HEADER ANTIVIRAL PROTEIN 16-DEC-24 9MK9 TITLE STRUCTURE OF THE IFIT2-IFIT3 HETERODIMER FROM MUS MUSCULUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERFERON-INDUCED PROTEIN WITH TETRATRICOPEPTIDE REPEATS COMPND 3 2; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: RESIDUES 7-448 (UNIPROT NUMBRING); COMPND 6 SYNONYM: IFIT-2,GLUCOCORTICOID-ATTENUATED RESPONSE GENE 39 PROTEIN, COMPND 7 GARG-39,INTERFERON-INDUCED 54 KDA PROTEIN,IFI-54K,P54; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: INTERFERON-INDUCED PROTEIN WITH TETRATRICOPEPTIDE REPEATS COMPND 11 3; COMPND 12 CHAIN: B; COMPND 13 SYNONYM: IFIT-3,GLUCOCORTICOID-ATTENUATED RESPONSE GENE 49 PROTEIN, COMPND 14 GARG-49,P49,IRG2; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: IFIT2, GARG39, IFI54, ISG54; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 10 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 11 ORGANISM_TAXID: 10090; SOURCE 12 GENE: IFIT3, GARG49, IFI49, ISG49; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS INNATE IMMUNE RECOGNITION, INTERFERON-INDUCED PROTEINS, NON-SELF KEYWDS 2 NUCLEIC ACIDS, ANTIVIRAL PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR D.R.GLASNER,C.TODD,B.D.COOK,A.DURSO,S.KHOSLA,E.ESTRADA,J.WAGNER, AUTHOR 2 M.D.BARTELS,P.FORD,J.PRYCH,K.HATCH,B.A.YEE,K.M.EGO,Q.LIANG, AUTHOR 3 S.R.HOLLAND,J.B.CASE,K.D.CORBETT,M.S.DIAMOND,G.W.YEO,M.A.HERZIK JR., AUTHOR 4 E.L.VAN NOSTRAND,M.D.DAUGHERTY REVDAT 1 12-MAR-25 9MK9 0 JRNL AUTH D.R.GLASNER,C.TODD,B.COOK,A.D'URSO,S.KHOSLA,E.ESTRADA, JRNL AUTH 2 J.D.WAGNER,M.D.BARTELS,P.FORD,J.PRYCH,K.HATCH,B.A.YEE, JRNL AUTH 3 K.M.EGO,Q.LIANG,S.R.HOLLAND,J.B.CASE,K.D.CORBETT, JRNL AUTH 4 M.S.DIAMOND,G.W.YEO,M.A.HERZIK JR.,E.L.VAN NOSTRAND, JRNL AUTH 5 M.D.DAUGHERTY JRNL TITL SHORT 5' UTRS SERVE AS A MARKER FOR VIRAL MRNA TRANSLATION JRNL TITL 2 INHIBITION BY THE IFIT2-IFIT3 ANTIVIRAL COMPLEX. JRNL REF BIORXIV 2025 JRNL REFN ISSN 2692-8205 JRNL PMID 39990370 JRNL DOI 10.1101/2025.02.11.637299 REMARK 2 REMARK 2 RESOLUTION. 3.22 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, EPU, CRYOSPARC, PHENIX, REMARK 3 CRYOSPARC, CRYOSPARC, CRYOSPARC REMARK 3 RECONSTRUCTION SCHEMA : FOURIER SPACE REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : RIGID BODY FIT REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : 107.700 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) : 3.220 REMARK 3 NUMBER OF PARTICLES : 80378 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 9MK9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-DEC-24. REMARK 100 THE DEPOSITION ID IS D_1000291130. 