HEADER MEMBRANE PROTEIN 30-MAR-23 8IWM TITLE CRYO-EM STRUCTURE OF THE PEA-BOUND MTAAR9 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRACE AMINE-ASSOCIATED RECEPTOR 9; COMPND 3 CHAIN: R; COMPND 4 SYNONYM: TAR-9,TRACE AMINE RECEPTOR 9,MTAAR9; COMPND 5 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: TAAR9; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS PEA, MTAAR9, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR J.P.SUN,Q.LI,F.YANG,Y.F.XU,L.L.GUO,S.LIAN,M.H.ZHANG,N.K.RONG REVDAT 3 14-JUN-23 8IWM 1 JRNL REVDAT 2 07-JUN-23 8IWM 1 JRNL REVDAT 1 31-MAY-23 8IWM 0 JRNL AUTH L.GUO,J.CHENG,S.LIAN,Q.LIU,Y.LU,Y.ZHENG,K.ZHU,M.ZHANG, JRNL AUTH 2 Y.KONG,C.ZHANG,N.RONG,Y.ZHUANG,G.FANG,J.JIANG,T.ZHANG,X.HAN, JRNL AUTH 3 Z.LIU,M.XIA,S.LIU,L.ZHANG,S.D.LIBERLES,X.YU,Y.XU,F.YANG, JRNL AUTH 4 Q.LI,J.P.SUN JRNL TITL STRUCTURAL BASIS OF AMINE ODORANT PERCEPTION BY A MAMMAL JRNL TITL 2 OLFACTORY RECEPTOR. JRNL REF NATURE V. 618 193 2023 JRNL REFN ESSN 1476-4687 JRNL PMID 37225986 JRNL DOI 10.1038/S41586-023-06106-4 REMARK 2 REMARK 2 RESOLUTION. 3.17 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) : 3.170 REMARK 3 NUMBER OF PARTICLES : 463012 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 8IWM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 04-APR-23. REMARK 100 THE DEPOSITION ID IS D_1300036631. 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 THE PEA REMARK 245 -BOUND MTAAR9 COMPLEX 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 (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) : 187.50 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: R 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 THR R 2 REMARK 465 SER R 3 REMARK 465 ASP R 4 REMARK 465 PHE R 5 REMARK 465 SER R 6 REMARK 465 PRO R 7 REMARK 465 GLU R 8 REMARK 465 PRO R 9 REMARK 465 PRO R 10 REMARK 465 MET R 11 REMARK 465 GLU R 12 REMARK 465 LEU R 13 REMARK 465 CYS R 14 REMARK 465 TYR R 15 REMARK 465 GLU R 16 REMARK 465 ASN R 17 REMARK 465 VAL R 18 REMARK 465 ASN R 19 REMARK 465 GLY R 20 REMARK 465 SER R 21 REMARK 465 CYS R 22 REMARK 465 ILE R 23 REMARK 465 LYS R 24 REMARK 465 SER R 25 REMARK 465 SER R 26 REMARK 465 TYR R 27 REMARK 465 ALA R 28 REMARK 465 PRO R 29 REMARK 465 TRP R 30 REMARK 465 PRO R 31 REMARK 465 ARG R 32 REMARK 465 ALA R 33 REMARK 465 ILE R 34 REMARK 465 LEU R 35 REMARK 465 GLY R 233 REMARK 465 THR R 234 REMARK 465 ALA R 235 REMARK 465 ASN R 236 REMARK 465 GLN R 237 REMARK 465 ALA R 238 REMARK 465 GLN R 239 REMARK 465 ALA R 240 REMARK 465 SER R 241 REMARK 465 SER R 242 REMARK 465 GLU R 243 REMARK 465 SER R 244 REMARK 465 TYR R 245 REMARK 465 LYS R 246 REMARK 465 GLU R 247 REMARK 465 ARG R 248 REMARK 465 VAL