HEADER VIRAL PROTEIN 13-SEP-23 8WCM TITLE NSS FILAMENT FORMATION DETERMINES RVFV PATHOGENESIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: NON-STRUCTURAL PROTEIN NS-S; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RIFT VALLEY FEVER VIRUS; SOURCE 3 ORGANISM_TAXID: 11588; SOURCE 4 GENE: NSS; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS SELF-ASSEMBLY, HELICAL STRUCTURE, VIRAL PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR H.LI,G.RAO,S.CAO,K.PENG REVDAT 4 11-DEC-24 8WCM 1 JRNL REVDAT 3 13-NOV-24 8WCM 1 JRNL REVDAT 2 06-NOV-24 8WCM 1 AUTHOR JRNL REVDAT 1 18-SEP-24 8WCM 0 JRNL AUTH H.LI,Y.ZHANG,G.RAO,C.ZHANG,Z.GUAN,Z.HUANG,S.LI,P.Y.LOZACH, JRNL AUTH 2 S.CAO,K.PENG JRNL TITL RIFT VALLEY FEVER VIRUS COORDINATES THE ASSEMBLY OF A JRNL TITL 2 PROGRAMMABLE E3 LIGASE TO PROMOTE VIRAL REPLICATION. JRNL REF CELL V. 187 6896 2024 JRNL REFN ISSN 1097-4172 JRNL PMID 39366381 JRNL DOI 10.1016/J.CELL.2024.09.008 REMARK 2 REMARK 2 RESOLUTION. 2.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : PHENIX REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 2.940 REMARK 3 NUMBER OF PARTICLES : 617585 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8WCM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-SEP-23. REMARK 100 THE DEPOSITION ID IS D_1300039850. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : HELICAL REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : HELICAL ARRAY REMARK 245 PARTICLE TYPE : HELICAL REMARK 245 NAME OF SAMPLE : THE SELF-ASSEMBLY OF RVFV NSS REMARK 245 PROTEIN REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.40 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : JEOL CRYO ARM 300 REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 500.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2500.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 4000.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 GLY A 0 REMARK 465 GLY A 1 REMARK 465 ILE A 245 REMARK 465 PRO A 246 REMARK 465 ASP A 247 REMARK 465 VAL A 248 REMARK 465 GLU A 249 REMARK 465 MET A 250 REMARK 465 GLU A 251 REMARK 465 SER A 252 REMARK 465 GLU A 253 REMARK 465 GLU A 254 REMARK 465 GLU A 255 REMARK 465 SER A 256 REMARK 465 ASP A 257 REMARK 465 ASP A 258 REMARK 465 ASP A 259 REMARK 465 GLY A 260 REMARK 465 PHE A 261 REMARK 465 VAL A 262 REMARK 465 GLU A 263 REMARK 465 VAL A 264 REMARK 465 ASP A 265 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 HIS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 GLY B 0 REMARK 465 GLY B 1 REMARK 465 ILE B 245 REMARK 465 PRO B 246 REMARK 465 ASP B 247 REMARK 465 VAL B 248 REMARK 465 GLU B 249 REMARK 465 MET B 250 REMARK 465 GLU B 251 REMARK 465 SER B 252 REMARK 465 GLU B 253 REMARK 465 GLU B 254 REMARK 465 GLU B 255 REMARK 465 SER B 256 REMARK 465 ASP B 257 REMARK 465 ASP B 258 REMARK 465 ASP B 259 REMARK 465 GLY B 260 REMARK 465 PHE B 261 REMARK 465 VAL B 262 REMARK 465 GLU B 263 REMARK 465 VAL B 264 REMARK 465 ASP B 265 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 PHE A 74 -179.27 -170.55 REMARK 500 HIS A 95 30.05 -94.64 REMARK 500 SER A 228 -63.23 -92.88 REMARK 500 PHE B 74 -179.29 -170.62 REMARK 500 HIS B 95 30.10 -94.60 REMARK 500 SER B 228 -63.25 -92.