HEADER MEMBRANE PROTEIN 28-AUG-23 8QCY TITLE CRYO-EM STRUCTURE OF THE OUTWARD-FACING FLVCR2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEME TRANSPORTER FLVCR2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CALCIUM-CHELATE TRANSPORTER,CCT,FELINE LEUKEMIA VIRUS COMPND 5 SUBGROUP C RECEPTOR-RELATED PROTEIN 2; COMPND 6 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: FLVCR2, C14ORF58; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293 KEYWDS MFS, CHOLINE TRANSPORT, HUMAN TRANSPORTER, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR T.-H.WENG,D.WU,S.SAFARIAN REVDAT 2 22-MAY-24 8QCY 1 JRNL REVDAT 1 17-APR-24 8QCY 0 JRNL AUTH T.-H.WENG,D.WU,S.SAFARIAN JRNL TITL MOLECULAR MECHANISM OF CHOLINE AND ETHANOLAMINE TRANSPORT IN JRNL TITL 2 HUMANS JRNL REF NATURE 2024 JRNL REFN ESSN 1476-4687 JRNL DOI 10.1038/S41586-024-07444-7 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION, RELION, ISOLDE, COOT, RELION, REMARK 3 CRYOSPARC, CRYOSPARC, PHENIX REMARK 3 RECONSTRUCTION SCHEMA : BACK PROJECTION 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) : 2.900 REMARK 3 NUMBER OF PARTICLES : 49532 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 8QCY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-AUG-23. REMARK 100 THE DEPOSITION ID IS D_1292132905. 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 : FLVCR2 MONOMER REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 1.50 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 TITAN KRIOS REMARK 245 DETECTOR TYPE : FEI FALCON IV (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1100.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2100.00 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) : 8000.00 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 1 REMARK 465 VAL A 2 REMARK 465 ASN A 3 REMARK 465 GLU A 4 REMARK 465 GLY A 5 REMARK 465 PRO A 6 REMARK 465 ASN A 7 REMARK 465 GLN A 8 REMARK 465 GLU A 9 REMARK 465 GLU A 10 REMARK 465 SER A 11 REMARK 465 ASP A 12 REMARK 465 ASP A 13 REMARK 465 THR A 14 REMARK 465 PRO A 15 REMARK 465 VAL A 16 REMARK 465 PRO A 17 REMARK 465 GLU A 18 REMARK 465 SER A 19 REMARK 465 ALA A 20 REMARK 465 LEU A 21 REMARK 465 GLN A 22 REMARK 465 ALA A 23 REMARK 465 ASP A 24 REMARK 465 PRO A 25 REMARK 465 SER A 26 REMARK 465 VAL A 27 REMARK 465 SER A 28 REMARK 465 VAL A 29 REMARK 465 HIS A 30 REMARK 465 PRO A 31 REMARK 465 SER A 32 REMARK 465 VAL A 33 REMARK 465 SER A 34 REMARK 465 VAL A 35 REMARK 465 HIS A 36 REMARK 465 PRO A 37 REMARK 465 SER A 38 REMARK 465 VAL A 39 REMARK 465 SER A 40 REMARK 465 ILE A 41 REMARK 465 ASN A 42 REMARK 465 PRO A 43 REMARK 465 SER A 44 REMARK 465 VAL A 45 REMARK 465 SER A 46 REMARK 465 VAL A 47 REMARK 465 HIS A 48 REMARK 465 PRO A 49 REMARK 465 SER A 50 REMARK 465 SER A 51 REMARK 465 SER A 52 REMARK 465 ALA A 53 REMARK 