HEADER ANTIVIRAL PROTEIN 10-APR-19 6OJ7 TITLE RESPIRATORY SYNCYTIAL VIRUS FUSION GLYCOPROTEIN N-TERMINAL HEPTAD TITLE 2 REPEAT DOMAIN+VIQKI I456F COMPND MOL_ID: 1; COMPND 2 MOLECULE: FUSION GLYCOPROTEIN F0; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: COMPOUND DETAILS: THIS COMPOUND IS DERIVED FROM THE COMPND 7 THE RSV-A2 FUSION GLYCOPROTEIN N-TERMINAL HEPTAD REPEAT DOMAIN COMPND 8 RESIDUES 158-208. IT IS ACETYLATED AT THE N-TERMINUS AND AMIDATED AT COMPND 9 THE C-TERMINUS.; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: FUSION GLYCOPROTEIN F0; COMPND 12 CHAIN: C; COMPND 13 FRAGMENT: UNP RESIDUES 449-484; COMPND 14 ENGINEERED: YES; COMPND 15 MUTATION: YES; COMPND 16 OTHER_DETAILS: VIQKI I454F IS A SYNTHETIC PEPTIDE DERIVED FROM COMPND 17 RESIDUES 449-484 OF THE HPIV3 FUSION GLYCOPROTEIN C-TERMINAL HEPTAD COMPND 18 REPEAT DOMAIN WITH SUBSTITUTIONS I454F, I456F, E459V, A463I, D466Q, COMPND 19 Q479K, AND K480I. IT IS ACETYLATED AT THE N-TERMINUS AND AMIDATED AT COMPND 20 THE C-TERMINUS. SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HUMAN RESPIRATORY SYNCYTIAL VIRUS A; SOURCE 4 ORGANISM_TAXID: 208893; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: HUMAN RESPIROVIRUS 3; SOURCE 8 ORGANISM_TAXID: 11216 KEYWDS FUSION PROTEIN, FUSION INHIBITOR, SIX-HELIX BUNDLE, ANTIVIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR V.K.OUTLAW,S.H.GELLMAN REVDAT 3 11-OCT-23 6OJ7 1 REMARK REVDAT 2 19-FEB-20 6OJ7 1 JRNL REVDAT 1 05-FEB-20 6OJ7 0 JRNL AUTH V.K.OUTLAW,J.T.LEMKE,Y.ZHU,S.H.GELLMAN,M.POROTTO,A.MOSCONA JRNL TITL STRUCTURE-GUIDED IMPROVEMENT OF A DUAL HPIV3/RSV FUSION JRNL TITL 2 INHIBITOR. JRNL REF J.AM.CHEM.SOC. V. 142 2140 2020 JRNL REFN ESSN 1520-5126 JRNL PMID 31951396 JRNL DOI 10.1021/JACS.9B11548 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.96 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.970 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 13869 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.910 REMARK 3 FREE R VALUE TEST SET COUNT : 1374 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 26.9700 - 3.1200 0.99 1269 134 0.1672 0.1549 REMARK 3 2 3.1200 - 2.4800 1.00 1257 137 0.1645 0.1696 REMARK 3 3 2.4800 - 2.1700 1.00 1263 143 0.1566 0.1708 REMARK 3 4 2.1700 - 1.9700 0.99 1275 141 0.1717 0.2224 REMARK 3 5 1.9700 - 1.8300 1.00 1262 133 0.1965 0.2518 REMARK 3 6 1.8300 - 1.7200 1.00 1263 148 0.2191 0.2581 REMARK 3 7 1.7200 - 1.6300 1.00 1268 142 0.2237 0.2145 REMARK 3 8 1.6300 - 1.5600 1.00 1279 141 0.2276 0.2367 REMARK 3 9 1.5600 - 1.5000 0.98 1238 133 0.2415 0.2808 REMARK 3 10 1.5000 - 1.4500 0.89 1121 122 0.2994 0.3531 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.409 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.28 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.05 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.013 652 REMARK 3 ANGLE : 1.687 880 REMARK 3 CHIRALITY : 0.087 111 REMARK 3 PLANARITY : 0.012 108 REMARK 3 DIHEDRAL : 14.788 249 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 1.1733 6.9255 10.4728 REMARK 3 T TENSOR REMARK 3 T11: 0.0964 T22: 0.0854 REMARK 3 T33: 0.1643 T12: -0.0203 REMARK 3 T13: 0.0133 T23: 0.0160 REMARK 3 L TENSOR REMARK 3 L11: 1.4098 L22: 1.5071 REMARK 3 L33: 8.0273 L12: 0.0862 REMARK 3 L13: 0.8194 L23: 1.2682 REMARK 3 S TENSOR REMARK 3 S11: -0.0097 S12: 0.1374 S13: 0.0968 REMARK 3 S21: -0.1848 S22: -0.0358 S23: -0.0007 REMARK 3 S31: -0.2109 S32: 0.0123 S33: 0.0503 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6OJ7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-APR-19. REMARK 100 THE DEPOSITION ID IS D_1000240794. