HEADER MEMBRANE PROTEIN 22-JUN-23 8JTT TITLE HOCT1 IN COMPLEX WITH METFORMIN IN OUTWARD OCCLUDED 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; COMPND 6 OTHER_DETAILS: METFORMIN 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: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS SLC, TRANSPORTER, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR S.ZHANG,A.ZHU,F.KONG,J.CHEN,B.LAN,G.HE,K.GAO,L.CHENG,C.YAN,L.CHEN, AUTHOR 2 X.LIU REVDAT 1 27-MAR-24 8JTT 0 JRNL AUTH S.ZHANG,A.ZHU,F.KONG,J.CHEN,B.LAN,G.HE,K.GAO,L.CHENG,X.SUN, JRNL AUTH 2 C.YAN,L.CHEN,X.LIU JRNL TITL STRUCTURAL INSIGHTS INTO HUMAN ORGANIC CATION TRANSPORTER 1 JRNL TITL 2 TRANSPORT AND INHIBITION. JRNL REF CELL DISCOV V. 10 30 2024 JRNL REFN ESSN 2056-5968 JRNL PMID 38485705 JRNL DOI 10.1038/S41421-024-00664-1 REMARK 2 REMARK 2 RESOLUTION. 3.87 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) : 3.870 REMARK 3 NUMBER OF PARTICLES : 96734 REMARK 3 CTF CORRECTION METHOD : NONE REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8JTT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 29-JUN-23. REMARK 100 THE DEPOSITION ID IS D_1300038867. 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 ORGANIC CATION REMARK 245 TRANSPORTER IN COMPELX WTIH REMARK 245 METFORMIN IN OUTWARD OCCLUDED REMARK 245 CONFORMATION 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 REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1100.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 1500.00 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 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 HIS A 48 REMARK 465 HIS A 49 REMARK 465 CYS A 50 REMARK 465 GLN A 51 REMARK 465 SER A 52 REMARK 465 PRO A 53 REMARK 465 GLY A 54 REMARK 465 VAL A 55 REMARK 465 ALA A 56 REMARK 465 GLU A 57 REMARK 465 LEU A 58 REMARK 465 SER A 59 REMARK 465 GLN A 60 REMARK 465 ARG A 61 REMARK 465 CYS A 62 REMARK 465 GLY A 63 REMARK 465 TRP A 64 REMARK 465 SER A 65 REMARK 465 PRO A 66 REMARK 465 ALA A 67 REMARK 465 GLU A 68 REMARK 465 GLU A 69 REMARK 465 LEU A 70 REMARK 465 ASN A 71 REMARK 465 TYR A 72 REMARK 465 THR A 73 REMARK 465 VAL A 74 REMARK 465 PRO A 75 REMARK 465 GLY A 76 REMARK 465 LEU A 77 REMARK 465 GLY A 78 REMARK 465 PRO A 79 REMARK 465 ALA A 80 REMARK 465 GLY A 81 REMARK 465 GLU A 82 REMARK 465 ALA A 83 REMARK 465 PHE A 84 REMARK 465 LEU A 85 REMARK 465 GLY A 86 REMARK 465 GLN A 87 REMARK 465 CYS A 88 REMARK 465 ARG A 89 REMARK 465 ARG A 90 REMARK 465 TYR A 91 REMARK 465 GLU A 92 REMARK 465 VAL A 93 REMARK 465 ASP A 94 REMARK 465 TRP A 95 REMARK 465 ASN A 96 REMARK 465 GLN A 97 REMARK 465 SER A 98 REMARK 465 ALA A 99 REMARK 465 LEU A 100 REMARK 465 SER A 101 REMARK 465 CYS A 102 REMARK 465 VAL A 103 REMARK 465 ASP A 104 REMARK 465 PRO A 105 REMARK 465 LEU A 106 REMARK 465 ALA A 107 REMARK 465 SER A 108 REMARK 465 LEU A 109 REMARK 465 ALA A 110 REMARK 465 THR A 111 REMARK 465 ASN A 112 REMARK 465 ARG A 113 REMARK 465 SER A 114 REMARK 465 HIS A 115 REMARK 465 LEU A 116 REMARK 465 PRO A 117 REMARK 465 LEU A 118 REMARK 465 GLY A 119 REMARK 465 PRO A 120 REMARK 465 CYS A 121 REMARK 465 GLN A 122 REMARK 465 ASP A 123 