HEADER PEPTIDE BINDING PROTEIN 09-OCT-25 9X3Y TITLE NPFF BOUND MAS1 RECEPTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTO-ONCOGENE MAS; COMPND 3 CHAIN: R; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: NPFF; 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: MAS1, MAS; 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_TAXID: 9606 KEYWDS GPCR, AGONIST, ORPHAN RECEPTOR, PEPTIDE BINDING PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR Y.M.ZHANG,H.LIU,H.E.XU REVDAT 1 15-APR-26 9X3Y 0 JRNL AUTH Y.ZHANG,Q.WANG,H.LIU,H.SHAN,Y.GU,J.YANG,Y.GAO,K.WU,D.YANG, JRNL AUTH 2 H.E.XU JRNL TITL STRUCTURAL INSIGHT INTO LIGAND BINDING AND ACTIVATION OF THE JRNL TITL 2 ORPHAN GPCR MAS1. JRNL REF EMBO J. 2026 JRNL REFN ESSN 1460-2075 JRNL PMID 41912627 JRNL DOI 10.1038/S44318-026-00764-6 REMARK 2 REMARK 2 RESOLUTION. 2.77 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, PHENIX, RELION, CRYOSPARC 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) : 2.770 REMARK 3 NUMBER OF PARTICLES : 782093 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 9X3Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 15-OCT-25. REMARK 100 THE DEPOSITION ID IS D_1300064353. 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 : NPFF BOUND MAS1 RECEPTOR REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 15.00 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 : FEI TALOS ARCTICA 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) : 156.00 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: 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 GLY R 3 REMARK 465 SER R 4 REMARK 465 ASN R 5 REMARK 465 VAL R 6 REMARK 465 THR R 7 REMARK 465 SER R 8 REMARK 465 PHE R 9 REMARK 465 VAL R 10 REMARK 465 VAL R 11 REMARK 465 GLU R 12 REMARK 465 GLU R 13 REMARK 465 PRO R 14 REMARK 465 THR R 15 REMARK 465 ASN R 16 REMARK 465 ILE R 17 REMARK 465 SER R 18 REMARK 465 THR R 19 REMARK 465 GLY R 20 REMARK 465 ARG R 21 REMARK 465 ASN R 22 REMARK 465 ALA R 23 REMARK 465 SER R 24 REMARK 465 VAL R 25 REMARK 465 GLY R 26 REMARK 465 ASN R 27 REMARK 465 ALA R 28 REMARK 465 HIS R 29 REMARK 465 ARG R 30 REMARK 465 GLN R 31 REMARK 465 GLU R 176 REMARK 465 GLU R 177 REMARK 465 SER R 178 REMARK 465 HIS R 179 REMARK 465 SER R 180 REMARK 465 ASN R 217 REMARK 465 THR R 218 REMARK 465 TRP R 219 REMARK 465 ALA R 220 REMARK 465 SER R 221 REMARK 465 HIS R 222 REMARK 465 SER R 223 REMARK 465 SER R 224 REMARK 465 SER R 286 REMARK 465 LYS R 287 REMARK 465 LYS R 288 REMARK 465 LYS R 289 REMARK 465 ARG R 290 REMARK 465 PHE R 291 REMARK 465 LYS R 292 REMARK 465 GLU R 293 REMARK 465 SER R 294 REMARK 465 LEU R 295 REMARK 465 LYS R 296 REMARK 465 VAL R 297 REMARK 465 VAL R 298 REMARK 465 LEU R 299 REMARK 465 THR R 300 REMARK 465 ARG R 301 REMARK 465 ALA R 302 REMARK 465 PHE R 303 REMARK 465 LYS R 304 REMARK 465 ASP R 305 REMARK 465 GLU R 306 REMARK 465 MET R 307 REMARK 465 GLN R 308 REMARK 465 PRO R 309 REMARK 465 ARG R 310 REMARK 465 ARG R 311 REMARK 465 GLN R 312 REMARK 465 LYS R 313 REMARK 465 ASP R 314 REMARK 465 ASN R 315 