HEADER MEMBRANE PROTEIN 25-APR-24 8ZAN TITLE EXOCHR2 CHANNELRHODOPSIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ARCHAEAL-TYPE OPSIN 2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: RETINAL BINDING PROTEIN,SENSORY OPSIN B; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHLAMYDOMONAS REINHARDTII; SOURCE 3 ORGANISM_TAXID: 3055; SOURCE 4 GENE: COP4, ACOP2, CSOB, CHLRE_02G085257V5; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS CHANNELRHODOPSIN, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR M.F.ZHANG REVDAT 2 06-NOV-24 8ZAN 1 REMARK REVDAT 1 04-SEP-24 8ZAN 0 JRNL AUTH Y.SHAN,L.ZHAO,M.CHEN,X.LI,M.ZHANG,D.PEI JRNL TITL CHANNELRHODOPSINS WITH DISTINCT CHROMOPHORES AND BINDING JRNL TITL 2 PATTERNS. JRNL REF NAT COMMUN V. 15 7292 2024 JRNL REFN ESSN 2041-1723 JRNL PMID 39181878 REMARK 2 REMARK 2 RESOLUTION. 2.40 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) : 2.400 REMARK 3 NUMBER OF PARTICLES : 104000 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 8ZAN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 29-APR-24. REMARK 100 THE DEPOSITION ID IS D_1300047314. 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 : ENDOCHR2 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 : 7.20 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 : FEI FALCON IV (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1200.00 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) : 6000.00 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 MET A 1 REMARK 465 ASP A 2 REMARK 465 TYR A 3 REMARK 465 GLY A 4 REMARK 465 GLY A 5 REMARK 465 ALA A 6 REMARK 465 LEU A 7 REMARK 465 SER A 8 REMARK 465 ALA A 9 REMARK 465 VAL A 10 REMARK 465 GLY A 11 REMARK 465 ARG A 12 REMARK 465 GLU A 13 REMARK 465 LEU A 14 REMARK 465 LEU A 15 REMARK 465 PHE A 16 REMARK 465 VAL A 17 REMARK 465 THR A 18 REMARK 465 ASN A 19 REMARK 465 PRO A 20 REMARK 465 VAL A 21 REMARK 465 VAL A 22 REMARK 465 VAL A 23 REMARK 465 ASN A 24 REMARK 465 GLY A 25 REMARK 465 SER A 26 REMARK 465 VAL A 27 REMARK 465 LEU A 28 REMARK 465 VAL A 29 REMARK 465 PRO A 30 REMARK 465 GLU A 31 REMARK 465 ASP A 32 REMARK 465 GLN A 33 REMARK 465 ASP A 280 REMARK 465 ILE A 281 REMARK 465 ARG A 282 REMARK 465 LYS A 283 REMARK 465 THR A 284 REMARK 465 THR A 285 REMARK 465 LYS A 286 REMARK 465 LEU A 287 REMARK 465 ASN A 288 REMARK 465 ILE A 289 REMARK 465 GLY A 290 REMARK 465 GLY A 291 REMARK 465 THR A 292 REMARK 465 GLU A 293 REMARK 465 ILE A 294 REMARK 465 GLU A 