HEADER MEMBRANE PROTEIN 17-DEC-24 9L38 TITLE STRUCTURE OF ENBT1 IN THE APO STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: EQUILIBRATIVE NUCLEOBASE TRANSPORTER 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PROTEIN FOAP-13,SOLUTE CARRIER FAMILY 43 MEMBER 3; COMPND 5 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: SLC43A3, ENBT1, PSEC0252; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS ENBT1, SLC43A3, AMINO ACID TRANSPORTER, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR Y.X.YIN,D.DING,Y.S.LU REVDAT 1 24-JUN-26 9L38 0 JRNL AUTH Y.X.YIN,D.DING,Y.S.LU JRNL TITL STRUCTURAL INSIGHTS INTO THE AMINO ACID TRANSPORT AND JRNL TITL 2 PHARMACOLOGICAL BLOCKADE OF HUMAN LAT4 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : 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) : 3.200 REMARK 3 NUMBER OF PARTICLES : 266732 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 9L38 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 24-DEC-24. REMARK 100 THE DEPOSITION ID IS D_1300054844. 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 : EQUILIBRATIVE NUCLEOBASE REMARK 245 TRANSPORTER 1 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 : 7.40 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 : TFS KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1500.00 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 : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 5600.00 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 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 ALA A 2 REMARK 465 GLY A 3 REMARK 465 GLN A 4 REMARK 465 GLY A 48 REMARK 465 PRO A 49 REMARK 465 ASP A 50 REMARK 465 ALA A 51 REMARK 465 GLY A 52 REMARK 465 PRO A 53 REMARK 465 ILE A 54 REMARK 465 GLY A 55 REMARK 465 ASN A 56 REMARK 465 ALA A 57 REMARK 465 THR A 58 REMARK 465 GLY A 59 REMARK 465 GLN A 60 REMARK 465 ALA A 61 REMARK 465 ASP A 62 REMARK 465 GLY A 228 REMARK 465 ASN A 229 REMARK 465 GLY A 230 REMARK 465 THR A 231 REMARK 465 THR A 232 REMARK 465 LYS A 233 REMARK 465 GLU A 234 REMARK 465 GLU A 235 REMARK 465 LYS A 236 REMARK 465 GLU A 237 REMARK 465 THR A 238 REMARK 465 ALA A 239 REMARK 465 GLU A 240 REMARK 465 HIS A 241 REMARK 465 GLU A 242 REMARK 465 ASN A 243 REMARK 465 ARG A 244 REMARK 465 GLU A 245 REMARK 465 LEU A 246 REMARK 465 GLN A 247 REMARK 465 SER A 248 REMARK 465 LYS A 249 REMARK 465 GLU A 250 REMARK 465 PHE A 251 REMARK 465 LEU A 252 REMARK 465 SER A 253 REMARK 465 ALA A 254 REMARK 465 LYS A 255 REMARK 465 GLU A 256 REMARK 465 GLU A 257 REMARK 465 THR A 258 REMARK 465 PRO A 259 REMARK 465 GLY A 260 REMARK 465 ALA A 261 REMARK 465 GLY A 262 REMARK 465 GLN A 263 REMARK 465 LYS A 264 REMARK 465 GLN A 265 REMARK 465 GLU A 266 REMARK 465 LEU A 267 REMARK 465 ALA A 308 REMARK 465 GLY A 309 REMARK 465 GLY A 310 REMARK 465 ASP A 311 REMARK 465 MET A 312 REMARK 465 ARG A 351 REMARK 465 LYS A 352 REMARK 465 THR A 353 REMARK 465 GLY A 354 REMARK 465 SER A 355 REMARK 465 THR A 482 REMARK 465 TRP A 483 REMARK 465 LYS A 484 REMARK 465 GLU A 485 REMARK 465 SER A 486 REMARK 465 PRO A 487 REMARK 465 SER A 488 REMARK 465 ALA A 489 REMARK 465 ILE A 490 REMARK 465 ALA A 491 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 GLU A 68 CG CD OE1 OE2 REMARK 470 ARG A 314 CG CD NE CZ NH1 NH2 REMARK 470 THR A 357 CG2 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 MET A 84 0.61 -67.44 REMARK 500 LYS A 96 -162.23 64.