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-37443 RELATED DB: EMDB REMARK 900 NSS FILAMENT FORMATION DETERMINES RVFV PATHOGENESIS DBREF 8WCM A 2 265 UNP A2SZZ6 A2SZZ6_RVFV 2 265 DBREF 8WCM B 2 265 UNP A2SZZ6 A2SZZ6_RVFV 2 265 SEQADV 8WCM HIS A -8 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS A -7 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS A -6 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS A -5 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS A -4 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS A -3 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM GLY A -2 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM SER A -1 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM GLY A 0 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM GLY A 1 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS B -8 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS B -7 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS B -6 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS B -5 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS B -4 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM HIS B -3 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM GLY B -2 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM SER B -1 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM GLY B 0 UNP A2SZZ6 EXPRESSION TAG SEQADV 8WCM GLY B 1 UNP A2SZZ6 EXPRESSION TAG SEQRES 1 A 274 HIS HIS HIS HIS HIS HIS GLY SER GLY GLY ASP TYR PHE SEQRES 2 A 274 PRO VAL ILE SER VAL ASP LEU GLN SER GLY ARG ARG VAL SEQRES 3 A 274 VAL SER VAL GLU TYR ILE ARG GLY ASP GLY PRO PRO ARG SEQRES 4 A 274 ILE PRO TYR SER MET VAL GLY PRO CYS CYS VAL PHE LEU SEQRES 5 A 274 MET HIS HIS ARG PRO SER HIS GLU VAL ARG LEU ARG PHE SEQRES 6 A 274 SER ASP PHE TYR ASN VAL GLY GLU PHE PRO TYR ARG VAL SEQRES 7 A 274 GLY LEU GLY ASP PHE ALA SER ASN VAL ALA PRO PRO PRO SEQRES 8 A 274 ALA LYS PRO PHE GLN ARG LEU ILE ASP LEU ILE GLY HIS SEQRES 9 A 274 MET THR LEU SER ASP PHE THR ARG PHE PRO ASN LEU LYS SEQRES 10 A 274 GLU ALA ILE SER TRP PRO LEU GLY GLU PRO SER LEU ALA SEQRES 11 A 274 PHE PHE ASP LEU SER SER THR ARG VAL HIS ARG ASN ASP SEQRES 12 A 274 ASP ILE ARG ARG ASP GLN ILE ALA THR LEU ALA MET ARG SEQRES 13 A 274 SER CYS LYS ILE THR ASN ASP LEU GLU ASP SER PHE VAL SEQRES 14 A 274 GLY LEU HIS ARG MET ILE VAL THR GLU ALA ILE LEU ARG SEQRES 15 A 274 GLY ILE ASP LEU CYS LEU LEU PRO GLY PHE ASP LEU MET SEQRES 16 A 274 TYR GLU VAL ALA HIS VAL GLN CYS VAL ARG LEU LEU GLN SEQRES 17 A 274 ALA ALA LYS GLU ASP ILE SER ASN ALA VAL VAL PRO ASN SEQRES 18 A 274 SER ALA LEU ILE ALA LEU MET GLU GLU SER LEU MET LEU SEQRES 19 A 274 ARG SER SER LEU PRO SER MET MET GLY ARG ASN ASN TRP SEQRES 20 A 274 ILE PRO VAL VAL PRO PRO ILE PRO ASP VAL GLU MET GLU SEQRES 21 A 274 SER GLU GLU GLU SER ASP ASP ASP GLY PHE VAL GLU VAL SEQRES 22 A 