295 REMARK 465 VAL A 296 REMARK 465 GLU A 297 REMARK 465 THR A 298 REMARK 465 LEU A 299 REMARK 465 VAL A 300 REMARK 465 GLU A 301 REMARK 465 ASP A 302 REMARK 465 GLU A 303 REMARK 465 ALA A 304 REMARK 465 GLU A 305 REMARK 465 ALA A 306 REMARK 465 GLY A 307 REMARK 465 ALA A 308 REMARK 465 VAL A 309 REMARK 465 ASN A 310 REMARK 465 LYS A 311 REMARK 465 GLY A 312 REMARK 465 THR A 313 REMARK 465 GLY A 314 REMARK 465 LYS A 315 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 TYR B 3 REMARK 465 GLY B 4 REMARK 465 GLY B 5 REMARK 465 ALA B 6 REMARK 465 LEU B 7 REMARK 465 SER B 8 REMARK 465 ALA B 9 REMARK 465 VAL B 10 REMARK 465 GLY B 11 REMARK 465 ARG B 12 REMARK 465 GLU B 13 REMARK 465 LEU B 14 REMARK 465 LEU B 15 REMARK 465 PHE B 16 REMARK 465 VAL B 17 REMARK 465 THR B 18 REMARK 465 ASN B 19 REMARK 465 PRO B 20 REMARK 465 VAL B 21 REMARK 465 VAL B 22 REMARK 465 VAL B 23 REMARK 465 ASN B 24 REMARK 465 GLY B 25 REMARK 465 SER B 26 REMARK 465 VAL B 27 REMARK 465 LEU B 28 REMARK 465 VAL B 29 REMARK 465 PRO B 30 REMARK 465 GLU B 31 REMARK 465 ASP B 32 REMARK 465 GLN B 33 REMARK 465 ASP B 280 REMARK 465 ILE B 281 REMARK 465 ARG B 282 REMARK 465 LYS B 283 REMARK 465 THR B 284 REMARK 465 THR B 285 REMARK 465 LYS B 286 REMARK 465 LEU B 287 REMARK 465 ASN B 288 REMARK 465 ILE B 289 REMARK 465 GLY B 290 REMARK 465 GLY B 291 REMARK 465 THR B 292 REMARK 465 GLU B 293 REMARK 465 ILE B 294 REMARK 465 GLU B 295 REMARK 465 VAL B 296 REMARK 465 GLU B 297 REMARK 465 THR B 298 REMARK 465 LEU B 299 REMARK 465 VAL B 300 REMARK 465 GLU B 301 REMARK 465 ASP B 302 REMARK 465 GLU B 303 REMARK 465 ALA B 304 REMARK 465 GLU B 305 REMARK 465 ALA B 306 REMARK 465 GLY B 307 REMARK 465 ALA B 308 REMARK 465 VAL B 309 REMARK 465 ASN B 310 REMARK 465 LYS B 311 REMARK 465 GLY B 312 REMARK 465 THR B 313 REMARK 465 GLY B 314 REMARK 465 LYS B 315 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 LYS A 205 CG CD CE NZ REMARK 470 LYS B 205 CG CD CE NZ 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 178 C3 RET A 401 1.49 REMARK 500 CE1 PHE B 178 C3 RET B 401 1.49 REMARK 500 CE LYS B 257 C15 RET B 401 2.12 REMARK 500 CE LYS A 257 C15 RET A 401 2.12 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 TYR A 35 -65.89 -94.36 REMARK 500 ALA A 37 -15.21 -49.85 REMARK 500 GLU A 41 -122.19 39.88 REMARK 500 ASN A 46 -9.07 73.23 REMARK 500 LYS A 76 -60.01 -103.49 REMARK 500 PRO A 105 17.31 31.41 REMARK 500 LEU A 110 141.39 70.72 REMARK 500 TYR A 145 -169.41 -127.84 REMARK 