HEADER LIPID BINDING PROTEIN 09-FEB-26 10UP TITLE STRUCTURE OF HUMAN TM6SF1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSMEMBRANE 6 SUPERFAMILY MEMBER 1; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 GENE: TM6SF1; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS CHOLESTEROL, MTORC1 ACTIVITY, LIPID BINDING PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR S.HONG,X.LI REVDAT 1 09-SEP-26 10UP 0 JRNL AUTH S.HONG,X.LI JRNL TITL STRUCTURE OF HUMAN TM6SF1 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.86 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION, PHENIX, CRYOSPARC 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) : 2.860 REMARK 3 NUMBER OF PARTICLES : 123524 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 10UP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-FEB-26. REMARK 100 THE DEPOSITION ID IS D_1000304995. 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 : TM6SF1 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 10.00 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 : TFS KRIOS REMARK 245 DETECTOR TYPE : FEI FALCON IV (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 800.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 1800.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : DIFFRACTION REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 6000.00 REMARK 245 ILLUMINATION MODE : OTHER 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 LYS A 364 REMARK 465 ALA A 365 REMARK 465 GLU A 366 REMARK 465 GLU A 367 REMARK 465 LYS A 368 REMARK 465 VAL A 369 REMARK 465 GLU A 370 REMARK 465 LYS B 364 REMARK 465 ALA B 365 REMARK 465 GLU B 366 REMARK 465 GLU B 367 REMARK 465 LYS B 368 REMARK 465 VAL B 369 REMARK 465 GLU B 370 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD2 ASP A 85 HH TYR A 113 1.57 REMARK 500 O MET A 1 HG SER A 4 1.59 REMARK 500 HD21 ASN B 77 OD2 ASP B 115 1.60 REMARK 500 REMARK 500 REMARK: NULL 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 GLN A 29 38.40 -140.55 REMARK 500 ALA A 261 99.65 -67.44 REMARK 500 ALA A 262 7.40 -68.18 REMARK 500 LYS B 57 82.07 -156.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-75471 RELATED DB: EMDB REMARK 900 STRUCTURE OF HUMAN TM6SF1 DBREF 10UP A 1 370 UNP Q9BZW5 TM6S1_HUMAN 1 370 DBREF 10UP B 1 370 UNP Q9BZW5 TM6S1_HUMAN 1 370 SEQRES 1 A 370 MET SER ALA SER ALA ALA THR GLY VAL PHE VAL LEU SER SEQRES 2 A 370 LEU SER ALA ILE PRO VAL THR TYR VAL PHE ASN HIS LEU SEQRES 3 A 370 ALA ALA GLN HIS ASP SER TRP THR ILE VAL GLY VAL ALA SEQRES 4 A 370 ALA LEU ILE LEU PHE LEU VAL ALA LEU LEU ALA ARG VAL SEQRES 5 A 370 LEU VAL LYS ARG LYS PRO PRO ARG ASP PRO LEU PHE TYR SEQRES 6 A 370 VAL TYR ALA VAL PHE GLY PHE THR SER VAL VAL ASN LEU SEQRES 7 A 370 ILE ILE GLY LEU GLU GLN ASP GLY ILE ILE ASP GLY PHE SEQRES 8 A 370 MET THR