HEADER MEMBRANE PROTEIN 29-MAR-24 8YVU TITLE STRUCTURE OF IGE RECEPTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIGH AFFINITY IMMUNOGLOBULIN EPSILON RECEPTOR SUBUNIT COMPND 3 ALPHA; COMPND 4 CHAIN: A, E; COMPND 5 SYNONYM: FC-EPSILON RI-ALPHA,FCERI,IGE FC RECEPTOR SUBUNIT ALPHA; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: HIGH AFFINITY IMMUNOGLOBULIN EPSILON RECEPTOR SUBUNIT BETA; COMPND 9 CHAIN: B, F; COMPND 10 SYNONYM: FCERI,FC EPSILON RECEPTOR I BETA-CHAIN,IGE FC RECEPTOR COMPND 11 SUBUNIT BETA,MEMBRANE-SPANNING 4-DOMAINS SUBFAMILY A MEMBER 2; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: HIGH AFFINITY IMMUNOGLOBULIN EPSILON RECEPTOR SUBUNIT COMPND 15 GAMMA; COMPND 16 CHAIN: C, D, G, H; COMPND 17 SYNONYM: FC RECEPTOR GAMMA-CHAIN,FCRGAMMA,FC-EPSILON RI-GAMMA,IGE FC COMPND 18 RECEPTOR SUBUNIT GAMMA,FCERI GAMMA; COMPND 19 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: FCER1A, FCE1A; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: MS4A2, APY, FCER1B, IGER; SOURCE 14 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 15 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 17 MOL_ID: 3; SOURCE 18 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 19 ORGANISM_COMMON: HUMAN; SOURCE 20 ORGANISM_TAXID: 9606; SOURCE 21 GENE: FCER1G; SOURCE 22 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 23 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 24 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS IMMUNOLOGY, IGE RECEPTOR, ALLERGY, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR M.Y.CHEN,Q.SU,Y.G.SHI REVDAT 1 06-NOV-24 8YVU 0 JRNL AUTH M.CHEN,Q.SU,Y.SHI JRNL TITL MOLECULAR MECHANISM OF IGE-MEDIATED FC EPSILON RI JRNL TITL 2 ACTIVATION. JRNL REF NATURE 2024 JRNL REFN ESSN 1476-4687 JRNL PMID 39442557 JRNL DOI 10.1038/S41586-024-08229-8 REMARK 2 REMARK 2 RESOLUTION. 3.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL 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) : 3.900 REMARK 3 NUMBER OF PARTICLES : 170032 REMARK 3 CTF CORRECTION METHOD : NONE REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8YVU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 02-APR-24. REMARK 100 THE DEPOSITION ID IS D_1300046450. 