PDB Short entry for 1BOJ HEADER PHOTORECEPTOR 25-OCT-96 1BOJ TITLE BOVINE RHODOPSIN (7-HELIX BUNDLE) WITH ALL-TRANS RETINAL, TITLE 2 METARHODOPSIN II MODEL, THEORETICAL MODEL COMPND MOL_ID: 1; COMPND 2 MOLECULE: RHODOPSIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEVEN TRANSMEMBRANE HELICES ONLY SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: BOVINE; SOURCE 4 ORGAN: EYE; SOURCE 5 TISSUE: RETINA; SOURCE 6 CELL: ROD KEYWDS PHOTORECEPTOR, G PROTEIN-COUPLED RECEPTOR, MEMBRANE PROTEIN, KEYWDS 2 RETINAL PROTEIN, VISUAL PIGMENT EXPDTA THEORETICAL MODEL AUTHOR I.D.POGOZHEVA,A.L.LOMIZE,H.I.MOSBERG REVDAT 1 07-JUL-97 1BOJ 0 JRNL AUTH I.D.POGOZHEVA,A.L.LOMIZE,H.I.MOSBERG JRNL TITL THE TRANSMEMBRANE 7-ALPHA-BUNDLE OF RHODOPSIN: JRNL TITL 2 DISTANCE GEOMETRY CALCULATIONS WITH HYDROGEN JRNL TITL 3 BONDING CONSTRAINTS. JRNL REF BIOPHYS.J. V. 72 1963 1997 JRNL REFN ASTM BIOJAU US ISSN 0006-3495 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1BOJ COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: NULL REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS. REMARK 460 REMARK 460 NON-IUPAC REMARK 460 BY REQUEST OF THE DEPOSITOR, THE PROTEIN DATA BANK HAS NOT REMARK 460 APPLIED THE IUPAC-IUB RECOMMENDATIONS REGARDING THE REMARK 460 DESIGNATION OF BRANCHES 1 AND 2 OF SIDE-CHAIN ATOMS IN REMARK 460 RESIDUES ARG, ASP, GLU, LEU, PHE, TYR, AND VAL TO THIS REMARK 460 ENTRY. 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 ASN A 2 REMARK 465 GLY A 3 REMARK 465 THR A 4 REMARK 465 GLU A 5 REMARK 465 GLY A 6 REMARK 465 PRO A 7 REMARK 465 ASN A 8 REMARK 465 PHE A 9 REMARK 465 TYR A 10 REMARK 465 VAL A 11 REMARK 465 PRO A 12 REMARK 465 PHE A 13 REMARK 465 SER A 14 REMARK 465 ASN A 15 REMARK 465 LYS A 16 REMARK 465 THR A 17 REMARK 465 GLY A 18 REMARK 465 VAL A 19 REMARK 465 VAL A 20 REMARK 465 ARG A 21 REMARK 465 SER A 22 REMARK 465 PRO A 23 REMARK 465 PHE A 24 REMARK 465 GLU A 25 REMARK 465 ALA A 26 REMARK 465 PRO A 27 REMARK 465 GLN A 28 REMARK 465 TYR A 29 REMARK 465 TYR A 30 REMARK 465 LEU A 31 REMARK 465 ALA A 32 REMARK 465 GLU A 33 REMARK 465 LYS A 67 REMARK 465 LEU A 68 REMARK 465 ARG A 69 REMARK 465 THR A 70 REMARK 465 LEU A 99 REMARK 465 HIS A 100 REMARK 465 GLY A 101 REMARK 465 TYR A 102 REMARK 465 PHE A 103 REMARK 465 VAL A 104 REMARK 465 PHE A 105 REMARK 465 GLY A 106 REMARK 465 PRO A 107 REMARK 465 THR A 108 REMARK 465 GLY A 109 REMARK 465 CYS A 110 REMARK 465 PRO A 142 REMARK 465 MET A 143 REMARK 