HIS TYR LEU ARG GLU GLY GLU PRO TYR LEU ASN SEQRES 9 A 370 THR ALA TYR GLY HIS MET ILE CYS TYR TRP ASP GLY SER SEQRES 10 A 370 ALA HIS TYR LEU MET TYR LEU VAL MET VAL ALA ALA ILE SEQRES 11 A 370 ALA TRP GLU GLU THR TYR ARG THR ILE GLY LEU TYR TRP SEQRES 12 A 370 VAL GLY SER ILE ILE MET SER VAL VAL VAL PHE VAL PRO SEQRES 13 A 370 GLY ASN ILE VAL GLY LYS TYR GLY THR ARG ILE CYS PRO SEQRES 14 A 370 ALA PHE PHE LEU SER ILE PRO TYR THR CYS LEU PRO VAL SEQRES 15 A 370 TRP ALA GLY PHE ARG ILE TYR ASN GLN PRO SER GLU ASN SEQRES 16 A 370 TYR ASN TYR PRO SER LYS VAL ILE GLN GLU ALA GLN ALA SEQRES 17 A 370 LYS ASP LEU LEU ARG ARG PRO PHE ASP LEU MET LEU VAL SEQRES 18 A 370 VAL CYS LEU LEU LEU ALA THR GLY PHE CYS LEU PHE ARG SEQRES 19 A 370 GLY LEU ILE ALA LEU ASP CYS PRO SER GLU LEU CYS ARG SEQRES 20 A 370 LEU TYR THR GLN PHE GLN GLU PRO TYR LEU LYS ASP PRO SEQRES 21 A 370 ALA ALA TYR PRO LYS ILE GLN MET LEU ALA TYR MET PHE SEQRES 22 A 370 TYR SER VAL PRO TYR PHE VAL THR ALA LEU TYR GLY LEU SEQRES 23 A 370 VAL VAL PRO GLY CYS SER TRP MET PRO ASP ILE THR LEU SEQRES 24 A 370 ILE HIS ALA GLY GLY LEU ALA GLN ALA GLN PHE SER HIS SEQRES 25 A 370 ILE GLY ALA SER LEU HIS ALA ARG THR ALA TYR VAL TYR SEQRES 26 A 370 ARG VAL PRO GLU GLU ALA LYS ILE LEU PHE LEU ALA LEU SEQRES 27 A 370 ASN ILE ALA TYR GLY VAL LEU PRO GLN LEU LEU ALA TYR SEQRES 28 A 370 ARG CYS ILE TYR LYS PRO GLU PHE PHE ILE LYS THR LYS SEQRES 29 A 370 ALA GLU GLU LYS VAL GLU SEQRES 1 B 370 MET SER ALA SER ALA ALA THR GLY VAL PHE VAL LEU SER SEQRES 2 B 370 LEU SER ALA ILE PRO VAL THR TYR VAL PHE ASN HIS LEU SEQRES 3 B 370 ALA ALA GLN HIS ASP SER TRP THR ILE VAL GLY VAL ALA SEQRES 4 B 370 ALA LEU ILE LEU PHE LEU VAL ALA LEU LEU ALA ARG VAL SEQRES 5 B 370 LEU VAL LYS ARG LYS PRO PRO ARG ASP PRO LEU PHE TYR SEQRES 6 B 370 VAL TYR ALA VAL PHE GLY PHE THR SER VAL VAL ASN LEU SEQRES 7 B 370 ILE ILE GLY LEU GLU GLN ASP GLY ILE ILE ASP GLY PHE SEQRES 8 B 370 MET THR HIS TYR LEU ARG GLU GLY GLU PRO TYR LEU ASN SEQRES 9 B 370 THR ALA TYR GLY HIS MET ILE CYS TYR TRP ASP GLY SER SEQRES 10 B 370 ALA HIS TYR LEU MET TYR LEU VAL MET VAL ALA ALA ILE SEQRES 11 B 370 ALA TRP GLU GLU THR TYR ARG THR ILE GLY LEU TYR TRP SEQRES 12 B 370 VAL GLY SER ILE ILE MET SER VAL VAL VAL PHE VAL PRO SEQRES 13 B 370 GLY ASN ILE VAL GLY LYS TYR GLY THR ARG ILE CYS PRO SEQRES 14 B 370 ALA PHE PHE LEU SER ILE PRO TYR THR CYS LEU PRO VAL SEQRES 15 B 370 TRP ALA GLY PHE ARG ILE TYR ASN GLN PRO SER GLU ASN SEQRES 16 B 370 TYR ASN TYR PRO SER LYS VAL ILE GLN GLU ALA GLN ALA SEQRES 17 B 370 LYS ASP LEU LEU ARG ARG PRO PHE ASP LEU MET LEU VAL SEQRES 18 B 370 VAL CYS LEU LEU LEU ALA THR GLY PHE CYS LEU PHE ARG SEQRES 19 B 370 GLY LEU ILE ALA LEU ASP CYS PRO SER GLU LEU CYS ARG SEQRES 20 B 370 LEU TYR THR GLN PHE GLN GLU PRO TYR LEU LYS ASP PRO SEQRES 21 B 