500 THR A 170 126.74 45.56 REMARK 500 SER A 241 167.35 66.73 REMARK 500 TYR B 35 -66.00 -94.35 REMARK 500 ALA B 37 -15.41 -49.79 REMARK 500 GLU B 41 -122.14 39.82 REMARK 500 ASN B 46 -9.09 73.25 REMARK 500 LYS B 76 -60.01 -103.49 REMARK 500 PRO B 105 17.31 31.46 REMARK 500 LEU B 110 141.37 70.67 REMARK 500 TYR B 145 -169.41 -127.84 REMARK 500 THR B 170 126.77 45.49 REMARK 500 SER B 241 167.35 66.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-39881 RELATED DB: EMDB REMARK 900 EXOCHR2 CHANNELRHODOPSIN DBREF 8ZAN A 1 315 UNP Q8RUT8 Q8RUT8_CHLRE 1 315 DBREF 8ZAN B 1 315 UNP Q8RUT8 Q8RUT8_CHLRE 1 315 SEQRES 1 A 315 MET ASP TYR GLY GLY ALA LEU SER ALA VAL GLY ARG GLU SEQRES 2 A 315 LEU LEU PHE VAL THR ASN PRO VAL VAL VAL ASN GLY SER SEQRES 3 A 315 VAL LEU VAL PRO GLU ASP GLN CYS TYR CYS ALA GLY TRP SEQRES 4 A 315 ILE GLU SER ARG GLY THR ASN GLY ALA GLN THR ALA SER SEQRES 5 A 315 ASN VAL LEU GLN TRP LEU ALA ALA GLY PHE SER ILE LEU SEQRES 6 A 315 LEU LEU MET PHE TYR ALA TYR GLN THR TRP LYS SER THR SEQRES 7 A 315 CYS GLY TRP GLU GLU ILE TYR VAL CYS ALA ILE GLU MET SEQRES 8 A 315 VAL LYS VAL ILE LEU GLU PHE PHE PHE GLU PHE LYS ASN SEQRES 9 A 315 PRO SER MET LEU TYR LEU ALA THR GLY HIS ARG VAL GLN SEQRES 10 A 315 TRP LEU ARG TYR ALA GLU TRP LEU LEU THR CYS PRO VAL SEQRES 11 A 315 ILE LEU ILE HIS LEU SER ASN LEU THR GLY LEU SER ASN SEQRES 12 A 315 ASP TYR SER ARG ARG THR MET GLY LEU LEU VAL SER ASP SEQRES 13 A 315 ILE GLY THR ILE VAL TRP GLY ALA THR SER ALA MET ALA SEQRES 14 A 315 THR GLY TYR VAL LYS VAL ILE PHE PHE CYS LEU GLY LEU SEQRES 15 A 315 CYS TYR GLY ALA ASN THR PHE PHE HIS ALA ALA LYS ALA SEQRES 16 A 315 TYR ILE GLU GLY TYR HIS THR VAL PRO LYS GLY ARG CYS SEQRES 17 A 315 ARG GLN VAL VAL THR GLY MET ALA TRP LEU PHE PHE VAL SEQRES 18 A 315 SER TRP GLY MET PHE PRO ILE LEU PHE ILE LEU GLY PRO SEQRES 19 A 315 GLU GLY PHE GLY VAL LEU SER VAL TYR GLY SER THR VAL SEQRES 20 A 315 GLY HIS THR ILE ILE ASP LEU MET SER LYS ASN CYS TRP SEQRES 21 A 315 GLY LEU LEU GLY HIS TYR LEU ARG VAL LEU ILE HIS GLU SEQRES 22 A 315 HIS ILE LEU ILE HIS GLY ASP ILE ARG LYS THR THR LYS SEQRES 23 A 315 LEU ASN ILE GLY GLY THR GLU ILE GLU VAL GLU THR LEU SEQRES 24 A 315 VAL GLU ASP GLU ALA GLU ALA GLY ALA VAL ASN LYS GLY SEQRES 25 A 315 THR GLY LYS SEQRES 1 B 315 MET ASP TYR GLY GLY ALA LEU SER ALA VAL GLY ARG GLU SEQRES 2 B 315 LEU LEU PHE VAL THR ASN PRO VAL VAL VAL ASN GLY SER SEQRES 3 B 315 VAL LEU VAL PRO GLU ASP GLN CYS TYR CYS ALA GLY TRP SEQRES 