HEADER MEMBRANE PROTEIN 16-SEP-24 9JKH TITLE SLC6A3 APO COMPND MOL_ID: 1; COMPND 2 MOLECULE: SODIUM-DEPENDENT DOPAMINE TRANSPORTER; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DA TRANSPORTER,DAT,SOLUTE CARRIER FAMILY 6 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: SLC6A3, DAT1; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293 KEYWDS MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR S.S.ZHANG REVDAT 1 08-APR-26 9JKH 0 JRNL AUTH S.S.ZHANG JRNL TITL MEMBRANE TRANSPORTER SLC6A3 APO 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, CRYOS 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 : 246000 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 9JKH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1300051539. 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 : MEMBRANE PROTEIN 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 : 7.20 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 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2500.00 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) : 5000.00 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 SER A 2 REMARK 465 LYS A 3 REMARK 465 SER A 4 REMARK 465 LYS A 5 REMARK 465 CYS A 6 REMARK 465 SER A 7 REMARK 465 VAL A 8 REMARK 465 GLY A 9 REMARK 465 LEU A 10 REMARK 465 MET A 11 REMARK 465 SER A 12 REMARK 465 SER A 13 REMARK 465 VAL A 14 REMARK 465 VAL A 15 REMARK 465 ALA A 16 REMARK 465 PRO A 17 REMARK 465 ALA A 18 REMARK 465 LYS A 19 REMARK 465 GLU A 20 REMARK 465 PRO A 21 REMARK 465 ASN A 22 REMARK 465 ALA A 23 REMARK 465 VAL A 24 REMARK 465 GLY A 25 REMARK 465 PRO A 26 REMARK 465 LYS A 27 REMARK 465 GLU A 28 REMARK 465 VAL A 29 REMARK 465 GLU A 30 REMARK 465 LEU A 31 REMARK 465 ILE A 32 REMARK 465 LEU A 33 REMARK 465 VAL A 34 REMARK 465 LYS A 35 REMARK 465 GLU A 36 REMARK 465 GLN A 37 REMARK 465 ASN A 38 REMARK 465 GLY A 39 REMARK 465 VAL A 40 REMARK 465 GLN A 41 REMARK 465 LEU A 42 REMARK 465 THR A 43 REMARK 465 SER A 44 REMARK 465 SER A 45 REMARK 465 THR A 46 REMARK 465 LEU A 47 REMARK 465 THR A 48 REMARK 465 ASN A 49 REMARK 465 PRO A 50 REMARK 465 ARG A 51 REMARK 465 GLN A 52 REMARK 465 SER A 53 REMARK 465 PRO A 54 REMARK 465 VAL A 55 REMARK 465 GLU A 56 REMARK 465 ALA A 57 REMARK 465 GLN A 58 REMARK 465 ASP A 59 REMARK 465 ARG A 60 REMARK 465 GLU A 61 REMARK 465 THR A 62 REMARK 465 TRP A 63 REMARK 465 GLY A 64 REMARK 465 LYS A 65 REMARK 465 LYS A 66 REMARK 465 ALA A 192 REMARK 465 HIS A 193 REMARK 465 PRO A 194 REMARK 465 GLY A 195 REMARK 465 ASP A 196 REMARK 465 SER A 197 REMARK 465 SER A 198 REMARK 465 GLY A 199 REMARK 465 ASP A 200 REMARK 465 SER A 201 REMARK 465 SER A 202 REMARK 465 GLY A 203 REMARK 465 LEU A 204 REMARK 465 ASN A 205 REMARK 465 ASP A 206 REMARK 465 THR A 207 REMARK 465 PHE A 208 REMARK 465 GLY A 258 REMARK 465 VAL A 259 REMARK 465 LYS A 260 REMARK 465 THR A 261 REMARK 465 SER A 262 REMARK 465 GLY A 263 REMARK 465 LYS A 264 REMARK 