465 HIS A 54 REMARK 465 PRO A 55 REMARK 465 SER A 56 REMARK 465 ALA A 57 REMARK 465 LEU A 58 REMARK 465 ALA A 59 REMARK 465 GLN A 60 REMARK 465 PRO A 61 REMARK 465 SER A 62 REMARK 465 GLY A 63 REMARK 465 LEU A 64 REMARK 465 ALA A 65 REMARK 465 HIS A 66 REMARK 465 PRO A 67 REMARK 465 SER A 68 REMARK 465 SER A 69 REMARK 465 SER A 70 REMARK 465 GLY A 71 REMARK 465 PRO A 72 REMARK 465 GLU A 73 REMARK 465 ASP A 74 REMARK 465 LEU A 75 REMARK 465 SER A 76 REMARK 465 SER A 292 REMARK 465 PRO A 293 REMARK 465 ASP A 294 REMARK 465 LEU A 501 REMARK 465 GLU A 502 REMARK 465 ASN A 503 REMARK 465 LYS A 504 REMARK 465 LEU A 505 REMARK 465 GLN A 506 REMARK 465 GLU A 507 REMARK 465 GLU A 508 REMARK 465 GLU A 509 REMARK 465 GLU A 510 REMARK 465 GLU A 511 REMARK 465 SER A 512 REMARK 465 ASN A 513 REMARK 465 THR A 514 REMARK 465 SER A 515 REMARK 465 LYS A 516 REMARK 465 VAL A 517 REMARK 465 PRO A 518 REMARK 465 THR A 519 REMARK 465 ALA A 520 REMARK 465 VAL A 521 REMARK 465 SER A 522 REMARK 465 GLU A 523 REMARK 465 ASP A 524 REMARK 465 HIS A 525 REMARK 465 LEU A 526 REMARK 465 ASP A 527 REMARK 465 TYR A 528 REMARK 465 LYS A 529 REMARK 465 ASP A 530 REMARK 465 ASP A 531 REMARK 465 ASP A 532 REMARK 465 ASP A 533 REMARK 465 LYS A 534 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 LEU A 172 49.19 -83.20 REMARK 500 ILE A 194 -54.77 -126.76 REMARK 500 ILE A 270 -61.01 -90.38 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8QCX RELATED DB: PDB REMARK 900 RELATED ID: EMD-18337 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF THE OUTWARD-FACING FLVCR2 DBREF 8QCY A 1 526 UNP Q9UPI3 FLVC2_HUMAN 1 526 SEQADV 8QCY ASP A 527 UNP Q9UPI3 EXPRESSION TAG SEQADV 8QCY TYR A 528 UNP Q9UPI3 EXPRESSION TAG SEQADV 8QCY LYS A 529 UNP Q9UPI3 EXPRESSION TAG SEQADV 8QCY ASP A 530 UNP Q9UPI3 EXPRESSION TAG SEQADV 8QCY ASP A 531 UNP Q9UPI3 EXPRESSION TAG SEQADV 8QCY ASP A 532 UNP Q9UPI3 EXPRESSION TAG SEQADV 8QCY ASP A 533 UNP Q9UPI3 EXPRESSION TAG SEQADV 8QCY LYS A 534 UNP Q9UPI3 EXPRESSION TAG SEQRES 1 A 534 MET VAL ASN GLU GLY PRO ASN GLN GLU GLU SER ASP ASP SEQRES 2 A 534 THR PRO VAL PRO GLU SER ALA LEU GLN ALA ASP PRO SER SEQRES 3 A 534 VAL SER VAL HIS PRO SER VAL SER VAL HIS PRO SER VAL SEQRES 4 A 534 SER ILE ASN PRO SER VAL SER VAL HIS PRO SER SER SER SEQRES 5 A 534 ALA HIS PRO SER ALA LEU ALA GLN PRO SER GLY LEU ALA SEQRES 6 A 534 HIS PRO SER SER SER GLY PRO GLU ASP LEU SER VAL ILE SEQRES 7 A 534 LYS VAL SER ARG ARG ARG TRP ALA VAL VAL LEU VAL PHE SEQRES 8 A 534 SER CYS TYR SER MET CYS ASN SER PHE GLN TRP ILE GLN SEQRES 9 A 534 TYR GLY SER ILE ASN ASN ILE PHE MET HIS PHE TYR GLY SEQRES 10 A 534 VAL SER ALA PHE ALA ILE ASP TRP LEU SER MET CYS TYR SEQRES 11 A 534 MET LEU THR TYR ILE PRO LEU LEU LEU PRO VAL ALA TRP SEQRES 12 A 534 LEU LEU GLU LYS PHE GLY LEU ARG THR ILE ALA LEU THR SEQRES 13 A 