HEADER MEMBRANE PROTEIN 25-JUN-21 7F6V TITLE CRYO-EM STRUCTURE OF THE HUMAN TACAN CHANNEL IN A CLOSED STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ION CHANNEL TACAN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: TRANSMEMBRANE PROTEIN 120A,TRANSMEMBRANE PROTEIN INDUCED BY COMPND 5 TUMOR NECROSIS FACTOR ALPHA; 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: TMEM120A, TACAN, TMPIT; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS DIMER, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR X.Z.CHEN,Y.J.WANG,Y.LI,X.YANG,Y.Q.SHEN REVDAT 3 12-JUN-24 7F6V 1 JRNL REVDAT 2 23-MAR-22 7F6V 1 JRNL REVDAT 1 16-FEB-22 7F6V 0 JRNL AUTH X.CHEN,Y.WANG,Y.LI,X.LU,J.CHEN,M.LI,T.WEN,N.LIU,S.CHANG, JRNL AUTH 2 X.ZHANG,X.YANG,Y.SHEN JRNL TITL CRYO-EM STRUCTURE OF THE HUMAN TACAN IN A CLOSED STATE. JRNL REF CELL REP V. 38 10445 2022 JRNL REFN ESSN 2211-1247 JRNL PMID 35235791 JRNL DOI 10.1016/J.CELREP.2022.110445 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH X.CHEN,Y.WANG,Y.LI,X.LU,J.CHEN,M.LI,T.WEN,N.LIU,S.CHANG, REMARK 1 AUTH 2 X.ZHANG,X.YANG,Y.SHEN REMARK 1 TITL CRYO-EM STRUCTURE OF THE HUMAN TACAN CHANNEL IN A CLOSED REMARK 1 TITL 2 STATE REMARK 1 REF BIORXIV 2021 REMARK 1 REFN ISSN 2692-8205 REMARK 1 DOI 10.1101/2021.08.23.457436 REMARK 2 REMARK 2 RESOLUTION. 3.66 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 : REAL REMARK 3 REFINEMENT PROTOCOL : AB INITIO MODEL 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) : 3.660 REMARK 3 NUMBER OF PARTICLES : 58843 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 7F6V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-JUL-21. REMARK 100 THE DEPOSITION ID IS D_1300022990. 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 : CRYO-EM STRUCTURE OF THE HUMAN REMARK 245 TACAN CHANNEL IN A CLOSED STATE 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 : 7.50 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 : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 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) : 5600.00 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 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 MET A 1 REMARK 465 GLN A 2 REMARK 465 PRO A 3 REMARK 465 PRO A 4 REMARK 465 PRO A 5 REMARK 465 PRO A 6 REMARK 465 GLY A 7 REMARK 465 ARG A 249 REMARK 465 ALA A 250 REMARK 465 LEU A 251 REMARK 465 GLY A 252 REMARK 465 GLU A 253 REMARK 465 ARG A 254 REMARK 465 HIS A 255 REMARK 465 THR A 256 REMARK 465 MET A 257 REMARK 465 ASP A 258 REMARK 465 LEU A 259 REMARK 465 THR A 260 REMARK 465 VAL A 261 REMARK 465 GLU A 262 REMARK 465 GLY A 263 REMARK 465 GLN A 336 REMARK 465 ARG A 337 REMARK 465 HIS A 338 REMARK 465 GLY A 339 REMARK 465 SER A 340 REMARK 465 LYS A 341 REMARK 465 LYS A 342 REMARK 465 ASP A 343 REMARK 465 MET B 1 REMARK 465 GLN B 2 REMARK 465 PRO B 3 REMARK 465 PRO B 4 REMARK 465 PRO B 5 REMARK 465 PRO B 6 