HEADER MEMBRANE PROTEIN 23-MAR-23 8IU2 TITLE CRYO-EM STRUCTURE OF LONG-WAVE-SENSITIVE OPSIN 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: LONG-WAVE-SENSITIVE OPSIN 1; COMPND 3 CHAIN: R; COMPND 4 SYNONYM: RED CONE PHOTORECEPTOR PIGMENT,RED-SENSITIVE OPSIN,ROP; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: GUANINE NUCLEOTIDE-BINDING PROTEIN G(I) SUBUNIT ALPHA-1; COMPND 9 CHAIN: A; COMPND 10 SYNONYM: ADENYLATE CYCLASE-INHIBITING G ALPHA PROTEIN; COMPND 11 ENGINEERED: YES; COMPND 12 MUTATION: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: GUANINE NUCLEOTIDE-BINDING PROTEIN G(I)/G(S)/G(T) SUBUNIT COMPND 15 BETA-1; COMPND 16 CHAIN: B; COMPND 17 SYNONYM: TRANSDUCIN BETA CHAIN 1; COMPND 18 ENGINEERED: YES; COMPND 19 MOL_ID: 4; COMPND 20 MOLECULE: GUANINE NUCLEOTIDE-BINDING PROTEIN G(I)/G(S)/G(O) SUBUNIT COMPND 21 GAMMA-2; COMPND 22 CHAIN: G; COMPND 23 SYNONYM: G GAMMA-I; COMPND 24 ENGINEERED: YES; COMPND 25 MOL_ID: 5; COMPND 26 MOLECULE: SCFV RECOMBINANT HUMAN MONOCLONAL ANTIBODY (SCFV16); COMPND 27 CHAIN: S; COMPND 28 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: OPN1LW, RCP; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: GNAI1; SOURCE 13 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_COMMON: HUMAN; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 GENE: GNB1; SOURCE 20 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 22 MOL_ID: 4; SOURCE 23 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 24 ORGANISM_COMMON: CATTLE; SOURCE 25 ORGANISM_TAXID: 9913; SOURCE 26 GENE: GNG2; SOURCE 27 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 28 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 29 MOL_ID: 5; SOURCE 30 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 31 ORGANISM_COMMON: HUMAN; SOURCE 32 ORGANISM_TAXID: 9606; SOURCE 33 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 34 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS LONG-WAVE-SENSITIVE OPSIN 1, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR Q.PENG,X.Y.CHENG,J.LI,Q.Y.LU,Y.Y.LI,J.ZHANG REVDAT 1 27-MAR-24 8IU2 0 JRNL AUTH J.LI,J.ZHANG JRNL TITL CRYO-EM STRUCTURE OF LONG-WAVE-SENSITIVE OPSIN 1 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.35 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) : 3.350 REMARK 3 NUMBER OF PARTICLES : 240610 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 8IU2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 21-JAN-24. REMARK 100 THE DEPOSITION ID IS D_1300036481. 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 : LONG-WAVE-SENSITIVE OPSIN 1 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 K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1800.