HEADER MEMBRANE PROTEIN 19-AUG-23 8KGW TITLE MOLECULAR MECHANISM OF PROSTAGLANDIN TRANSPORTER SLCO2A1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SOLUTE CARRIER ORGANIC ANION TRANSPORTER FAMILY MEMBER 2A1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SLCO2A1,OATP2A1,PHOAR2,PROSTAGLANDIN TRANSPORTER,PGT,SOLUTE COMPND 5 CARRIER FAMILY 21 MEMBER 2,SLC21A2; 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: SLCO2A1, OATP2A1, SLC21A2; SOURCE 6 EXPRESSION_SYSTEM: MAMMALIAN EXPRESSION VECTOR EGFP-MCS-PCDNA3.1; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 2021194 KEYWDS SLCO FAMILY, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR Y.H.LI,Q.H.QU,Z.N.ZHU,Y.L.CHAO,Z.X.ZHOU REVDAT 1 04-SEP-24 8KGW 0 JRNL AUTH Y.H.LI,Q.H.QU JRNL TITL MOLECULAR MECHANISM OF PROSTAGLANDIN TRANSPORTER SLCO2A1 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL 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) : 3.400 REMARK 3 NUMBER OF PARTICLES : 139502 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 8KGW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 25-AUG-23. REMARK 100 THE DEPOSITION ID IS D_1300037215. 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 SAMPLE 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 : 7.30 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) : 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 : 2.70 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 GLY A 2 REMARK 465 LEU A 3 REMARK 465 LEU A 4 REMARK 465 PRO A 5 REMARK 465 LYS A 6 REMARK 465 LEU A 7 REMARK 465 GLY A 8 REMARK 465 ALA A 9 REMARK 465 SER A 10 REMARK 465 GLN A 11 REMARK 465 GLY A 12 REMARK 465 SER A 13 REMARK 465 ASP A 14 REMARK 465 THR A 15 REMARK 465 SER A 16 REMARK 465 THR A 17 REMARK 465 SER A 18 REMARK 465 ARG A 19 REMARK 465 ALA A 20 REMARK 465 GLY A 21 REMARK 465 ARG A 22 REMARK 465 CYS A 23 REMARK 465 TYR A 127 REMARK 465 THR A 128 REMARK 465 LEU A 129 REMARK 465 ALA A 130 REMARK 465 SER A 131 REMARK 465 THR A 132 REMARK 465 GLY A 133 REMARK 465 ASN A 134 REMARK 465 ASN A 135 REMARK 465 SER A 136 REMARK 465 ARG A 137 REMARK 465 LEU A 138 REMARK 465 GLN A 139 REMARK 465 ALA A 140 REMARK 465 GLU A 141 REMARK 465 LEU A 142 REMARK 465 CYS A 143 REMARK 465 GLN A 144 REMARK 465 LYS A 145 REMARK 465 HIS A 146 REMARK 465 TRP A 147 REMARK 465 GLN A 148 REMARK 465 ASP A 149 REMARK 465 LEU A 150 REMARK 465 PRO A 151 REMARK 465 PRO A 152 REMARK 465 SER A 153 REMARK 465 LYS A 154 REMARK 465 CYS A 155 REMARK 465 HIS A 156 REMARK 465 SER A 157 REMARK 