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 : DIMERIC COMPLEX OF INTERFERON REMARK 245 -INDUCED PROTEIN WITH REMARK 245 TETRATRICOPEPTIDE REPEATS 2 AND REMARK 245 INTERFERON-INDUCED PROTEIN WITH REMARK 245 TETRATRICOPEPTIDE REPEATS 3 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 3.00 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : 2355 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : TFS KRIOS REMARK 245 DETECTOR TYPE : GATAN K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 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 : 2.70 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 6500.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 165000 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 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 ASP A 42 57.00 -92.53 REMARK 500 ASN A 46 -123.80 53.88 REMARK 500 PRO A 206 -177.86 -68.10 REMARK 500 THR A 209 19.20 50.25 REMARK 500 TYR A 210 -53.32 -122.37 REMARK 500 LYS A 224 -119.07 60.60 REMARK 500 ARG A 296 -7.42 -142.29 REMARK 500 GLU A 298 -130.01 55.54 REMARK 500 MET A 299 -132.16 58.68 REMARK 500 GLU A 330 -15.02 69.78 REMARK 500 LYS A 344 -0.65 72.17 REMARK 500 ASP A 425 -134.74 56.55 REMARK 500 PHE B 25 43.60 -103.51 REMARK 500 ASP B 360 -124.98 57.59 REMARK 500 LEU B 361 13.09 55.70 REMARK 500 GLU B 363 -7.11 70.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-48323 RELATED DB: EMDB REMARK 900 STRUCTURE OF THE IFIT2-IFIT3 HETERODIMER FROM MUS MUSCULUS DBREF 9MK9 A 7 446 UNP Q64112 IFIT2_MOUSE 7 448 DBREF 9MK9 B 8 389 UNP Q64345 IFIT3_MOUSE 8 389 SEQADV 9MK9 ASN A 182 UNP Q64112 PHE 182 CONFLICT SEQADV 9MK9 A UNP Q64112 HIS 223 DELETION SEQADV 9MK9 A UNP Q64112 VAL 224 DELETION SEQRES 1 A 440 GLU SER LEU VAL CYS ASN LEU ARG GLN LEU LYS CYS HIS SEQRES 2 A 440 PHE THR TRP ASN LEU ILE ALA GLU ASP GLU SER LEU ASP SEQRES 3 A 440 GLU PHE GLU ASP ARG VAL PHE ASN LYS ASP GLU PHE GLN SEQRES 4 A 440 ASN SER GLU PHE LYS ALA THR MET CYS ASN ILE LEU ALA SEQRES 5 A 440 TYR VAL LYS HIS CYS ARG GLY LEU ASN GLU ALA ALA LEU SEQRES 6 A 440 GLN CYS LEU GLY GLU ALA GLU GLY PHE ILE GLN GLN GLN SEQRES 7 A 440 HIS PRO ASP GLN VAL GLU ILE ARG SER LEU VAL THR TRP SEQRES 8 A 440 GLY ASN TYR ALA TRP VAL TYR TYR HIS MET GLY GLN PHE SEQRES 9 A 440 SER LYS ALA GLN ALA TYR LEU ASP LYS VAL LYS GLN VAL SEQRES 10 A 440 CYS LYS LYS PHE SER SER PRO TYR ARG ILE GLU ASN PRO SEQRES 11 A 440 ALA LEU ASP CYS GLU GLU GLY TRP ALA ARG LEU LYS CYS SEQRES 12 A 440 THR LYS ASN GLN ASN GLU ARG VAL LYS VAL CYS PHE GLN SEQRES 13 A 440 LYS ALA LEU GLU LYS ASP PRO LYS ASN PRO