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2200.00 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) : 4100.00 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: PENTAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: R, A, B, G, S 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 R 1 REMARK 465 ALA R 2 REMARK 465 GLN R 3 REMARK 465 GLN R 4 REMARK 465 TRP R 5 REMARK 465 SER R 6 REMARK 465 LEU R 7 REMARK 465 GLN R 8 REMARK 465 ARG R 9 REMARK 465 LEU R 10 REMARK 465 ALA R 11 REMARK 465 GLY R 12 REMARK 465 ARG R 13 REMARK 465 HIS R 14 REMARK 465 PRO R 15 REMARK 465 GLN R 16 REMARK 465 ASP R 17 REMARK 465 SER R 18 REMARK 465 TYR R 19 REMARK 465 GLU R 20 REMARK 465 ASP R 21 REMARK 465 SER R 22 REMARK 465 THR R 23 REMARK 465 GLN R 24 REMARK 465 SER R 25 REMARK 465 SER R 26 REMARK 465 ILE R 27 REMARK 465 PHE R 28 REMARK 465 THR R 29 REMARK 465 TYR R 30 REMARK 465 THR R 31 REMARK 465 ASN R 32 REMARK 465 SER R 33 REMARK 465 ASN R 34 REMARK 465 SER R 35 REMARK 465 THR R 36 REMARK 465 ARG R 37 REMARK 465 LEU R 336 REMARK 465 PHE R 337 REMARK 465 GLY R 338 REMARK 465 LYS R 339 REMARK 465 LYS R 340 REMARK 465 VAL R 341 REMARK 465 ASP R 342 REMARK 465 ASP R 343 REMARK 465 GLY R 344 REMARK 465 SER R 345 REMARK 465 GLU R 346 REMARK 465 LEU R 347 REMARK 465 SER R 348 REMARK 465 SER R 349 REMARK 465 ALA R 350 REMARK 465 SER R 351 REMARK 465 LYS R 352 REMARK 465 THR R 353 REMARK 465 GLU R 354 REMARK 465 VAL R 355 REMARK 465 SER R 356 REMARK 465 SER R 357 REMARK 465 VAL R 358 REMARK 465 SER R 359 REMARK 465 SER R 360 REMARK 465 VAL R 361 REMARK 465 SER R 362 REMARK 465 PRO R 363 REMARK 465 ALA R 364 REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 LYS A 46 REMARK 465 CYS A 47 REMARK 465 THR A 48 REMARK 465 ILE A 49 REMARK 465 VAL A 50 REMARK 465 LYS A 51 REMARK 465 GLN A 52 REMARK 465 MET A 53 REMARK 465 LYS A 54 REMARK 465 ILE A 55 REMARK 465 ILE A 56 REMARK 465 HIS A 57 REMARK 465 GLU A 58 REMARK 465 ALA A 59 REMARK 465 GLY A 60 REMARK 465 TYR A 61 REMARK 465 SER A 62 REMARK 465 GLU A 63 REMARK 465 GLU A 64 REMARK 465 GLU A 65 REMARK 465 CYS A 66 REMARK 465 LYS A 67 REMARK 465 GLN A 68 REMARK 465 TYR A 69 REMARK 465 LYS A 70 REMARK 465 ALA A 71 REMARK 465 VAL A 72 REMARK 465 VAL A 73 REMARK 465 TYR A 74 REMARK 465 SER A 75 REMARK 465 ASN A 76 REMARK 465 THR A 77 REMARK 465 ILE A 78 REMARK 465 GLN A 79 REMARK 465 SER A 80 REMARK 465 ILE A 81 REMARK 465 ILE A 82 REMARK 465 ALA A 83 REMARK 465 ILE A 84 REMARK 465 ILE A 85 REMARK 465 ARG A 86 REMARK 465 ALA A 87 REMARK 465 MET A 88 REMARK 465 GLY A 89 REMARK 465 ARG A 90 REMARK 465 LEU A 91 REMARK 465 LYS A 92 REMARK 465 ILE A 93 REMARK 465 ASP A 94 REMARK 465 PHE A 95 REMARK 465 GLY A 96 REMARK 465 ASP A 97 REMARK 465 SER A 98 REMARK 465 ALA A 99 REMARK 465 ARG A 100 REMARK 465 ALA A 101 REMARK 465 ASP A 102 REMARK 465 ASP A 103 REMARK 465 ALA A 104 REMARK 465 ARG A 105 REMARK 465 GLN A 106 REMARK 465 LEU A 107 REMARK 465 PHE A 108 REMARK 465 VAL A 109 REMARK 465 LEU A 110 REMARK 465 ALA A 111 REMARK 465 GLY A 112 REMARK 