465 SER A 144 REMARK 465 ASN A 145 REMARK 465 PHE A 146 REMARK 465 ARG A 147 REMARK 465 PHE A 148 REMARK 465 GLY A 149 REMARK 465 ILE A 179 REMARK 465 PRO A 180 REMARK 465 GLU A 181 REMARK 465 GLY A 182 REMARK 465 MET A 183 REMARK 465 GLN A 184 REMARK 465 CYS A 185 REMARK 465 SER A 186 REMARK 465 CYS A 187 REMARK 465 GLY A 188 REMARK 465 ILE A 189 REMARK 465 ASP A 190 REMARK 465 TYR A 191 REMARK 465 TYR A 192 REMARK 465 THR A 193 REMARK 465 PRO A 194 REMARK 465 HIS A 195 REMARK 465 GLU A 196 REMARK 465 GLU A 197 REMARK 465 THR A 198 REMARK 465 ASN A 199 REMARK 465 GLY A 224 REMARK 465 GLN A 225 REMARK 465 LEU A 226 REMARK 465 VAL A 227 REMARK 465 PHE A 228 REMARK 465 THR A 229 REMARK 465 VAL A 230 REMARK 465 LYS A 231 REMARK 465 GLU A 232 REMARK 465 ALA A 233 REMARK 465 ALA A 234 REMARK 465 ALA A 235 REMARK 465 GLN A 236 REMARK 465 GLN A 237 REMARK 465 GLN A 238 REMARK 465 GLU A 239 REMARK 465 SER A 240 REMARK 465 ALA A 241 REMARK 465 THR A 242 REMARK 465 THR A 243 REMARK 465 GLN A 244 REMARK 465 LYS A 245 REMARK 465 ALA A 246 REMARK 465 HIS A 278 REMARK 465 GLN A 279 REMARK 465 GLY A 280 REMARK 465 SER A 281 REMARK 465 ASP A 282 REMARK 465 PHE A 283 REMARK 465 GLY A 284 REMARK 465 LYS A 311 REMARK 465 GLN A 312 REMARK 465 PHE A 313 REMARK 465 ARG A 314 REMARK 465 ASN A 315 REMARK 465 CYS A 316 REMARK 465 MET A 317 REMARK 465 VAL A 318 REMARK 465 THR A 319 REMARK 465 THR A 320 REMARK 465 LEU A 321 REMARK 465 CYS A 322 REMARK 465 CYS A 323 REMARK 465 GLY A 324 REMARK 465 LYS A 325 REMARK 465 ASN A 326 REMARK 465 PRO A 327 REMARK 465 LEU A 328 REMARK 465 GLY A 329 REMARK 465 ASP A 330 REMARK 465 ASP A 331 REMARK 465 GLU A 332 REMARK 465 ALA A 333 REMARK 465 SER A 334 REMARK 465 THR A 335 REMARK 465 THR A 336 REMARK 465 VAL A 337 REMARK 465 SER A 338 REMARK 465 LYS A 339 REMARK 465 THR A 340 REMARK 465 GLU A 341 REMARK 465 THR A 342 REMARK 465 SER A 343 REMARK 465 GLN A 344 REMARK 465 VAL A 345 REMARK 465 ALA A 346 REMARK 465 PRO A 347 REMARK 465 ALA A 348 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),F6.3) REMARK 500 REMARK 500 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ASP A 83 CG ASP A 83 OD2 0.099 REMARK 500 GLU A 113 CD GLU A 113 OE2 0.102 REMARK 500 GLU A 122 CD GLU A 122 OE2 0.094 REMARK 500 ASN A 302 CG ASN A 302 OD1 0.097 REMARK 500 ASN A 302 CG ASN A 302 ND2 -0.113 REMARK 600 REMARK 600 HETEROGEN REMARK 600 RETINAL FORMS A SCHIFF BASE WITH ATOM NZ OF LYS 296. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 THIS ENTRY IS RELATED TO PDB ENTRY 1BOK. REMARK 999 REMARK 999 SEQUENCE REMARK 999 1BOJ SWS P02699 1 - 33 NOT IN ATOMS LIST REMARK 999 1BOJ SWS P02699 311 - 348 NOT IN ATOMS LIST DBREF 1BOJ A 1 348 UNP P02699 OPSD_BOVIN 1 348 SEQRES 1 A 348 MET ASN GLY THR GLU GLY PRO ASN PHE TYR VAL PRO PHE SEQRES 2 A 348 SER ASN LYS THR GLY VAL VAL ARG SER PRO PHE GLU ALA SEQRES 3 A 348 PRO GLN TYR TYR LEU ALA GLU PRO TRP GLN PHE SER MET SEQRES 4 A 348 LEU ALA ALA TYR MET PHE LEU LEU ILE MET LEU GLY PHE SEQRES 5 A 348 PRO ILE ASN PHE LEU THR LEU TYR VAL THR VAL GLN HIS SEQRES 6 A 348 LYS LYS LEU ARG THR PRO LEU ASN TYR ILE LEU LEU ASN SEQRES 7 A 348 LEU ALA VAL ALA ASP LEU PHE MET VAL PHE GLY GLY PHE SEQRES 8 A 348 THR THR THR LEU TYR THR SER LEU HIS GLY TYR PHE VAL SEQRES 9 A 348 PHE GLY PRO THR GLY CYS ASN LEU GLU GLY PHE PHE ALA SEQRES 10 A 348 THR LEU GLY GLY GLU ILE ALA LEU TRP SER LEU VAL VAL SEQRES 11 A 348 LEU ALA ILE GLU ARG TYR VAL VAL VAL CYS LYS PRO MET SEQRES 12 A 348 SER ASN PHE ARG PHE GLY GLU ASN HIS ALA ILE MET GLY SEQRES 13 A 348 VAL ALA PHE THR TRP VAL MET ALA LEU ALA CYS ALA ALA SEQRES 14 A 348 PRO PRO LEU VAL GLY TRP SER ARG TYR ILE PRO GLU GLY SEQRES 15 A 348 MET GLN CYS SER CYS GLY ILE ASP TYR TYR THR PRO HIS SEQRES 16 A 348 GLU GLU THR ASN ASN GLU SER PHE VAL ILE TYR MET PHE SEQRES 17 A 348 VAL VAL HIS PHE ILE ILE PRO LEU ILE VAL ILE PHE PHE SEQRES 18 A 348 CYS TYR GLY GLN LEU VAL PHE THR VAL LYS GLU ALA ALA SEQRES 19 A 348 ALA GLN GLN GLN GLU SER ALA THR THR GLN LYS ALA GLU SEQRES 20 A 348 LYS GLU VAL THR ARG MET VAL ILE ILE MET VAL ILE ALA SEQRES 21 A 348 PHE LEU ILE CYS TRP LEU PRO TYR ALA GLY VAL ALA PHE SEQRES 22 A 348 TYR ILE PHE THR HIS GLN GLY SER ASP PHE GLY PRO ILE SEQRES 23 A 348 PHE MET THR ILE PRO ALA PHE PHE ALA LYS THR SER ALA SEQRES 24 A 348 VAL TYR ASN PRO VAL ILE TYR ILE MET MET ASN LYS GLN SEQRES 25 A 348 PHE ARG ASN CYS MET VAL THR THR LEU CYS CYS GLY LYS SEQRES 26 A 348 ASN PRO LEU GLY ASP ASP GLU ALA SER THR THR VAL SER SEQRES 27 A 348 LYS THR GLU THR SER GLN VAL ALA PRO ALA HET RET 296 20 HETNAM RET RETINAL FORMUL 2 RET C20 H28 O HELIX 1 A PRO A 34 LYS A 66 1 33 HELIX 2 B PRO A 71 SER A 98 1 28 HELIX 3 C ASN A 111 LYS A 141 1 31 HELIX 4 D GLU A 150 TYR A 178 1 29 HELIX 5 E ASN A 200 TYR A 223 1 24 HELIX 6 F GLU A 247 THR A 277 1 31 HELIX 7 G PRO A 285 ASN A 310 1 26 LINK C15 RET 296 NZ LYS A 296 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