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 LEU A 8 CG CD1 CD2 REMARK 470 GLU A 9 CG CD OE1 OE2 REMARK 470 VAL A 11 CG1 CG2 REMARK 470 LYS A 19 CG CD CE NZ REMARK 470 LEU A 25 CG CD1 CD2 REMARK 470 CYS A 26 SG REMARK 470 ASP A 144 CG OD1 OD2 REMARK 470 LYS A 147 CG CD CE NZ REMARK 470 ARG A 172 CG CD NE CZ NH1 NH2 REMARK 470 MET A 200 CG SD CE REMARK 470 ARG A 233 CG CD NE CZ NH1 NH2 REMARK 470 TYR A 279 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN A 292 CG CD OE1 NE2 REMARK 470 LYS A 293 CG CD CE NZ REMARK 470 ARG A 294 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 295 CG OD1 ND2 REMARK 470 THR A 296 OG1 CG2 REMARK 470 LYS A 300 CG CD CE NZ REMARK 470 GLN A 307 CG CD OE1 NE2 REMARK 470 LYS A 308 CG CD CE NZ REMARK 470 LYS A 311 CG CD CE NZ REMARK 470 LEU A 312 CG CD1 CD2 REMARK 470 ASP A 316 CG OD1 OD2 REMARK 470 LEU A 317 CG CD1 CD2 REMARK 470 LYS A 318 CG CD CE NZ REMARK 470 MET A 319 CG SD CE REMARK 470 LEU A 320 CG CD1 CD2 REMARK 470 LEU A 322 CG CD1 CD2 REMARK 470 GLU A 323 CG CD OE1 OE2 REMARK 470 GLU A 324 CG CD OE1 OE2 REMARK 470 GLU A 328 CG CD OE1 OE2 REMARK 470 LYS A 329 CG CD CE NZ REMARK 470 PHE A 334 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A 337 CG CD1 CD2 REMARK 470 PHE A 338 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 339 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 342 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 344 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 345 CG CD CE NZ REMARK 470 ARG A 346 CG CD NE CZ NH1 NH2 REMARK 470 MET A 368 CG SD CE REMARK 470 MET A 406 CG SD CE REMARK 470 MET A 408 CG SD CE REMARK 470 MET A 420 CG SD CE REMARK 470 HIS A 428 CG ND1 CD2 CE1 NE2 REMARK 470 ILE A 433 CG1 CG2 CD1 REMARK 470 TYR A 457 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 PHE A 485 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A 487 CG CD1 CD2 REMARK 470 GLU A 489 CG CD OE1 OE2 REMARK 470 LEU A 505 CG CD1 CD2 REMARK 470 THR A 510 OG1 CG2 REMARK 470 LEU A 511 CG CD1 CD2 REMARK 470 LEU A 513 CG CD1 CD2 REMARK 470 GLU A 515 CG CD OE1 OE2 REMARK 470 MET A 525 CG SD CE REMARK 470 LYS A 526 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 SER A 331 82.48 -154.66 REMARK 500 LEU A 513 73.53 59.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-36652 RELATED DB: EMDB REMARK 900 HOCT1 IN COMPLEX WITH METFORMIN IN OUTWARD OCCLUDED CONFORMATION DBREF 8JTT A 3 532 UNP O15245 S22A1_HUMAN 3 532 SEQRES 1 A 530 THR VAL ASP ASP ILE LEU GLU GLN VAL GLY GLU SER GLY SEQRES 2 A 530 TRP PHE GLN LYS GLN ALA PHE LEU ILE LEU CYS LEU LEU SEQRES 3 A 530 SER ALA ALA PHE ALA PRO ILE CYS VAL GLY ILE VAL PHE SEQRES 4 A 530 LEU GLY PHE THR PRO ASP HIS HIS CYS GLN SER PRO GLY SEQRES 5 A 530 VAL ALA GLU LEU SER GLN ARG CYS GLY TRP SER PRO ALA SEQRES 6 A 530 GLU GLU LEU ASN TYR THR VAL PRO GLY LEU GLY PRO ALA SEQRES 7 A 530 GLY GLU ALA PHE LEU GLY GLN CYS ARG ARG TYR GLU VAL SEQRES 8 A 530 ASP TRP ASN GLN SER ALA LEU SER CYS VAL ASP PRO LEU SEQRES 9 A 530 ALA SER LEU ALA THR ASN ARG SER HIS LEU PRO LEU GLY SEQRES 10 A 530 PRO CYS GLN ASP GLY TRP VAL TYR ASP THR PRO GLY SER SEQRES 11 A 530 SER ILE VAL THR GLU PHE