465 ALA A 113 REMARK 465 ALA A 114 REMARK 465 GLU A 115 REMARK 465 GLU A 116 REMARK 465 GLY A 117 REMARK 465 PHE A 118 REMARK 465 MET A 119 REMARK 465 THR A 120 REMARK 465 ALA A 121 REMARK 465 GLU A 122 REMARK 465 LEU A 123 REMARK 465 ALA A 124 REMARK 465 GLY A 125 REMARK 465 VAL A 126 REMARK 465 ILE A 127 REMARK 465 LYS A 128 REMARK 465 ARG A 129 REMARK 465 LEU A 130 REMARK 465 TRP A 131 REMARK 465 LYS A 132 REMARK 465 ASP A 133 REMARK 465 SER A 134 REMARK 465 GLY A 135 REMARK 465 VAL A 136 REMARK 465 GLN A 137 REMARK 465 ALA A 138 REMARK 465 CYS A 139 REMARK 465 PHE A 140 REMARK 465 ASN A 141 REMARK 465 ARG A 142 REMARK 465 SER A 143 REMARK 465 ARG A 144 REMARK 465 GLU A 145 REMARK 465 TYR A 146 REMARK 465 GLN A 147 REMARK 465 LEU A 148 REMARK 465 ASN A 149 REMARK 465 ASP A 150 REMARK 465 SER A 151 REMARK 465 ALA A 152 REMARK 465 ALA A 153 REMARK 465 TYR A 154 REMARK 465 TYR A 155 REMARK 465 LEU A 156 REMARK 465 ASN A 157 REMARK 465 ASP A 158 REMARK 465 LEU A 159 REMARK 465 ASP A 160 REMARK 465 ARG A 161 REMARK 465 ILE A 162 REMARK 465 ALA A 163 REMARK 465 GLN A 164 REMARK 465 PRO A 165 REMARK 465 ASN A 166 REMARK 465 TYR A 167 REMARK 465 ILE A 168 REMARK 465 PRO A 169 REMARK 465 THR A 170 REMARK 465 GLN A 171 REMARK 465 GLN A 172 REMARK 465 ASP A 173 REMARK 465 VAL A 174 REMARK 465 LEU A 175 REMARK 465 ARG A 176 REMARK 465 THR A 177 REMARK 465 ARG A 178 REMARK 465 VAL A 179 REMARK 465 LYS A 180 REMARK 465 THR A 181 REMARK 465 VAL A 233 REMARK 465 LEU A 234 REMARK 465 ALA A 235 REMARK 465 GLU A 236 REMARK 465 ASP A 237 REMARK 465 GLU A 238 REMARK 465 GLU A 239 REMARK 465 MET B 1 REMARK 465 MET G 1 REMARK 465 ALA G 2 REMARK 465 SER G 3 REMARK 465 ASN G 4 REMARK 465 GLU G 63 REMARK 465 LYS G 64 REMARK 465 LYS G 65 REMARK 465 PHE G 66 REMARK 465 PHE G 67 REMARK 465 CYS G 68 REMARK 465 ALA G 69 REMARK 465 ILE G 70 REMARK 465 LEU G 71 REMARK 465 ASP S 1 REMARK 465 GLY S 122 REMARK 465 GLY S 123 REMARK 465 GLY S 124 REMARK 465 GLY S 125 REMARK 465 SER S 126 REMARK 465 GLY S 127 REMARK 465 GLY S 128 REMARK 465 GLY S 129 REMARK 465 GLY S 130 REMARK 465 SER S 131 REMARK 465 GLY S 132 REMARK 465 GLY S 133 REMARK 465 GLY S 134 REMARK 465 LYS S 248 REMARK 465 ALA S 249 REMARK 465 ALA S 250 REMARK 465 ALA S 251 REMARK 465 LEU S 252 REMARK 465 GLU S 253 REMARK 465 VAL S 254 REMARK 465 LEU S 255 REMARK 465 PHE S 256 REMARK 465 GLN S 257 REMARK 465 GLY S 258 REMARK 465 PRO S 259 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 MET R 60 CG SD CE REMARK 470 LYS R 82 CG CD CE NZ REMARK 470 LYS R 83 CG CD CE NZ REMARK 470 ARG R 193 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 25 CG CD OE1 OE2 REMARK 470 ASP A 26 CG OD1 OD2 REMARK 470 GLU A 33 CG CD OE1 OE2 REMARK 470 GLU A 43 CG CD OE1 OE2 REMARK 470 GLU A 186 CG CD OE1 OE2 REMARK 470 ASP A 193 CG OD1 OD2 REMARK 470 ARG A 205 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 