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUL-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.127231 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : DIALS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13875 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 26.960 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 9.860 REMARK 200 R MERGE (I) : 0.11400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.1900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.85000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.510 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: 6NTX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 MM NAF, 30 MM NABR, 30 MM NAI, REMARK 280 12.5% (V/V) 2-METHYL-2,4-PENTANEDIOL, 12.5% (V/V) PEG 1000, 12.5% REMARK 280 (W/V) PEG 3350 IN 100 MM NAHEPES/MOPS BUFFER (PH 7.5), VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 16.14250 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 9.31988 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 67.94700 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 16.14250 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 9.31988 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 67.94700 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 16.14250 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 9.31988 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 67.94700 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 18.63975 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 135.89400 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 18.63975 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 135.89400 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 18.63975 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 135.89400 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -124.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 VAL A 207 REMARK 465 ASN A 208 REMARK 465 LYS A 209 REMARK 465 NH2 A 210 REMARK 465 ACE C 448 REMARK 465 VAL C 449 REMARK 465 NH2 C 485 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 161 CD OE1 OE2 REMARK 470 LEU A 204 CG CD1 CD2 REMARK 470 ILE A 206 CG1 CG2 CD1 REMARK 470 ARG C 475 CD NE CZ NH1 NH2 DBREF1 6OJ7 A 159 209 UNP A0A1U8ZTH8_HRSV DBREF2 6OJ7 A A0A1U8ZTH8 157 207 DBREF1 6OJ7 C 449 484 UNP A0A1X9QNS5_9MONO DBREF2 6OJ7 C A0A1X9QNS5 449 484 SEQADV 6OJ7 ACE A 158 UNP A0A1U8ZTH ACETYLATION SEQADV 6OJ7 NH2 A 210 UNP A0A1U8ZTH AMIDATION SEQADV 6OJ7 ACE C 448 UNP A0A1X9QNS ACETYLATION SEQADV 6OJ7 PHE C 456 UNP A0A1X9QNS ILE 456 ENGINEERED MUTATION SEQADV 6OJ7 VAL C 459 UNP A0A1X9QNS GLU 459 ENGINEERED MUTATION SEQADV 6OJ7 ILE C 463 UNP A0A1X9QNS ALA 463 ENGINEERED MUTATION SEQADV 6OJ7 GLN C 466 UNP A0A1X9QNS ASP 466 ENGINEERED MUTATION SEQADV 6OJ7 LYS C 479 UNP A0A1X9QNS GLN 479 ENGINEERED MUTATION SEQADV 6OJ7 ILE C 480 UNP A0A1X9QNS LYS 480 ENGINEERED MUTATION SEQADV 6OJ7 NH2 C 485 UNP A0A1X9QNS AMIDATION SEQRES 1 A 53 ACE HIS LEU GLU GLY GLU VAL ASN LYS ILE LYS SER ALA SEQRES 2 A 53 LEU LEU SER THR ASN LYS ALA VAL VAL SER LEU SER ASN SEQRES 3 A 53 GLY VAL SER VAL LEU THR SER LYS VAL LEU ASP LEU LYS SEQRES 4 A 53 ASN TYR ILE ASP LYS GLN LEU LEU PRO ILE VAL ASN LYS SEQRES 5 A 53 NH2 SEQRES 1 C 38 ACE VAL ALA LEU ASP PRO ILE ASP PHE SER ILE VAL LEU SEQRES 2 C 38 ASN LYS ILE LYS SER GLN LEU GLU GLU SER LYS GLU TRP SEQRES 3 C 38 ILE ARG ARG SER ASN LYS ILE LEU ASP SER ILE NH2 HET ACE A 158 3 HETNAM ACE ACETYL GROUP FORMUL 1 ACE C2 H4 O FORMUL 3 HOH *65(H2 O) HELIX 1 AA1 HIS A 159 LEU A 204 1 46 HELIX 2 AA2 ASP C 452 SER C 483 1 32 LINK C ACE A 158 N HIS A 159 1555 1555 1.33 CRYST1 32.285 32.285 203.841 90.00 90.00 120.00 H 3 9 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 0.030974 0.017883 0.000000 0.00000 SCALE2 0.000000 0.035766 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004906 0.00000 HETATM 1 C ACE A 158 -2.585 7.582 -25.160 1.00 69.54 C ANISOU 1 C ACE A 158 11285 10237 4899 194 -529 722 C HETATM 2 O ACE A 158 -2.337 8.308 -24.214 1.00 63.96 O ANISOU 2 O ACE A 158 10626 9353 4324 173 -496 817 O HETATM 3 CH3 ACE A 158 -1.535 7.286 -26.204 1.00 64.72 C ANISOU 3 CH3 ACE A 158 10697 9805 4087 61 -348 720 C