HEADER MEMBRANE PROTEIN 31-OCT-22 8HBV TITLE STRUCTURE OF HUMAN UCP1 IN THE NUCLEOTIDE-FREE STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MITOCHONDRIAL BROWN FAT UNCOUPLING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UCP 1,SOLUTE CARRIER FAMILY 25 MEMBER 7,THERMOGENIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: SYBODY 12F2; COMPND 8 CHAIN: B; COMPND 9 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: UCP1, SLC25A7, UCP; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630 KEYWDS UCP1, SLC25A7, THERMOGENIN, SLC25, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR L.CHEN,Y.KANG REVDAT 5 09-OCT-24 8HBV 1 REMARK REVDAT 4 30-AUG-23 8HBV 1 JRNL REVDAT 3 16-AUG-23 8HBV 1 JRNL REVDAT 2 12-JUL-23 8HBV 1 JRNL REVDAT 1 21-JUN-23 8HBV 0 JRNL AUTH Y.KANG,L.CHEN JRNL TITL STRUCTURAL BASIS FOR THE BINDING OF DNP AND PURINE JRNL TITL 2 NUCLEOTIDES ONTO UCP1. JRNL REF NATURE V. 620 226 2023 JRNL REFN ESSN 1476-4687 JRNL PMID 37336486 JRNL DOI 10.1038/S41586-023-06332-W REMARK 2 REMARK 2 RESOLUTION. 2.51 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) : 2.510 REMARK 3 NUMBER OF PARTICLES : 544602 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 8HBV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 08-NOV-22. REMARK 100 THE DEPOSITION ID IS D_1300033266. 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 : UCP1-SYBODY 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 REMARK 245 DETECTOR TYPE : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1500.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 1800.00 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) : 5200.00 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: 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 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 A -56 REMARK 465 SER A -55 REMARK 465 ARG A -54 REMARK 465 LEU A -53 REMARK 465 GLU A -52 REMARK 465 GLU A -51 REMARK 465 GLU A -50 REMARK 465 LEU A -49 REMARK 465 ARG A -48 REMARK 465 ARG A -47 REMARK 465 ARG A -46 REMARK 465 LEU A -45 REMARK 465 THR A -44 REMARK 465 GLU A -43 REMARK 465 GLY A -42 REMARK 465 SER A -41 REMARK 465 GLY A -40 REMARK 465 GLY A -39 REMARK 465 TRP A -38 REMARK 465 SER A -37 REMARK 465 HIS A -36 REMARK 465 PRO A -35 REMARK 465 GLN A -34 REMARK 465 PHE A -33 REMARK 465 GLU A -32 REMARK 465 LYS A -31 REMARK 465 GLY A -30 REMARK 465 SER A -29 REMARK 465 GLY A -28 REMARK 465 ASP A -27 REMARK 465 TYR A -26 REMARK 465 LYS A -25 REMARK 465 ASP A -24 REMARK 465 ASP A -23 REMARK 465 ASP A -22 REMARK 465 ASP A -21 REMARK 465 LYS A -20 REMARK 465 GLY A -19 REMARK 465 SER A -18 REMARK 465 GLY A -17 REMARK 465 TRP A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 PRO A -13 REMARK 465 GLN A -12 REMARK 465 PHE A -11 REMARK 465 GLU A -10 REMARK 465 LYS A -9 REMARK 465 