209 CG CD CE NZ REMARK 470 ASP A 229 CG OD1 OD2 REMARK 470 ASP A 231 CG OD1 OD2 REMARK 470 LEU A 232 CG CD1 CD2 REMARK 470 MET A 240 CG SD CE REMARK 470 ARG A 242 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 248 CG CD CE NZ REMARK 470 ASP A 261 CG OD1 OD2 REMARK 470 ASP A 272 CG OD1 OD2 REMARK 470 LYS A 277 CG CD CE NZ REMARK 470 LYS A 279 CG CD CE NZ REMARK 470 LYS A 280 CG CD CE NZ REMARK 470 GLU A 289 CG CD OE1 OE2 REMARK 470 ASN A 294 CG OD1 ND2 REMARK 470 THR A 295 OG1 CG2 REMARK 470 GLU A 297 CG CD OE1 OE2 REMARK 470 ASP A 309 CG OD1 OD2 REMARK 470 LYS A 312 CG CD CE NZ REMARK 470 GLU A 318 CG CD OE1 OE2 REMARK 470 GLU B 130 CG CD OE1 OE2 REMARK 470 GLU B 172 CG CD OE1 OE2 REMARK 470 ARG G 62 CG CD NE CZ NH1 NH2 REMARK 470 GLU S 6 CG CD OE1 OE2 REMARK 470 GLU S 42 CG CD OE1 OE2 REMARK 470 ASP S 62 CG OD1 OD2 REMARK 470 LYS S 76 CG CD CE NZ REMARK 470 GLU S 89 CG CD OE1 OE2 REMARK 470 SER S 121 OG REMARK 470 THR S 144 OG1 CG2 REMARK 470 SER S 146 OG REMARK 470 GLU S 153 CG CD OE1 OE2 REMARK 470 SER S 164 OG REMARK 470 GLU S 220 CG CD OE1 OE2 REMARK 470 GLU S 246 CG CD OE1 OE2 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 ARG R 85 77.59 -67.74 REMARK 500 TRP R 191 -110.07 -93.83 REMARK 500 CYS R 228 -56.74 -125.24 REMARK 500 ALA A 203 5.58 130.87 REMARK 500 ASN A 255 34.83 -97.00 REMARK 500 SER A 281 77.04 53.06 REMARK 500 PRO A 282 -179.63 -68.59 REMARK 500 LEU A 310 5.49 83.96 REMARK 500 THR B 34 33.74 -94.84 REMARK 500 LYS B 127 51.19 -115.00 REMARK 500 SER B 136 -60.92 -95.99 REMARK 500 SER B 191 117.01 -160.02 REMARK 500 THR B 196 25.56 -79.11 REMARK 500 GLU B 215 -62.32 -92.13 REMARK 500 PHE B 292 -0.31 79.31 REMARK 500 LEU B 308 75.33 -100.41 REMARK 500 HIS G 44 32.52 -96.13 REMARK 500 ASP S 62 -6.05 67.50 REMARK 500 ASN S 77 10.25 -67.10 REMARK 500 ASP S 90 49.25 -91.74 REMARK 500 SER S 136 35.89 -99.48 REMARK 500 SER S 161 -167.17 -126.82 REMARK 500 LEU S 178 119.33 -161.19 REMARK 500 ALA S 196 -169.56 -79.74 REMARK 500 ASP S 201 0.15 -68.51 REMARK 500 SER S 208 110.29 -160.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP B 195 THR B 196 -147.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-35714 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF LONG-WAVE-SENSITIVE OPSIN 1 DBREF 8IU2 R 1 364 UNP P04000 OPSR_HUMAN 1 364 DBREF 8IU2 A 1 354 UNP P63096 GNAI1_HUMAN 1 354 DBREF 8IU2 B 1 340 UNP P62873 GBB1_HUMAN 1 340 DBREF 8IU2 G 1 71 UNP P63212 GBG2_BOVIN 1 71 DBREF 8IU2 S 1 259 PDB 8IU2 8IU2 1 259 SEQADV 8IU2 GLN R 129 UNP P04000 GLU 129 ENGINEERED MUTATION SEQADV 8IU2 CYS A 47 UNP P63096 SER 47 ENGINEERED MUTATION SEQADV 8IU2 THR A 202 UNP P63096 GLY 202 ENGINEERED MUTATION SEQADV 8IU2 ALA A 203 UNP P63096 GLY 203 ENGINEERED MUTATION SEQADV 8IU2 ALA A 245 UNP P63096 GLU 245 ENGINEERED MUTATION SEQADV 8IU2 SER A 326 UNP P63096 ALA 326 ENGINEERED MUTATION