4 B 315 ILE GLU SER ARG GLY THR ASN GLY ALA GLN THR ALA SER SEQRES 5 B 315 ASN VAL LEU GLN TRP LEU ALA ALA GLY PHE SER ILE LEU SEQRES 6 B 315 LEU LEU MET PHE TYR ALA TYR GLN THR TRP LYS SER THR SEQRES 7 B 315 CYS GLY TRP GLU GLU ILE TYR VAL CYS ALA ILE GLU MET SEQRES 8 B 315 VAL LYS VAL ILE LEU GLU PHE PHE PHE GLU PHE LYS ASN SEQRES 9 B 315 PRO SER MET LEU TYR LEU ALA THR GLY HIS ARG VAL GLN SEQRES 10 B 315 TRP LEU ARG TYR ALA GLU TRP LEU LEU THR CYS PRO VAL SEQRES 11 B 315 ILE LEU ILE HIS LEU SER ASN LEU THR GLY LEU SER ASN SEQRES 12 B 315 ASP TYR SER ARG ARG THR MET GLY LEU LEU VAL SER ASP SEQRES 13 B 315 ILE GLY THR ILE VAL TRP GLY ALA THR SER ALA MET ALA SEQRES 14 B 315 THR GLY TYR VAL LYS VAL ILE PHE PHE CYS LEU GLY LEU SEQRES 15 B 315 CYS TYR GLY ALA ASN THR PHE PHE HIS ALA ALA LYS ALA SEQRES 16 B 315 TYR ILE GLU GLY TYR HIS THR VAL PRO LYS GLY ARG CYS SEQRES 17 B 315 ARG GLN VAL VAL THR GLY MET ALA TRP LEU PHE PHE VAL SEQRES 18 B 315 SER TRP GLY MET PHE PRO ILE LEU PHE ILE LEU GLY PRO SEQRES 19 B 315 GLU GLY PHE GLY VAL LEU SER VAL TYR GLY SER THR VAL SEQRES 20 B 315 GLY HIS THR ILE ILE ASP LEU MET SER LYS ASN CYS TRP SEQRES 21 B 315 GLY LEU LEU GLY HIS TYR LEU ARG VAL LEU ILE HIS GLU SEQRES 22 B 315 HIS ILE LEU ILE HIS GLY ASP ILE ARG LYS THR THR LYS SEQRES 23 B 315 LEU ASN ILE GLY GLY THR GLU ILE GLU VAL GLU THR LEU SEQRES 24 B 315 VAL GLU ASP GLU ALA GLU ALA GLY ALA VAL ASN LYS GLY SEQRES 25 B 315 THR GLY LYS HET RET A 401 20 HET RET B 401 20 HETNAM RET RETINAL FORMUL 3 RET 2(C20 H28 O) HELIX 1 AA1 CYS A 36 ILE A 40 5 5 HELIX 2 AA2 GLY A 47 SER A 77 1 31 HELIX 3 AA3 GLY A 80 GLU A 101 1 22 HELIX 4 AA4 GLN A 117 SER A 136 1 20 HELIX 5 AA5 SER A 146 MET A 168 1 23 HELIX 6 AA6 GLY A 171 VAL A 203 1 33 HELIX 7 AA7 GLY A 206 GLY A 233 1 28 HELIX 8 AA8 LEU A 240 LYS A 257 1 18 HELIX 9 AA9 LYS A 257 HIS A 278 1 22 HELIX 10 AB1 CYS B 36 ILE B 40 5 5 HELIX 11 AB2 GLY B 47 SER B 77 1 31 HELIX 12 AB3 GLY B 80 GLU B 101 1 22 HELIX 13 AB4 GLN B 117 SER B 136 1 20 HELIX 14 AB5 SER B 146 MET B 168 1 23 HELIX 15 AB6 GLY B 171 VAL B 203 1 33 HELIX 16 AB7 GLY B 206 GLY B 233 1 28 HELIX 17 AB8 LEU B 240 LYS B 257 1 18 HELIX 18 AB9 LYS B 257 HIS B 278 1 22 SSBOND 1 CYS A 34 CYS B 36 1555 1555 2.03 SSBOND 2 CYS A 36 CYS B 34 1555 1555 2.03 LINK NZ LYS A 257 C15 RET A 401 1555 1555 1.43 LINK NZ LYS B 257 C15 RET B 401 1555 1555 1.43 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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