HEADER MEMBRANE PROTEIN 24-JAN-25 9I3T TITLE DARK-STATE STRUCTURE OF HUMAN MEDIUM-WAVE-SENSITIVE CONE OPSIN TITLE 2 (OPN1MW) COMPND MOL_ID: 1; COMPND 2 MOLECULE: MEDIUM-WAVE-SENSITIVE OPSIN 1,SOLUBLE CYTOCHROME B562; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GREEN CONE PHOTORECEPTOR PIGMENT,GREEN-SENSITIVE OPSIN,GOP, COMPND 5 CYTOCHROME B-562; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: HUMAN MEDIUM-WAVELENGTH-SENSITIVE OPSIN FUSED TO COMPND 8 SOLUBLE CYTOCHROME B562 COMPLEX ON THE INTRACELLULAR LOOP 3 (P0ABE7) COMPND 9 AND C-TERMINAL 1D4 TAG,HUMAN MEDIUM-WAVELENGTH-SENSITIVE OPSIN FUSED COMPND 10 TO SOLUBLE CYTOCHROME B562 COMPLEX ON THE INTRACELLULAR LOOP 3 COMPND 11 (P0ABE7) AND C-TERMINAL 1D4 TAG,HUMAN MEDIUM-WAVELENGTH-SENSITIVE COMPND 12 OPSIN FUSED TO SOLUBLE CYTOCHROME B562 COMPLEX ON THE INTRACELLULAR COMPND 13 LOOP 3 (P0ABE7) AND C-TERMINAL 1D4 TAG; COMPND 14 MOL_ID: 2; COMPND 15 MOLECULE: BAG2 ANTI-BRIL FAB HEAVY CHAIN; COMPND 16 CHAIN: H; COMPND 17 ENGINEERED: YES; COMPND 18 MOL_ID: 3; COMPND 19 MOLECULE: BAG2 ANTI-BRIL FAB LIGHT CHAIN; COMPND 20 CHAIN: L; COMPND 21 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS, ESCHERICHIA COLI; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606, 562; SOURCE 5 GENE: OPN1MW, GCP, CYBC; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 13 MOL_ID: 3; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HUMAN CONE OPSIN, GPCR, RETINAL BINDING PROTEIN, VISION, COLOR KEYWDS 2 PERCEPTION, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR S.L.SCHMIDT,S.SEN,P.ISAIKINA REVDAT 1 24-JUN-26 9I3T 0 JRNL AUTH S.L.SCHMIDT,S.SEN,P.ISAIKINA JRNL TITL ILLUMINATING THE MOLECULAR BASIS OF HUMAN DAYLIGHT VISION JRNL REF SCIENCE 2026 JRNL REFN ESSN 1095-9203 JRNL DOI 10.1126/SCIENCE.ADZ3624 REMARK 2 REMARK 2 RESOLUTION. 3.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : PHENIX 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) : 3.700 REMARK 3 NUMBER OF PARTICLES : 137000 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 9I3T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-JAN-25. REMARK 100 THE DEPOSITION ID IS D_1292144308. 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 MEDIUM-WAVELENGTH REMARK 245 -SENSITIVE OPSIN FUSED TO REMARK 245 SOLUBLE CYTOCHROME B562 IN REMARK 245 COMPLEX WITH BAG2 FAB 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 : 6.80 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) : 1200.