SEQRES 1 R 364 MET ALA GLN GLN TRP SER LEU GLN ARG LEU ALA GLY ARG SEQRES 2 R 364 HIS PRO GLN ASP SER TYR GLU ASP SER THR GLN SER SER SEQRES 3 R 364 ILE PHE THR TYR THR ASN SER ASN SER THR ARG GLY PRO SEQRES 4 R 364 PHE GLU GLY PRO ASN TYR HIS ILE ALA PRO ARG TRP VAL SEQRES 5 R 364 TYR HIS LEU THR SER VAL TRP MET ILE PHE VAL VAL THR SEQRES 6 R 364 ALA SER VAL PHE THR ASN GLY LEU VAL LEU ALA ALA THR SEQRES 7 R 364 MET LYS PHE LYS LYS LEU ARG HIS PRO LEU ASN TRP ILE SEQRES 8 R 364 LEU VAL ASN LEU ALA VAL ALA ASP LEU ALA GLU THR VAL SEQRES 9 R 364 ILE ALA SER THR ILE SER ILE VAL ASN GLN VAL SER GLY SEQRES 10 R 364 TYR PHE VAL LEU GLY HIS PRO MET CYS VAL LEU GLN GLY SEQRES 11 R 364 TYR THR VAL SER LEU CYS GLY ILE THR GLY LEU TRP SER SEQRES 12 R 364 LEU ALA ILE ILE SER TRP GLU ARG TRP MET VAL VAL CYS SEQRES 13 R 364 LYS PRO PHE GLY ASN VAL ARG PHE ASP ALA LYS LEU ALA SEQRES 14 R 364 ILE VAL GLY ILE ALA PHE SER TRP ILE TRP ALA ALA VAL SEQRES 15 R 364 TRP THR ALA PRO PRO ILE PHE GLY TRP SER ARG TYR TRP SEQRES 16 R 364 PRO HIS GLY LEU LYS THR SER CYS GLY PRO ASP VAL PHE SEQRES 17 R 364 SER GLY SER SER TYR PRO GLY VAL GLN SER TYR MET ILE SEQRES 18 R 364 VAL LEU MET VAL THR CYS CYS ILE ILE PRO LEU ALA ILE SEQRES 19 R 364 ILE MET LEU CYS TYR LEU GLN VAL TRP LEU ALA ILE ARG SEQRES 20 R 364 ALA VAL ALA LYS GLN GLN LYS GLU SER GLU SER THR GLN SEQRES 21 R 364 LYS ALA GLU LYS GLU VAL THR ARG MET VAL VAL VAL MET SEQRES 22 R 364 ILE PHE ALA TYR CYS VAL CYS TRP GLY PRO TYR THR PHE SEQRES 23 R 364 PHE ALA CYS PHE ALA ALA ALA ASN PRO GLY TYR ALA PHE SEQRES 24 R 364 HIS PRO LEU MET ALA ALA LEU PRO ALA TYR PHE ALA LYS SEQRES 25 R 364 SER ALA THR ILE TYR ASN PRO VAL ILE TYR VAL PHE MET SEQRES 26 R 364 ASN ARG GLN PHE ARG ASN CYS ILE LEU GLN LEU PHE GLY SEQRES 27 R 364 LYS LYS VAL ASP ASP GLY SER GLU LEU SER SER ALA SER SEQRES 28 R 364 LYS THR GLU VAL SER SER VAL SER SER VAL SER PRO ALA SEQRES 1 A 354 MET GLY CYS THR LEU SER ALA GLU ASP LYS ALA ALA VAL SEQRES 2 A 354 GLU ARG SER LYS MET ILE ASP ARG ASN LEU ARG GLU ASP SEQRES 3 A 354 GLY GLU LYS ALA ALA ARG GLU VAL LYS LEU LEU LEU LEU SEQRES 4 A 354 GLY ALA GLY GLU SER GLY LYS CYS THR ILE VAL LYS GLN SEQRES 5 A 354 MET LYS ILE ILE HIS GLU ALA GLY TYR SER GLU GLU GLU SEQRES 6 A 354 CYS LYS GLN TYR LYS ALA VAL VAL TYR SER ASN THR ILE SEQRES 7 A 354 GLN SER ILE ILE ALA ILE ILE ARG ALA MET GLY ARG LEU SEQRES 8 A 354 LYS ILE ASP PHE GLY ASP SER ALA ARG ALA ASP ASP ALA SEQRES 9 A 354 ARG GLN LEU PHE VAL LEU ALA GLY ALA ALA GLU GLU GLY SEQRES 10 A 354 PHE MET THR ALA GLU LEU ALA GLY VAL ILE LYS ARG LEU SEQRES 11 A 354 TRP LYS ASP SER GLY VAL GLN ALA CYS PHE ASN ARG SER SEQRES 12 A 354 ARG GLU TYR GLN LEU ASN ASP SER ALA ALA TYR TYR LEU SEQRES 13 A 354 ASN ASP LEU ASP ARG ILE ALA GLN PRO ASN TYR ILE PRO SEQRES 14 A 354 THR GLN GLN ASP VAL LEU ARG THR ARG VAL LYS THR THR SEQRES 15 A 354 GLY ILE