534 GLY SER ALA LEU ASN CYS LEU GLY ALA TRP VAL LYS LEU SEQRES 14 A 534 GLY SER LEU LYS PRO HIS LEU PHE PRO VAL THR VAL VAL SEQRES 15 A 534 GLY GLN LEU ILE CYS SER VAL ALA GLN VAL PHE ILE LEU SEQRES 16 A 534 GLY MET PRO SER ARG ILE ALA SER VAL TRP PHE GLY ALA SEQRES 17 A 534 ASN GLU VAL SER THR ALA CYS SER VAL ALA VAL PHE GLY SEQRES 18 A 534 ASN GLN LEU GLY ILE ALA ILE GLY PHE LEU VAL PRO PRO SEQRES 19 A 534 VAL LEU VAL PRO ASN ILE GLU ASP ARG ASP GLU LEU ALA SEQRES 20 A 534 TYR HIS ILE SER ILE MET PHE TYR ILE ILE GLY GLY VAL SEQRES 21 A 534 ALA THR LEU LEU LEU ILE LEU VAL ILE ILE VAL PHE LYS SEQRES 22 A 534 GLU LYS PRO LYS TYR PRO PRO SER ARG ALA GLN SER LEU SEQRES 23 A 534 SER TYR ALA LEU THR SER PRO ASP ALA SER TYR LEU GLY SEQRES 24 A 534 SER ILE ALA ARG LEU PHE LYS ASN LEU ASN PHE VAL LEU SEQRES 25 A 534 LEU VAL ILE THR TYR GLY LEU ASN ALA GLY ALA PHE TYR SEQRES 26 A 534 ALA LEU SER THR LEU LEU ASN ARG MET VAL ILE TRP HIS SEQRES 27 A 534 TYR PRO GLY GLU GLU VAL ASN ALA GLY ARG ILE GLY LEU SEQRES 28 A 534 THR ILE VAL ILE ALA GLY MET LEU GLY ALA VAL ILE SER SEQRES 29 A 534 GLY ILE TRP LEU ASP ARG SER LYS THR TYR LYS GLU THR SEQRES 30 A 534 THR LEU VAL VAL TYR ILE MET THR LEU VAL GLY MET VAL SEQRES 31 A 534 VAL TYR THR PHE THR LEU ASN LEU GLY HIS LEU TRP VAL SEQRES 32 A 534 VAL PHE ILE THR ALA GLY THR MET GLY PHE PHE MET THR SEQRES 33 A 534 GLY TYR LEU PRO LEU GLY PHE GLU PHE ALA VAL GLU LEU SEQRES 34 A 534 THR TYR PRO GLU SER GLU GLY ILE SER SER GLY LEU LEU SEQRES 35 A 534 ASN ILE SER ALA GLN VAL PHE GLY ILE ILE PHE THR ILE SEQRES 36 A 534 SER GLN GLY GLN ILE ILE ASP ASN TYR GLY THR LYS PRO SEQRES 37 A 534 GLY ASN ILE PHE LEU CYS VAL PHE LEU THR LEU GLY ALA SEQRES 38 A 534 ALA LEU THR ALA PHE ILE LYS ALA ASP LEU ARG ARG GLN SEQRES 39 A 534 LYS ALA ASN LYS GLU THR LEU GLU ASN LYS LEU GLN GLU SEQRES 40 A 534 GLU GLU GLU GLU SER ASN THR SER LYS VAL PRO THR ALA SEQRES 41 A 534 VAL SER GLU ASP HIS LEU ASP TYR LYS ASP ASP ASP ASP SEQRES 42 A 534 LYS HELIX 1 AA1 ARG A 82 ILE A 108 1 27 HELIX 2 AA2 ILE A 108 GLY A 117 1 10 HELIX 3 AA3 SER A 119 GLY A 149 1 31 HELIX 4 AA4 GLY A 149 VAL A 167 1 19 HELIX 5 AA5 LYS A 168 SER A 171 5 4 HELIX 6 AA6 LEU A 176 PHE A 193 1 18 HELIX 7 AA7 MET A 197 PHE A 206 1 10 HELIX 8 AA8 GLU A 210 VAL A 232 1 23 HELIX 9 AA9 VAL A 232 VAL A 237 1 6 HELIX 10 AB1 ASP A 242 VAL A 271 1 30 HELIX 11 AB2 SER A 281 THR A 291 1 11 HELIX 12 AB3 SER A 296 ASN A 307 1 12 HELIX 13 AB4 ASN A 307 TYR A 339 1 33 HELIX 14 AB5 GLU A 342 LYS A 372 1 31 HELIX 15 AB6 THR A 373 LEU A 396 1 24 HELIX 16 AB7 ASN A 397 GLY A 399 5 3 HELIX 17 AB8 HIS A 400 THR A 430 1 31 HELIX 18 AB9 SER A 434 GLY A 465 1 32 HELIX 19 AC1 GLY A 465 PHE A 486 1 22 HELIX 20 AC2 LEU A 491 THR A 500 1 10 CISPEP 1 TYR A 431 PRO A 432 0 0.93 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