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2500.00 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) : 5000.00 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, H, L 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 ALA A 2 REMARK 465 GLN A 3 REMARK 465 GLN A 4 REMARK 465 TRP A 5 REMARK 465 SER A 6 REMARK 465 LEU A 7 REMARK 465 GLN A 8 REMARK 465 ARG A 9 REMARK 465 LEU A 10 REMARK 465 ALA A 11 REMARK 465 GLY A 12 REMARK 465 ARG A 13 REMARK 465 HIS A 14 REMARK 465 PRO A 15 REMARK 465 GLN A 16 REMARK 465 ASP A 17 REMARK 465 SER A 18 REMARK 465 TYR A 19 REMARK 465 GLU A 20 REMARK 465 ASP A 21 REMARK 465 SER A 22 REMARK 465 THR A 23 REMARK 465 GLN A 24 REMARK 465 SER A 25 REMARK 465 SER A 26 REMARK 465 ILE A 27 REMARK 465 PHE A 28 REMARK 465 THR A 29 REMARK 465 TYR A 30 REMARK 465 THR A 31 REMARK 465 ASN A 32 REMARK 465 SER A 33 REMARK 465 ASN A 34 REMARK 465 SER A 35 REMARK 465 THR A 36 REMARK 465 ARG A 37 REMARK 465 GLY A 38 REMARK 465 PRO A 39 REMARK 465 PHE A 40 REMARK 465 ALA A 898 REMARK 465 ILE A 899 REMARK 465 ALA A 900 REMARK 465 LYS A 340 REMARK 465 VAL A 341 REMARK 465 ASP A 342 REMARK 465 ASP A 343 REMARK 465 GLY A 344 REMARK 465 SER A 345 REMARK 465 GLU A 346 REMARK 465 LEU A 347 REMARK 465 SER A 348 REMARK 465 SER A 349 REMARK 465 ALA A 350 REMARK 465 SER A 351 REMARK 465 LYS A 352 REMARK 465 THR A 353 REMARK 465 GLU A 354 REMARK 465 VAL A 355 REMARK 465 SER A 356 REMARK 465 SER A 357 REMARK 465 VAL A 358 REMARK 465 SER A 359 REMARK 465 SER A 360 REMARK 465 VAL A 361 REMARK 465 SER A 362 REMARK 465 PRO A 363 REMARK 465 ALA A 364 REMARK 465 LEU A 365 REMARK 465 GLU A 366 REMARK 465 VAL A 367 REMARK 465 LEU A 368 REMARK 465 PHE A 369 REMARK 465 GLN A 370 REMARK 465 GLY A 371 REMARK 465 PRO A 372 REMARK 465 ASP A 373 REMARK 465 TYR A 374 REMARK 465 LYS A 375 REMARK 465 ASP A 376 REMARK 465 ASP A 377 REMARK 465 ASP A 378 REMARK 465 ASP A 379 REMARK 465 LYS A 380 REMARK 465 GLY A 381 REMARK 465 ALA A 382 REMARK 465 GLY A 383 REMARK 465 ALA A 384 REMARK 465 THR A 385 REMARK 465 GLU A 386 REMARK 465 THR A 387 REMARK 465 SER A 388 REMARK 465 GLN A 389 REMARK 465 VAL A 390 REMARK 465 ALA A 391 REMARK 465 PRO A 392 REMARK 465 ALA A 393 REMARK 465 GLU H 1 REMARK 465 ILE H 2 REMARK 465 ALA H 128 REMARK 465 SER H 129 REMARK 465 THR H 130 REMARK 465 LYS H 131 REMARK 465 GLY H 132 REMARK 465 PRO H 133 REMARK 465 SER H 134 REMARK 465 VAL H 135 REMARK 465 PHE H 136 REMARK 465 PRO H 137 REMARK 465 