VAL GLU THR HIS PHE THR PHE LYS ASP LEU HIS SEQRES 16 A 354 PHE LYS MET PHE ASP VAL THR ALA GLN ARG SER GLU ARG SEQRES 17 A 354 LYS LYS TRP ILE HIS CYS PHE GLU GLY VAL THR ALA ILE SEQRES 18 A 354 ILE PHE CYS VAL ALA LEU SER ASP TYR ASP LEU VAL LEU SEQRES 19 A 354 ALA GLU ASP GLU GLU MET ASN ARG MET HIS ALA SER MET SEQRES 20 A 354 LYS LEU PHE ASP SER ILE CYS ASN ASN LYS TRP PHE THR SEQRES 21 A 354 ASP THR SER ILE ILE LEU PHE LEU ASN LYS LYS ASP LEU SEQRES 22 A 354 PHE GLU GLU LYS ILE LYS LYS SER PRO LEU THR ILE CYS SEQRES 23 A 354 TYR PRO GLU TYR ALA GLY SER ASN THR TYR GLU GLU ALA SEQRES 24 A 354 ALA ALA TYR ILE GLN CYS GLN PHE GLU ASP LEU ASN LYS SEQRES 25 A 354 ARG LYS ASP THR LYS GLU ILE TYR THR HIS PHE THR CYS SEQRES 26 A 354 SER THR ASP THR LYS ASN VAL GLN PHE VAL PHE ASP ALA SEQRES 27 A 354 VAL THR ASP VAL ILE ILE LYS ASN ASN LEU LYS ASP CYS SEQRES 28 A 354 GLY LEU PHE SEQRES 1 B 340 MET SER GLU LEU ASP GLN LEU ARG GLN GLU ALA GLU GLN SEQRES 2 B 340 LEU LYS ASN GLN ILE ARG ASP ALA ARG LYS ALA CYS ALA SEQRES 3 B 340 ASP ALA THR LEU SER GLN ILE THR ASN ASN ILE ASP PRO SEQRES 4 B 340 VAL GLY ARG ILE GLN MET ARG THR ARG ARG THR LEU ARG SEQRES 5 B 340 GLY HIS LEU ALA LYS ILE TYR ALA MET HIS TRP GLY THR SEQRES 6 B 340 ASP SER ARG LEU LEU VAL SER ALA SER GLN ASP GLY LYS SEQRES 7 B 340 LEU ILE ILE TRP ASP SER TYR THR THR ASN LYS VAL HIS SEQRES 8 B 340 ALA ILE PRO LEU ARG SER SER TRP VAL MET THR CYS ALA SEQRES 9 B 340 TYR ALA PRO SER GLY ASN TYR VAL ALA CYS GLY GLY LEU SEQRES 10 B 340 ASP ASN ILE CYS SER ILE TYR ASN LEU LYS THR ARG GLU SEQRES 11 B 340 GLY ASN VAL ARG VAL SER ARG GLU LEU ALA GLY HIS THR SEQRES 12 B 340 GLY TYR LEU SER CYS CYS ARG PHE LEU ASP ASP ASN GLN SEQRES 13 B 340 ILE VAL THR SER SER GLY ASP THR THR CYS ALA LEU TRP SEQRES 14 B 340 ASP ILE GLU THR GLY GLN GLN THR THR THR PHE THR GLY SEQRES 15 B 340 HIS THR GLY ASP VAL MET SER LEU SER LEU ALA PRO ASP SEQRES 16 B 340 THR ARG LEU PHE VAL SER GLY ALA CYS ASP ALA SER ALA SEQRES 17 B 340 LYS LEU TRP ASP VAL ARG GLU GLY MET CYS ARG GLN THR SEQRES 18 B 340 PHE THR GLY HIS GLU SER ASP ILE ASN ALA ILE CYS PHE SEQRES 19 B 340 PHE PRO ASN GLY ASN ALA PHE ALA THR GLY SER ASP ASP SEQRES 20 B 340 ALA THR CYS ARG LEU PHE ASP LEU ARG ALA ASP GLN GLU SEQRES 21 B 340 LEU MET THR TYR SER HIS ASP ASN ILE ILE CYS GLY ILE SEQRES 22 B 340 THR SER VAL SER PHE SER LYS SER GLY ARG LEU LEU LEU SEQRES 23 B 340 ALA GLY TYR ASP ASP PHE ASN CYS ASN VAL TRP ASP ALA SEQRES 24 B 340 LEU LYS ALA ASP ARG ALA GLY VAL LEU ALA GLY HIS ASP SEQRES 25 B 340 ASN ARG VAL SER CYS LEU GLY VAL THR ASP ASP GLY MET SEQRES 26 B 340 ALA VAL ALA THR GLY SER TRP ASP SER PHE LEU LYS ILE SEQRES 27 B 340 TRP ASN SEQRES 1 G 71 MET ALA SER ASN ASN THR ALA SER ILE ALA GLN ALA ARG SEQRES 2 G 71 LYS LEU VAL GLU GLN LEU LYS MET GLU ALA ASN ILE ASP SEQRES 3 G 71 ARG ILE LYS VAL SER LYS ALA ALA ALA ASP LEU MET