ASN LEU VAL CYS ALA ASP SER SEQRES 12 A 530 TRP LYS LEU ASP LEU PHE GLN SER CYS LEU ASN ALA GLY SEQRES 13 A 530 PHE LEU PHE GLY SER LEU GLY VAL GLY TYR PHE ALA ASP SEQRES 14 A 530 ARG PHE GLY ARG LYS LEU CYS LEU LEU GLY THR VAL LEU SEQRES 15 A 530 VAL ASN ALA VAL SER GLY VAL LEU MET ALA PHE SER PRO SEQRES 16 A 530 ASN TYR MET SER MET LEU LEU PHE ARG LEU LEU GLN GLY SEQRES 17 A 530 LEU VAL SER LYS GLY ASN TRP MET ALA GLY TYR THR LEU SEQRES 18 A 530 ILE THR GLU PHE VAL GLY SER GLY SER ARG ARG THR VAL SEQRES 19 A 530 ALA ILE MET TYR GLN MET ALA PHE THR VAL GLY LEU VAL SEQRES 20 A 530 ALA LEU THR GLY LEU ALA TYR ALA LEU PRO HIS TRP ARG SEQRES 21 A 530 TRP LEU GLN LEU ALA VAL SER LEU PRO THR PHE LEU PHE SEQRES 22 A 530 LEU LEU TYR TYR TRP CYS VAL PRO GLU SER PRO ARG TRP SEQRES 23 A 530 LEU LEU SER GLN LYS ARG ASN THR GLU ALA ILE LYS ILE SEQRES 24 A 530 MET ASP HIS ILE ALA GLN LYS ASN GLY LYS LEU PRO PRO SEQRES 25 A 530 ALA ASP LEU LYS MET LEU SER LEU GLU GLU ASP VAL THR SEQRES 26 A 530 GLU LYS LEU SER PRO SER PHE ALA ASP LEU PHE ARG THR SEQRES 27 A 530 PRO ARG LEU ARG LYS ARG THR PHE ILE LEU MET TYR LEU SEQRES 28 A 530 TRP PHE THR ASP SER VAL LEU TYR GLN GLY LEU ILE LEU SEQRES 29 A 530 HIS MET GLY ALA THR SER GLY ASN LEU TYR LEU ASP PHE SEQRES 30 A 530 LEU TYR SER ALA LEU VAL GLU ILE PRO GLY ALA PHE ILE SEQRES 31 A 530 ALA LEU ILE THR ILE ASP ARG VAL GLY ARG ILE TYR PRO SEQRES 32 A 530 MET ALA MET SER ASN LEU LEU ALA GLY ALA ALA CYS LEU SEQRES 33 A 530 VAL MET ILE PHE ILE SER PRO ASP LEU HIS TRP LEU ASN SEQRES 34 A 530 ILE ILE ILE MET CYS VAL GLY ARG MET GLY ILE THR ILE SEQRES 35 A 530 ALA ILE GLN MET ILE CYS LEU VAL ASN ALA GLU LEU TYR SEQRES 36 A 530 PRO THR PHE VAL ARG ASN LEU GLY VAL MET VAL CYS SER SEQRES 37 A 530 SER LEU CYS ASP ILE GLY GLY ILE ILE THR PRO PHE ILE SEQRES 38 A 530 VAL PHE ARG LEU ARG GLU VAL TRP GLN ALA LEU PRO LEU SEQRES 39 A 530 ILE LEU PHE ALA VAL LEU GLY LEU LEU ALA ALA GLY VAL SEQRES 40 A 530 THR LEU LEU LEU PRO GLU THR LYS GLY VAL ALA LEU PRO SEQRES 41 A 530 GLU THR MET LYS ASP ALA GLU ASN LEU GLY HET MF8 A 601 9 HETNAM MF8 METFORMIN HETSYN MF8 N,N-DIMETHYLIMIDODICARBONIMIDIC DIAMIDE FORMUL 2 MF8 C4 H11 N5 HELIX 1 AA1 VAL A 4 VAL A 11 1 8 HELIX 2 AA2 GLY A 15 ALA A 30 1 16 HELIX 3 AA3 PHE A 32 VAL A 37 1 6 HELIX 4 AA4 GLY A 38 LEU A 42 5 5 HELIX 5 AA5 SER A 133 PHE A 138 1 6 HELIX 6 AA6 ALA A 143 PHE A 173 1 31 HELIX 7 AA7 ARG A 175 PHE A 195 1 21 HELIX 8 AA8 ASN A 198 VAL A 228 1 31 HELIX 9 AA9 GLY A 229 GLY A 231 5 3 HELIX 10 AB1 SER A 232 ALA A 255 1 24 HELIX 11 AB2 HIS A 260 TYR A 278 1 19 HELIX 12 AB3 SER A 285 SER A 291 1 7 HELIX 13 AB4 ARG A 294 GLY A 310 1 17 HELIX 14 AB5 LEU A 320 GLU A 324 5 5 HELIX 15 AB6 PHE A 334 PHE A 338 5 5 HELIX 16 AB7 ARG A 339 HIS A 367 1 29 HELIX 17 AB8 TYR A 376 LEU A 384 1 9 HELIX 18 AB9 VAL A 385 ILE A 397 1 13 HELIX 19 AC1 ILE A 403 LEU A 418 1 16 HELIX 20 AC2 VAL A 419 PHE A 422 5 4 HELIX 21 AC3 TRP A 429 LEU A 456 1 28 HELIX 22 AC4 ARG A 462 SER A 470 1 9 HELIX 23 AC5 CYS A 473 TRP A 491 1 19 HELIX 24 AC6 GLN A 492 THR A 510 1 19 HELIX 25 AC7 THR A 524 ASN A 530 1 7 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