LEU H 138 REMARK 465 ALA H 139 REMARK 465 PRO H 140 REMARK 465 SER H 141 REMARK 465 SER H 142 REMARK 465 LYS H 143 REMARK 465 SER H 144 REMARK 465 THR H 145 REMARK 465 SER H 146 REMARK 465 GLY H 147 REMARK 465 GLY H 148 REMARK 465 THR H 149 REMARK 465 ALA H 150 REMARK 465 ALA H 151 REMARK 465 LEU H 152 REMARK 465 GLY H 153 REMARK 465 CYS H 154 REMARK 465 LEU H 155 REMARK 465 VAL H 156 REMARK 465 LYS H 157 REMARK 465 ASP H 158 REMARK 465 TYR H 159 REMARK 465 PHE H 160 REMARK 465 PRO H 161 REMARK 465 GLU H 162 REMARK 465 PRO H 163 REMARK 465 VAL H 164 REMARK 465 THR H 165 REMARK 465 VAL H 166 REMARK 465 SER H 167 REMARK 465 TRP H 168 REMARK 465 ASN H 169 REMARK 465 SER H 170 REMARK 465 GLY H 171 REMARK 465 ALA H 172 REMARK 465 LEU H 173 REMARK 465 THR H 174 REMARK 465 SER H 175 REMARK 465 GLY H 176 REMARK 465 VAL H 177 REMARK 465 HIS H 178 REMARK 465 THR H 179 REMARK 465 PHE H 180 REMARK 465 PRO H 181 REMARK 465 ALA H 182 REMARK 465 VAL H 183 REMARK 465 LEU H 184 REMARK 465 GLN H 185 REMARK 465 SER H 186 REMARK 465 SER H 187 REMARK 465 GLY H 188 REMARK 465 LEU H 189 REMARK 465 TYR H 190 REMARK 465 SER H 191 REMARK 465 LEU H 192 REMARK 465 SER H 193 REMARK 465 SER H 194 REMARK 465 VAL H 195 REMARK 465 VAL H 196 REMARK 465 THR H 197 REMARK 465 VAL H 198 REMARK 465 PRO H 199 REMARK 465 SER H 200 REMARK 465 SER H 201 REMARK 465 SER H 202 REMARK 465 LEU H 203 REMARK 465 GLY H 204 REMARK 465 THR H 205 REMARK 465 GLN H 206 REMARK 465 THR H 207 REMARK 465 TYR H 208 REMARK 465 ILE H 209 REMARK 465 CYS H 210 REMARK 465 ASN H 211 REMARK 465 VAL H 212 REMARK 465 ASN H 213 REMARK 465 HIS H 214 REMARK 465 LYS H 215 REMARK 465 PRO H 216 REMARK 465 SER H 217 REMARK 465 ASN H 218 REMARK 465 THR H 219 REMARK 465 LYS H 220 REMARK 465 VAL H 221 REMARK 465 ASP H 222 REMARK 465 LYS H 223 REMARK 465 LYS H 224 REMARK 465 VAL H 225 REMARK 465 GLU H 226 REMARK 465 PRO H 227 REMARK 465 LYS H 228 REMARK 465 SER H 229 REMARK 465 CYS H 230 REMARK 465 ASP H 231 REMARK 465 THR L 111 REMARK 465 VAL L 112 REMARK 465 ALA L 113 REMARK 465 ALA L 114 REMARK 465 PRO L 115 REMARK 465 SER L 116 REMARK 465 VAL L 117 REMARK 465 PHE L 118 REMARK 465 ILE L 119 REMARK 465 PHE L 120 REMARK 465 PRO L 121 REMARK 465 PRO L 122 REMARK 465 SER L 123 REMARK 465 ASP L 124 REMARK 465 GLU L 125 REMARK 465 GLN L 126 REMARK 465 LEU L 127 REMARK 465 LYS L 128 REMARK 465 SER L 129 REMARK 465 GLY L 130 REMARK 465 THR L 131 REMARK 465 ALA L 132 REMARK 465 SER L 133 REMARK 