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 : STRUCTURE OF IGE RECEPTOR 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 : 7.50 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 : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 BIOCONTINUUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : -1200.00 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 : BRIGHT FIELD 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: OCTAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F, G, H 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 PRO C 22 REMARK 465 GLN C 23 REMARK 465 LEU C 24 REMARK 465 ALA C 54 REMARK 465 ILE C 55 REMARK 465 THR C 56 REMARK 465 SER C 57 REMARK 465 TYR C 58 REMARK 465 GLU C 59 REMARK 465 LYS C 60 REMARK 465 PRO G 22 REMARK 465 GLN G 23 REMARK 465 LEU G 24 REMARK 465 ALA G 54 REMARK 465 ILE G 55 REMARK 465 THR G 56 REMARK 465 SER G 57 REMARK 465 TYR G 58 REMARK 465 GLU G 59 REMARK 465 LYS G 60 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 HIS B 162 -4.71 67.59 REMARK 500 LYS B 166 -151.37 49.34 REMARK 500 PHE B 168 -164.28 -79.30 REMARK 500 LYS B 171 -17.45 -140.65 REMARK 500 LEU D 24 -163.47 -75.56 REMARK 500 CYS D 25 -81.23 94.21 REMARK 500 HIS F 162 -3.54 67.51 REMARK 500 LYS F 166 -136.09 59.12 REMARK 500 CYS H 25 -81.22 77.21 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-39614 RELATED DB: EMDB REMARK 900 STRUCTURE OF IGE RECEPTOR DBREF 8YVU A 201 237 UNP P12319 FCERA_HUMAN 201 237 DBREF 8YVU B 49 208 UNP Q01362 FCERB_HUMAN 49 208 DBREF 8YVU C 22 60 UNP P30273 FCERG_HUMAN 22 60 DBREF 8YVU D 22 60 UNP P30273 FCERG_HUMAN 22 60 DBREF 8YVU E 201 237 UNP P12319 FCERA_HUMAN 201 237 DBREF 8YVU F 49 208 UNP Q01362 FCERB_HUMAN 49 208 DBREF 8YVU G 22 60 UNP P30273 FCERG_HUMAN 22 60 DBREF 8YVU H 22 60 UNP P30273 FCERG_HUMAN 22 60 SEQRES 1 A 37 LYS TYR TRP LEU GLN PHE PHE ILE PRO LEU LEU VAL VAL SEQRES 2 A 37 ILE LEU PHE ALA VAL ASP THR GLY LEU PHE ILE SER THR SEQRES 3 A 37 GLN GLN GLN VAL THR PHE LEU LEU LYS ILE LYS SEQRES 1 B 160 THR TRP LEU THR VAL LEU LYS LYS GLU GLN GLU PHE LEU SEQRES 2 B 160 GLY VAL THR GLN ILE LEU THR ALA MET ILE CYS LEU CYS SEQRES 3 B 160 PHE GLY THR VAL VAL CYS SER VAL LEU ASP ILE SER HIS SEQRES 4 B 160 ILE GLU GLY ASP ILE PHE SER SER PHE LYS ALA GLY TYR SEQRES 5 B 160 PRO PHE TRP GLY ALA ILE PHE PHE SER ILE SER GLY MET SEQRES 6 B 160 LEU SER ILE ILE SER GLU ARG ARG ASN ALA THR TYR LEU SEQRES 7 B 160 VAL ARG GLY SER LEU GLY ALA ASN THR ALA SER SER ILE SEQRES 8 B 160 ALA GLY GLY THR GLY ILE THR ILE LEU ILE ILE ASN LEU SEQRES 9 B 160 LYS LYS SER LEU ALA TYR ILE HIS ILE HIS SER CYS GLN SEQRES 10 B 160 LYS PHE PHE GLU THR LYS CYS PHE MET ALA SER PHE SER SEQRES 11 B 160 THR GLU ILE VAL VAL MET MET LEU PHE LEU THR ILE LEU SEQRES 12 B 160 GLY LEU GLY SER ALA VAL SER LEU THR ILE CYS GLY ALA SEQRES 13 B 160 GLY GLU GLU LEU SEQRES 1 C 39 PRO GLN LEU CYS TYR ILE LEU ASP ALA ILE LEU PHE LEU SEQRES 