HEADER TRANSPORT PROTEIN 17-MAY-22 8CV3 TITLE HUMAN EXCITATORY EXCITATORY AMINO ACID TRANSPORTER 3 (EAAT3) PROTOMER TITLE 2 AT IN AN INTERMEDIATE OUTWARD FACING SODIUM-BOUND STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXCITATORY AMINO ACID TRANSPORTER 3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: EXCITATORY AMINO-ACID CARRIER 1,NEURONAL AND EPITHELIAL COMPND 5 GLUTAMATE TRANSPORTER,SODIUM-DEPENDENT GLUTAMATE/ASPARTATE COMPND 6 TRANSPORTER 3,SOLUTE CARRIER FAMILY 1 MEMBER 1; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SLC1A1, EAAC1, EAAT3; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS TRANSPORT PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR B.QIU,O.BOUDKER REVDAT 2 17-MAY-23 8CV3 1 JRNL REVDAT 1 10-MAY-23 8CV3 0 JRNL AUTH B.QIU,O.BOUDKER JRNL TITL SYMPORT AND ANTIPORT MECHANISMS OF HUMAN GLUTAMATE JRNL TITL 2 TRANSPORTERS. JRNL REF NAT COMMUN V. 14 2579 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 37142617 JRNL DOI 10.1038/S41467-023-38120-5 REMARK 2 REMARK 2 RESOLUTION. 3.04 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION, LEGINON, CTFFIND, UCSF REMARK 3 CHIMERAX, COOT, PHENIX, CRYOSPARC, REMARK 3 RELION, RELION, RELION REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 6X2Z REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : RIGID BODY FIT 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) : 3.040 REMARK 3 NUMBER OF PARTICLES : 105451 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: THIS IS THE NUMBER OF C3 EXPANDED PROTOMER REMARK 4 REMARK 4 8CV3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-MAY-22. REMARK 100 THE DEPOSITION ID IS D_1000265457. 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 : HUMAN EXCITATORY AMINO ACID REMARK 245 TRANSPORTER 3 AT OUTWARD FACING REMARK 245 (OFS) SODIUM BOUND STATE; HUMAN REMARK 245 EXCITATORY AMINO ACID REMARK 245 TRANSPORTER 3 AT OUTWARD FACING REMARK 245 (OFS) SODIUM BOUND STATE REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 4.10 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : BLOT 3S 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 : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1300.00 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) : 5752.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 105000 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 GLY A -1 REMARK 465 PRO A 0 REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 LYS A 3 REMARK 465 PRO A 4 REMARK 465 ALA A 5 REMARK 465 ARG A 6 REMARK 465 LYS A 7 REMARK 465 GLY A 8 REMARK 465 ALA A 9 REMARK 465 GLU A 10 REMARK 465 TRP A 11 REMARK 465 LYS A 12 REMARK 465 ARG A 13 REMARK 465 VAL A 120 REMARK 465 THR A 121 REMARK 465 GLN A 122 REMARK 465 LYS A 123 REMARK 465 VAL A 124 REMARK 465 GLY A 125 REMARK 465 GLU A 126 REMARK 465 ILE A 127 REMARK 465 ALA A 128 REMARK 465 ARG A 129 REMARK 465 THR A 130 REMARK 465 GLY A 131 REMARK 465 SER A 132 REMARK 465 THR A 133 REMARK 465 PRO A 134 REMARK 465 GLU A 135 REMARK 465 VAL A 136 REMARK 465 VAL A 169 REMARK 465 LYS A 170 REMARK 465 PRO A 171 REMARK 465 PRO A 172 REMARK 465 SER A 173 REMARK 465 ASP A 174 REMARK 465 PRO A 175 REMARK 465 GLU A 176 REMARK 465 MET A 177 REMARK 465 THR A 178 REMARK 465 MET A 179 REMARK 465 THR A 180 REMARK 465 GLU A 181 REMARK 465 GLU A 182 REMARK 465 SER A 183 REMARK 465 