R 249 REMARK 465 ALA R 250 REMARK 465 LYS R 251 REMARK 465 ARG R 252 REMARK 465 SER R 327 REMARK 465 GLY R 328 REMARK 465 LYS R 329 REMARK 465 VAL R 330 REMARK 465 PHE R 331 REMARK 465 ARG R 332 REMARK 465 ALA R 333 REMARK 465 ASP R 334 REMARK 465 SER R 335 REMARK 465 SER R 336 REMARK 465 THR R 337 REMARK 465 THR R 338 REMARK 465 ASN R 339 REMARK 465 LEU R 340 REMARK 465 PHE R 341 REMARK 465 SER R 342 REMARK 465 GLU R 343 REMARK 465 GLU R 344 REMARK 465 ALA R 345 REMARK 465 GLY R 346 REMARK 465 ALA R 347 REMARK 465 GLY R 348 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 TYR R 36 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LEU R 39 CG CD1 CD2 REMARK 470 LEU R 45 CG CD1 CD2 REMARK 470 PHE R 48 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU R 58 CG CD1 CD2 REMARK 470 LYS R 61 CG CD CE NZ REMARK 470 GLN R 62 CG CD OE1 NE2 REMARK 470 ASP R 78 CG OD1 OD2 REMARK 470 PHE R 88 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU R 95 CG CD OE1 OE2 REMARK 470 CYS R 97 SG REMARK 470 TRP R 98 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP R 98 CZ3 CH2 REMARK 470 GLU R 102 CG CD OE1 OE2 REMARK 470 TYR R 104 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 PHE R 117 CG CD1 CD2 CE1 CE2 CZ REMARK 470 PHE R 158 CG CD1 CD2 CE1 CE2 CZ REMARK 470 PHE R 168 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU R 175 CG CD OE1 OE2 REMARK 470 GLU R 178 CG CD OE1 OE2 REMARK 470 GLU R 179 CG CD OE1 OE2 REMARK 470 LEU R 180 CG CD1 CD2 REMARK 470 VAL R 187 CG1 CG2 REMARK 470 GLN R 191 CG CD OE1 NE2 REMARK 470 GLN R 196 CG CD OE1 NE2 REMARK 470 ASN R 197 CG OD1 ND2 REMARK 470 TRP R 198 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP R 198 CZ3 CH2 REMARK 470 THR R 210 OG1 CG2 REMARK 470 TYR R 226 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG R 229 CG CD NE CZ NH1 NH2 REMARK 470 GLU R 253 CG CD OE1 OE2 REMARK 470 ARG R 254 CG CD NE CZ NH1 NH2 REMARK 470 MET R 264 CG SD CE REMARK 470 VAL R 269 CG1 CG2 REMARK 470 TRP R 271 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP R 271 CZ3 CH2 REMARK 470 ILE R 276 CG1 CG2 CD1 REMARK 470 ASP R 277 CG OD1 OD2 REMARK 470 MET R 284 CG SD CE REMARK 470 ASN R 285 CG OD1 ND2 REMARK 470 ILE R 287 CG1 CG2 CD1 REMARK 470 TYR R 291 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU R 294 CG CD OE1 OE2 REMARK 470 ILE R 295 CG1 CG2 CD1 REMARK 470 LYS R 320 CG CD CE NZ 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 100 52.55 -91.41 REMARK 500 ASN R 285 -144.73 50.16 REMARK 500 PRO R 308 1.87 -61.