REMARK 465 GLY B 7 REMARK 465 ARG B 249 REMARK 465 ALA B 250 REMARK 465 LEU B 251 REMARK 465 GLY B 252 REMARK 465 GLU B 253 REMARK 465 ARG B 254 REMARK 465 HIS B 255 REMARK 465 THR B 256 REMARK 465 MET B 257 REMARK 465 ASP B 258 REMARK 465 LEU B 259 REMARK 465 THR B 260 REMARK 465 VAL B 261 REMARK 465 GLU B 262 REMARK 465 GLY B 263 REMARK 465 GLN B 336 REMARK 465 ARG B 337 REMARK 465 HIS B 338 REMARK 465 GLY B 339 REMARK 465 SER B 340 REMARK 465 LYS B 341 REMARK 465 LYS B 342 REMARK 465 ASP B 343 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 PHE A 264 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN A 301 CG CD OE1 NE2 REMARK 470 PHE B 264 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN B 301 CG CD OE1 NE2 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 CE1 PHE A 281 C15 CLR A 401 2.17 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 LEU A 113 -63.91 -95.83 REMARK 500 LEU A 155 66.20 60.08 REMARK 500 SER A 157 49.70 -81.38 REMARK 500 CYS A 302 -166.81 -78.96 REMARK 500 LEU B 113 -63.91 -95.83 REMARK 500 LEU B 155 66.20 60.08 REMARK 500 SER B 157 49.70 -81.38 REMARK 500 CYS B 302 -166.81 -78.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-31482 RELATED DB: EMDB REMARK 900 STRUCTURE OF A MEMBRANE PROTEIN DBREF 7F6V A 1 343 UNP Q9BXJ8 TACAN_HUMAN 1 343 DBREF 7F6V B 1 343 UNP Q9BXJ8 TACAN_HUMAN 1 343 SEQRES 1 A 343 MET GLN PRO PRO PRO PRO GLY PRO LEU GLY ASP CYS LEU SEQRES 2 A 343 ARG ASP TRP GLU ASP LEU GLN GLN ASP PHE GLN ASN ILE SEQRES 3 A 343 GLN GLU THR HIS ARG LEU TYR ARG LEU LYS LEU GLU GLU SEQRES 4 A 343 LEU THR LYS LEU GLN ASN ASN CYS THR SER SER ILE THR SEQRES 5 A 343 ARG GLN LYS LYS ARG LEU GLN GLU LEU ALA LEU ALA LEU SEQRES 6 A 343 LYS LYS CYS LYS PRO SER LEU PRO ALA GLU ALA GLU GLY SEQRES 7 A 343 ALA ALA GLN GLU LEU GLU ASN GLN MET LYS GLU ARG GLN SEQRES 8 A 343 GLY LEU PHE PHE ASP MET GLU ALA TYR LEU PRO LYS LYS SEQRES 9 A 343 ASN GLY LEU TYR LEU SER LEU VAL LEU GLY ASN VAL ASN SEQRES 10 A 343 VAL THR LEU LEU SER LYS GLN ALA LYS PHE ALA TYR LYS SEQRES 11 A 343 ASP GLU TYR GLU LYS PHE LYS LEU TYR LEU THR ILE ILE SEQRES 12 A 343 LEU ILE LEU ILE SER PHE THR CYS ARG PHE LEU LEU ASN SEQRES 13 A 343 SER ARG VAL THR ASP ALA ALA PHE ASN PHE LEU LEU VAL SEQRES 14 A 343 TRP TYR TYR CYS THR LEU THR ILE ARG GLU SER ILE LEU SEQRES 15 A 343 ILE ASN ASN GLY SER ARG ILE LYS GLY TRP TRP VAL PHE SEQRES 16 A 343 HIS HIS TYR VAL SER THR PHE LEU SER GLY VAL MET LEU SEQRES 17 A 343 THR TRP PRO ASP GLY LEU MET TYR GLN LYS PHE ARG ASN SEQRES 18 A 343 GLN PHE LEU SER PHE SER MET TYR GLN SER PHE VAL GLN SEQRES 19 A 343 PHE LEU GLN TYR TYR TYR GLN SER GLY CYS LEU TYR ARG SEQRES 20 A 343 LEU ARG ALA LEU GLY GLU ARG HIS THR MET ASP LEU THR SEQRES 21 A 343 VAL GLU GLY PHE GLN SER TRP MET TRP ARG GLY LEU THR SEQRES 22 A 343 PHE LEU LEU PRO PHE LEU PHE PHE GLY HIS PHE TRP GLN SEQRES 23 A 343 LEU PHE ASN ALA