HEADER TRANSPORT PROTEIN 04-APR-23 8SC2 TITLE HUMAN OCT1 BOUND TO DILTIAZEM IN INWARD-OPEN CONFORMATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SOLUTE CARRIER FAMILY 22 MEMBER 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ORGANIC CATION TRANSPORTER 1,HOCT1; 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: SLC22A1, OCT1; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS MEMBRANE PROTEIN, MFS, DRUG TRANSPORTER, TRANSPORT PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR Y.C.ZENG,M.SOBTI,A.G.STEWART REVDAT 3 23-OCT-24 8SC2 1 REMARK REVDAT 2 25-OCT-23 8SC2 1 JRNL REVDAT 1 18-OCT-23 8SC2 0 JRNL AUTH Y.C.ZENG,M.SOBTI,A.QUINN,N.J.SMITH,S.H.J.BROWN, JRNL AUTH 2 J.I.VANDENBERG,R.M.RYAN,M.L.O'MARA,A.G.STEWART JRNL TITL STRUCTURAL BASIS OF PROMISCUOUS SUBSTRATE TRANSPORT BY JRNL TITL 2 ORGANIC CATION TRANSPORTER 1. JRNL REF NAT COMMUN V. 14 6374 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 37821493 JRNL DOI 10.1038/S41467-023-42086-9 REMARK 2 REMARK 2 RESOLUTION. 3.36 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) : 3.360 REMARK 3 NUMBER OF PARTICLES : 134567 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING ONLY REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8SC2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-APR-23. REMARK 100 THE DEPOSITION ID IS D_1000273407. 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 OCT1 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 : 8.00 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 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 500.00 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) : 8800.00 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 TRP A 288 REMARK 465 LEU A 289 REMARK 465 LEU A 290 REMARK 465 SER A 291 REMARK 465 GLN A 292 REMARK 465 LYS A 293 REMARK 465 ARG A 294 REMARK 465 ASN A 295 REMARK 465 THR A 296 REMARK 465 GLU A 297 REMARK 465 ALA A 298 REMARK 465 ILE A 299 REMARK 465 LYS A 300 REMARK 465 ILE A 301 REMARK 465 MET A 302 REMARK 465 ASP A 303 REMARK 465 HIS A 304 REMARK 465 ILE A 305 REMARK 465 ALA A 306 REMARK 465 GLN A 307 REMARK 465 LYS A 308 REMARK 465 ASN A 309 REMARK 465 GLY A 310 REMARK 465 LYS A 311 REMARK 465 LEU A 312 REMARK 465 PRO A 313 REMARK 465 PRO A 314 REMARK 465 ALA A 315 REMARK 465 ASP A 316 REMARK 465 LEU A 317 REMARK 465 LYS A 318 REMARK 465 MET A 319 REMARK 465 LEU A 320 REMARK 465 SER A 321 REMARK 465 LEU A 322 REMARK 465 GLU A 323 REMARK 465 GLU A 324 REMARK 465 ASP A 325 REMARK 465 VAL A 326 REMARK 465 THR A 327 REMARK 465 GLU A 328 REMARK 465 LYS A 329 REMARK 465 LEU A 330 REMARK 465 GLU A 515 REMARK 465 THR A 