GLU PHE THR SEQRES 14 A 440 SER GLY TRP ALA ILE ALA ASN TYR ARG LEU ASP ASP TRP SEQRES 15 A 440 PRO ALA ARG ASN TYR CYS ILE ASP SER LEU GLU GLN ALA SEQRES 16 A 440 ILE GLN LEU SER PRO ASP ASN THR TYR VAL LYS VAL LEU SEQRES 17 A 440 LEU ALA LEU LYS LEU ASP ALA VAL HIS LYS ASN GLN ALA SEQRES 18 A 440 MET ALA LEU VAL GLU GLU ALA LEU LYS LYS ASP PRO SER SEQRES 19 A 440 ALA ILE ASP THR LEU LEU ARG ALA ALA ARG PHE TYR CYS SEQRES 20 A 440 LYS VAL TYR ASP THR ASP ARG ALA ILE GLN LEU LEU ARG SEQRES 21 A 440 LYS ALA LEU GLU LYS LEU PRO ASN ASN ALA TYR VAL HIS SEQRES 22 A 440 TYR TYR MET GLY CYS CYS TYR ARG SER LYS VAL HIS HIS SEQRES 23 A 440 MET LEU ASN ARG ARG GLU MET VAL PHE SER GLY ASP ARG SEQRES 24 A 440 LYS LYS LEU GLU GLU LEU ILE GLN LEU ALA VAL ASN HIS SEQRES 25 A 440 LEU ARG LYS ALA GLU GLU ILE LYS GLU MET LEU GLU TYR SEQRES 26 A 440 SER CYS SER PHE LEU ALA ASP LEU TYR ILE ILE ALA LYS SEQRES 27 A 440 LYS TYR ASP GLU ALA ASP TYR TYR PHE GLN LYS GLU LEU SEQRES 28 A 440 SER LYS ASP LEU PRO PRO GLY PRO LYS GLN LEU LEU HIS SEQRES 29 A 440 LEU ARG TYR GLY ASN PHE GLN PHE PHE GLN MET LYS ARG SEQRES 30 A 440 GLN ASP LYS ALA ILE TYR HIS TYR MET GLU GLY VAL LYS SEQRES 31 A 440 ILE LYS LYS LYS THR ILE PRO GLN LYS LYS MET ARG GLU SEQRES 32 A 440 LYS LEU GLN ARG ILE ALA LEU ARG ARG LEU HIS GLU ASP SEQRES 33 A 440 GLU SER ASP SER GLU ALA LEU HIS ILE LEU ALA PHE LEU SEQRES 34 A 440 GLN GLU ASN GLY GLY GLY GLN GLN ALA ASP LYS SEQRES 1 B 382 SER LEU GLU ALA ILE LEU PRO GLN LEU LYS CYS HIS PHE SEQRES 2 B 382 THR TRP ASN LEU PHE ARG GLU GLY SER MET SER SER HIS SEQRES 3 B 382 MET GLU ASP ARG VAL CYS ASN GLN VAL GLU HIS LEU ASN SEQRES 4 B 382 SER GLU GLU LYS ALA THR MET TYR ASP LEU LEU ALA TYR SEQRES 5 B 382 ILE LYS HIS LEU ASP GLY GLU SER LYS ALA ALA LEU GLU SEQRES 6 B 382 CYS LEU GLY GLN ALA GLU ASP LEU ARG LYS SER GLU HIS SEQRES 7 B 382 ASN ASP GLN SER GLU ILE ARG ARG LEU VAL THR TRP GLY SEQRES 8 B 382 ASN TYR ALA TRP ILE TYR TYR HIS MET GLY ARG LEU SER SEQRES 9 B 382 GLU ALA GLN ALA TYR VAL ASP LYS VAL ARG GLN VAL CYS SEQRES 10 B 382 GLN LYS PHE ALA ASN PRO TYR SER MET GLU CYS PRO GLU SEQRES 11 B 382 LEU GLU CYS GLU GLU GLY TRP THR ARG LEU LYS CYS GLY SEQRES 12 B 382 ARG ASN GLU ARG ALA LYS MET CYS PHE GLU LYS ALA LEU SEQRES 13 B 382 GLU GLU LYS PRO LYS ASP PRO GLU CYS SER SER GLY MET SEQRES 14 B 382 ALA ILE ALA MET PHE ARG LEU GLU GLU LYS PRO GLU LYS SEQRES 15 B 382 GLN PHE SER VAL ASP ALA LEU LYS GLN ALA MET GLU LEU SEQRES 16 B 382 ASN PRO GLN ASN GLN TYR LEU LYS VAL LEU LEU ALA LEU SEQRES 17 B 382 LYS LEU LEU ARG MET GLY GLU GLU ALA GLU GLY GLU ARG