LEU THR LEU PHE ASN LEU ALA GLN ASP SEQRES 24 A 343 PRO GLN CYS LYS GLU TRP GLN VAL LEU MET CYS GLY PHE SEQRES 25 A 343 PRO PHE LEU LEU LEU PHE LEU GLY ASN PHE PHE THR THR SEQRES 26 A 343 LEU ARG VAL VAL HIS HIS LYS PHE HIS SER GLN ARG HIS SEQRES 27 A 343 GLY SER LYS LYS ASP SEQRES 1 B 343 MET GLN PRO PRO PRO PRO GLY PRO LEU GLY ASP CYS LEU SEQRES 2 B 343 ARG ASP TRP GLU ASP LEU GLN GLN ASP PHE GLN ASN ILE SEQRES 3 B 343 GLN GLU THR HIS ARG LEU TYR ARG LEU LYS LEU GLU GLU SEQRES 4 B 343 LEU THR LYS LEU GLN ASN ASN CYS THR SER SER ILE THR SEQRES 5 B 343 ARG GLN LYS LYS ARG LEU GLN GLU LEU ALA LEU ALA LEU SEQRES 6 B 343 LYS LYS CYS LYS PRO SER LEU PRO ALA GLU ALA GLU GLY SEQRES 7 B 343 ALA ALA GLN GLU LEU GLU ASN GLN MET LYS GLU ARG GLN SEQRES 8 B 343 GLY LEU PHE PHE ASP MET GLU ALA TYR LEU PRO LYS LYS SEQRES 9 B 343 ASN GLY LEU TYR LEU SER LEU VAL LEU GLY ASN VAL ASN SEQRES 10 B 343 VAL THR LEU LEU SER LYS GLN ALA LYS PHE ALA TYR LYS SEQRES 11 B 343 ASP GLU TYR GLU LYS PHE LYS LEU TYR LEU THR ILE ILE SEQRES 12 B 343 LEU ILE LEU ILE SER PHE THR CYS ARG PHE LEU LEU ASN SEQRES 13 B 343 SER ARG VAL THR ASP ALA ALA PHE ASN PHE LEU LEU VAL SEQRES 14 B 343 TRP TYR TYR CYS THR LEU THR ILE ARG GLU SER ILE LEU SEQRES 15 B 343 ILE ASN ASN GLY SER ARG ILE LYS GLY TRP TRP VAL PHE SEQRES 16 B 343 HIS HIS TYR VAL SER THR PHE LEU SER GLY VAL MET LEU SEQRES 17 B 343 THR TRP PRO ASP GLY LEU MET TYR GLN LYS PHE ARG ASN SEQRES 18 B 343 GLN PHE LEU SER PHE SER MET TYR GLN SER PHE VAL GLN SEQRES 19 B 343 PHE LEU GLN TYR TYR TYR GLN SER GLY CYS LEU TYR ARG SEQRES 20 B 343 LEU ARG ALA LEU GLY GLU ARG HIS THR MET ASP LEU THR SEQRES 21 B 343 VAL GLU GLY PHE GLN SER TRP MET TRP ARG GLY LEU THR SEQRES 22 B 343 PHE LEU LEU PRO PHE LEU PHE PHE GLY HIS PHE TRP GLN SEQRES 23 B 343 LEU PHE ASN ALA LEU THR LEU PHE ASN LEU ALA GLN ASP SEQRES 24 B 343 PRO GLN CYS LYS GLU TRP GLN VAL LEU MET CYS GLY PHE SEQRES 25 B 343 PRO PHE LEU LEU LEU PHE LEU GLY ASN PHE PHE THR THR SEQRES 26 B 343 LEU ARG VAL VAL HIS HIS LYS PHE HIS SER GLN ARG HIS SEQRES 27 B 343 GLY SER LYS LYS ASP HET CLR A 401 28 HET CLR B 401 28 HETNAM CLR CHOLESTEROL FORMUL 3 CLR 2(C27 H46 O) HELIX 1 AA1 LEU A 9 LYS A 69 1 61 HELIX 2 AA2 GLU A 77 ALA A 99 1 23 HELIX 3 AA3 LEU A 107 LEU A 113 1 7 HELIX 4 AA4 SER A 122 LEU A 154 1 33 HELIX 5 AA5 VAL A 159 GLY A 186 1 28 HELIX 6 AA6 TRP A 192 TRP A 210 1 19 HELIX 7 AA7 LEU A 214 LEU A 248 1 35 HELIX 8 AA8 GLN A 265 ASP A 299 1 35 HELIX 9 AA9 LYS A 303 HIS A 334 1 32 HELIX 10 AB1 LEU B 9 LYS B 69 1 61 HELIX 11 AB2 GLU B 77 ALA B 99 1 23 HELIX 12 AB3 LEU B 107 LEU B 113 1 7 HELIX 13 AB4 SER B 122 LEU B 154 1 33 HELIX 14 AB5 VAL B 159 GLY B 186 1 28 HELIX 15 AB6 TRP B 192 TRP B 210 1 19 HELIX 16 AB7 LEU B 214 LEU B 248 1 35 HELIX 17 AB8 GLN B 265 ASP B 299 1 35 HELIX 18 AB9 LYS B 303 HIS B 334 1 32 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