516 REMARK 465 LYS A 517 REMARK 465 GLY A 518 REMARK 465 VAL A 519 REMARK 465 ALA A 520 REMARK 465 LEU A 521 REMARK 465 PRO A 522 REMARK 465 GLU A 523 REMARK 465 THR A 524 REMARK 465 MET A 525 REMARK 465 LYS A 526 REMARK 465 ASP A 527 REMARK 465 ALA A 528 REMARK 465 GLU A 529 REMARK 465 ASN A 530 REMARK 465 LEU A 531 REMARK 465 GLY A 532 REMARK 465 ARG A 533 REMARK 465 LYS A 534 REMARK 465 ALA A 535 REMARK 465 LYS A 536 REMARK 465 PRO A 537 REMARK 465 LYS A 538 REMARK 465 GLU A 539 REMARK 465 ASN A 540 REMARK 465 THR A 541 REMARK 465 ILE A 542 REMARK 465 TYR A 543 REMARK 465 LEU A 544 REMARK 465 LYS A 545 REMARK 465 VAL A 546 REMARK 465 GLN A 547 REMARK 465 THR A 548 REMARK 465 SER A 549 REMARK 465 GLU A 550 REMARK 465 PRO A 551 REMARK 465 SER A 552 REMARK 465 GLY A 553 REMARK 465 THR A 554 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 CYS A 142 -110.24 56.28 REMARK 500 TRP A 280 -61.17 -92.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-40335 RELATED DB: EMDB REMARK 900 HUMAN OCT1 BOUND TO DILTIAZEM IN INWARD-OPEN CONFORMATION DBREF 8SC2 A 19 554 UNP O15245 S22A1_HUMAN 19 554 SEQRES 1 A 536 LYS GLN ALA PHE LEU ILE LEU CYS LEU LEU SER ALA ALA SEQRES 2 A 536 PHE ALA PRO ILE CYS VAL GLY ILE VAL PHE LEU GLY PHE SEQRES 3 A 536 THR PRO ASP HIS HIS CYS GLN SER PRO GLY VAL ALA GLU SEQRES 4 A 536 LEU SER GLN ARG CYS GLY TRP SER PRO ALA GLU GLU LEU SEQRES 5 A 536 ASN TYR THR VAL PRO GLY LEU GLY PRO ALA GLY GLU ALA SEQRES 6 A 536 PHE LEU GLY GLN CYS ARG ARG TYR GLU VAL ASP TRP ASN SEQRES 7 A 536 GLN SER ALA LEU SER CYS VAL ASP PRO LEU ALA SER LEU SEQRES 8 A 536 ALA THR ASN ARG SER HIS LEU PRO LEU GLY PRO CYS GLN SEQRES 9 A 536 ASP GLY TRP VAL TYR ASP THR PRO GLY SER SER ILE VAL SEQRES 10 A 536 THR GLU PHE ASN LEU VAL CYS ALA ASP SER TRP LYS LEU SEQRES 11 A 536 ASP LEU PHE GLN SER CYS LEU ASN ALA GLY PHE LEU PHE SEQRES 12 A 536 GLY SER LEU GLY VAL GLY TYR PHE ALA ASP ARG PHE GLY SEQRES 13 A 536 ARG LYS LEU CYS LEU LEU GLY THR VAL LEU VAL ASN ALA SEQRES 14 A 536 VAL SER GLY VAL LEU MET ALA PHE SER PRO ASN TYR MET SEQRES 15 A 536 SER MET LEU LEU PHE ARG LEU LEU GLN GLY LEU VAL SER SEQRES 16 A 536 LYS GLY ASN TRP MET ALA GLY TYR THR LEU ILE THR GLU SEQRES 17 A 536 PHE VAL GLY SER GLY SER ARG ARG THR VAL ALA ILE MET SEQRES 18 A 536 TYR GLN MET ALA PHE THR VAL GLY LEU VAL ALA LEU THR SEQRES 19 A 536 GLY LEU ALA TYR ALA LEU PRO HIS TRP ARG TRP LEU GLN SEQRES 20 A 536 LEU ALA VAL SER LEU PRO THR PHE LEU PHE LEU LEU TYR SEQRES 21 A 536 TYR TRP CYS VAL PRO GLU SER PRO ARG TRP LEU LEU SER SEQRES 22 A 536 GLN LYS ARG ASN THR GLU ALA ILE LYS ILE MET ASP HIS SEQRES 23 A 536 ILE ALA GLN LYS