PHE A 184 REMARK 465 THR A 185 REMARK 465 ALA A 186 REMARK 465 VAL A 187 REMARK 465 MET A 188 REMARK 465 THR A 189 REMARK 465 THR A 190 REMARK 465 ALA A 191 REMARK 465 ILE A 192 REMARK 465 SER A 193 REMARK 465 LYS A 194 REMARK 465 THR A 195 REMARK 465 LYS A 196 REMARK 465 THR A 197 REMARK 465 LYS A 198 REMARK 465 GLU A 199 REMARK 465 GLU A 478 REMARK 465 VAL A 479 REMARK 465 ASN A 480 REMARK 465 ILE A 481 REMARK 465 VAL A 482 REMARK 465 ASN A 483 REMARK 465 PRO A 484 REMARK 465 PHE A 485 REMARK 465 ALA A 486 REMARK 465 LEU A 487 REMARK 465 GLU A 488 REMARK 465 SER A 489 REMARK 465 THR A 490 REMARK 465 ILE A 491 REMARK 465 LEU A 492 REMARK 465 ASP A 493 REMARK 465 ASN A 494 REMARK 465 GLU A 495 REMARK 465 ASP A 496 REMARK 465 SER A 497 REMARK 465 ASP A 498 REMARK 465 THR A 499 REMARK 465 LYS A 500 REMARK 465 LYS A 501 REMARK 465 SER A 502 REMARK 465 TYR A 503 REMARK 465 VAL A 504 REMARK 465 ASN A 505 REMARK 465 GLY A 506 REMARK 465 GLY A 507 REMARK 465 PHE A 508 REMARK 465 ALA A 509 REMARK 465 VAL A 510 REMARK 465 ASP A 511 REMARK 465 LYS A 512 REMARK 465 SER A 513 REMARK 465 ASP A 514 REMARK 465 THR A 515 REMARK 465 ILE A 516 REMARK 465 SER A 517 REMARK 465 PHE A 518 REMARK 465 THR A 519 REMARK 465 GLN A 520 REMARK 465 THR A 521 REMARK 465 SER A 522 REMARK 465 GLN A 523 REMARK 465 PHE A 524 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 ALA A 53 30.29 -96.82 REMARK 500 TRP A 276 -3.39 68.59 REMARK 500 ALA A 408 42.18 -140.42 REMARK 500 PRO A 412 59.39 -93.55 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 602 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 98 O REMARK 620 2 THR A 101 OG1 73.2 REMARK 620 3 THR A 102 OG1 71.7 139.1 REMARK 620 4 ASN A 366 OD1 111.0 105.9 105.8 REMARK 620 5 ASP A 368 OD1 170.2 115.5 98.5 71.9 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-27007 RELATED DB: EMDB REMARK 900 HUMAN EXCITATORY AMINO ACID TRANSPORTER3 PROTOMER AT INTERMEDIATE REMARK 900 OUTWARD FACING (IOFS) SODIUM BOUND STATE DBREF 8CV3 A 1 524 UNP P43005 EAA3_HUMAN 1 524 SEQADV 8CV3 GLY A -1 UNP P43005 EXPRESSION TAG SEQADV 8CV3 PRO A 0 UNP P43005 EXPRESSION TAG SEQADV 8CV3 ALA A 9 UNP P43005 CYS 9 CONFLICT SEQADV 8CV3 ALA A 100 UNP P43005 CYS 100 CONFLICT SEQADV 8CV3 ALA A 158 UNP P43005 CYS 158 CONFLICT SEQADV 8CV3 THR A 178 UNP P43005 ASN 178 CONFLICT SEQADV 8CV3 THR A 195 UNP P43005 ASN 195 CONFLICT SEQADV 8CV3 ALA A 219 UNP P43005 CYS 219 CONFLICT SEQADV 8CV3 TRP A 256 UNP P43005 CYS 256 CONFLICT SEQADV 8CV3 CYS A 269 UNP P43005 LYS 269 CONFLICT SEQADV 8CV3 CYS A 441 UNP P43005 TRP 441 CONFLICT SEQRES 1 A 526 GLY PRO MET GLY LYS PRO ALA ARG LYS GLY ALA GLU TRP SEQRES 2 A 526 LYS ARG PHE LEU LYS ASN ASN TRP VAL LEU LEU SER THR SEQRES 3 A 526 VAL ALA ALA VAL VAL LEU GLY ILE THR THR GLY VAL LEU SEQRES 4 A 526 VAL ARG GLU HIS SER ASN LEU SER THR LEU GLU LYS PHE SEQRES 5 A 526 TYR PHE ALA PHE PRO GLY GLU ILE LEU MET ARG MET LEU SEQRES 6 A 526 LYS LEU ILE ILE LEU PRO LEU ILE ILE SER SER MET ILE SEQRES 7 A 526 THR GLY VAL ALA ALA LEU ASP SER ASN VAL SER GLY LYS SEQRES 8 A 526 ILE GLY LEU ARG ALA VAL VAL TYR TYR PHE ALA THR THR SEQRES 9 A 526 LEU ILE ALA VAL ILE LEU GLY ILE VAL LEU VAL VAL SER SEQRES 10 A 526 ILE LYS PRO GLY VAL THR GLN LYS VAL GLY GLU ILE ALA SEQRES 11 A 526 ARG THR GLY SER THR PRO GLU VAL SER THR VAL ASP ALA SEQRES 12 A 526 MET LEU ASP