465 VAL L 134 REMARK 465 VAL L 135 REMARK 465 CYS L 136 REMARK 465 LEU L 137 REMARK 465 LEU L 138 REMARK 465 ASN L 139 REMARK 465 ASN L 140 REMARK 465 PHE L 141 REMARK 465 TYR L 142 REMARK 465 PRO L 143 REMARK 465 ARG L 144 REMARK 465 GLU L 145 REMARK 465 ALA L 146 REMARK 465 LYS L 147 REMARK 465 VAL L 148 REMARK 465 GLN L 149 REMARK 465 TRP L 150 REMARK 465 LYS L 151 REMARK 465 VAL L 152 REMARK 465 ASP L 153 REMARK 465 ASN L 154 REMARK 465 ALA L 155 REMARK 465 LEU L 156 REMARK 465 GLN L 157 REMARK 465 SER L 158 REMARK 465 GLY L 159 REMARK 465 ASN L 160 REMARK 465 SER L 161 REMARK 465 GLN L 162 REMARK 465 GLU L 163 REMARK 465 SER L 164 REMARK 465 VAL L 165 REMARK 465 THR L 166 REMARK 465 GLU L 167 REMARK 465 GLN L 168 REMARK 465 ASP L 169 REMARK 465 SER L 170 REMARK 465 LYS L 171 REMARK 465 ASP L 172 REMARK 465 SER L 173 REMARK 465 THR L 174 REMARK 465 TYR L 175 REMARK 465 SER L 176 REMARK 465 LEU L 177 REMARK 465 SER L 178 REMARK 465 SER L 179 REMARK 465 THR L 180 REMARK 465 LEU L 181 REMARK 465 THR L 182 REMARK 465 LEU L 183 REMARK 465 SER L 184 REMARK 465 LYS L 185 REMARK 465 ALA L 186 REMARK 465 ASP L 187 REMARK 465 TYR L 188 REMARK 465 GLU L 189 REMARK 465 LYS L 190 REMARK 465 HIS L 191 REMARK 465 LYS L 192 REMARK 465 VAL L 193 REMARK 465 TYR L 194 REMARK 465 ALA L 195 REMARK 465 CYS L 196 REMARK 465 GLU L 197 REMARK 465 VAL L 198 REMARK 465 THR L 199 REMARK 465 HIS L 200 REMARK 465 GLN L 201 REMARK 465 GLY L 202 REMARK 465 LEU L 203 REMARK 465 SER L 204 REMARK 465 SER L 205 REMARK 465 PRO L 206 REMARK 465 VAL L 207 REMARK 465 THR L 208 REMARK 465 LYS L 209 REMARK 465 SER L 210 REMARK 465 PHE L 211 REMARK 465 ASN L 212 REMARK 465 ARG L 213 REMARK 465 GLY L 214 REMARK 465 GLU L 215 REMARK 465 CYS L 216 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 CYS H 25 SG REMARK 470 CYS H 99 SG REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CYS A 203 CB - CA - C ANGL. DEV. = -20.6 DEGREES 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 ASN A 44 -6.05 71.82 REMARK 500 ARG A 50 -7.84 73.73 REMARK 500 HIS A 54 -0.22 -59.12 REMARK 500 LEU A 55 -35.99 -132.52 REMARK 500 LYS A 157 70.71 48.69 REMARK 500 LEU A 199 32.01 -96.22 REMARK 500 ALA A 942 -166.04 -75.24 REMARK 500 ALA H 113 -147.39 54.86 REMARK 500 TRP H 117 -169.80 -79.41 REMARK 500 SER L 31 -144.81 59.20 REMARK 500 SER L 51 -0.97 71.10 REMARK 500 ALA L 52 -0.46 77.14 REMARK 500 SER L 53 -38.88 -131.62 REMARK 500 SER L 68 116.65 -160.93 REMARK 500 PRO L 81 46.48 -80.20 REMARK 500 ASP L 83 46.12 -93.77 REMARK 500 ALA L 85 -168.91 -168.