370 ALA ALA TYR PRO LYS ILE GLN MET LEU ALA TYR MET PHE SEQRES 22 B 370 TYR SER VAL PRO TYR PHE VAL THR ALA LEU TYR GLY LEU SEQRES 23 B 370 VAL VAL PRO GLY CYS SER TRP MET PRO ASP ILE THR LEU SEQRES 24 B 370 ILE HIS ALA GLY GLY LEU ALA GLN ALA GLN PHE SER HIS SEQRES 25 B 370 ILE GLY ALA SER LEU HIS ALA ARG THR ALA TYR VAL TYR SEQRES 26 B 370 ARG VAL PRO GLU GLU ALA LYS ILE LEU PHE LEU ALA LEU SEQRES 27 B 370 ASN ILE ALA TYR GLY VAL LEU PRO GLN LEU LEU ALA TYR SEQRES 28 B 370 ARG CYS ILE TYR LYS PRO GLU PHE PHE ILE LYS THR LYS SEQRES 29 B 370 ALA GLU GLU LYS VAL GLU HET CLR A 401 74 HET CLR B 401 74 HETNAM CLR CHOLESTEROL FORMUL 3 CLR 2(C27 H46 O) HELIX 1 AA1 MET A 1 SER A 15 1 15 HELIX 2 AA2 SER A 15 ALA A 28 1 14 HELIX 3 AA3 ASP A 31 VAL A 54 1 24 HELIX 4 AA4 PRO A 62 ASP A 85 1 24 HELIX 5 AA5 MET A 92 GLY A 99 1 8 HELIX 6 AA6 GLU A 100 ASN A 104 5 5 HELIX 7 AA7 THR A 105 TRP A 132 1 28 HELIX 8 AA8 TYR A 136 GLY A 161 1 26 HELIX 9 AA9 TYR A 163 ILE A 167 5 5 HELIX 10 AB1 CYS A 168 LEU A 173 5 6 HELIX 11 AB2 SER A 174 ASN A 190 1 17 HELIX 12 AB3 PRO A 199 ALA A 208 1 10 HELIX 13 AB4 ASP A 210 ARG A 213 5 4 HELIX 14 AB5 ARG A 214 LEU A 239 1 26 HELIX 15 AB6 SER A 243 GLN A 253 1 11 HELIX 16 AB7 GLU A 254 ASP A 259 5 6 HELIX 17 AB8 ALA A 262 LEU A 286 1 25 HELIX 18 AB9 TRP A 293 HIS A 318 1 26 HELIX 19 AC1 PRO A 328 GLU A 330 5 3 HELIX 20 AC2 ALA A 331 LYS A 356 1 26 HELIX 21 AC3 PRO A 357 PHE A 360 5 4 HELIX 22 AC4 SER B 2 SER B 15 1 14 HELIX 23 AC5 SER B 15 ALA B 28 1 14 HELIX 24 AC6 ASP B 31 VAL B 54 1 24 HELIX 25 AC7 PRO B 62 ASP B 85 1 24 HELIX 26 AC8 MET B 92 GLY B 99 1 8 HELIX 27 AC9 GLU B 100 ASN B 104 5 5 HELIX 28 AD1 THR B 105 TRP B 132 1 28 HELIX 29 AD2 TYR B 136 GLY B 161 1 26 HELIX 30 AD3 CYS B 168 SER B 174 5 7 HELIX 31 AD4 ILE B 175 ASN B 190 1 16 HELIX 32 AD5 PRO B 199 ALA B 208 1 10 HELIX 33 AD6 ASP B 210 ARG B 213 5 4 HELIX 34 AD7 ARG B 214 LEU B 239 1 26 HELIX 35 AD8 SER B 243 GLN B 253 1 11 HELIX 36 AD9 GLU B 254 ASP B 259 5 6 HELIX 37 AE1 ALA B 262 LEU B 286 1 25 HELIX 38 AE2 TRP B 293 LEU B 317 1 25 HELIX 39 AE3 ALA B 322 ARG B 326 5 5 HELIX 40 AE4 PRO B 328 GLU B 330 5 3 HELIX 41 AE5 ALA B 331 LYS B 356 1 26 HELIX 42 AE6 PRO B 357 ILE B 361 5 5 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 CONECT1159611597116051162411625 CONECT1159711596115981162611627 CONECT1159811597115991162311628 CONECT1159911598116001162911630 CONECT11600115991160111605 CONECT11601116001160211631 CONECT1160211601116031163211633 CONECT1160311602116041160911634 CONECT1160411603116051160611635 CONECT1160511596116001160411614 CONECT1160611604116071163611637 CONECT1160711606116081163811639 CONECT1160811607116091161211613 CONECT1160911603116081161011640 CONECT1161011609116111164111642 CONECT1161111610116121164311644 CONECT1161211608116111161511645 CONECT1161311608116461164711648 