HEADER VIRAL PROTEIN/IMMUNE SYSTEM 09-APR-25 9UEV TITLE STRUCTURE OF THE SFTSV GN HEAD PROTEIN IN COMPLEX WITH NB261 AND NB318 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SFTSV GN HEAD; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: M POLYPROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: NB261; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: NB318; COMPND 12 CHAIN: C; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE FEVER WITH THROMBOCYTOPENIA SYNDROME SOURCE 3 VIRUS; SOURCE 4 ORGANISM_TAXID: 1003835; SOURCE 5 EXPRESSION_SYSTEM: HOMO; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 9605; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 9 ORGANISM_TAXID: 30538; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 12 MOL_ID: 3; SOURCE 13 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 14 ORGANISM_TAXID: 30538; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SFTSV, NANOBODIES, COMPLEX, VIRAL PROTEIN/IMMUNE SYSTEM, VIRAL KEYWDS 2 PROTEIN-IMMUNE SYSTEM COMPLEX EXPDTA ELECTRON MICROSCOPY AUTHOR S.J.LIANG,Z.Y.LOU,X.L.WU REVDAT 1 29-OCT-25 9UEV 0 JRNL AUTH S.J.LIANG JRNL TITL STRUCTURE OF THE SFTSV GN HEAD PROTEIN IN COMPLEX WITH NB261 JRNL TITL 2 AND NB318 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : UCSF CHIMERAX, 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) : 3.620 REMARK 3 NUMBER OF PARTICLES : 333824 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 9UEV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 10-APR-25. REMARK 100 THE DEPOSITION ID IS D_1300058362. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : GN HEAD PROTEIN IN COMPLEX WITH REMARK 245 NB261 AND NB318 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 : TFS KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : DIFFRACTION REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 5000.00 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 ILE A 25 -61.09 -126.66 REMARK 500 ARG A 74 -2.05 66.50 REMARK 500 GLN A 79 40.33 -104.63 REMARK 500 THR A 162 52.33 -92.10 REMARK 500 HIS A 234 -162.28 -167.68 REMARK 500 GLU B 44 -169.46 -79.72 REMARK 500 VAL B 48 -60.39 -122.98 REMARK 500 GLU C 44 -167.90 -78.53 REMARK 500 VAL C 48 -51.57 -121.56 REMARK 500 ARG C 67 -38.44 -130.58 REMARK 500 TYR C 112 152.82 68.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-64093 RELATED DB: EMDB REMARK 900 STRUCTURE OF THE SFTSV GN HEAD PROTEIN IN COMPLEX WITH NB261 AND REMARK 900 NB318 DBREF1 9UEV A 20 340 UNP A0A8F5LQV3_SFTS DBREF2 9UEV A A0A8F5LQV3 20 340 DBREF 9UEV B 1 115 PDB 9UEV 9UEV 1 115 DBREF 9UEV C 1 123 PDB 9UEV 9UEV 1 123 SEQRES 1 A 321 ASP SER GLY PRO ILE ILE CYS ALA GLY PRO ILE HIS SER SEQRES 2 A 321 ASN LYS SER ALA ASP ILE PRO HIS LEU LEU GLY TYR SER SEQRES 3 A 321 GLU LYS ILE CYS GLN ILE ASP ARG LEU ILE HIS VAL SER SEQRES 4 A 321 SER TRP LEU ARG ASN HIS SER GLN PHE GLN GLY TYR VAL SEQRES 5 A 321 GLY GLN ARG GLY GLY ARG SER GLN VAL SER TYR TYR PRO SEQRES 6 A 321 ALA GLU ASN SER TYR SER ARG TRP SER GLY LEU LEU SER SEQRES 7 A 321 PRO CYS ASP ALA ASP TRP LEU GLY MET LEU