REMARK 465 CYS R 316 REMARK 465 ASN R 317 REMARK 465 THR R 318 REMARK 465 VAL R 319 REMARK 465 THR R 320 REMARK 465 VAL R 321 REMARK 465 GLU R 322 REMARK 465 THR R 323 REMARK 465 VAL R 324 REMARK 465 VAL R 325 REMARK 465 ARG L 17 REMARK 465 PHE L 18 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 ARG R 60 CG CD NE CZ NH1 NH2 REMARK 470 ARG R 62 CG CD NE CZ NH1 NH2 REMARK 470 ARG R 181 CG CD NE CZ NH1 NH2 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 GLN L 16 N - CA - C ANGL. DEV. = -34.1 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 ARG R 60 19.99 -141.63 REMARK 500 VAL R 198 -62.02 -123.24 REMARK 500 PRO L 15 -17.73 -46.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-66514 RELATED DB: EMDB REMARK 900 NPFF BOUND MAS1 RECEPTOR DBREF 9X3Y R 1 325 UNP P04201 MAS_HUMAN 1 325 DBREF 9X3Y L 11 18 PDB 9X3Y 9X3Y 11 18 SEQRES 1 R 325 MET ASP GLY SER ASN VAL THR SER PHE VAL VAL GLU GLU SEQRES 2 R 325 PRO THR ASN ILE SER THR GLY ARG ASN ALA SER VAL GLY SEQRES 3 R 325 ASN ALA HIS ARG GLN ILE PRO ILE VAL HIS TRP VAL ILE SEQRES 4 R 325 MET SER ILE SER PRO VAL GLY PHE VAL GLU ASN GLY ILE SEQRES 5 R 325 LEU LEU TRP PHE LEU CYS PHE ARG MET ARG ARG ASN PRO SEQRES 6 R 325 PHE THR VAL TYR ILE THR HIS LEU SER ILE ALA ASP ILE SEQRES 7 R 325 SER LEU LEU PHE CYS ILE PHE ILE LEU SER ILE ASP TYR SEQRES 8 R 325 ALA LEU ASP TYR GLU LEU SER SER GLY HIS TYR TYR THR SEQRES 9 R 325 ILE VAL THR LEU SER VAL THR PHE LEU PHE GLY TYR ASN SEQRES 10 R 325 THR GLY LEU TYR LEU LEU THR ALA ILE SER VAL GLU ARG SEQRES 11 R 325 CYS LEU SER VAL LEU TYR PRO ILE TRP TYR ARG CYS HIS SEQRES 12 R 325 ARG PRO LYS TYR GLN SER ALA LEU VAL CYS ALA LEU LEU SEQRES 13 R 325 TRP ALA LEU SER CYS LEU VAL THR THR MET GLU TYR VAL SEQRES 14 R 325 MET CYS ILE ASP ARG GLU GLU GLU SER HIS SER ARG ASN SEQRES 15 R 325 ASP CYS ARG ALA VAL ILE ILE PHE ILE ALA ILE LEU SER SEQRES 16 R 325 PHE LEU VAL PHE THR PRO LEU MET LEU VAL SER SER THR SEQRES 17 R 325 ILE LEU VAL VAL LYS ILE ARG LYS ASN THR TRP ALA SER SEQRES 18 R 325 HIS SER SER LYS LEU TYR ILE VAL ILE MET VAL THR ILE SEQRES 19 R 325 ILE ILE PHE LEU ILE PHE ALA MET PRO MET ARG LEU LEU SEQRES 20 R 325 TYR LEU LEU TYR TYR GLU TYR TRP SER THR PHE GLY ASN SEQRES 21 R 325 LEU HIS HIS ILE SER LEU LEU PHE SER THR ILE ASN SER SEQRES 22 R 325 SER ALA ASN PRO PHE ILE TYR PHE PHE VAL GLY SER SER SEQRES 23 R 325 LYS LYS LYS ARG PHE LYS GLU SER LEU LYS VAL VAL LEU SEQRES 24 R 325 THR ARG ALA PHE LYS ASP GLU MET GLN PRO ARG ARG GLN SEQRES 25 R 325 LYS ASP ASN CYS ASN THR VAL THR VAL GLU THR VAL VAL SEQRES 1 L 8 PHE LEU PHE GLN PRO GLN ARG PHE HELIX 1 AA1 PRO R 33 ARG R 60 1 28 HELIX 2 AA2 ASN R 64 LEU R 93 1 30 HELIX 3 AA3 HIS R 101 TYR R 136 1 36 HELIX 4 AA4 TYR R 136 HIS R 143 1 8 HELIX 5 AA5 TYR R 147 CYS R 171 1 25 HELIX 6 AA6 ASN R 182 LEU R 197 1 16 HELIX 7 AA7 VAL R 198 LYS R 216 1 19 HELIX 8 AA8 LEU R 226 ALA R 241 1 16 HELIX 9 AA9 ALA R 241 TRP R 255 1 15 HELIX 10 AB1 ASN R 260 PHE R 281 1 22 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 MASTER 238 0 0 10 0 0 0 6 2015 2 0 26 END