HEADER MEMBRANE PROTEIN 04-NOV-21 7VV4 TITLE CRYO-EM STRUCTURE OF PSEUDOALLERGEN RECEPTOR MRGPRX2 COMPLEX WITH TITLE 2 LINEAR CORTISTATIN-14, LOCAL COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAS-RELATED G-PROTEIN COUPLED RECEPTOR MEMBER X2; COMPND 3 CHAIN: R; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: CIRCULAR CORTISTATIN-14; COMPND 7 CHAIN: L; COMPND 8 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: MRGPRX2, MRGX2; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS G PROTEIN-COUPLED RECEPTOR, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR Y.LI,F.YANG REVDAT 2 20-JUL-22 7VV4 1 AUTHOR JRNL REVDAT 1 01-DEC-21 7VV4 0 JRNL AUTH F.YANG,L.GUO,Y.LI,G.WANG,J.WANG,C.ZHANG,G.X.FANG,X.CHEN, JRNL AUTH 2 L.LIU,X.YAN,Q.LIU,C.QU,Y.XU,P.XIAO,Z.ZHU,Z.LI,J.ZHOU,X.YU, JRNL AUTH 3 N.GAO,J.P.SUN JRNL TITL STRUCTURE, FUNCTION AND PHARMACOLOGY OF HUMAN ITCH RECEPTOR JRNL TITL 2 COMPLEXES. JRNL REF NATURE V. 600 164 2021 JRNL REFN ESSN 1476-4687 JRNL PMID 34789875 JRNL DOI 10.1038/S41586-021-04077-Y REMARK 2 REMARK 2 RESOLUTION. 2.97 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) : 2.970 REMARK 3 NUMBER OF PARTICLES : 303343 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 7VV4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-NOV-21. REMARK 100 THE DEPOSITION ID IS D_1300025445. 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 : CRYO-EM STRUCTURE OF REMARK 245 PSEUDOALLERGEN RECEPTOR MRGPRX2 REMARK 245 COMPLEX WITH LINEAR CORTISTATIN- REMARK 245 14, LOCAL 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 K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : NULL REMARK 245 MAXIMUM DEFOCUS (NM) : NULL 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) : 5800.00 REMARK 245 ILLUMINATION MODE : SPOT SCAN 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: R, L 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 MET R 1 REMARK 465 ASP R 2 REMARK 465 PRO R 3 REMARK 465 THR R 4 REMARK 465 THR R 5 REMARK 465 PRO R 6 REMARK 465 ALA R 7 REMARK 465 TRP R 8 REMARK 465 GLY R 9 REMARK 465 THR R 10 REMARK 465 GLU R 11 REMARK 465 SER R 12 REMARK 465 THR R 13 REMARK 465 THR R 14 REMARK 465 VAL R 15 REMARK 465 ASN R 16 REMARK 465 GLY R 17 REMARK 465 ASN R 18 REMARK 465 ASP R 19 REMARK 465 GLN R 20 REMARK 465 ALA R 21 REMARK 465 LEU R 22 REMARK 465 LEU R 23 REMARK 465 LEU R 24 REMARK 465 LEU R 25 REMARK 465 CYS R 26 REMARK 465 ARG R 290 REMARK 465 LEU R 291 REMARK 465 GLN R 292 REMARK 465 GLN R 293 REMARK 465 PRO R 294 REMARK 465 ILE R 295 REMARK 465 LEU R 296 REMARK 465 LYS R 297 REMARK 465 LEU R 298 REMARK 465 ALA R 299 REMARK 465 LEU R 300 REMARK 465 GLN R 301 REMARK 465 ARG R 302 REMARK 465 ALA R 303 REMARK 465 LEU R 304 REMARK 465 GLN R 305 REMARK 465 ASP R 306 REMARK 465 ILE R 307 REMARK 465 ALA R 308 REMARK 465 GLU R 309 REMARK 465 VAL R 310 REMARK 465 ASP R 311 REMARK 465 HIS R 312 REMARK 465 SER R 313 REMARK 465 GLU R 314 REMARK 465 GLY R 315 REMARK 465 CYS R 316 REMARK 465 PHE R 317 REMARK 465 ARG R 318 REMARK 465 GLN R 319 REMARK 465 GLY R 320 REMARK 465 THR R 321 REMARK 465 PRO R 322 REMARK 465 GLU R 323 REMARK 465 MET R 324 REMARK 465 SER R 325 REMARK 465 ARG R 326 REMARK 465 SER R 327 REMARK 465 SER R 328 REMARK 465 LEU R 329 REMARK 465 VAL R 330 REMARK 465 TRP L 27 REMARK 465 LYS L 28 REMARK 465 THR L 29 REMARK 465 PHE L 30 REMARK 465 SER L 31 REMARK 465 SER L 32 REMARK 465 CYS L 33 REMARK 465 LYS L 34 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD2 ASP R 75 OG SER R 272 1.