VAL VAL LYS SEQRES 8 A 321 LYS ALA LYS GLY SER ASP MET ILE VAL PRO GLY PRO SER SEQRES 9 A 321 TYR LYS GLY LYS VAL PHE PHE GLU ARG PRO THR PHE ASP SEQRES 10 A 321 GLY TYR VAL GLY TRP GLY CYS GLY SER GLY LYS SER ARG SEQRES 11 A 321 THR GLU SER GLY GLU LEU CYS SER SER ASP SER GLY THR SEQRES 12 A 321 SER SER GLY LEU LEU PRO SER ASN ARG VAL LEU TRP ILE SEQRES 13 A 321 GLY ASP VAL ALA CYS GLN PRO MET THR PRO ILE PRO GLU SEQRES 14 A 321 GLU THR PHE LEU GLU LEU LYS SER PHE SER GLN SER GLU SEQRES 15 A 321 PHE PRO ASP ILE CYS LYS ILE ASP GLY ILE VAL PHE ASN SEQRES 16 A 321 GLN CYS GLU GLY GLU SER LEU PRO GLN PRO PHE ASP VAL SEQRES 17 A 321 ALA TRP MET ASP VAL GLY HIS SER HIS LYS ILE ILE MET SEQRES 18 A 321 ARG GLU HIS LYS THR LYS TRP VAL GLN GLU SER SER SER SEQRES 19 A 321 LYS ASP PHE VAL CYS TYR LYS GLU GLY THR GLY PRO CYS SEQRES 20 A 321 SER GLU SER GLU GLU LYS THR CYS LYS THR SER GLY SER SEQRES 21 A 321 CYS ARG GLY ASP MET GLN PHE CYS LYS VAL ALA GLY CYS SEQRES 22 A 321 GLU HIS GLY GLU GLU ALA SER GLU ALA LYS CYS ARG CYS SEQRES 23 A 321 SER LEU VAL HIS LYS PRO GLY GLU VAL VAL VAL SER TYR SEQRES 24 A 321 GLY GLY MET ARG VAL ARG PRO LYS CYS TYR GLY PHE SER SEQRES 25 A 321 ARG MET MET ALA THR LEU GLU VAL ASN SEQRES 1 B 115 GLU VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 115 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 B 115 PHE THR ILE SER ASN ALA ASP MET ARG TRP TYR ARG GLN SEQRES 4 B 115 ALA PRO GLY LYS GLU ARG GLU LEU VAL ALA LEU LEU LEU SEQRES 5 B 115 SER SER LEU GLY GLY SER THR GLU TYR ALA ASP SER VAL SEQRES 6 B 115 LYS GLY ARG PHE THR MET PHE ARG ASP ASN ALA ARG ASN SEQRES 7 B 115 THR VAL TYR LEU GLN MET ASP ASN LEU LYS ALA GLU ASP SEQRES 8 B 115 THR ALA VAL TYR TYR CYS ASN VAL ARG TRP THR ASP TYR SEQRES 9 B 115 TRP GLY GLN GLY THR GLN VAL THR VAL SER SER SEQRES 1 C 123 GLU VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 C 123 ALA GLY GLY SER LEU ARG LEU SER CYS THR ALA SER GLY SEQRES 3 C 123 LEU THR PHE SER SER TYR ALA MET GLY TRP PHE ARG GLN SEQRES 4 C 123 ALA PRO GLY LYS GLU ARG GLU PHE VAL ALA ALA ILE SER SEQRES 5 C 123 TRP SER GLY GLY ASP THR TYR TYR GLU ASP SER VAL LYS SEQRES 6 C 123 GLY ARG PHE THR ILE SER ARG ASP ASN ALA ALA ASN THR SEQRES 7 C 123 VAL TYR LEU GLN MET ASN SER LEU LYS PRO GLU ASP THR SEQRES 8 C 123 ALA VAL TYR TYR CYS ASN SER GLY GLY ILE ALA THR MET SEQRES 9 C 123 LYS LEU MET ASP GLN TYR GLU TYR TRP GLY GLN GLY THR SEQRES 10 C 123 GLN VAL THR VAL SER SER HELIX 1 AA1 GLY A 43 ARG A 53 1 11 HELIX 2 AA2 LEU A 54 SER A 65 1 12 HELIX 3 AA3 SER A 97 LEU A 104 1 8 HELIX 4 AA4 SER A 160 SER A 164 5 5 HELIX 5 AA5 PRO A 168 ASN A 170 5 3 HELIX 6 AA6 PRO A 187 PHE A 202 1 16 HELIX 7 AA7 SER A 252 LYS A 254 5 3 HELIX 8 AA8 SER A 267 GLY A 278 1 12 HELIX 9 AA9 ASP A 283 ALA A 290 1 8 HELIX 10 AB1 THR B 28 ALA B 32 5 5 HELIX 11 AB2 SER B 53 GLY B 56 5 4 HELIX 12 AB3 LYS B 88 THR B 92 5 5 HELIX 13 AB4 THR C 28 TYR C 32 5 5 HELIX 14 AB5 ASP C 62 LYS C 65 5 4 HELIX 15 AB6 LYS C 87 THR C 91 5 5 SHEET 1 AA1 5 SER A 81 TYR A 83 0 SHEET 2 AA1 5 VAL A 172 ILE A 175 1 O TRP A 174 N SER