY GLN ASN HIS HIS GLU SEQRES 2 W 116 VAL VAL LYS PHE MET ASP VAL TYR GLN ARG SER TYR CYS SEQRES 3 W 116 HIS PRO ILE GLU THR LEU VAL ASP ILE PHE GLN GLU TYR SEQRES 4 W 116 PRO ASP GLU ILE GLU TYR ILE PHE LYS PRO SER CYS VAL SEQRES 5 W 116 PRO LEU MET ARG CYS GLY GLY CYS CYS ASN ASP GLU GLY SEQRES 6 W 116 LEU GLU CYS VAL PRO THR GLU GLU SER ASN ILE THR MET SEQRES 7 W 116 GLN ILE MET ARG ILE LYS PRO HIS GLN GLY GLN HIS ILE SEQRES 8 W 116 GLY GLU MET SER PHE LEU GLN HIS ASN LYS CYS GLU CYS SEQRES 9 W 116 ARG PRO LYS LYS ASP ARG HIS HIS HIS HIS HIS HIS FORMUL 5 HOH *73(H2 O) HELIX 1 1 GLN L 79 PHE L 83 5 5 HELIX 2 2 GLN M 79 PHE M 83 5 5 HELIX 3 3 MET V 18 TYR V 25 1 8 HELIX 4 4 ILE V 35 TYR V 39 1 5 HELIX 5 5 LYS W 16 TYR W 25 1 10 HELIX 6 6 ILE W 35 TYR W 39 1 5 SHEET 1 LA 4 MET L 4 SER L 7 0 SHEET 2 LA 4 VAL L 19 ALA L 25 -1 O THR L 22 N SER L 7 SHEET 3 LA 4 ASP L 70 ILE L 75 -1 O PHE L 71 N CYS L 23 SHEET 4 LA 4 PHE L 62 GLY L 66 -1 O SER L 63 N THR L 74 SHEET 1 LB 4 SER L 10 ALA L 13 0 SHEET 2 LB 4 THR L 102 ILE L 106 1 O LYS L 103 N LEU L 11 SHEET 3 LB 4 THR L 85 GLN L 90 -1 O TYR L 86 N THR L 102 SHEET 4 LB 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 LC 6 SER L 10 ALA L 13 0 SHEET 2 LC 6 THR L 102 ILE L 106 1 O LYS L 103 N LEU L 11 SHEET 3 LC 6 THR L 85 GLN L 90 -1 O TYR L 86 N THR L 102 SHEET 4 LC 6 LEU L 33 GLN L 38 -1 O LYS L 34 N GLN L 89 SHEET 5 LC 6 LYS L 45 TYR L 49 -1 O LYS L 45 N GLN L 37 SHEET 6 LC 6 ILE L 53 LEU L 54 -1 O ILE L 53 N TYR L 49 SHEET 1 LD 2 THR L 97 PHE L 98 0 SHEET 2 LD 2 THR L 85 GLN L 90 -1 O GLN L 90 N THR L 97 SHEET 1 MA 4 MET M 4 SER M 7 0 SHEET 2 MA 4 VAL M 19 ALA M 25 -1 O THR M 22 N SER M 7 SHEET 3 MA 4 ASP M 70 ILE M 75 -1 O PHE M 71 N CYS M 23 SHEET 4 MA 4 PHE M 62 GLY M 66 -1 O SER M 63 N THR M 74 SHEET 1 MB 6 SER M 10 ALA M 13 0 SHEET 2 MB 6 THR M 102 ILE M 106 1 O LYS M 103 N LEU M 11 SHEET 3 MB 6 THR M 85 GLN M 90 -1 O TYR M 86 N THR M 102 SHEET 4 MB 6 LEU M 33 GLN M 38 -1 O LYS M 34 N GLN M 89 SHEET 5 MB 6 LYS M 45 TYR M 49 -1 O LYS M 45 N GLN M 37 SHEET 6 MB 6 ILE M 53 LEU M 54 -1 O ILE M 53 N TYR M 49 SHEET 1 VA 2 HIS V 27 ASP V 34 0 SHEET 2 VA 2 CYS V 51 GLY V 58 -1 O VAL V 52 N VAL V 33 SHEET 1 VB 3 ILE V 46 LYS V 48 0 SHEET 2 VB 3 LEU V 66 LYS V 84 -1 O MET V 81 N LYS V 48 SHEET 3 VB 3 GLY V 88 PRO V 106 -1 O GLY V 88 N LYS V 84 SHEET 1 WA 2 HIS W 27 ASP W 34 0 SHEET 2 WA 2 CYS W 51 GLY W 58 -1 O VAL W 52 N VAL W 33 SHEET 1 WB 3 ILE W 46 LYS W 48 0 SHEET 2 WB 3 LEU W 66 LYS W 84 -1 O MET W 81 N LYS W 48 SHEET 3 WB 3 GLY W 88 PRO W 106 -1 O GLY W 88 N LYS W 84 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.08 SSBOND 2 CYS M 23 CYS M 88 1555 1555 2.04 SSBOND 3 CYS V 26 CYS V 68 1555 1555 2.04 SSBOND 4 CYS V 51 CYS W 60 1555 1555 2.10 SSBOND 5 CYS V 57 CYS V 102 1555 1555 2.04 SSBOND 6 CYS V 60 CYS W 51 1555 1555 2.10 SSBOND 7 CYS V 61 CYS V 104 1555 1555 2.05 SSBOND 8 CYS W 26 CYS W 68 1555 1555 1.98 SSBOND 9 CYS W 57 CYS W 102 1555 1555 2.05 SSBOND 10 CYS W 61 CYS W 104 1555 1555 2.04 CISPEP 1 SER L 7 PRO L 8 0 -0.58 CISPEP 2 TYR L 94 PRO L 95 0 -6.34 CISPEP 3 SER M 7 PRO M 8 0 -5.38 CISPEP 4 TYR M 94 PRO M 95 0 7.13 CISPEP 5 LYS V 48 PRO V 49 0 3.11 CISPEP 6 LYS W 48 PRO W 49 0 -3.10 CRYST1 61.221 147.128 175.171 90.00 90.00 90.00 I 2 2 2 16 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 0.016334 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006797 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005709 0.00000