465 THR A 158 REMARK 465 THR A 159 REMARK 465 GLN A 160 REMARK 465 ASN A 161 REMARK 465 PRO A 162 REMARK 465 GLN A 163 REMARK 465 LYS A 164 REMARK 465 GLU A 165 REMARK 465 THR A 166 REMARK 465 SER A 167 REMARK 465 GLY A 285 REMARK 465 ALA A 286 REMARK 465 LYS A 287 REMARK 465 ARG A 288 REMARK 465 ALA A 289 REMARK 465 PRO A 290 REMARK 465 ALA A 291 REMARK 465 THR A 292 REMARK 465 ALA A 293 REMARK 465 ASP A 294 REMARK 465 GLU A 295 REMARK 465 ALA A 296 REMARK 465 ARG A 297 REMARK 465 LYS A 298 REMARK 465 LEU A 299 REMARK 465 GLU A 300 REMARK 465 GLU A 301 REMARK 465 ALA A 302 REMARK 465 LYS A 303 REMARK 465 SER A 304 REMARK 465 ARG A 305 REMARK 465 PRO A 431 REMARK 465 SER A 432 REMARK 465 THR A 433 REMARK 465 SER A 434 REMARK 465 SER A 435 REMARK 465 SER A 436 REMARK 465 ILE A 437 REMARK 465 HIS A 438 REMARK 465 PRO A 439 REMARK 465 GLN A 440 REMARK 465 SER A 441 REMARK 465 PRO A 442 REMARK 465 LYS A 630 REMARK 465 ASN A 631 REMARK 465 LYS A 632 REMARK 465 GLU A 633 REMARK 465 TYR A 634 REMARK 465 ASN A 635 REMARK 465 VAL A 636 REMARK 465 GLN A 637 REMARK 465 LYS A 638 REMARK 465 ALA A 639 REMARK 465 ALA A 640 REMARK 465 GLY A 641 REMARK 465 LEU A 642 REMARK 465 ILE A 643 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 TYR A 125 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN A 126 CG CD OE1 NE2 REMARK 470 ARG A 238 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 239 CG1 CG2 REMARK 470 ASN A 240 CG OD1 ND2 REMARK 470 ILE A 284 CG1 CG2 CD1 REMARK 470 LYS A 313 CG CD CE NZ REMARK 470 ARG A 446 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 447 CG OD1 OD2 REMARK 470 SER A 481 OG REMARK 470 THR A 483 OG1 CG2 REMARK 470 SER A 484 OG REMARK 470 LYS A 485 CG CD CE NZ REMARK 470 GLN A 486 CG CD OE1 NE2 REMARK 470 LYS A 503 CG CD CE NZ REMARK 470 HIS A 578 CG ND1 CD2 CE1 NE2 REMARK 470 SER A 585 OG REMARK 470 LEU A 586 CG CD1 CD2 REMARK 470 CYS A 587 SG REMARK 470 LEU A 588 CG CD1 CD2 REMARK 470 ARG A 590 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 629 CG CD CE NZ 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 240 66.43 60.57 REMARK 500 ARG A 314 49.24 -88.72 REMARK 500 PHE A 392 -179.36 60.81 REMARK 500 GLU A 427 41.53 39.66 REMARK 500 ALA A 564 -62.52 -95.