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-62783 RELATED DB: EMDB REMARK 900 STRUCTURE OF ENBT1 IN THE APO STATE DBREF 9L38 A 1 491 UNP Q8NBI5 S43A3_HUMAN 1 491 SEQRES 1 A 491 MET ALA GLY GLN GLY LEU PRO LEU HIS VAL ALA THR LEU SEQRES 2 A 491 LEU THR GLY LEU LEU GLU CYS LEU GLY PHE ALA GLY VAL SEQRES 3 A 491 LEU PHE GLY TRP PRO SER LEU VAL PHE VAL PHE LYS ASN SEQRES 4 A 491 GLU ASP TYR PHE LYS ASP LEU CYS GLY PRO ASP ALA GLY SEQRES 5 A 491 PRO ILE GLY ASN ALA THR GLY GLN ALA ASP CYS LYS ALA SEQRES 6 A 491 GLN ASP GLU ARG PHE SER LEU ILE PHE THR LEU GLY SER SEQRES 7 A 491 PHE MET ASN ASN PHE MET THR PHE PRO THR GLY TYR ILE SEQRES 8 A 491 PHE ASP ARG PHE LYS THR THR VAL ALA ARG LEU ILE ALA SEQRES 9 A 491 ILE PHE PHE TYR THR THR ALA THR LEU ILE ILE ALA PHE SEQRES 10 A 491 THR SER ALA GLY SER ALA VAL LEU LEU PHE LEU ALA MET SEQRES 11 A 491 PRO MET LEU THR ILE GLY GLY ILE LEU PHE LEU ILE THR SEQRES 12 A 491 ASN LEU GLN ILE GLY ASN LEU PHE GLY GLN HIS ARG SER SEQRES 13 A 491 THR ILE ILE THR LEU TYR ASN GLY ALA PHE ASP SER SER SEQRES 14 A 491 SER ALA VAL PHE LEU ILE ILE LYS LEU LEU TYR GLU LYS SEQRES 15 A 491 GLY ILE SER LEU ARG ALA SER PHE ILE PHE ILE SER VAL SEQRES 16 A 491 CYS SER THR TRP HIS VAL ALA ARG THR PHE LEU LEU MET SEQRES 17 A 491 PRO ARG GLY HIS ILE PRO TYR PRO LEU PRO PRO ASN TYR SEQRES 18 A 491 SER TYR GLY LEU CYS PRO GLY ASN GLY THR THR LYS GLU SEQRES 19 A 491 GLU LYS GLU THR ALA GLU HIS GLU ASN ARG GLU LEU GLN SEQRES 20 A 491 SER LYS GLU PHE LEU SER ALA LYS GLU GLU THR PRO GLY SEQRES 21 A 491 ALA GLY GLN LYS GLN GLU LEU ARG SER PHE TRP SER TYR SEQRES 22 A 491 ALA PHE SER ARG ARG PHE ALA TRP HIS LEU VAL TRP LEU SEQRES 23 A 491 SER VAL ILE GLN LEU TRP HIS TYR LEU PHE ILE GLY THR SEQRES 24 A 491 LEU ASN SER LEU LEU THR ASN MET ALA GLY GLY ASP MET SEQRES 25 A 491 ALA ARG VAL SER THR TYR THR ASN ALA PHE ALA PHE THR SEQRES 26 A 491 GLN PHE GLY VAL LEU CYS ALA PRO TRP ASN GLY LEU LEU SEQRES 27 A 491 MET ASP ARG LEU LYS GLN LYS TYR GLN LYS GLU ALA ARG SEQRES 28 A 491 LYS THR GLY SER SER THR LEU ALA VAL ALA LEU CYS SER SEQRES 29 A 491 THR VAL PRO SER LEU ALA LEU THR SER LEU LEU CYS LEU SEQRES 30 A 491 GLY PHE ALA LEU CYS ALA SER VAL PRO ILE LEU PRO LEU SEQRES 31 A 491 GLN TYR LEU THR PHE ILE LEU GLN VAL ILE SER ARG SER SEQRES 32 A 491 PHE LEU TYR GLY SER ASN ALA ALA PHE LEU THR LEU ALA SEQRES 33 A 491 PHE PRO SER GLU HIS PHE GLY LYS LEU PHE GLY LEU VAL SEQRES 34 A 491 MET ALA LEU SER ALA VAL VAL SER LEU LEU GLN PHE PRO SEQRES 35 A 491 ILE PHE THR LEU ILE LYS GLY SER LEU GLN ASN ASP PRO SEQRES 36 A 491 PHE TYR VAL ASN VAL MET PHE MET LEU ALA ILE LEU LEU SEQRES 37 A 491 THR PHE PHE HIS PRO PHE LEU VAL TYR ARG GLU CYS ARG SEQRES 38 A 491 THR TRP LYS GLU SER PRO SER ALA ILE ALA FORMUL 2 HOH *(H2 O) HELIX 1 AA1 GLY A 5 PHE A 23 1 19 HELIX 2 AA2 GLY A 29 GLU A 40 1 12 HELIX 3 AA3 LYS A 64 MET A 84 1 21 HELIX 4 AA4 MET A 84 THR A 118 1 35 HELIX 5 AA5 SER A 122 VAL A 124 5 3 HELIX 6 AA6 LEU A 125 GLN A 146 1 22 HELIX 7 AA7 ILE A 147 PHE A 151 5 5 HELIX 8 AA8 HIS A 154 SER A 169 1 16 HELIX 9 AA9 SER A 169 GLY A 183 1 15 HELIX 10 AB1 SER A 185 LEU A 207 1 23 HELIX 11 AB2 SER A 269 ALA A 274 1 6 HELIX 12 AB3 SER A 276 MET A 307 1 32 HELIX 13 AB4 ARG A 314 ALA A 323 1 10 HELIX 14 AB5 PHE A 327 ALA A 350 1 24 HELIX 15 AB6 THR A 357 VAL A 385 1 29 HELIX 16 AB7 PRO A 389 ALA A 416 1 28 HELIX 17 AB8 PRO A 418 GLU A 420 5 3 HELIX 18 AB9 HIS A 421 LEU A 438 1 18 HELIX 19 AC1 LEU A 439 GLY A 449 1 11 HELIX 20 AC2 PRO A 455 PHE A 470 1 16 HELIX 21 AC3 PHE A 470 ARG A 481 1 12 SSBOND 1 CYS A 363 CYS A 480 1555 1555 2.03 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 CONECT 2341 3256 CONECT 3256 2341 MASTER 212 0 0 21 0 0 0 6 3268 1 2 38 END