SEQRES 18 B 382 LEU ILE LYS ASP ALA LEU GLY LYS ALA PRO ASN GLN THR SEQRES 19 B 382 ASP VAL LEU GLN LYS ALA ALA GLN PHE TYR LYS LYS LYS SEQRES 20 B 382 GLY ASN LEU ASP ARG ALA ILE GLU LEU LEU GLY LYS ALA SEQRES 21 B 382 LEU ARG SER THR VAL ASN ASN SER PRO LEU TYR SER LEU SEQRES 22 B 382 VAL MET CYS ARG TYR ARG GLU ILE LEU GLU GLN LEU GLN SEQRES 23 B 382 ASN LYS GLY ASP ALA ASP SER SER GLU ARG ARG GLN ARG SEQRES 24 B 382 MET ALA GLU LEU ARG ARG LEU THR MET GLU PHE MET GLN SEQRES 25 B 382 LYS THR LEU GLN ARG ARG ARG SER PRO LEU ASN SER TYR SEQRES 26 B 382 SER ASP LEU ILE ASP PHE PRO GLU VAL GLU ARG CYS TYR SEQRES 27 B 382 GLN MET VAL ILE SER LYS GLU SER PRO ASP VAL GLU GLU SEQRES 28 B 382 GLU ASP LEU TYR GLU ARG TYR CYS ASN LEU GLN GLU TYR SEQRES 29 B 382 HIS ARG LYS SER GLU ASP LEU ALA ALA LEU GLU CYS LEU SEQRES 30 B 382 LEU GLN PHE PRO ARG HELIX 1 AA1 GLU A 7 ARG A 14 1 8 HELIX 2 AA2 SER A 30 ASN A 40 1 11 HELIX 3 AA3 LYS A 50 GLY A 65 1 16 HELIX 4 AA4 ASN A 67 HIS A 85 1 19 HELIX 5 AA5 GLN A 88 SER A 93 1 6 HELIX 6 AA6 SER A 93 GLY A 108 1 16 HELIX 7 AA7 GLN A 109 SER A 128 1 20 HELIX 8 AA8 ASN A 135 THR A 150 1 16 HELIX 9 AA9 ASN A 154 ASP A 168 1 15 HELIX 10 AB1 ASN A 171 TRP A 188 1 18 HELIX 11 AB2 TYR A 193 SER A 205 1 13 HELIX 12 AB3 TYR A 210 LEU A 219 1 10 HELIX 13 AB4 LYS A 224 ASP A 238 1 15 HELIX 14 AB5 ALA A 241 TYR A 256 1 16 HELIX 15 AB6 ASP A 257 GLU A 270 1 14 HELIX 16 AB7 ALA A 276 ARG A 297 1 22 HELIX 17 AB8 SER A 302 ARG A 320 1 19 HELIX 18 AB9 TYR A 331 LYS A 344 1 14 HELIX 19 AC1 TYR A 346 LYS A 359 1 14 HELIX 20 AC2 PRO A 362 MET A 381 1 20 HELIX 21 AC3 GLN A 384 ILE A 397 1 14 HELIX 22 AC4 THR A 401 GLU A 421 1 21 HELIX 23 AC5 SER A 424 LYS A 446 1 23 HELIX 24 AC6 LEU B 9 LEU B 13 1 5 HELIX 25 AC7 PRO B 14 LEU B 16 5 3 HELIX 26 AC8 HIS B 33 CYS B 39 1 7 HELIX 27 AC9 ASN B 46 GLY B 65 1 20 HELIX 28 AD1 GLU B 66 GLU B 84 1 19 HELIX 29 AD2 ASN B 86 GLY B 108 1 23 HELIX 30 AD3 ARG B 109 PHE B 127 1 19 HELIX 31 AD4 CYS B 135 CYS B 149 1 15 HELIX 32 AD5 ARG B 151 LYS B 166 1 16 HELIX 33 AD6 ASP B 169 LYS B 186 1 18 HELIX 34 AD7 SER B 192 ASN B 203 1 12 HELIX 35 AD8 GLN B 207 GLY B 221 1 15 HELIX 36 AD9 GLU B 223 ALA B 237 1 15 HELIX 37 AE1 GLN B 240 GLY B 255 1 16 HELIX 38 AE2 ASN B 256 ARG B 269 1 14 HELIX 39 AE3 PRO B 276 LYS B 295 1 20 HELIX 40 AE4 SER B 300 GLN B 323 1 24 HELIX 41 AE5 SER B 327 ILE B 349 1 23 HELIX 42 AE6 ARG B 364 SER B 375 1 12 HELIX 43 AE7 SER B 375 GLN B 386 1 12 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 3630 LYS A 446 TER 6753 ARG B 389 MASTER 135 0 0 43 0 0 0 6 6751 2 0 64 END