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-37234 RELATED DB: EMDB REMARK 900 MOLECULAR MECHANISM OF PROSTAGLANDIN TRANSPORTER SLCO2A1 DBREF 8KGW A 1 643 UNP Q92959 SO2A1_HUMAN 1 643 SEQRES 1 A 643 MET GLY LEU LEU PRO LYS LEU GLY ALA SER GLN GLY SER SEQRES 2 A 643 ASP THR SER THR SER ARG ALA GLY ARG CYS ALA ARG SER SEQRES 3 A 643 VAL PHE GLY ASN ILE LYS VAL PHE VAL LEU CYS GLN GLY SEQRES 4 A 643 LEU LEU GLN LEU CYS GLN LEU LEU TYR SER ALA TYR PHE SEQRES 5 A 643 LYS SER SER LEU THR THR ILE GLU LYS ARG PHE GLY LEU SEQRES 6 A 643 SER SER SER SER SER GLY LEU ILE SER SER LEU ASN GLU SEQRES 7 A 643 ILE SER ASN ALA ILE LEU ILE ILE PHE VAL SER TYR PHE SEQRES 8 A 643 GLY SER ARG VAL HIS ARG PRO ARG LEU ILE GLY ILE GLY SEQRES 9 A 643 GLY LEU PHE LEU ALA ALA GLY ALA PHE ILE LEU THR LEU SEQRES 10 A 643 PRO HIS PHE LEU SER GLU PRO TYR GLN TYR THR LEU ALA SEQRES 11 A 643 SER THR GLY ASN ASN SER ARG LEU GLN ALA GLU LEU CYS SEQRES 12 A 643 GLN LYS HIS TRP GLN ASP LEU PRO PRO SER LYS CYS HIS SEQRES 13 A 643 SER THR THR GLN ASN PRO GLN LYS GLU THR SER SER MET SEQRES 14 A 643 TRP GLY LEU MET VAL VAL ALA GLN LEU LEU ALA GLY ILE SEQRES 15 A 643 GLY THR VAL PRO ILE GLN PRO PHE GLY ILE SER TYR VAL SEQRES 16 A 643 ASP ASP PHE SER GLU PRO SER ASN SER PRO LEU TYR ILE SEQRES 17 A 643 SER ILE LEU PHE ALA ILE SER VAL PHE GLY PRO ALA PHE SEQRES 18 A 643 GLY TYR LEU LEU GLY SER VAL MET LEU GLN ILE PHE VAL SEQRES 19 A 643 ASP TYR GLY ARG VAL ASN THR ALA ALA VAL ASN LEU VAL SEQRES 20 A 643 PRO GLY ASP PRO ARG TRP ILE GLY ALA TRP TRP LEU GLY SEQRES 21 A 643 LEU LEU ILE SER SER ALA LEU LEU VAL LEU THR SER PHE SEQRES 22 A 643 PRO PHE PHE PHE PHE PRO ARG ALA MET PRO ILE GLY ALA SEQRES 23 A 643 LYS ARG ALA PRO ALA THR ALA ASP GLU ALA ARG LYS LEU SEQRES 24 A 643 GLU GLU ALA LYS SER ARG GLY SER LEU VAL ASP PHE ILE SEQRES 25 A 643 LYS ARG PHE PRO CYS ILE PHE LEU ARG LEU LEU MET ASN SEQRES 26 A 643 SER LEU PHE VAL LEU VAL VAL LEU ALA GLN CYS THR PHE SEQRES 27 A 643 SER SER VAL ILE ALA GLY LEU SER THR PHE LEU ASN LYS SEQRES 28 A 643 PHE LEU GLU LYS GLN TYR GLY THR SER ALA ALA TYR ALA SEQRES 29 A 643 ASN PHE LEU ILE GLY ALA VAL ASN LEU PRO ALA ALA ALA SEQRES 30 A 643 LEU GLY MET LEU PHE GLY GLY ILE LEU MET LYS ARG PHE SEQRES 31 A 643 VAL PHE SER LEU GLN ALA ILE PRO ARG ILE ALA THR THR SEQRES 32 A 643 ILE ILE THR ILE SER MET ILE LEU CYS VAL PRO LEU PHE SEQRES 33 A 643 PHE MET GLY CYS SER THR PRO THR VAL ALA GLU VAL TYR SEQRES 34 A 643 PRO PRO SER THR SER SER SER ILE HIS PRO GLN SER PRO SEQRES 35 A 643 ALA CYS ARG ARG ASP CYS SER CYS PRO ASP SER ILE PHE SEQRES 36 A 643 HIS PRO VAL CYS GLY ASP ASN GLY ILE GLU TYR LEU SER SEQRES 37 A 643 PRO CYS HIS ALA GLY CYS SER ASN ILE ASN MET SER SER SEQRES 38 A 643 ALA THR SER LYS GLN LEU ILE TYR LEU ASN CYS SER CYS SEQRES 39 A 643 VAL THR GLY GLY