LEU ILE ARG ASN MET PHE PRO GLU ASN LEU SEQRES 13 A 526 VAL GLN ALA ALA PHE GLN GLN TYR LYS THR LYS ARG GLU SEQRES 14 A 526 GLU VAL LYS PRO PRO SER ASP PRO GLU MET THR MET THR SEQRES 15 A 526 GLU GLU SER PHE THR ALA VAL MET THR THR ALA ILE SER SEQRES 16 A 526 LYS THR LYS THR LYS GLU TYR LYS ILE VAL GLY MET TYR SEQRES 17 A 526 SER ASP GLY ILE ASN VAL LEU GLY LEU ILE VAL PHE ALA SEQRES 18 A 526 LEU VAL PHE GLY LEU VAL ILE GLY LYS MET GLY GLU LYS SEQRES 19 A 526 GLY GLN ILE LEU VAL ASP PHE PHE ASN ALA LEU SER ASP SEQRES 20 A 526 ALA THR MET LYS ILE VAL GLN ILE ILE MET TRP TYR MET SEQRES 21 A 526 PRO LEU GLY ILE LEU PHE LEU ILE ALA GLY CYS ILE ILE SEQRES 22 A 526 GLU VAL GLU ASP TRP GLU ILE PHE ARG LYS LEU GLY LEU SEQRES 23 A 526 TYR MET ALA THR VAL LEU THR GLY LEU ALA ILE HIS SER SEQRES 24 A 526 ILE VAL ILE LEU PRO LEU ILE TYR PHE ILE VAL VAL ARG SEQRES 25 A 526 LYS ASN PRO PHE ARG PHE ALA MET GLY MET ALA GLN ALA SEQRES 26 A 526 LEU LEU THR ALA LEU MET ILE SER SER SER SER ALA THR SEQRES 27 A 526 LEU PRO VAL THR PHE ARG CYS ALA GLU GLU ASN ASN GLN SEQRES 28 A 526 VAL ASP LYS ARG ILE THR ARG PHE VAL LEU PRO VAL GLY SEQRES 29 A 526 ALA THR ILE ASN MET ASP GLY THR ALA LEU TYR GLU ALA SEQRES 30 A 526 VAL ALA ALA VAL PHE ILE ALA GLN LEU ASN ASP LEU ASP SEQRES 31 A 526 LEU GLY ILE GLY GLN ILE ILE THR ILE SER ILE THR ALA SEQRES 32 A 526 THR SER ALA SER ILE GLY ALA ALA GLY VAL PRO GLN ALA SEQRES 33 A 526 GLY LEU VAL THR MET VAL ILE VAL LEU SER ALA VAL GLY SEQRES 34 A 526 LEU PRO ALA GLU ASP VAL THR LEU ILE ILE ALA VAL ASP SEQRES 35 A 526 CYS LEU LEU ASP ARG PHE ARG THR MET VAL ASN VAL LEU SEQRES 36 A 526 GLY ASP ALA PHE GLY THR GLY ILE VAL GLU LYS LEU SER SEQRES 37 A 526 LYS LYS GLU LEU GLU GLN MET ASP VAL SER SER GLU VAL SEQRES 38 A 526 ASN ILE VAL ASN PRO PHE ALA LEU GLU SER THR ILE LEU SEQRES 39 A 526 ASP ASN GLU ASP SER ASP THR LYS LYS SER TYR VAL ASN SEQRES 40 A 526 GLY GLY PHE ALA VAL ASP LYS SER ASP THR ILE SER PHE SEQRES 41 A 526 THR GLN THR SER GLN PHE HET NA A 601 1 HET NA A 602 1 HETNAM NA SODIUM ION FORMUL 2 NA 2(NA 1+) HELIX 1 AA1 ASN A 18 SER A 42 1 25 HELIX 2 AA2 SER A 45 ALA A 53 1 9 HELIX 3 AA3 ALA A 53 LEU A 82 1 30 HELIX 4 AA4 VAL A 86 LYS A 117 1 32 HELIX 5 AA5 THR A 138 ASN A 148 1 11 HELIX 6 AA6 ASN A 153 ALA A 158 1 6 HELIX 7 AA7 ASN A 211 GLY A 230 1 20 HELIX 8 AA8 GLY A 233 VAL A 273 1 41 HELIX 9 AA9 GLU A 277 LEU A 282 1 6 HELIX 10 AB1 LEU A 282 VAL A 299 1 18 HELIX 11 AB2 VAL A 299 VAL A 309 1 11 HELIX 12 AB3 ASN A 312 MET A 320 1 9 HELIX 13 AB4 MET A 320 SER A 331 1 12 HELIX 14 AB5 SER A 333 ALA A 335 5 3 HELIX 15 AB6 THR A 336 ASN A 347 1 12 HELIX 16 AB7 ASP A 351 ASN A 366 1 16 HELIX 17 AB8 MET A 367 ASN A 385 1 19 HELIX 18 AB9 GLY A 390 ALA A 404 1 15 HELIX 19 AC1 LEU A 416 GLY A 427 1 12 HELIX 20 AC2 PRO A 429 GLU A 431 5 3 HELIX 21 AC3 ASP A 432 ILE A 437 1 6 HELIX 22 AC4 VAL A 439 SER A 466 1 28 HELIX 23 AC5 SER A 466 SER A 476 1 11 SHEET 1 AA1 2 GLN A 160 GLU A 167 0 SHEET 2 AA1 2 LYS A 201 ASP A 208 -1 O LYS A 201 N GLU A 167 LINK O TYR A 98 NA NA A 602 1555 1555 2.42 LINK OG1 THR A 101 NA NA A 602 1555 1555 2.39 LINK OG1 THR A 102 NA NA A 602 1555 1555 2.41 LINK O ASN A 366 NA NA A 601 1555 1555 2.56 LINK OD1 ASN A 366 NA NA A 602 1555 1555 2.44 LINK OD1 ASP A 368 NA NA A 602 1555 1555 2.37 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