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP R 184 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 R 170 45.36 -94.81 REMARK 500 PHE R 244 -77.73 -101.28 REMARK 500 PHE L 25 160.03 86.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-32137 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF PSEUDOALLERGEN RECEPTOR MRGPRX2 COMPLEX WITH REMARK 900 LINEAR CORTISTATIN-14, LOCAL DBREF 7VV4 R 1 330 UNP Q96LB1 MRGX2_HUMAN 1 330 DBREF 7VV4 L 21 34 UNP O00230 CORT_HUMAN 92 105 SEQADV 7VV4 LYS L 23 UNP O00230 ARG 94 CONFLICT SEQRES 1 R 330 MET ASP PRO THR THR PRO ALA TRP GLY THR GLU SER THR SEQRES 2 R 330 THR VAL ASN GLY ASN ASP GLN ALA LEU LEU LEU LEU CYS SEQRES 3 R 330 GLY LYS GLU THR LEU ILE PRO VAL PHE LEU ILE LEU PHE SEQRES 4 R 330 ILE ALA LEU VAL GLY LEU VAL GLY ASN GLY PHE VAL LEU SEQRES 5 R 330 TRP LEU LEU GLY PHE ARG MET ARG ARG ASN ALA PHE SER SEQRES 6 R 330 VAL TYR VAL LEU SER LEU ALA GLY ALA ASP PHE LEU PHE SEQRES 7 R 330 LEU CYS PHE GLN ILE ILE ASN CYS LEU VAL TYR LEU SER SEQRES 8 R 330 ASN PHE PHE CYS SER ILE SER ILE ASN PHE PRO SER PHE SEQRES 9 R 330 PHE THR THR VAL MET THR CYS ALA TYR LEU ALA GLY LEU SEQRES 10 R 330 SER MET LEU SER THR VAL SER THR GLU ARG CYS LEU SER SEQRES 11 R 330 VAL LEU TRP PRO ILE TRP TYR ARG CYS ARG ARG PRO ARG SEQRES 12 R 330 HIS LEU SER ALA VAL VAL CYS VAL LEU LEU TRP ALA LEU SEQRES 13 R 330 SER LEU LEU LEU SER ILE LEU GLU GLY LYS PHE CYS GLY SEQRES 14 R 330 PHE LEU PHE SER ASP GLY ASP SER GLY TRP CYS GLN THR SEQRES 15 R 330 PHE ASP PHE ILE THR ALA ALA TRP LEU ILE PHE LEU PHE SEQRES 16 R 330 MET VAL LEU CYS GLY SER SER LEU ALA LEU LEU VAL ARG SEQRES 17 R 330 ILE LEU CYS GLY SER ARG GLY LEU PRO LEU THR ARG LEU SEQRES 18 R 330 TYR LEU THR ILE LEU LEU THR VAL LEU VAL PHE LEU LEU SEQRES 19 R 330 CYS GLY LEU PRO PHE GLY ILE GLN TRP PHE LEU ILE LEU SEQRES 20 R 330 TRP ILE TRP LYS ASP SER ASP VAL LEU PHE CYS HIS ILE SEQRES 21 R 330 HIS PRO VAL SER VAL VAL LEU SER SER LEU ASN SER SER SEQRES 22 R 330 ALA ASN PRO ILE ILE TYR PHE PHE VAL GLY SER PHE ARG SEQRES 23 R 330 LYS GLN TRP ARG LEU GLN GLN PRO ILE LEU LYS LEU ALA SEQRES 24 R 330 LEU GLN ARG ALA LEU GLN ASP ILE ALA GLU VAL ASP HIS SEQRES 25 R 330 SER GLU GLY CYS PHE ARG GLN GLY THR PRO GLU MET SER SEQRES 26 R 330 ARG SER SER LEU VAL SEQRES 1 L 14 PRO CYS LYS ASN PHE PHE TRP LYS THR PHE SER SER CYS SEQRES 2 L 14 LYS HET CLR R 401 28 HETNAM CLR CHOLESTEROL FORMUL 3 CLR C27 H46 O HELIX 1 AA1 GLY R 27 PHE R 57 1 31 HELIX 2 AA2 PHE R 64 CYS R 95 1 32 HELIX 3 AA3 PHE R 104 TRP R 133 1 30 HELIX 4 AA4 TRP R 133 CYS R 139 1 7 HELIX 5 AA5 HIS R 144 CYS R 168 1 25 HELIX 6 AA6 ASP R 176 SER R 213 1 38 HELIX 7 AA7 PRO R 217 CYS R 235 1 19 HELIX 8 AA8 GLY R 236 PHE R 244 1 9 HELIX 9 AA9 PHE R 244 LYS R 251 1 8 HELIX 10 AB1 ASP R 252 HIS R 259 1 8 HELIX 11 AB2 HIS R 259 PHE R 280 1 22 HELIX 12 AB3 PHE R 280 PHE R 285 1 6 SSBOND 1 CYS R 168 CYS R 180 1555 1555 2.02 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