CONECT1161411605116491165011651 CONECT1161511612116161161711652 CONECT1161611615116531165411655 CONECT1161711615116181165611657 CONECT1161811617116191165811659 CONECT1161911618116201166011661 CONECT1162011619116211162211662 CONECT1162111620116631166411665 CONECT1162211620116661166711668 CONECT116231159811669 CONECT1162411596 CONECT1162511596 CONECT1162611597 CONECT1162711597 CONECT1162811598 CONECT1162911599 CONECT1163011599 CONECT1163111601 CONECT1163211602 CONECT1163311602 CONECT1163411603 CONECT1163511604 CONECT1163611606 CONECT1163711606 CONECT1163811607 CONECT1163911607 CONECT1164011609 CONECT1164111610 CONECT1164211610 CONECT1164311611 CONECT1164411611 CONECT1164511612 CONECT1164611613 CONECT1164711613 CONECT1164811613 CONECT1164911614 CONECT1165011614 CONECT1165111614 CONECT1165211615 CONECT1165311616 CONECT1165411616 CONECT1165511616 CONECT1165611617 CONECT1165711617 CONECT1165811618 CONECT1165911618 CONECT1166011619 CONECT1166111619 CONECT1166211620 CONECT1166311621 CONECT1166411621 CONECT1166511621 CONECT1166611622 CONECT1166711622 CONECT1166811622 CONECT1166911623 CONECT1167011671116791169811699 CONECT1167111670116721170011701 CONECT1167211671116731169711702 CONECT1167311672116741170311704 CONECT11674116731167511679 CONECT11675116741167611705 CONECT1167611675116771170611707 CONECT1167711676116781168311708 CONECT1167811677116791168011709 CONECT1167911670116741167811688 CONECT1168011678116811171011711 CONECT1168111680116821171211713 CONECT1168211681116831168611687 CONECT1168311677116821168411714 CONECT1168411683116851171511716 CONECT1168511684116861171711718 CONECT1168611682116851168911719 CONECT1168711682117201172111722 CONECT1168811679117231172411725 CONECT1168911686116901169111726 CONECT1169011689117271172811729 CONECT1169111689116921173011731 CONECT1169211691116931173211733 CONECT1169311692116941173411735 CONECT1169411693116951169611736 CONECT1169511694117371173811739 CONECT1169611694117401174111742 CONECT116971167211743 CONECT1169811670 CONECT1169911670 CONECT1170011671 CONECT1170111671 CONECT1170211672 CONECT1170311673 CONECT1170411673 CONECT1170511675 CONECT1170611676 CONECT1170711676 CONECT1170811677 CONECT1170911678 CONECT1171011680 CONECT1171111680 CONECT1171211681 CONECT1171311681 CONECT1171411683 CONECT1171511684 CONECT1171611684 CONECT1171711685 CONECT1171811685 CONECT1171911686 CONECT1172011687 CONECT1172111687 CONECT1172211687 CONECT1172311688 CONECT1172411688 CONECT1172511688 CONECT1172611689 CONECT1172711690 CONECT1172811690 CONECT1172911690 CONECT1173011691 CONECT1173111691 CONECT1173211692 CONECT1173311692 CONECT1173411693 CONECT1173511693 CONECT1173611694 CONECT1173711695 CONECT1173811695 CONECT1173911695 CONECT1174011696 CONECT1174111696 CONECT1174211696 CONECT1174311697 MASTER 153 0 2 42 0 0 0 6 5824 2 148 58 END