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-52615 RELATED DB: EMDB REMARK 900 DARK-STATE STRUCTURE OF HUMAN MEDIUM-WAVELENGTH CONE OPSIN (OPN1MW) DBREF 9I3T A 1 899 UNP P04001 OPSG_HUMAN 1 246 DBREF 9I3T A 900 1005 UNP P0ABE7 C562_ECOLX 23 128 DBREF 9I3T A 254 364 UNP P04001 OPSG_HUMAN 254 364 DBREF 9I3T H 1 231 PDB 9I3T 9I3T 1 231 DBREF 9I3T L 2 216 PDB 9I3T 9I3T 2 216 SEQADV 9I3T TRP A 906 UNP P0ABE7 MET 29 ENGINEERED MUTATION SEQADV 9I3T ILE A 1001 UNP P0ABE7 HIS 124 ENGINEERED MUTATION SEQADV 9I3T LEU A 1005 UNP P0ABE7 ARG 128 ENGINEERED MUTATION SEQADV 9I3T LEU A 365 UNP P04001 EXPRESSION TAG SEQADV 9I3T GLU A 366 UNP P04001 EXPRESSION TAG SEQADV 9I3T VAL A 367 UNP P04001 EXPRESSION TAG SEQADV 9I3T LEU A 368 UNP P04001 EXPRESSION TAG SEQADV 9I3T PHE A 369 UNP P04001 EXPRESSION TAG SEQADV 9I3T GLN A 370 UNP P04001 EXPRESSION TAG SEQADV 9I3T GLY A 371 UNP P04001 EXPRESSION TAG SEQADV 9I3T PRO A 372 UNP P04001 EXPRESSION TAG SEQADV 9I3T ASP A 373 UNP P04001 EXPRESSION TAG SEQADV 9I3T TYR A 374 UNP P04001 EXPRESSION TAG SEQADV 9I3T LYS A 375 UNP P04001 EXPRESSION TAG SEQADV 9I3T ASP A 376 UNP P04001 EXPRESSION TAG SEQADV 9I3T ASP A 377 UNP P04001 EXPRESSION TAG SEQADV 9I3T ASP A 378 UNP P04001 EXPRESSION TAG SEQADV 9I3T ASP A 379 UNP P04001 EXPRESSION TAG SEQADV 9I3T LYS A 380 UNP P04001 EXPRESSION TAG SEQADV 9I3T GLY A 381 UNP P04001 EXPRESSION TAG SEQADV 9I3T ALA A 382 UNP P04001 EXPRESSION TAG SEQADV 9I3T GLY A 383 UNP P04001 EXPRESSION TAG SEQADV 9I3T ALA A 384 UNP P04001 EXPRESSION TAG SEQADV 9I3T THR A 385 UNP P04001 EXPRESSION TAG SEQADV 9I3T GLU A 386 UNP P04001 EXPRESSION TAG SEQADV 9I3T THR A 387 UNP P04001 EXPRESSION TAG SEQADV 9I3T SER A 388 UNP P04001 EXPRESSION TAG SEQADV 9I3T GLN A 389 UNP P04001 EXPRESSION TAG SEQADV 9I3T VAL A 390 UNP P04001 EXPRESSION TAG SEQADV 9I3T ALA A 391 UNP P04001 EXPRESSION TAG SEQADV 9I3T PRO A 392 UNP P04001 EXPRESSION TAG SEQADV 9I3T ALA A 393 UNP P04001 EXPRESSION TAG SEQRES 1 A 492 MET ALA GLN GLN TRP SER LEU GLN ARG LEU ALA GLY ARG SEQRES 2 A 492 HIS PRO GLN ASP SER TYR GLU ASP SER THR GLN SER SER SEQRES 3 A 492 ILE PHE THR TYR THR ASN SER ASN SER THR ARG GLY PRO SEQRES 4 A 492 PHE GLU GLY PRO ASN TYR HIS ILE ALA PRO ARG TRP VAL SEQRES 5 A 492 TYR HIS LEU THR SER VAL TRP MET ILE PHE VAL VAL ILE SEQRES 6 A 492 ALA SER VAL PHE THR ASN GLY LEU VAL LEU ALA ALA