LEU A -8 REMARK 465 GLU A -7 REMARK 465 VAL A -6 REMARK 465 LEU A -5 REMARK 465 PHE A -4 REMARK 465 GLN A -3 REMARK 465 GLY A -2 REMARK 465 PRO A -1 REMARK 465 MET A 0 REMARK 465 GLY A 1 REMARK 465 GLY A 2 REMARK 465 LEU A 3 REMARK 465 THR A 4 REMARK 465 ALA A 5 REMARK 465 SER A 6 REMARK 465 ASP A 7 REMARK 465 VAL A 8 REMARK 465 ARG A 299 REMARK 465 GLN A 300 REMARK 465 THR A 301 REMARK 465 MET A 302 REMARK 465 ASP A 303 REMARK 465 CYS A 304 REMARK 465 ALA A 305 REMARK 465 THR A 306 REMARK 465 MET B -1 REMARK 465 GLY B 0 REMARK 465 HIS B 125 REMARK 465 HIS B 126 REMARK 465 HIS B 127 REMARK 465 HIS B 128 REMARK 465 HIS B 129 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 LYS A 106 CG CD CE NZ REMARK 470 GLU A 107 CG CD OE1 OE2 REMARK 470 THR A 108 OG1 CG2 REMARK 470 LYS A 297 CG CD CE NZ REMARK 470 SER A 298 OG 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 TYR A 74 49.37 -96.47 REMARK 500 PRO A 110 77.75 -68.58 REMARK 500 GLU A 167 18.09 -151.98 REMARK 500 PHE B 101 -64.65 -94.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 CDL A 401 REMARK 610 PC1 A 402 REMARK 610 PC1 A 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-34644 RELATED DB: EMDB REMARK 900 STRUCTURE OF HUMAN UCP1 IN THE NUCLEOTIDE-FREE STATE DBREF 8HBV A -56 -1 PDB 8HBV 8HBV -56 -1 DBREF 8HBV A 0 306 UNP P25874 UCP1_HUMAN 1 307 DBREF 8HBV B -1 129 PDB 8HBV 8HBV -1 129 SEQRES 1 A 363 MET SER ARG LEU GLU GLU GLU LEU ARG ARG ARG LEU THR SEQRES 2 A 363 GLU GLY SER GLY GLY TRP SER HIS PRO GLN PHE GLU LYS SEQRES 3 A 363 GLY SER GLY ASP TYR LYS ASP ASP ASP ASP LYS GLY SER SEQRES 4 A 363 GLY TRP SER HIS PRO GLN PHE GLU LYS LEU GLU VAL LEU SEQRES 5 A 363 PHE GLN GLY PRO MET GLY GLY LEU THR ALA SER ASP VAL SEQRES 6 A 363 HIS PRO THR LEU GLY VAL GLN LEU PHE SER ALA GLY ILE SEQRES 7 A 363 ALA ALA CYS LEU ALA ASP VAL ILE THR PHE PRO LEU ASP SEQRES 8 A 363 THR ALA LYS VAL ARG LEU GLN VAL GLN GLY GLU CYS PRO SEQRES 9 A 363 THR SER SER VAL ILE ARG TYR LYS GLY VAL LEU GLY THR SEQRES 10 A 363 ILE THR ALA VAL VAL LYS THR GLU GLY ARG MET LYS LEU SEQRES 11 A 363 TYR SER GLY LEU PRO ALA GLY LEU GLN ARG GLN ILE SER SEQRES 12 A 363 SER ALA SER LEU ARG ILE GLY LEU TYR ASP THR VAL GLN SEQRES 13 A 363 GLU PHE LEU THR ALA GLY LYS GLU THR ALA PRO SER LEU SEQRES 14 A 363 GLY SER LYS ILE LEU ALA GLY LEU THR THR GLY GLY VAL SEQRES 15 A 363 ALA VAL PHE ILE GLY GLN PRO THR GLU VAL VAL LYS VAL SEQRES 16 A 363 ARG LEU GLN ALA GLN SER HIS LEU HIS GLY ILE LYS PRO SEQRES 17 A 363 ARG TYR THR GLY THR TYR ASN ALA TYR ARG ILE ILE ALA SEQRES 18 A 363 THR THR GLU GLY LEU THR GLY LEU TRP LYS GLY THR THR SEQRES 19 A 363 PRO ASN LEU MET ARG SER VAL ILE ILE ASN CYS THR GLU SEQRES 20 A 363 LEU VAL THR TYR ASP LEU MET LYS GLU ALA PHE VAL LYS SEQRES 21 A 363 ASN ASN ILE LEU ALA ASP ASP VAL PRO CYS HIS LEU VAL SEQRES 22 A 