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-35771 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF THE PEA-BOUND MTAAR9 COMPLEX DBREF 8IWM R 1 348 UNP Q5QD04 TAAR9_MOUSE 1 348 SEQRES 1 R 348 MET THR SER ASP PHE SER PRO GLU PRO PRO MET GLU LEU SEQRES 2 R 348 CYS TYR GLU ASN VAL ASN GLY SER CYS ILE LYS SER SER SEQRES 3 R 348 TYR ALA PRO TRP PRO ARG ALA ILE LEU TYR GLY VAL LEU SEQRES 4 R 348 GLY LEU GLY ALA LEU LEU ALA VAL PHE GLY ASN LEU LEU SEQRES 5 R 348 VAL ILE ILE ALA ILE LEU HIS PHE LYS GLN LEU HIS THR SEQRES 6 R 348 PRO THR ASN PHE LEU VAL ALA SER LEU ALA CYS ALA ASP SEQRES 7 R 348 PHE LEU VAL GLY VAL THR VAL MET PRO PHE SER THR VAL SEQRES 8 R 348 ARG SER VAL GLU SER CYS TRP TYR PHE GLY GLU SER TYR SEQRES 9 R 348 CYS LYS PHE HIS THR CYS PHE ASP THR SER PHE CYS PHE SEQRES 10 R 348 ALA SER LEU PHE HIS LEU CYS CYS ILE SER ILE ASP ARG SEQRES 11 R 348 TYR ILE ALA VAL THR ASP PRO LEU THR TYR PRO THR LYS SEQRES 12 R 348 PHE THR VAL SER VAL SER GLY LEU CYS ILE ALA LEU SER SEQRES 13 R 348 TRP PHE PHE SER VAL THR TYR SER PHE SER ILE PHE TYR SEQRES 14 R 348 THR GLY ALA ASN GLU GLU GLY ILE GLU GLU LEU VAL VAL SEQRES 15 R 348 ALA LEU THR CYS VAL GLY GLY CYS GLN ALA PRO LEU ASN SEQRES 16 R 348 GLN ASN TRP VAL LEU LEU CYS PHE LEU LEU PHE PHE LEU SEQRES 17 R 348 PRO THR VAL VAL MET VAL PHE LEU TYR GLY ARG ILE PHE SEQRES 18 R 348 LEU VAL ALA LYS TYR GLN ALA ARG LYS ILE GLU GLY THR SEQRES 19 R 348 ALA ASN GLN ALA GLN ALA SER SER GLU SER TYR LYS GLU SEQRES 20 R 348 ARG VAL ALA LYS ARG GLU ARG LYS ALA ALA LYS THR LEU SEQRES 21 R 348 GLY ILE ALA MET ALA ALA PHE LEU VAL SER TRP LEU PRO SEQRES 22 R 348 TYR ILE ILE ASP ALA VAL ILE ASP ALA TYR MET ASN PHE SEQRES 23 R 348 ILE THR PRO ALA TYR VAL TYR GLU ILE LEU VAL TRP CYS SEQRES 24 R 348 VAL TYR TYR ASN SER ALA MET ASN PRO LEU ILE TYR ALA SEQRES 25 R 348 PHE PHE TYR PRO TRP PHE ARG LYS ALA ILE LYS LEU ILE SEQRES 26 R 348 VAL SER GLY LYS VAL PHE ARG ALA ASP SER SER THR THR SEQRES 27 R 348 ASN LEU PHE SER GLU GLU ALA GLY ALA GLY HET PEA R 401 9 HETNAM PEA 2-PHENYLETHYLAMINE FORMUL 2 PEA C8 H12 N 1+ HELIX 1 AA1 GLY R 37 HIS R 59 1 23 HELIX 2 AA2 PHE R 60 HIS R 64 5 5 HELIX 3 AA3 THR R 65 THR R 84 1 20 HELIX 4 AA4 THR R 84 SER R 96 1 13 HELIX 5 AA5 GLU R 102 CYS R 116 1 15 HELIX 6 AA6 PHE R 117 ASP R 136 1 20 HELIX 7 AA7 THR R 139 PHE R 144 1 6 HELIX 8 AA8 THR R 145 TYR R 163 1 19 HELIX 9 AA9 SER R 164 TYR R 169 1 6 HELIX 10 AB1 ILE R 177 THR R 185 1 9 HELIX 11 AB2 ASN R 195 GLU R 232 1 38 HELIX 12 AB3 ARG R 254 VAL R 269 1 16 HELIX 13 AB4 SER R 270 ILE R 280 1 11 HELIX 14 AB5 ASP R 281 TYR R 283 5 3 HELIX 15 AB6 PRO R 289 VAL R 292 5 4 HELIX 16 AB7 TYR R 293 TYR R 311 1 19 HELIX 17 AB8 TYR R 315 LYS R 323 1 9 HELIX 18 AB9 LEU R 324 VAL R 326 5 3 SSBOND 1 CYS R 105 CYS R 190 1555 1555 2.03 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