274 ASP SEQRES 1 B 274 HIS HIS HIS HIS HIS HIS GLY SER GLY GLY ASP TYR PHE SEQRES 2 B 274 PRO VAL ILE SER VAL ASP LEU GLN SER GLY ARG ARG VAL SEQRES 3 B 274 VAL SER VAL GLU TYR ILE ARG GLY ASP GLY PRO PRO ARG SEQRES 4 B 274 ILE PRO TYR SER MET VAL GLY PRO CYS CYS VAL PHE LEU SEQRES 5 B 274 MET HIS HIS ARG PRO SER HIS GLU VAL ARG LEU ARG PHE SEQRES 6 B 274 SER ASP PHE TYR ASN VAL GLY GLU PHE PRO TYR ARG VAL SEQRES 7 B 274 GLY LEU GLY ASP PHE ALA SER ASN VAL ALA PRO PRO PRO SEQRES 8 B 274 ALA LYS PRO PHE GLN ARG LEU ILE ASP LEU ILE GLY HIS SEQRES 9 B 274 MET THR LEU SER ASP PHE THR ARG PHE PRO ASN LEU LYS SEQRES 10 B 274 GLU ALA ILE SER TRP PRO LEU GLY GLU PRO SER LEU ALA SEQRES 11 B 274 PHE PHE ASP LEU SER SER THR ARG VAL HIS ARG ASN ASP SEQRES 12 B 274 ASP ILE ARG ARG ASP GLN ILE ALA THR LEU ALA MET ARG SEQRES 13 B 274 SER CYS LYS ILE THR ASN ASP LEU GLU ASP SER PHE VAL SEQRES 14 B 274 GLY LEU HIS ARG MET ILE VAL THR GLU ALA ILE LEU ARG SEQRES 15 B 274 GLY ILE ASP LEU CYS LEU LEU PRO GLY PHE ASP LEU MET SEQRES 16 B 274 TYR GLU VAL ALA HIS VAL GLN CYS VAL ARG LEU LEU GLN SEQRES 17 B 274 ALA ALA LYS GLU ASP ILE SER ASN ALA VAL VAL PRO ASN SEQRES 18 B 274 SER ALA LEU ILE ALA LEU MET GLU GLU SER LEU MET LEU SEQRES 19 B 274 ARG SER SER LEU PRO SER MET MET GLY ARG ASN ASN TRP SEQRES 20 B 274 ILE PRO VAL VAL PRO PRO ILE PRO ASP VAL GLU MET GLU SEQRES 21 B 274 SER GLU GLU GLU SER ASP ASP ASP GLY PHE VAL GLU VAL SEQRES 22 B 274 ASP HELIX 1 AA1 PHE A 56 ASN A 61 1 6 HELIX 2 AA2 PHE A 86 HIS A 95 1 10 HELIX 3 AA3 LEU A 98 ARG A 103 1 6 HELIX 4 AA4 PHE A 104 TRP A 113 1 10 HELIX 5 AA5 LEU A 120 SER A 127 1 8 HELIX 6 AA6 ASN A 133 LYS A 150 1 18 HELIX 7 AA7 LEU A 155 GLY A 174 1 20 HELIX 8 AA8 ASP A 176 LEU A 180 5 5 HELIX 9 AA9 ASP A 184 ASN A 207 1 24 HELIX 10 AB1 ASN A 212 LEU A 229 1 18 HELIX 11 AB2 PRO A 230 GLY A 234 5 5 HELIX 12 AB3 PHE B 56 ASN B 61 1 6 HELIX 13 AB4 PHE B 86 HIS B 95 1 10 HELIX 14 AB5 LEU B 98 ARG B 103 1 6 HELIX 15 AB6 PHE B 104 TRP B 113 1 10 HELIX 16 AB7 LEU B 120 SER B 127 1 8 HELIX 17 AB8 ASN B 133 LYS B 150 1 18 HELIX 18 AB9 LEU B 155 GLY B 174 1 20 HELIX 19 AC1 ASP B 176 LEU B 180 5 5 HELIX 20 AC2 ASP B 184 ASN B 207 1 24 HELIX 21 AC3 ASN B 212 LEU B 229 1 18 HELIX 22 AC4 PRO B 230 GLY B 234 5 5 SHEET 1 AA1 2 TYR A 3 GLN A 12 0 SHEET 2 AA1 2 ARG A 15 ARG A 24 -1 O ARG A 15 N GLN A 12 SHEET 1 AA2 3 CYS A 39 PHE A 42 0 SHEET 2 AA2 3 TYR A 33 VAL A 36 -1 N SER A 34 O VAL A 41 SHEET 3 AA2 3 ARG A 68 VAL A 69 1 O VAL A 69 N MET A 35 SHEET 1 AA3 2 ARG A 47 SER A 49 0 SHEET 2 AA3 2 GLU A 64 PRO A 66 1 O PHE A 65 N SER A 49 SHEET 1 AA4 2 TYR B 3 GLN B 12 0 SHEET 2 AA4 2 ARG B 15 ARG B 24 -1 O ARG B 15 N GLN B 12 SHEET 1 AA5 3 CYS B 39 PHE B 42 0 SHEET 2 AA5 3 TYR B 33 VAL B 36 -1 N SER B 34 O VAL B 41 SHEET 3 AA5 3 ARG B 68 VAL B 69 1 O VAL B 69 N MET B 35 SHEET 1 AA6 2 ARG B 47 SER B 49 0 SHEET 2 AA6 2 GLU B 64 PRO B 66 1 O PHE B 65 N SER B 49 CISPEP 1 TRP A 113 PRO A 114 0 -1.01 CISPEP 2 TRP B 113 PRO B 114 0 -1.05 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000