465 VAL A 265 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 LEU A 403 CA - CB - CG ANGL. DEV. = 16.7 DEGREES REMARK 500 LEU A 522 CA - CB - CG ANGL. DEV. = 15.2 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 ASP A 79 -169.63 -168.59 REMARK 500 TRP A 84 -37.01 -137.96 REMARK 500 PRO A 112 38.28 -86.63 REMARK 500 TRP A 132 34.69 -94.15 REMARK 500 LEU A 138 60.35 -104.16 REMARK 500 CYS A 180 -159.35 -81.66 REMARK 500 LEU A 255 55.94 -95.63 REMARK 500 TRP A 267 -5.17 73.60 REMARK 500 LEU A 298 51.32 -94.79 REMARK 500 PHE A 302 48.11 -91.18 REMARK 500 TYR A 335 53.21 -92.14 REMARK 500 LEU A 441 53.61 -92.98 REMARK 500 ARG A 445 43.73 -91.03 REMARK 500 LEU A 522 -8.27 67.79 REMARK 500 THR A 542 72.85 -101.79 REMARK 500 LEU A 560 43.37 -93.72 REMARK 500 THR A 566 50.02 -90.68 REMARK 500 PRO A 573 41.38 -86.25 REMARK 500 ILE A 574 -50.86 -126.83 REMARK 500 LYS A 579 46.28 -93.11 REMARK 500 SER A 586 -66.55 -100.04 REMARK 500 PHE A 587 -39.02 -136.47 REMARK 500 LEU A 591 45.79 -91.95 REMARK 500 ALA A 592 -38.06 -132.29 REMARK 500 ASP A 600 66.05 -100.64 REMARK 500 GLU A 608 42.66 -109.33 REMARK 500 LEU A 614 49.49 -88.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-61561 RELATED DB: EMDB REMARK 900 MEMBRANE TRANSPORTER DBREF 9JKH A 1 620 UNP Q01959 SC6A3_HUMAN 1 620 SEQRES 1 A 620 MET SER LYS SER LYS CYS SER VAL GLY LEU MET SER SER SEQRES 2 A 620 VAL VAL ALA PRO ALA LYS GLU PRO ASN ALA VAL GLY PRO SEQRES 3 A 620 LYS GLU VAL GLU LEU ILE LEU VAL LYS GLU GLN ASN GLY SEQRES 4 A 620 VAL GLN LEU THR SER SER THR LEU THR ASN PRO ARG GLN SEQRES 5 A 620 SER PRO VAL GLU ALA GLN ASP ARG GLU THR TRP GLY LYS SEQRES 6 A 620 LYS ILE ASP PHE LEU LEU SER VAL ILE GLY PHE ALA VAL SEQRES 7 A 620 ASP LEU ALA ASN VAL TRP ARG PHE PRO TYR LEU CYS TYR SEQRES 8 A 620 LYS ASN GLY GLY GLY ALA PHE LEU VAL PRO TYR LEU LEU SEQRES 9 A 620 PHE MET VAL ILE ALA GLY MET PRO LEU PHE TYR MET GLU SEQRES 10 A 620 LEU ALA LEU GLY GLN PHE ASN ARG GLU GLY ALA ALA GLY SEQRES 11 A 620 VAL TRP LYS ILE CYS PRO ILE LEU LYS GLY VAL GLY PHE SEQRES 12 A 620 THR VAL ILE LEU ILE SER LEU TYR VAL GLY PHE PHE TYR SEQRES 13 A 620 ASN VAL ILE ILE ALA TRP ALA LEU HIS TYR LEU PHE SER SEQRES 14 A 620 SER PHE THR THR GLU LEU PRO TRP ILE HIS CYS ASN ASN SEQRES 15 A 620 SER TRP ASN SER PRO ASN CYS SER ASP ALA HIS PRO GLY SEQRES 16 A 620 ASP SER SER GLY ASP SER SER GLY LEU ASN ASP THR PHE SEQRES 17 A 620 GLY THR THR PRO ALA ALA GLU TYR PHE GLU ARG GLY VAL SEQRES 18 A 620 LEU HIS LEU HIS GLN SER HIS GLY ILE ASP ASP LEU GLY SEQRES 19 A 620 PRO PRO ARG TRP GLN LEU THR ALA CYS LEU VAL LEU VAL SEQRES 20 A 620 ILE VAL LEU LEU TYR PHE SER LEU TRP LYS GLY VAL LYS SEQRES 21 A 620 THR SER GLY LYS VAL VAL TRP ILE THR ALA THR MET PRO SEQRES 22 A 620 TYR VAL VAL LEU THR ALA LEU LEU LEU ARG GLY VAL THR SEQRES 23 A 620 LEU PRO GLY ALA ILE ASP GLY ILE ARG ALA TYR LEU SER SEQRES 24 A 620 VAL ASP PHE TYR ARG LEU CYS GLU ALA SER VAL TRP ILE