SER ALA SER ALA LYS THR GLY SER CYS SEQRES 40 A 643 PRO VAL PRO CYS ALA HIS PHE LEU LEU PRO ALA ILE PHE SEQRES 41 A 643 LEU ILE SER PHE VAL SER LEU ILE ALA CYS ILE SER HIS SEQRES 42 A 643 ASN PRO LEU TYR MET MET VAL LEU ARG VAL VAL ASN GLN SEQRES 43 A 643 GLU GLU LYS SER PHE ALA ILE GLY VAL GLN PHE LEU LEU SEQRES 44 A 643 MET ARG LEU LEU ALA TRP LEU PRO SER PRO ALA LEU TYR SEQRES 45 A 643 GLY LEU THR ILE ASP HIS SER CYS ILE ARG TRP ASN SER SEQRES 46 A 643 LEU CYS LEU GLY ARG ARG GLY ALA CYS ALA TYR TYR ASP SEQRES 47 A 643 ASN ASP ALA LEU ARG ASP ARG TYR LEU GLY LEU GLN MET SEQRES 48 A 643 GLY TYR LYS ALA LEU GLY MET LEU LEU LEU CYS PHE ILE SEQRES 49 A 643 SER TRP ARG VAL LYS LYS ASN LYS GLU TYR ASN VAL GLN SEQRES 50 A 643 LYS ALA ALA GLY LEU ILE HET P2E A 701 25 HETNAM P2E (Z)-7-[(1R,2R,3R)-3-HYDROXY-2-[(E,3S)-3-HYDROXYOCT-1- HETNAM 2 P2E ENYL]-5-OXO-CYCLOPENTYL]HEPT-5-ENOIC ACID HETSYN P2E PROSTAGLANDIN E2 FORMUL 2 P2E C20 H32 O5 HELIX 1 AA1 ASN A 30 GLY A 64 1 35 HELIX 2 AA2 SER A 66 PHE A 91 1 26 HELIX 3 AA3 HIS A 96 LEU A 117 1 22 HELIX 4 AA4 LEU A 117 SER A 122 1 6 HELIX 5 AA5 MET A 169 THR A 184 1 16 HELIX 6 AA6 PRO A 186 PHE A 198 1 13 HELIX 7 AA7 ASN A 203 SER A 215 1 13 HELIX 8 AA8 PHE A 217 LEU A 230 1 14 HELIX 9 AA9 ALA A 256 PHE A 273 1 18 HELIX 10 AB1 PRO A 274 PHE A 278 5 5 HELIX 11 AB2 SER A 307 ILE A 312 1 6 HELIX 12 AB3 ARG A 314 MET A 324 1 11 HELIX 13 AB4 ASN A 325 LEU A 333 1 9 HELIX 14 AB5 PHE A 338 SER A 346 1 9 HELIX 15 AB6 PHE A 348 TYR A 357 1 10 HELIX 16 AB7 SER A 360 PHE A 390 1 31 HELIX 17 AB8 ALA A 396 LEU A 411 1 16 HELIX 18 AB9 PRO A 414 GLY A 419 1 6 HELIX 19 AC1 SER A 468 GLY A 473 1 6 HELIX 20 AC2 CYS A 511 LEU A 515 5 5 HELIX 21 AC3 LEU A 521 CYS A 530 1 10 HELIX 22 AC4 HIS A 533 VAL A 544 1 12 HELIX 23 AC5 ASN A 545 GLU A 547 5 3 HELIX 24 AC6 GLU A 548 ALA A 564 1 17 HELIX 25 AC7 PRO A 567 SER A 579 1 13 HELIX 26 AC8 ASP A 598 LYS A 629 1 32 SHEET 1 AA1 2 VAL A 458 CYS A 459 0 SHEET 2 AA1 2 GLU A 465 TYR A 466 -1 O TYR A 466 N VAL A 458 SHEET 1 AA2 2 TYR A 489 LEU A 490 0 SHEET 2 AA2 2 SER A 501 ALA A 502 -1 O ALA A 502 N TYR A 489 SHEET 1 AA3 2 ARG A 582 SER A 585 0 SHEET 2 AA3 2 ARG A 591 TYR A 596 -1 O GLY A 592 N ASN A 584 SSBOND 1 CYS A 420 CYS A 511 1555 1555 2.03 SSBOND 2 CYS A 444 CYS A 494 1555 1555 2.03 SSBOND 3 CYS A 450 CYS A 470 1555 1555 2.03 SSBOND 4 CYS A 459 CYS A 507 1555 1555 2.03 SSBOND 5 CYS A 474 CYS A 492 1555 1555 2.02 SSBOND 6 CYS A 580 CYS A 594 1555 1555 2.03 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