2 C 39 TYR GLY ILE VAL LEU THR LEU LEU TYR CYS ARG LEU LYS SEQRES 3 C 39 ILE GLN VAL ARG LYS ALA ALA ILE THR SER TYR GLU LYS SEQRES 1 D 39 PRO GLN LEU CYS TYR ILE LEU ASP ALA ILE LEU PHE LEU SEQRES 2 D 39 TYR GLY ILE VAL LEU THR LEU LEU TYR CYS ARG LEU LYS SEQRES 3 D 39 ILE GLN VAL ARG LYS ALA ALA ILE THR SER TYR GLU LYS SEQRES 1 E 37 LYS TYR TRP LEU GLN PHE PHE ILE PRO LEU LEU VAL VAL SEQRES 2 E 37 ILE LEU PHE ALA VAL ASP THR GLY LEU PHE ILE SER THR SEQRES 3 E 37 GLN GLN GLN VAL THR PHE LEU LEU LYS ILE LYS SEQRES 1 F 160 THR TRP LEU THR VAL LEU LYS LYS GLU GLN GLU PHE LEU SEQRES 2 F 160 GLY VAL THR GLN ILE LEU THR ALA MET ILE CYS LEU CYS SEQRES 3 F 160 PHE GLY THR VAL VAL CYS SER VAL LEU ASP ILE SER HIS SEQRES 4 F 160 ILE GLU GLY ASP ILE PHE SER SER PHE LYS ALA GLY TYR SEQRES 5 F 160 PRO PHE TRP GLY ALA ILE PHE PHE SER ILE SER GLY MET SEQRES 6 F 160 LEU SER ILE ILE SER GLU ARG ARG ASN ALA THR TYR LEU SEQRES 7 F 160 VAL ARG GLY SER LEU GLY ALA ASN THR ALA SER SER ILE SEQRES 8 F 160 ALA GLY GLY THR GLY ILE THR ILE LEU ILE ILE ASN LEU SEQRES 9 F 160 LYS LYS SER LEU ALA TYR ILE HIS ILE HIS SER CYS GLN SEQRES 10 F 160 LYS PHE PHE GLU THR LYS CYS PHE MET ALA SER PHE SER SEQRES 11 F 160 THR GLU ILE VAL VAL MET MET LEU PHE LEU THR ILE LEU SEQRES 12 F 160 GLY LEU GLY SER ALA VAL SER LEU THR ILE CYS GLY ALA SEQRES 13 F 160 GLY GLU GLU LEU SEQRES 1 G 39 PRO GLN LEU CYS TYR ILE LEU ASP ALA ILE LEU PHE LEU SEQRES 2 G 39 TYR GLY ILE VAL LEU THR LEU LEU TYR CYS ARG LEU LYS SEQRES 3 G 39 ILE GLN VAL ARG LYS ALA ALA ILE THR SER TYR GLU LYS SEQRES 1 H 39 PRO GLN LEU CYS TYR ILE LEU ASP ALA ILE LEU PHE LEU SEQRES 2 H 39 TYR GLY ILE VAL LEU THR LEU LEU TYR CYS ARG LEU LYS SEQRES 3 H 39 ILE GLN VAL ARG LYS ALA ALA ILE THR SER TYR GLU LYS HET CLR A 301 28 HET CLR F 301 28 HETNAM CLR CHOLESTEROL FORMUL 9 CLR 2(C27 H46 O) HELIX 1 AA1 PHE A 206 LYS A 235 1 30 HELIX 2 AA2 TRP B 50 GLU B 57 1 8 HELIX 3 AA3 GLN B 58 LEU B 83 1 26 HELIX 4 AA4 SER B 95 ALA B 98 5 4 HELIX 5 AA5 GLY B 99 GLY B 104 1 6 HELIX 6 AA6 GLY B 104 ARG B 121 1 18 HELIX 7 AA7 TYR B 125 ILE B 161 1 37 HELIX 8 AA8 CYS B 172 GLY B 205 1 34 HELIX 9 AA9 TYR C 26 LEU C 34 1 9 HELIX 10 AB1 LEU C 34 ALA C 53 1 20 HELIX 11 AB2 CYS D 25 GLU D 59 1 35 HELIX 12 AB3 PHE E 206 LEU E 234 1 29 HELIX 13 AB4 TRP F 50 GLU F 57 1 8 HELIX 14 AB5 GLN F 58 LEU F 83 1 26 HELIX 15 AB6 GLY F 99 ARG F 121 1 23 HELIX 16 AB7 TYR F 125 ILE F 161 1 37 HELIX 17 AB8 CYS F 172 GLY F 205 1 34 HELIX 18 AB9 ILE G 27 ALA G 53 1 27 HELIX 19 AC1 CYS H 25 GLU H 59 1 35 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