363 SER ALA LEU ILE ALA GLY PHE CYS ALA THR ALA MET SER SEQRES 23 A 363 SER PRO VAL ASP VAL VAL LYS THR ARG PHE ILE ASN SER SEQRES 24 A 363 PRO PRO GLY GLN TYR LYS SER VAL PRO ASN CYS ALA MET SEQRES 25 A 363 LYS VAL PHE THR ASN GLU GLY PRO THR ALA PHE PHE LYS SEQRES 26 A 363 GLY LEU VAL PRO SER PHE LEU ARG LEU GLY SER TRP ASN SEQRES 27 A 363 VAL ILE MET PHE VAL CYS PHE GLU GLN LEU LYS ARG GLU SEQRES 28 A 363 LEU SER LYS SER ARG GLN THR MET ASP CYS ALA THR SEQRES 1 B 131 MET GLY GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU SEQRES 2 B 131 VAL GLN ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SEQRES 3 B 131 SER GLY PHE PRO VAL MET TYR TYR ASN MET HIS TRP TYR SEQRES 4 B 131 ARG GLN ALA PRO GLY LYS GLU ARG GLU TRP VAL ALA ALA SEQRES 5 B 131 ILE GLU SER THR GLY TRP TRP ALA HIS TYR ALA ASP SER SEQRES 6 B 131 VAL LYS GLY ARG PHE THR ILE SER ARG ASP ASN ALA LYS SEQRES 7 B 131 ASN THR VAL TYR LEU GLN MET ASN SER LEU LYS PRO GLU SEQRES 8 B 131 ASP THR ALA VAL TYR TYR CYS ASN VAL LYS ASP PHE GLY SEQRES 9 B 131 TRP ARG TRP GLU ALA TYR ASP TYR TRP GLY GLN GLY THR SEQRES 10 B 131 GLN VAL THR VAL SER SER LEU GLU HIS HIS HIS HIS HIS SEQRES 11 B 131 HIS HET CDL A 401 48 HET PC1 A 402 29 HET PC1 A 403 25 HETNAM CDL CARDIOLIPIN HETNAM PC1 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE HETSYN CDL DIPHOSPHATIDYL GLYCEROL; BIS-(1,2-DIACYL-SN-GLYCERO-3- HETSYN 2 CDL PHOSPHO)-1',3'-SN-GLYCEROL HETSYN PC1 3-SN-PHOSPHATIDYLCHOLINE FORMUL 3 CDL C81 H156 O17 P2 2- FORMUL 4 PC1 2(C44 H88 N O8 P) HELIX 1 AA1 THR A 11 VAL A 42 1 32 HELIX 2 AA2 GLY A 56 GLY A 69 1 14 HELIX 3 AA3 GLY A 76 GLY A 105 1 30 HELIX 4 AA4 SER A 111 GLN A 143 1 33 HELIX 5 AA5 GLY A 155 GLY A 168 1 14 HELIX 6 AA6 LEU A 169 LYS A 174 5 6 HELIX 7 AA7 GLY A 175 ASN A 204 1 30 HELIX 8 AA8 ASP A 210 SER A 242 1 33 HELIX 9 AA9 SER A 249 GLY A 262 1 14 HELIX 10 AB1 THR A 264 LYS A 268 5 5 HELIX 11 AB2 GLY A 269 LYS A 297 1 29 HELIX 12 AB3 PRO B 28 TYR B 32 5 5 HELIX 13 AB4 LYS B 87 THR B 91 5 5 SHEET 1 AA1 4 GLN B 3 SER B 7 0 SHEET 2 AA1 4 LEU B 18 SER B 25 -1 O ALA B 23 N VAL B 5 SHEET 3 AA1 4 THR B 78 MET B 83 -1 O LEU B 81 N LEU B 20 SHEET 4 AA1 4 PHE B 68 ASP B 73 -1 N ASP B 73 O THR B 78 SHEET 1 AA2 6 LEU B 11 GLN B 13 0 SHEET 2 AA2 6 THR B 115 SER B 120 1 O SER B 120 N VAL B 12 SHEET 3 AA2 6 ALA B 92 ASP B 100 -1 N TYR B 94 O THR B 115 SHEET 4 AA2 6 MET B 34 GLN B 39 -1 N GLN B 39 O VAL B 93 SHEET 5 AA2 6 GLU B 46 ILE B 51 -1 O GLU B 46 N ARG B 38 SHEET 6 AA2 6 ALA B 58 TYR B 60 -1 O HIS B 59 N ALA B 50 SHEET 1 AA3 4 LEU B 11 GLN B 13 0 SHEET 2 AA3 4 THR B 115 SER B 120 1 O SER B 120 N VAL B 12 SHEET 3 AA3 4 ALA B 92 ASP B 100 -1 N TYR B 94 O THR B 115 SHEET 4 AA3 4 TYR B 108 TRP B 111 -1 O TYR B 110 N VAL B 98 SSBOND 1 CYS B 22 CYS B 96 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