THR SEQRES 7 A 492 MET LYS PHE LYS LYS LEU ARG HIS PRO LEU ASN TRP ILE SEQRES 8 A 492 LEU VAL ASN LEU ALA VAL ALA ASP LEU ALA GLU THR VAL SEQRES 9 A 492 ILE ALA SER THR ILE SER VAL VAL ASN GLN VAL TYR GLY SEQRES 10 A 492 TYR PHE VAL LEU GLY HIS PRO MET CYS VAL LEU GLU GLY SEQRES 11 A 492 TYR THR VAL SER LEU CYS GLY ILE THR GLY LEU TRP SER SEQRES 12 A 492 LEU ALA ILE ILE SER TRP GLU ARG TRP MET VAL VAL CYS SEQRES 13 A 492 LYS PRO PHE GLY ASN VAL ARG PHE ASP ALA LYS LEU ALA SEQRES 14 A 492 ILE VAL GLY ILE ALA PHE SER TRP ILE TRP ALA ALA VAL SEQRES 15 A 492 TRP THR ALA PRO PRO ILE PHE GLY TRP SER ARG TYR TRP SEQRES 16 A 492 PRO HIS GLY LEU LYS THR SER CYS GLY PRO ASP VAL PHE SEQRES 17 A 492 SER GLY SER SER TYR PRO GLY VAL GLN SER TYR MET ILE SEQRES 18 A 492 VAL LEU MET VAL THR CYS CYS ILE THR PRO LEU SER ILE SEQRES 19 A 492 ILE VAL LEU CYS TYR LEU GLN VAL TRP LEU ALA ILE ALA SEQRES 20 A 492 ASP LEU GLU ASP ASN TRP GLU THR LEU ASN ASP ASN LEU SEQRES 21 A 492 LYS VAL ILE GLU LYS ALA ASP ASN ALA ALA GLN VAL LYS SEQRES 22 A 492 ASP ALA LEU THR LYS MET ARG ALA ALA ALA LEU ASP ALA SEQRES 23 A 492 GLN LYS ALA THR PRO PRO LYS LEU GLU ASP LYS SER PRO SEQRES 24 A 492 ASP SER PRO GLU MET LYS ASP PHE ARG HIS GLY PHE ASP SEQRES 25 A 492 ILE LEU VAL GLY GLN ILE ASP ASP ALA LEU LYS LEU ALA SEQRES 26 A 492 ASN GLU GLY LYS VAL LYS GLU ALA GLN ALA ALA ALA GLU SEQRES 27 A 492 GLN LEU LYS THR THR ARG ASN ALA TYR ILE GLN LYS TYR SEQRES 28 A 492 LEU LYS GLU SER GLU SER THR GLN LYS ALA GLU LYS GLU SEQRES 29 A 492 VAL THR ARG MET VAL VAL VAL MET VAL LEU ALA PHE CYS SEQRES 30 A 492 PHE CYS TRP GLY PRO TYR ALA PHE PHE ALA CYS PHE ALA SEQRES 31 A 492 ALA ALA ASN PRO GLY TYR PRO PHE HIS PRO LEU MET ALA SEQRES 32 A 492 ALA LEU PRO ALA PHE PHE ALA LYS SER ALA THR ILE TYR SEQRES 33 A 492 ASN PRO VAL ILE TYR VAL PHE MET ASN ARG GLN PHE ARG SEQRES 34 A 492 ASN CYS ILE LEU GLN LEU PHE GLY LYS LYS VAL ASP ASP SEQRES 35 A 492 GLY SER GLU LEU SER SER ALA SER LYS THR GLU VAL SER SEQRES 36 A 492 SER VAL SER SER VAL SER PRO ALA LEU GLU VAL LEU PHE SEQRES 37 A 492 GLN GLY PRO ASP TYR LYS ASP ASP ASP ASP LYS GLY ALA SEQRES 38 A 492 GLY ALA THR GLU THR SER GLN VAL ALA PRO ALA SEQRES 1 H 231 GLU ILE SER GLU VAL GLN LEU VAL GLU SER GLY GLY GLY SEQRES 2 H 231 LEU VAL GLN PRO GLY GLY SER LEU ARG LEU SER CYS ALA SEQRES 3 H 231 ALA SER GLY PHE ASN VAL VAL ASP PHE SER LEU HIS TRP SEQRES 4 H 231 VAL ARG GLN ALA PRO GLY LYS GLY LEU GLU TRP VAL ALA SEQRES 5 H 231 