HEADER VIRAL PROTEIN 21-MAR-01 1I9W TITLE CRYSTAL STRUCTURE OF THE FUSION GLYCOPROTEIN E1 FROM SEMLIKI FOREST TITLE 2 VIRUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: FUSION PROTEIN E1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SPIKE GLYCOPROTEIN E1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEMLIKI FOREST VIRUS; SOURCE 3 ORGANISM_TAXID: 11033 KEYWDS ENVELOPE GLYCOPROTEIN, VIRUS, MEMBRANE FUSION, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION MDLTYP CA ATOMS ONLY, CHAIN A AUTHOR J.LESCAR,A.ROUSSEL,M.W.WIEN,J.NAVAZA,S.D.FULLER,G.WENGLER,G.WENGLER, AUTHOR 2 F.A.REY REVDAT 5 07-FEB-24 1I9W 1 REMARK REVDAT 4 08-FEB-17 1I9W 1 AUTHOR VERSN REVDAT 3 24-FEB-09 1I9W 1 VERSN REVDAT 2 01-APR-03 1I9W 1 JRNL REVDAT 1 06-APR-02 1I9W 0 JRNL AUTH J.LESCAR,A.ROUSSEL,M.W.WIEN,J.NAVAZA,S.D.FULLER,G.WENGLER, JRNL AUTH 2 G.WENGLER,F.A.REY JRNL TITL THE FUSION GLYCOPROTEIN SHELL OF SEMLIKI FOREST VIRUS: AN JRNL TITL 2 ICOSAHEDRAL ASSEMBLY PRIMED FOR FUSOGENIC ACTIVATION AT JRNL TITL 3 ENDOSOMAL PH. JRNL REF CELL(CAMBRIDGE,MASS.) V. 105 137 2001 JRNL REFN ISSN 0092-8674 JRNL PMID 11301009 JRNL DOI 10.1016/S0092-8674(01)00303-8 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 86.5 REMARK 3 NUMBER OF REFLECTIONS : 11519 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.275 REMARK 3 FREE R VALUE : 0.344 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1166 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 369 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE COORDINATES CONTAIN ONLY CA ATOMS. REMARK 4 REMARK 4 1I9W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-MAR-01. REMARK 100 THE DEPOSITION ID IS D_1000013087. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JAN-98 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 : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.945 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11519 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.5 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.25200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8K, PH 8.0, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+1/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 111.58667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 223.17333 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 111.58667 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 223.17333 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 111.58667 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 223.17333 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 111.58667 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 223.17333 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 1 CHAIN(S). REMARK 300 NO MATRICES WERE PROVIDED TO GENERATE THE ICOSOHEDRAL REMARK 300 PARTICLE CONSISTING OF THIS PROTEIN FROM THESE REMARK 300 COORDINATES. 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 SER A 310 REMARK 465 ASP A 311 REMARK 465 PHE A 312 REMARK 465 GLY A 313 REMARK 465 GLY A 314 REMARK 465 VAL A 346 REMARK 465 LYS A 347 REMARK 465 THR A 348 REMARK 465 ALA A 349 REMARK 465 GLY A 350 REMARK 465 LYS A 351 REMARK 465 GLU A 381 REMARK 465 PRO A 382 REMARK 465 PRO A 383 REMARK 465 LYS A 384 REMARK 465 ASP A 385 REMARK 465 HIS A 386 REMARK 465 ILE A 387 REMARK 465 VAL A 388 REMARK 465 PRO A 389 REMARK 465 TYR A 390 DBREF 1I9W A 1 390 UNP P03315 POLS_SFV 816 1205 SEQRES 1 A 390 TYR GLU HIS SER THR VAL MET PRO ASN VAL VAL GLY PHE SEQRES 2 A 390 PRO TYR LYS ALA HIS ILE GLU ARG PRO GLY TYR SER PRO SEQRES 3 A 390 LEU THR LEU GLN MET GLN VAL VAL GLU THR SER LEU GLU SEQRES 4 A 390 PRO THR LEU ASN LEU GLU TYR ILE THR CYS GLU TYR LYS SEQRES 5 A 390 THR VAL VAL PRO SER PRO TYR VAL LYS CYS CYS GLY ALA SEQRES 6 A 390 SER GLU CYS SER THR LYS GLU LYS PRO ASP TYR GLN CYS SEQRES 7 A 390 LYS VAL TYR THR GLY VAL TYR PRO PHE MET TRP GLY GLY SEQRES 8 A 390 ALA TYR CYS PHE CYS ASP SER GLU ASN THR GLN LEU SER SEQRES 9 A 390 GLU ALA TYR VAL ASP ARG SER ASP VAL CYS ARG HIS ASP SEQRES 10 A 390 HIS ALA SER ALA TYR LYS ALA HIS THR ALA SER LEU LYS SEQRES 11 A 390 ALA LYS VAL ARG VAL MET TYR GLY ASN VAL ASN GLN THR SEQRES 12 A 390 VAL ASP VAL TYR VAL ASN GLY ASP HIS ALA VAL THR ILE SEQRES 13 A 390 GLY GLY THR GLN PHE ILE PHE GLY PRO LEU SER SER ALA SEQRES 14 A 390 TRP THR PRO PHE ASP ASN LYS ILE VAL VAL TYR LYS ASP SEQRES 15 A 390 GLU VAL PHE ASN GLN ASP PHE PRO PRO TYR GLY SER GLY SEQRES 16 A 390 GLN PRO GLY ARG PHE GLY ASP ILE GLN SER ARG THR VAL SEQRES 17 A 390 GLU SER ASN ASP LEU TYR ALA ASN THR ALA LEU LYS LEU SEQRES 18 A 390 ALA ARG PRO SER PRO GLY MET VAL HIS VAL PRO TYR THR SEQRES 19 A 390 GLN THR PRO SER GLY PHE LYS TYR TRP LEU LYS GLU LYS SEQRES 20 A 390 GLY THR ALA LEU ASN THR LYS ALA PRO PHE GLY CYS GLN SEQRES 21 A 390 ILE LYS THR ASN PRO VAL ARG ALA MET ASN CYS ALA VAL SEQRES 22 A 390 GLY ASN ILE PRO VAL SER MET ASN LEU PRO ASP SER ALA SEQRES 23 A 390 PHE THR ARG ILE VAL GLU ALA PRO THR ILE ILE ASP LEU SEQRES 24 A 390 THR CYS THR VAL ALA THR CYS THR HIS SER SER ASP PHE SEQRES 25 A 390 GLY GLY VAL LEU THR LEU THR TYR LYS THR ASN LYS ASN SEQRES 26 A 390 GLY ASP CYS SER VAL HIS SER HIS SER ASN VAL ALA THR SEQRES 27 A 390 LEU GLN GLU ALA THR ALA LYS VAL LYS THR ALA GLY LYS SEQRES 28 A 390 VAL THR LEU HIS PHE SER THR ALA SER ALA SER PRO SER SEQRES 29 A 390 PHE VAL VAL SER LEU CYS SER ALA ARG ALA THR CYS SER SEQRES 30 A 390 ALA SER CYS GLU PRO PRO LYS ASP HIS ILE VAL PRO TYR CRYST1 79.460 79.460 334.760 90.00 90.00 120.00 P 64 2 2 12 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 0.012585 0.007266 0.000000 0.00000 SCALE2 0.000000 0.014532 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002987 0.00000