HEADER TRANSPORT PROTEIN 13-MAY-20 6WYJ TITLE CRYO-EM STRUCTURE OF THE GLTPH L152C-G321C MUTANT IN THE INTERMEDIATE TITLE 2 STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMATE TRANSPORTER HOMOLOG; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GLT(PH),SODIUM-ASPARTATE SYMPORTER GLT(PH),SODIUM-DEPENDENT COMPND 5 ASPARTATE TRANSPORTER; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS HORIKOSHII (STRAIN ATCC 700860 / DSM SOURCE 3 12428 / JCM 9974 / NBRC 100139 / OT-3); SOURCE 4 ORGANISM_TAXID: 70601; SOURCE 5 STRAIN: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3; SOURCE 6 GENE: PH1295; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GLUTAMATE TRANSPORTER HOMOLOG GLTPH, TRANSPORT PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR J.FONT,I.CHEN,M.SOBTI,A.G.STEWART,R.M.RYAN REVDAT 4 06-MAR-24 6WYJ 1 REMARK REVDAT 3 24-MAR-21 6WYJ 1 JRNL REVDAT 2 03-MAR-21 6WYJ 1 JRNL REVDAT 1 17-FEB-21 6WYJ 0 JRNL AUTH I.CHEN,S.PANT,Q.WU,R.J.CATER,M.SOBTI,R.J.VANDENBERG, JRNL AUTH 2 A.G.STEWART,E.TAJKHORSHID,J.FONT,R.M.RYAN JRNL TITL GLUTAMATE TRANSPORTERS HAVE A CHLORIDE CHANNEL WITH TWO JRNL TITL 2 HYDROPHOBIC GATES. JRNL REF NATURE V. 591 327 2021 JRNL REFN ESSN 1476-4687 JRNL PMID 33597752 JRNL DOI 10.1038/S41586-021-03240-9 REMARK 2 REMARK 2 RESOLUTION. 3.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : EPU, CTFFIND, RELION, RELION, RELION 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) : 3.700 REMARK 3 NUMBER OF PARTICLES : 105135 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 6WYJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1000248575. 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 : MONOMER OF GLUTAMATE REMARK 245 TRANSPORTER HOMOLOG, GLTPH, IN REMARK 245 INTERMEDIATE CONFIGURATION 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 TALOS ARCTICA REMARK 245 DETECTOR TYPE : FEI FALCON III (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : NULL REMARK 245 MAXIMUM DEFOCUS (NM) : NULL 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) : 4000.00 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) : 200 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 GLY A 2 REMARK 465 LEU A 3 REMARK 465 TYR A 4 REMARK 465 ARG A 5 REMARK 465 LEU A 115 REMARK 465 ALA A 116 REMARK 465 VAL A 117 REMARK 465 GLY A 118 REMARK 465 GLY A 119 REMARK 465 GLN A 120 REMARK 465 GLN A 121 REMARK 465 PHE A 122 REMARK 465 GLN A 123 REMARK 465 PRO A 124 REMARK 465 LYS A 125 REMARK 465 GLN A 126 REMARK 465 ALA A 127 REMARK 465 PRO A 128 REMARK 465 GLY A 417 REMARK 465 THR A 418 REMARK 465 LEU A 419 REMARK 465 VAL A 420 REMARK 465 PRO A 421 REMARK 465 ARG A 422 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 ASN A 108 63.65 60.90 REMARK 500 ILE A 137 -7.44 -58.28 REMARK 500 VAL A 151 -61.41 -94.16 REMARK 500 LYS A 223 10.99 59.11 REMARK 500 LEU A 372 73.14 -111.