A 81 SHEET 3 AA1 5 PHE A 129 PRO A 133 1 N PHE A 129 O LEU A 173 SHEET 4 AA1 5 TYR A 138 GLY A 142 -1 O TRP A 141 N PHE A 130 SHEET 5 AA1 5 LYS A 110 LYS A 111 1 N LYS A 110 O GLY A 140 SHEET 1 AA2 2 LYS A 147 ARG A 149 0 SHEET 2 AA2 2 CYS A 156 SER A 158 -1 O SER A 157 N SER A 148 SHEET 1 AA3 4 ALA A 179 CYS A 180 0 SHEET 2 AA3 4 CYS A 327 GLU A 338 -1 O TYR A 328 N ALA A 179 SHEET 3 AA3 4 ILE A 205 ILE A 208 -1 N CYS A 206 O THR A 336 SHEET 4 AA3 4 ILE A 211 VAL A 212 -1 O ILE A 211 N ILE A 208 SHEET 1 AA4 4 ALA A 179 CYS A 180 0 SHEET 2 AA4 4 CYS A 327 GLU A 338 -1 O TYR A 328 N ALA A 179 SHEET 3 AA4 4 GLU A 219 MET A 230 -1 N PHE A 225 O MET A 333 SHEET 4 AA4 4 ILE A 238 MET A 240 -1 O ILE A 238 N MET A 230 SHEET 1 AA5 2 LYS A 244 VAL A 248 0 SHEET 2 AA5 2 GLU A 313 SER A 317 -1 O VAL A 315 N LYS A 246 SHEET 1 AA6 2 PHE A 256 TYR A 259 0 SHEET 2 AA6 2 ARG A 304 LEU A 307 -1 O ARG A 304 N TYR A 259 SHEET 1 AA7 4 GLN B 3 LEU B 4 0 SHEET 2 AA7 4 CYS B 22 SER B 25 -1 O SER B 25 N GLN B 3 SHEET 3 AA7 4 THR B 79 ASP B 85 -1 O VAL B 80 N CYS B 22 SHEET 4 AA7 4 SER B 17 ARG B 19 -1 N LEU B 18 O MET B 84 SHEET 1 AA8 4 GLN B 3 LEU B 4 0 SHEET 2 AA8 4 CYS B 22 SER B 25 -1 O SER B 25 N GLN B 3 SHEET 3 AA8 4 THR B 79 ASP B 85 -1 O VAL B 80 N CYS B 22 SHEET 4 AA8 4 PHE B 69 ASP B 74 -1 N THR B 70 O GLN B 83 SHEET 1 AA9 6 GLY B 10 VAL B 12 0 SHEET 2 AA9 6 THR B 109 VAL B 113 1 O THR B 112 N VAL B 12 SHEET 3 AA9 6 ALA B 93 VAL B 99 -1 N TYR B 95 O THR B 109 SHEET 4 AA9 6 MET B 34 GLN B 39 -1 N ARG B 35 O ASN B 98 SHEET 5 AA9 6 ARG B 45 LEU B 51 -1 O LEU B 51 N MET B 34 SHEET 6 AA9 6 THR B 59 TYR B 61 -1 O GLU B 60 N LEU B 50 SHEET 1 AB1 4 GLN C 3 SER C 7 0 SHEET 2 AB1 4 LEU C 18 SER C 25 -1 O SER C 21 N SER C 7 SHEET 3 AB1 4 THR C 78 MET C 83 -1 O MET C 83 N LEU C 18 SHEET 4 AB1 4 ARG C 72 ASP C 73 -1 N ASP C 73 O THR C 78 SHEET 1 AB2 5 THR C 58 TYR C 60 0 SHEET 2 AB2 5 ARG C 45 ILE C 51 -1 N ALA C 50 O TYR C 59 SHEET 3 AB2 5 MET C 34 GLN C 39 -1 N ARG C 38 O GLU C 46 SHEET 4 AB2 5 ALA C 92 SER C 98 -1 O TYR C 95 N PHE C 37 SHEET 5 AB2 5 THR C 117 VAL C 119 -1 O THR C 117 N TYR C 94 SSBOND 1 CYS A 26 CYS A 49 1555 1555 2.03 SSBOND 2 CYS A 143 CYS A 156 1555 1555 2.03 SSBOND 3 CYS A 180 CYS A 327 1555 1555 2.03 SSBOND 4 CYS A 206 CYS A 216 1555 1555 2.03 SSBOND 5 CYS A 258 CYS A 305 1555 1555 2.04 SSBOND 6 CYS A 266 CYS A 303 1555 1555 2.03 SSBOND 7 CYS A 274 CYS A 280 1555 1555 2.04 SSBOND 8 CYS A 287 CYS A 292 1555 1555 2.03 SSBOND 9 CYS B 22 CYS B 97 1555 1555 2.03 SSBOND 10 CYS C 22 CYS C 96 1555 1555 2.04 CISPEP 1 TYR A 83 PRO A 84 0 -0.85 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 TER 2470 ASN A 340 TER 3361 SER B 115 TER 4300 SER C 123 CONECT 47 218 CONECT 218 47 CONECT 967 1056 CONECT 1056 967 CONECT 1224 2364 CONECT 1434 1512 CONECT 1512 1434 CONECT 1855 2198 CONECT 1913 2181 CONECT 1974 2012 CONECT 2012 1974 CONECT 2069 2100 CONECT 2100 2069 CONECT 2181 1913 CONECT 2198 1855 CONECT 2364 1224 CONECT 2621 3212 CONECT 3212 2621 CONECT 3510 4093 CONECT 4093 3510 MASTER 129 0 0 15 42 0 0 6 4297 3 20 44 END