TYR ILE SER SER SER SER GLY SER THR SER TYR ALA ASP SEQRES 6 H 231 SER VAL LYS GLY ARG PHE THR ILE SER ALA ASP THR SER SEQRES 7 H 231 LYS ASN THR ALA TYR LEU GLN MET ASN SER LEU ARG ALA SEQRES 8 H 231 GLU ASP THR ALA VAL TYR TYR CYS ALA ARG TRP GLY TYR SEQRES 9 H 231 TRP PRO GLY GLU PRO TRP TRP LYS ALA PHE ASP TYR TRP SEQRES 10 H 231 GLY GLN GLY THR LEU VAL THR VAL SER SER ALA SER THR SEQRES 11 H 231 LYS GLY PRO SER VAL PHE PRO LEU ALA PRO SER SER LYS SEQRES 12 H 231 SER THR SER GLY GLY THR ALA ALA LEU GLY CYS LEU VAL SEQRES 13 H 231 LYS ASP TYR PHE PRO GLU PRO VAL THR VAL SER TRP ASN SEQRES 14 H 231 SER GLY ALA LEU THR SER GLY VAL HIS THR PHE PRO ALA SEQRES 15 H 231 VAL LEU GLN SER SER GLY LEU TYR SER LEU SER SER VAL SEQRES 16 H 231 VAL THR VAL PRO SER SER SER LEU GLY THR GLN THR TYR SEQRES 17 H 231 ILE CYS ASN VAL ASN HIS LYS PRO SER ASN THR LYS VAL SEQRES 18 H 231 ASP LYS LYS VAL GLU PRO LYS SER CYS ASP SEQRES 1 L 215 ASP ILE GLN MET THR GLN SER PRO SER SER LEU SER ALA SEQRES 2 L 215 SER VAL GLY ASP ARG VAL THR ILE THR CYS ARG ALA SER SEQRES 3 L 215 GLN SER VAL SER SER ALA VAL ALA TRP TYR GLN GLN LYS SEQRES 4 L 215 PRO GLY LYS ALA PRO LYS LEU LEU ILE TYR SER ALA SER SEQRES 5 L 215 SER LEU TYR SER GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 215 ARG SER GLY THR ASP PHE THR LEU THR ILE SER SER LEU SEQRES 7 L 215 GLN PRO GLU ASP PHE ALA THR TYR TYR CYS GLN GLN TYR SEQRES 8 L 215 LEU TYR TYR SER LEU VAL THR PHE GLY GLN GLY THR LYS SEQRES 9 L 215 VAL GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE SEQRES 10 L 215 ILE PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR SEQRES 11 L 215 ALA SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG SEQRES 12 L 215 GLU ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SEQRES 13 L 215 SER GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER SEQRES 14 L 215 LYS ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SEQRES 15 L 215 SER LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS SEQRES 16 L 215 GLU VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SEQRES 17 L 215 SER PHE ASN ARG GLY GLU CYS HET RET A1101 20 HETNAM RET RETINAL FORMUL 4 RET C20 H28 O HELIX 1 AA1 ARG A 50 PHE A 81 1 32 HELIX 2 AA2 HIS A 86 GLY A 117 1 32 HELIX 3 AA3 GLY A 122 CYS A 156 1 35 HELIX 4 AA4 ASP A 165 THR A 184 1 20 HELIX 5 AA5 ALA A 185 GLY A 190 1 6 HELIX 6 AA6 GLY A 215 CYS A 228 1 14 HELIX 7 AA7 ILE A 229 LEU A 244 1 16 HELIX 8 AA8 LEU A 902 LYS A 918 