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ASP A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-21966 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF THE GLTPH L152C-G321C MUTANT IN THE REMARK 900 INTERMEDIATE STATE. DBREF 6WYJ A 1 417 UNP O59010 GLT_PYRHO 1 417 SEQADV 6WYJ CYS A 152 UNP O59010 LEU 152 ENGINEERED MUTATION SEQADV 6WYJ SER A 321 UNP O59010 CYS 321 ENGINEERED MUTATION SEQADV 6WYJ CYS A 351 UNP O59010 GLY 351 ENGINEERED MUTATION SEQADV 6WYJ THR A 418 UNP O59010 EXPRESSION TAG SEQADV 6WYJ LEU A 419 UNP O59010 EXPRESSION TAG SEQADV 6WYJ VAL A 420 UNP O59010 EXPRESSION TAG SEQADV 6WYJ PRO A 421 UNP O59010 EXPRESSION TAG SEQADV 6WYJ ARG A 422 UNP O59010 EXPRESSION TAG SEQRES 1 A 422 MET GLY LEU TYR ARG LYS TYR ILE GLU TYR PRO VAL LEU SEQRES 2 A 422 GLN LYS ILE LEU ILE GLY LEU ILE LEU GLY ALA ILE VAL SEQRES 3 A 422 GLY LEU ILE LEU GLY HIS TYR GLY TYR ALA ASP ALA VAL SEQRES 4 A 422 LYS THR TYR VAL LYS PRO PHE GLY ASP LEU PHE VAL ARG SEQRES 5 A 422 LEU LEU LYS MET LEU VAL MET PRO ILE VAL PHE ALA SER SEQRES 6 A 422 LEU VAL VAL GLY ALA ALA SER ILE SER PRO ALA ARG LEU SEQRES 7 A 422 GLY ARG VAL GLY VAL LYS ILE VAL VAL TYR TYR LEU LEU SEQRES 8 A 422 THR SER ALA PHE ALA VAL THR LEU GLY ILE ILE MET ALA SEQRES 9 A 422 ARG LEU PHE ASN PRO GLY ALA GLY ILE HIS LEU ALA VAL SEQRES 10 A 422 GLY GLY GLN GLN PHE GLN PRO LYS GLN ALA PRO PRO LEU SEQRES 11 A 422 VAL LYS ILE LEU LEU ASP ILE VAL PRO THR ASN PRO PHE SEQRES 12 A 422 GLY ALA LEU ALA ASN GLY GLN VAL CYS PRO THR ILE PHE SEQRES 13 A 422 PHE ALA ILE ILE LEU GLY ILE ALA ILE THR TYR LEU MET SEQRES 14 A 422 ASN SER GLU ASN GLU LYS VAL ARG LYS SER ALA GLU THR SEQRES 15 A 422 LEU LEU ASP ALA ILE ASN GLY LEU ALA GLU ALA MET TYR SEQRES 16 A 422 LYS ILE VAL ASN GLY VAL MET GLN TYR ALA PRO ILE GLY SEQRES 17 A 422 VAL PHE ALA LEU ILE ALA TYR VAL MET ALA GLU GLN GLY SEQRES 18 A 422 VAL LYS VAL VAL GLY GLU LEU ALA LYS VAL THR ALA ALA SEQRES 19 A 422 VAL TYR VAL GLY LEU THR LEU GLN ILE LEU LEU VAL TYR SEQRES 20 A 422 PHE VAL LEU LEU LYS ILE TYR GLY ILE ASP PRO ILE SER SEQRES 21 A 422 PHE ILE LYS LYS ALA LYS ASP ALA MET LEU THR ALA PHE SEQRES 22 A 422 VAL THR ARG SER SER SER GLY THR LEU PRO VAL THR MET SEQRES 23 A 422 ARG VAL ALA LYS GLU MET GLY ILE SER GLU GLY ILE TYR SEQRES 24 A 422 SER PHE THR LEU PRO LEU GLY ALA THR ILE ASN MET ASP SEQRES 25 A 422 GLY THR ALA LEU TYR GLN GLY VAL SER THR PHE PHE ILE SEQRES 26 A 422 ALA ASN ALA LEU GLY SER HIS LEU THR VAL GLY GLN GLN SEQRES 27 A 422 LEU THR ILE VAL LEU THR ALA VAL LEU ALA SER ILE CYS SEQRES 28 A 422 THR ALA GLY VAL PRO GLY ALA GLY ALA ILE MET LEU ALA SEQRES 29 A 422 MET VAL LEU GLU SER VAL GLY LEU PRO LEU THR ASP PRO SEQRES 30 A 422 ASN VAL ALA ALA ALA TYR ALA MET ILE LEU GLY ILE ASP SEQRES 31 A 422 ALA ILE LEU ASP MET GLY ARG THR MET VAL ASN VAL THR SEQRES 32 A 422 GLY ASP LEU THR GLY THR ALA ILE VAL ALA LYS THR GLU SEQRES 33 A 422 GLY THR LEU VAL PRO ARG HET ASP A 501 9 HETNAM ASP ASPARTIC ACID FORMUL 2 ASP C4 H7 N O4 HELIX 1 AA1 PRO A 11 TYR A 33 1 23 HELIX 2 AA2 ALA A 38 VAL A 43 1 6 HELIX 3 AA3 LYS A 44 ILE A 73 1 30 HELIX 4 AA4 SER A 74 ASN A 108 1 35 HELIX 5 AA5 LEU A 130 ILE A 137 1 8 HELIX 6 AA6 ASN A 141 GLY A 149 1 9 HELIX 7 AA7 VAL A 151 ASN A 170 1 20 HELIX 8 AA8 ASN A 173 ALA A 218 1 46 HELIX 9 AA9 VAL A 225 GLY A 255 1 31 HELIX 10 AB1 ASP A 257 ARG A 276 1 20 HELIX 11 AB2 THR A 281 MET A 292 1 12 HELIX 12 AB3 SER A 295 ASN A 310 1 16 HELIX 13 AB4 MET A 311 GLY A 330 1 20 HELIX 14 AB5 THR A 334 THR A 352 1 19 HELIX 15 AB6 GLY A 357 GLY A 371 1 15 HELIX 16 AB7 ASP A 376 GLU A 416 1 41 SITE 1 AC1 9 SER A 277 SER A 278 MET A 311 GLY A 354 SITE 2 AC1 9 VAL A 355 PRO A 356 ASP A 394 ARG A 397 SITE 3 AC1 9 THR A 398 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