ASN GLY LYS LEU PRO PRO ALA ASP LEU SEQRES 24 A 536 LYS MET LEU SER LEU GLU GLU ASP VAL THR GLU LYS LEU SEQRES 25 A 536 SER PRO SER PHE ALA ASP LEU PHE ARG THR PRO ARG LEU SEQRES 26 A 536 ARG LYS ARG THR PHE ILE LEU MET TYR LEU TRP PHE THR SEQRES 27 A 536 ASP SER VAL LEU TYR GLN GLY LEU ILE LEU HIS MET GLY SEQRES 28 A 536 ALA THR SER GLY ASN LEU TYR LEU ASP PHE LEU TYR SER SEQRES 29 A 536 ALA LEU VAL GLU ILE PRO GLY ALA PHE ILE ALA LEU ILE SEQRES 30 A 536 THR ILE ASP ARG VAL GLY ARG ILE TYR PRO MET ALA MET SEQRES 31 A 536 SER ASN LEU LEU ALA GLY ALA ALA CYS LEU VAL MET ILE SEQRES 32 A 536 PHE ILE SER PRO ASP LEU HIS TRP LEU ASN ILE ILE ILE SEQRES 33 A 536 MET CYS VAL GLY ARG MET GLY ILE THR ILE ALA ILE GLN SEQRES 34 A 536 MET ILE CYS LEU VAL ASN ALA GLU LEU TYR PRO THR PHE SEQRES 35 A 536 VAL ARG ASN LEU GLY VAL MET VAL CYS SER SER LEU CYS SEQRES 36 A 536 ASP ILE GLY GLY ILE ILE THR PRO PHE ILE VAL PHE ARG SEQRES 37 A 536 LEU ARG GLU VAL TRP GLN ALA LEU PRO LEU ILE LEU PHE SEQRES 38 A 536 ALA VAL LEU GLY LEU LEU ALA ALA GLY VAL THR LEU LEU SEQRES 39 A 536 LEU PRO GLU THR LYS GLY VAL ALA LEU PRO GLU THR MET SEQRES 40 A 536 LYS ASP ALA GLU ASN LEU GLY ARG LYS ALA LYS PRO LYS SEQRES 41 A 536 GLU ASN THR ILE TYR LEU LYS VAL GLN THR SER GLU PRO SEQRES 42 A 536 SER GLY THR HET C9F A 601 29 HETNAM C9F DILTIAZEM FORMUL 2 C9F C22 H26 N2 O4 S HELIX 1 AA1 GLN A 20 ALA A 31 1 12 HELIX 2 AA2 PHE A 32 GLY A 38 1 7 HELIX 3 AA3 GLY A 38 GLY A 43 1 6 HELIX 4 AA4 GLY A 54 GLY A 63 1 10 HELIX 5 AA5 SER A 65 THR A 73 1 9 HELIX 6 AA6 ALA A 83 CYS A 88 1 6 HELIX 7 AA7 PRO A 105 LEU A 109 5 5 HELIX 8 AA8 ASN A 112 LEU A 116 5 5 HELIX 9 AA9 SER A 133 ASN A 139 1 7 HELIX 10 AB1 VAL A 141 SER A 145 5 5 HELIX 11 AB2 TRP A 146 PHE A 173 1 28 HELIX 12 AB3 GLY A 174 ALA A 194 1 21 HELIX 13 AB4 ASN A 198 VAL A 228 1 31 HELIX 14 AB5 GLY A 229 GLY A 231 5 3 HELIX 15 AB6 SER A 232 LEU A 258 1 27 HELIX 16 AB7 HIS A 260 TYR A 279 1 20 HELIX 17 AB8 ALA A 335 THR A 340 1 6 HELIX 18 AB9 THR A 340 SER A 372 1 33 HELIX 19 AC1 ASN A 374 VAL A 385 1 12 HELIX 20 AC2 VAL A 385 GLY A 401 1 17 HELIX 21 AC3 ARG A 402 MET A 420 1 19 HELIX 22 AC4 LEU A 427 TYR A 457 1 31 HELIX 23 AC5 VAL A 461 TRP A 491 1 31 HELIX 24 AC6 ALA A 493 THR A 510 1 18 HELIX 25 AC7 LEU A 511 LEU A 513 5 3 SHEET 1 AA1 2 HIS A 48 CYS A 50 0 SHEET 2 AA1 2 TRP A 125 TYR A 127 -1 O VAL A 126 N HIS A 49 SHEET 1 AA2 2 ARG A 90 TYR A 91 0 SHEET 2 AA2 2 LEU A 118 GLY A 119 -1 O GLY A 119 N ARG A 90 SSBOND 1 CYS A 50 CYS A 121 1555 1555 2.03 SSBOND 2 CYS A 62 CYS A 102 1555 1555 2.03 SSBOND 3 CYS A 88 CYS A 142 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