1 17 HELIX 9 AA9 ASN A 921 ALA A 942 1 22 HELIX 10 AB1 SER A 954 GLU A 980 1 27 HELIX 11 AB2 VAL A 983 ALA A 999 1 17 HELIX 12 AB3 GLN A 1002 GLU A 255 1 6 HELIX 13 AB4 SER A 256 ASN A 294 1 39 HELIX 14 AB5 PRO A 301 LYS A 312 1 12 HELIX 15 AB6 SER A 313 ASN A 326 1 14 HELIX 16 AB7 ASN A 326 LYS A 339 1 14 HELIX 17 AB8 ASP H 65 LYS H 68 5 4 HELIX 18 AB9 ARG H 90 THR H 94 5 5 HELIX 19 AC1 GLY H 107 LYS H 112 1 6 SHEET 1 AA1 2 TYR A 194 HIS A 197 0 SHEET 2 AA1 2 SER A 202 PRO A 205 -1 O GLY A 204 N TRP A 195 SHEET 1 AA2 4 GLN H 6 SER H 10 0 SHEET 2 AA2 4 SER H 20 SER H 28 -1 O SER H 24 N SER H 10 SHEET 3 AA2 4 THR H 81 ASN H 87 -1 O MET H 86 N LEU H 21 SHEET 4 AA2 4 PHE H 71 ASP H 76 -1 N THR H 72 O GLN H 85 SHEET 1 AA3 5 SER H 60 TYR H 63 0 SHEET 2 AA3 5 LEU H 48 SER H 55 -1 N TYR H 53 O SER H 62 SHEET 3 AA3 5 SER H 36 GLN H 42 -1 N LEU H 37 O ILE H 54 SHEET 4 AA3 5 ALA H 95 TRP H 102 -1 O ALA H 100 N HIS H 38 SHEET 5 AA3 5 THR H 121 VAL H 123 -1 O VAL H 123 N ALA H 95 SHEET 1 AA4 4 MET L 5 GLN L 7 0 SHEET 2 AA4 4 VAL L 20 ALA L 26 -1 O ARG L 25 N THR L 6 SHEET 3 AA4 4 ASP L 71 ILE L 76 -1 O PHE L 72 N CYS L 24 SHEET 4 AA4 4 PHE L 63 SER L 68 -1 N SER L 66 O THR L 73 SHEET 1 AA5 5 SER L 11 LEU L 12 0 SHEET 2 AA5 5 THR L 104 VAL L 106 1 O LYS L 105 N LEU L 12 SHEET 3 AA5 5 ALA L 85 TYR L 94 -1 N TYR L 87 O THR L 104 SHEET 4 AA5 5 VAL L 34 GLN L 39 -1 N ALA L 35 O GLN L 90 SHEET 5 AA5 5 LYS L 46 ILE L 49 -1 O LYS L 46 N GLN L 38 SHEET 1 AA6 4 SER L 11 LEU L 12 0 SHEET 2 AA6 4 THR L 104 VAL L 106 1 O LYS L 105 N LEU L 12 SHEET 3 AA6 4 ALA L 85 TYR L 94 -1 N TYR L 87 O THR L 104 SHEET 4 AA6 4 LEU L 97 THR L 99 -1 O THR L 99 N GLN L 91 SSBOND 1 CYS A 126 CYS A 203 1555 1555 1.85 SSBOND 2 CYS L 24 CYS L 89 1555 1555 2.04 LINK NZ LYS A 312 C15 RET A1101 1555 1555 1.27 CISPEP 1 TRP H 105 PRO H 106 0 2.52 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 CONECT 682 1300 CONECT 1300 682 CONECT 2894 4938 CONECT 4247 4744 CONECT 4744 4247 CONECT 4924 4925 4929 4939 4940 CONECT 4925 4924 4926 CONECT 4926 4925 4927 CONECT 4927 4926 4928 CONECT 4928 4927 4929 4941 CONECT 4929 4924 4928 4930 CONECT 4930 4929 4931 CONECT 4931 4930 4932 CONECT 4932 4931 4933 4942 CONECT 4933 4932 4934 CONECT 4934 4933 4935 CONECT 4935 4934 4936 CONECT 4936 4935 4937 4943 CONECT 4937 4936 4938 CONECT 4938 2894 4937 CONECT 4939 4924 CONECT 4940 4924 CONECT 4941 4928 CONECT 4942 4932 CONECT 4943 4936 MASTER 479 0 1 19 24 0 0 6 4940 3 25 73 END