SEQRES 25 A 620 ASP ALA ALA THR GLN VAL CYS PHE SER LEU GLY VAL GLY SEQRES 26 A 620 PHE GLY VAL LEU ILE ALA PHE SER SER TYR ASN LYS PHE SEQRES 27 A 620 THR ASN ASN CYS TYR ARG ASP ALA ILE VAL THR THR SER SEQRES 28 A 620 ILE ASN SER LEU THR SER PHE SER SER GLY PHE VAL VAL SEQRES 29 A 620 PHE SER PHE LEU GLY TYR MET ALA GLN LYS HIS SER VAL SEQRES 30 A 620 PRO ILE GLY ASP VAL ALA LYS ASP GLY PRO GLY LEU ILE SEQRES 31 A 620 PHE ILE ILE TYR PRO GLU ALA ILE ALA THR LEU PRO LEU SEQRES 32 A 620 SER SER ALA TRP ALA VAL VAL PHE PHE ILE MET LEU LEU SEQRES 33 A 620 THR LEU GLY ILE ASP SER ALA MET GLY GLY MET GLU SER SEQRES 34 A 620 VAL ILE THR GLY LEU ILE ASP GLU PHE GLN LEU LEU HIS SEQRES 35 A 620 ARG HIS ARG GLU LEU PHE THR LEU PHE ILE VAL LEU ALA SEQRES 36 A 620 THR PHE LEU LEU SER LEU PHE CYS VAL THR ASN GLY GLY SEQRES 37 A 620 ILE TYR VAL PHE THR LEU LEU ASP HIS PHE ALA ALA GLY SEQRES 38 A 620 THR SER ILE LEU PHE GLY VAL LEU ILE GLU ALA ILE GLY SEQRES 39 A 620 VAL ALA TRP PHE TYR GLY VAL GLY GLN PHE SER ASP ASP SEQRES 40 A 620 ILE GLN GLN MET THR GLY GLN ARG PRO SER LEU TYR TRP SEQRES 41 A 620 ARG LEU CYS TRP LYS LEU VAL SER PRO CYS PHE LEU LEU SEQRES 42 A 620 PHE VAL VAL VAL VAL SER ILE VAL THR PHE ARG PRO PRO SEQRES 43 A 620 HIS TYR GLY ALA TYR ILE PHE PRO ASP TRP ALA ASN ALA SEQRES 44 A 620 LEU GLY TRP VAL ILE ALA THR SER SER MET ALA MET VAL SEQRES 45 A 620 PRO ILE TYR ALA ALA TYR LYS PHE CYS SER LEU PRO GLY SEQRES 46 A 620 SER PHE ARG GLU LYS LEU ALA TYR ALA ILE ALA PRO GLU SEQRES 47 A 620 LYS ASP ARG GLU LEU VAL ASP ARG GLY GLU VAL ARG GLN SEQRES 48 A 620 PHE THR LEU ARG HIS TRP LEU LYS VAL FORMUL 2 HOH *(H2 O) HELIX 1 AA1 PHE A 69 ILE A 74 1 6 HELIX 2 AA2 ARG A 85 ASN A 93 1 9 HELIX 3 AA3 PRO A 101 GLY A 110 1 10 HELIX 4 AA4 GLY A 110 ARG A 125 1 16 HELIX 5 AA5 GLY A 130 LEU A 138 5 9 HELIX 6 AA6 LYS A 139 PHE A 168 1 30 HELIX 7 AA7 THR A 211 ARG A 219 1 9 HELIX 8 AA8 HIS A 223 SER A 227 5 5 HELIX 9 AA9 LEU A 244 PHE A 253 1 10 HELIX 10 AB1 MET A 272 LEU A 287 1 16 HELIX 11 AB2 ASP A 292 ALA A 296 5 5 HELIX 12 AB3 ALA A 308 GLY A 323 1 16 HELIX 13 AB4 GLY A 327 TYR A 335 1 9 HELIX 14 AB5 ASN A 341 HIS A 375 1 35 HELIX 15 AB6 PRO A 378 VAL A 382 5 5 HELIX 16 AB7 LEU A 389 ALA A 399 1 11 HELIX 17 AB8 LEU A 403 GLY A 425 1 23 HELIX 18 AB9 MET A 427 ASP A 436 1 10 HELIX 19 AC1 GLN A 439 ARG A 443 5 5 HELIX 20 AC2 LEU A 447 LEU A 459 1 13 HELIX 21 AC3 GLY A 468 PHE A 478 1 11 HELIX 22 AC4 GLY A 481 ILE A 493 1 13 HELIX 23 AC5 GLY A 500 GLY A 513 1 14 HELIX 24 AC6 VAL A 527 LEU A 532 1 6 HELIX 25 AC7 LEU A 532 THR A 542 1 11 HELIX 26 AC8 PRO A 554 LEU A 560 1 7 HELIX 27 AC9 ILE A 564 SER A 568 5 5 HELIX 28 AD1 MET A 571 LYS A 579 1 9 SHEET 1 AA1 2 HIS A 547 TYR A 548 0 SHEET 2 AA1 2 TYR A 551 ILE A 552 -1 O TYR A 551 N TYR A 548 SSBOND 1 CYS A 180 CYS A 189 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 914 985 CONECT 985 914 MASTER 260 0 0 28 2 0 0 6 4179 1 2 48 END