HEADER LIPID BINDING PROTEIN 16-FEB-26 11BR TITLE STRUCTURE OF CHOLESTEROL BINDING DEFICIENT 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_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TM6SF1; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS CHOLESTEROL BINDING PROTEIN, LIPID BINDING PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR S.HONG,X.LI REVDAT 1 09-SEP-26 11BR 0 JRNL AUTH S.HONG,X.LI JRNL TITL STRUCTURE OF CHOLESTEROL BINDING DEFICIENT HUMAN TM6SF1 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.37 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) : 3.370 REMARK 3 NUMBER OF PARTICLES : 163774 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 11BR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-FEB-26. REMARK 100 THE DEPOSITION ID IS D_1000305239. 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 : STRUCTURE OF CHOLESTEROL REMARK 245 BINDING DEFICIENT HUMAN 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 : GATAN K3 (6K 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 : OTHER REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 120.00 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: 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: 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 LYS A 57 86.32 -157.29 REMARK 500 SER A 117 -65.31 -93.84 REMARK 500 ASN A 197 73.52 -69.30 REMARK 500 ARG A 214 79.00 -117.34 REMARK 500 GLN A 253 -60.58 -92.11 REMARK 500 ALA A 262 -7.07 74.77 REMARK 500 GLU B 98 -133.04 43.78 REMARK 500 ARG B 214 76.50 -116.33 REMARK 500 LEU B 257 0.59 -67.11 REMARK 500 ALA B 262 -6.27 73.36 REMARK 500 LYS B 356 57.81 -145.57 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-75606 RELATED DB: EMDB REMARK 900 STRUCTURE OF CHOLESTEROL BINDING DEFICIENT HUMAN TM6SF1 DBREF 11BR A 1 370 UNP Q9BZW5 TM6S1_HUMAN 1 370 DBREF 11BR B 1 370 UNP Q9BZW5 TM6S1_HUMAN 1 370 SEQADV 11BR ALA A 77 UNP Q9BZW5 ASN 77 CONFLICT SEQADV 11BR ALA A 150 UNP Q9BZW5 SER 150 CONFLICT SEQADV 11BR ALA A 177 UNP Q9BZW5 TYR 177 CONFLICT SEQADV 11BR ALA B 77 UNP Q9BZW5 ASN 77 CONFLICT SEQADV 11BR ALA B 150 UNP Q9BZW5 SER 150 CONFLICT SEQADV 11BR ALA B 177 UNP Q9BZW5 TYR 177 CONFLICT 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 ALA 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 ALA 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 ALA 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 ALA 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 ALA 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 ALA 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 HELIX 1 AA1 SER A 2 SER A 15 1 14 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 ARG A 97 1 6 HELIX 6 AA6 THR A 105 TRP A 132 1 28 HELIX 7 AA7 TYR A 136 GLY A 161 1 26 HELIX 8 AA8 CYS A 168 PHE A 172 5 5 HELIX 9 AA9 LEU A 173 THR A 178 1 6 HELIX 10 AB1 CYS A 179 ASN A 190 1 12 HELIX 11 AB2 PRO A 199 LYS A 209 1 11 HELIX 12 AB3 ARG A 214 LEU A 239 1 26 HELIX 13 AB4 SER A 243 GLN A 253 1 11 HELIX 14 AB5 GLU A 254 ASP A 259 5 6 HELIX 15 AB6 ALA A 262 LEU A 286 1 25 HELIX 16 AB7 TRP A 293 HIS A 318 1 26 HELIX 17 AB8 ALA A 322 ARG A 326 5 5 HELIX 18 AB9 PRO A 328 GLU A 330 5 3 HELIX 19 AC1 ALA A 331 LYS A 356 1 26 HELIX 20 AC2 PRO A 357 ILE A 361 5 5 HELIX 21 AC3 SER B 2 SER B 15 1 14 HELIX 22 AC4 SER B 15 ALA B 28 1 14 HELIX 23 AC5 ASP B 31 VAL B 54 1 24 HELIX 24 AC6 PRO B 62 ASP B 85 1 24 HELIX 25 AC7 MET B 92 ARG B 97 1 6 HELIX 26 AC8 PRO B 101 ASN B 104 5 4 HELIX 27 AC9 THR B 105 TRP B 132 1 28 HELIX 28 AD1 TYR B 136 VAL B 160 1 25 HELIX 29 AD2 CYS B 168 PHE B 172 5 5 HELIX 30 AD3 LEU B 173 ASN B 190 1 18 HELIX 31 AD4 PRO B 199 LYS B 209 1 11 HELIX 32 AD5 ASP B 210 ARG B 213 5 4 HELIX 33 AD6 ARG B 214 LEU B 239 1 26 HELIX 34 AD7 SER B 243 GLN B 253 1 11 HELIX 35 AD8 GLU B 254 ASP B 259 5 6 HELIX 36 AD9 ALA B 262 VAL B 288 1 27 HELIX 37 AE1 TRP B 293 HIS B 318 1 26 HELIX 38 AE2 ALA B 322 ARG B 326 5 5 HELIX 39 AE3 PRO B 328 TYR B 355 1 28 HELIX 40 AE4 LYS B 356 ILE B 361 5 6 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 MASTER 149 0 0 40 0 0 0 6 5746 2 0 58 END