ALA SEQRES 4 G 71 TYR CYS GLU ALA HIS ALA LYS GLU ASP PRO LEU LEU THR SEQRES 5 G 71 PRO VAL PRO ALA SER GLU ASN PRO PHE ARG GLU LYS LYS SEQRES 6 G 71 PHE PHE CYS ALA ILE LEU SEQRES 1 S 259 ASP VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 S 259 PRO GLY GLY SER ARG LYS LEU SER CYS SER ALA SER GLY SEQRES 3 S 259 PHE ALA PHE SER SER PHE GLY MET HIS TRP VAL ARG GLN SEQRES 4 S 259 ALA PRO GLU LYS GLY LEU GLU TRP VAL ALA TYR ILE SER SEQRES 5 S 259 SER GLY SER GLY THR ILE TYR TYR ALA ASP THR VAL LYS SEQRES 6 S 259 GLY ARG PHE THR ILE SER ARG ASP ASP PRO LYS ASN THR SEQRES 7 S 259 LEU PHE LEU GLN MET THR SER LEU ARG SER GLU ASP THR SEQRES 8 S 259 ALA MET TYR TYR CYS VAL ARG SER ILE TYR TYR TYR GLY SEQRES 9 S 259 SER SER PRO PHE ASP PHE TRP GLY GLN GLY THR THR LEU SEQRES 10 S 259 THR VAL SER SER GLY GLY GLY GLY SER GLY GLY GLY GLY SEQRES 11 S 259 SER GLY GLY GLY GLY SER ASP ILE VAL MET THR GLN ALA SEQRES 12 S 259 THR SER SER VAL PRO VAL THR PRO GLY GLU SER VAL SER SEQRES 13 S 259 ILE SER CYS ARG SER SER LYS SER LEU LEU HIS SER ASN SEQRES 14 S 259 GLY ASN THR TYR LEU TYR TRP PHE LEU GLN ARG PRO GLY SEQRES 15 S 259 GLN SER PRO GLN LEU LEU ILE TYR ARG MET SER ASN LEU SEQRES 16 S 259 ALA SER GLY VAL PRO ASP ARG PHE SER GLY SER GLY SER SEQRES 17 S 259 GLY THR ALA PHE THR LEU THR ILE SER ARG LEU GLU ALA SEQRES 18 S 259 GLU ASP VAL GLY VAL TYR TYR CYS MET GLN HIS LEU GLU SEQRES 19 S 259 TYR PRO LEU THR PHE GLY ALA GLY THR LYS LEU GLU LEU SEQRES 20 S 259 LYS ALA ALA ALA LEU GLU VAL LEU PHE GLN GLY PRO HET RET R 401 20 HETNAM RET RETINAL FORMUL 6 RET C20 H28 O HELIX 1 AA1 PRO R 49 PHE R 81 1 33 HELIX 2 AA2 ASN R 89 GLY R 117 1 29 HELIX 3 AA3 GLY R 122 LYS R 157 1 36 HELIX 4 AA4 ASP R 165 ALA R 185 1 21 HELIX 5 AA5 ALA R 185 GLY R 190 1 6 HELIX 6 AA6 GLY R 215 CYS R 228 1 14 HELIX 7 AA7 CYS R 228 GLN R 253 1 26 HELIX 8 AA8 SER R 256 ASN R 294 1 39 HELIX 9 AA9 HIS R 300 VAL R 323 1 24 HELIX 10 AB1 ASN R 326 GLN R 335 1 10 HELIX 11 AB2 SER A 6 GLU A 33 1 28 HELIX 12 AB3 GLU A 207 GLU A 216 5 10 HELIX 13 AB4 SER A 228 TYR A 230 5 3 HELIX 14 AB5 ASN A 241 ASN A 255 1 15 HELIX 15 AB6 LYS A 270 ILE A 278 1 9 HELIX 16 AB7 THR A 295 ASP A 309 1 15 HELIX 17 AB8 THR A 329 GLY A 352 1 24 HELIX 18 AB9 GLU B 3 ALA B 26 1 24 HELIX 19 AC1 THR G 6 ASN G 24 1 19 HELIX 20 AC2 LYS G 29 HIS G 44 1 16 HELIX 21 AC3 ALA S 28 PHE S 32 5 5 HELIX 22 AC4 SER S 52 GLY S 56 5 5 SHEET 1 AA1 2 TYR R 194 HIS R 197 0 SHEET 2 AA1 2 SER R 202 PRO R 205 -1 O GLY R 204 N TRP R 195 SHEET 1 AA2 4 LEU A 38 LEU A 39 0 SHEET 2 AA2 4 ILE A 222 ALA A 226 1 O CYS A 224 N LEU A 39 SHEET 3 AA2 4 ILE A 264 ASN A 269 1 O ASN A 269 N VAL A 225 SHEET 4 AA2 4 ILE A 319 PHE A 323 1 O TYR A 320 N LEU A 266 SHEET 1 AA3 2 VAL A 185 THR A 190 0 SHEET 2 AA3 2 HIS A 195 ASP A 200 -1 O PHE A 196 N PHE A 189 SHEET 1 AA4 4 ARG B 46 THR B 47 0 SHEET 2 AA4 4 LEU B 336 ASN B 340 -1 O ASN B 340 N ARG B 46 SHEET 3 AA4 4 VAL B 327 SER B 331 -1 N VAL B 327 O TRP B 339 SHEET 4 AA4 4 VAL B 315 VAL B 320 -1 N GLY B 319 O ALA B 328 SHEET 1 AA5 4 ILE B 58 TRP B 63 0 SHEET 2 AA5 4 LEU B 69 SER B 74 -1 O ALA B 73 N ALA B 60 SHEET 3 AA5 4 LYS B 78 ASP B 83 -1 O TRP B 82 N LEU B 70 SHEET 4 AA5 4 ASN B 88 ALA B 92 -1 O VAL B 90 N ILE B 81 SHEET 1 AA6 4 VAL B 100 TYR B 105 0 SHEET 2 AA6 4 TYR B 111 GLY B 116 -1 O ALA B 113 N ALA B 104 SHEET 3 AA6 4 CYS B 121 ASN B 125 -1 O TYR B 124 N VAL B 112 SHEET 4 AA6 4 ARG B 134 LEU B 139 -1 O SER B 136 N ILE B 123 SHEET 1 AA7 4 LEU B 146 PHE B 151 0 SHEET 2 AA7 4 ILE B 157 SER B 161 -1 O VAL B 158 N ARG B 150 SHEET 3 AA7 4 THR B 165 LEU B 168 -1 O THR B 165 N SER B 161 SHEET 4 AA7 4 THR B 178 THR B 181 -1 O THR B 178 N LEU B 168 SHEET 1 AA8 4 VAL B 187 LEU B 192 0 SHEET 2 AA8 4 LEU B 198 ALA B 203 -1 O GLY B 202 N MET B 188 SHEET 3 AA8 4 SER B 207 ASP B 212 -1 O TRP B 211 N PHE B 199 SHEET 4 AA8 4 CYS B 218 THR B 223 -1 O ARG B 219 N LEU B 210 SHEET 1 AA9 4 ILE B 229 PHE B 234 0 SHEET 2 AA9 4 PHE B 241 SER B 245 -1 O GLY B 244 N ASN B 230 SHEET 3 AA9 4 CYS B 250 LEU B 252 -1 O ARG B 251 N THR B 243 SHEET 4 AA9 4 MET B 262 TYR B 264 -1 O TYR B 264 N CYS B 250 SHEET 1 AB1 3 VAL B 276 PHE B 278 0 SHEET 2 AB1 3 LEU B 284 ALA B 287 -1 O LEU B 286 N SER B 277 SHEET 3 AB1 3 VAL B 296 ASP B 298 -1 O TRP B 297 N LEU B 285 SHEET 1 AB2 4 GLN S 3 SER S 7 0 SHEET 2 AB2 4 SER S 17 SER S 25 -1 O SER S 21 N SER S 7 SHEET 3 AB2 4 LEU S 79 THR S 84 -1 O MET S 83 N ARG S 18 SHEET 4 AB2 4 PHE S 68 ARG S 72 -1 N THR S 69 O GLN S 82 SHEET 1 AB3 5 GLY S 10 VAL S 12 0 SHEET 2 AB3 5 THR S 115 VAL S 119 1 O THR S 118 N GLY S 10 SHEET 3 AB3 5 ALA S 92 TYR S 95 -1 N TYR S 94 O THR S 115 SHEET 4 AB3 5 GLY S 33 GLN S 39 -1 N VAL S 37 O TYR S 95 SHEET 5 AB3 5 LEU S 45 ILE S 51 -1 O GLU S 46 N ARG S 38 SHEET 1 AB4 6 GLY S 10 VAL S 12 0 SHEET 2 AB4 6 THR S 115 VAL S 119 1 O THR S 118 N GLY S 10 SHEET 3 AB4 6 ALA S 92 TYR S 95 -1 N TYR S 94 O THR S 115 SHEET 4 AB4 6 GLY S 33 GLN S 39 -1 N VAL S 37 O TYR S 95 SHEET 5 AB4 6 VAL S 97 SER S 99 -1 O SER S 99 N GLY S 33 SHEET 6 AB4 6 PHE S 110 TRP S 111 -1 O PHE S 110 N ARG S 98 SHEET 1 AB5 2 THR S 141 GLN S 142 0 SHEET 2 AB5 2 CYS S 159 ARG S 160 -1 O ARG S 160 N THR S 141 SHEET 1 AB6 3 SER S 146 PRO S 148 0 SHEET 2 AB6 3 THR S 243 GLU S 246 1 O LYS S 244 N VAL S 147 SHEET 3 AB6 3 VAL S 226 TYR S 227 -1 N TYR S 227 O THR S 243 SHEET 1 AB7 3 VAL S 155 ILE S 157 0 SHEET 2 AB7 3 ALA S 211 ILE S 216 -1 O LEU S 214 N ILE S 157 SHEET 3 AB7 3 PHE S 203 SER S 208 -1 N SER S 204 O THR S 215 SHEET 1 AB8 2 PHE S 177 LEU S 178 0 SHEET 2 AB8 2 GLN S 186 LEU S 187 -1 O GLN S 186 N LEU S 178 SSBOND 1 CYS R 126 CYS R 203 1555 1555 2.03 LINK NZ LYS R 312 C15 RET R 401 1555 1555 1.37 CISPEP 1 TYR S 235 PRO S 236 0 5.80 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