HEADER MEMBRANE PROTEIN 03-MAY-02 1LN6 TITLE STRUCTURE OF BOVINE RHODOPSIN (METARHODOPSIN II) CAVEAT 1LN6 THERE ARE SEVERAL CHIRALITY ERRORS IN CHAIN A. COMPND MOL_ID: 1; COMPND 2 MOLECULE: RHODOPSIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS PROTEIN WAS CHEMICALLY SYNTHESIZED USING A SOLID SOURCE 4 STATE PEPTIDE SYNTHESIZER. IT IS NATURALLY FOUND IN BOS TAURUS SOURCE 5 (BOVINE) KEYWDS G-PROTEIN COUPLED RECEPTOR, METARHODOPSIN II, RHODOPSIN, MEMBRANE KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR AUTHOR G.CHOI,J.LANDIN,J.F.GALAN,R.R.BIRGE,A.D.ALBERT,P.L.YEAGLE REVDAT 3 23-FEB-22 1LN6 1 REMARK REVDAT 2 24-FEB-09 1LN6 1 VERSN REVDAT 1 10-JUL-02 1LN6 0 JRNL AUTH G.CHOI,J.LANDIN,J.F.GALAN,R.R.BIRGE,A.D.ALBERT,P.L.YEAGLE JRNL TITL STRUCTURAL STUDIES OF METARHODOPSIN II, THE ACTIVATED FORM JRNL TITL 2 OF THE G-PROTEIN COUPLED RECEPTOR, RHODOPSIN. JRNL REF BIOCHEMISTRY V. 41 7318 2002 JRNL REFN ISSN 0006-2960 JRNL PMID 12044163 JRNL DOI 10.1021/BI025507W REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SYBYL 6.6 REMARK 3 AUTHORS : TRIPOS REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: SECONDARY STRUCTURE FROM NMR STRUCTURES REMARK 3 OF PEPTIDES ENCODING HELICES OR TURNS, AND LONG-RANGE DISTANCE REMARK 3 CONSTRAINTS FROM OTHER MEASUREMENTS ON INTACT PROTEIN AMINO REMARK 3 TERMINUS REMOVED DUE TO LACK OF LONG-RANGE CONSTRAINTS REMARK 4 REMARK 4 1LN6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAY-02. REMARK 100 THE DEPOSITION ID IS D_1000016101. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283.00 REMARK 210 PH : 6.00 REMARK 210 IONIC STRENGTH : 10 MM REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : FRAGMENTS OF RHODOPSIN REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SYBYL 6.6 REMARK 210 METHOD USED : MULTI-DIMENSIONAL NMR,CD, REMARK 210 SIMULATED ANNEALING WITH MMFF94 REMARK 210 FORCE FIELD, MOLECULAR DYNAMICS REMARK 210 WITH CHARMM FORCE FIELD REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 10 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 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 PRO A 34 REMARK 465 TRP A 35 REMARK 465 GLN A 36 REMARK 465 PHE A 37 REMARK 465 SER A 38 REMARK 465 MET A 39 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 RES CSSEQI ATOMS REMARK 470 ALA A 348 C O REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 HG1 THR A 340 HG22 VAL A 345 0.00 REMARK 500 HG1 THR A 340 HG21 VAL A 345 0.00 REMARK 500 HG1 THR A 340 HG21 VAL A 345 0.36 REMARK 500 HG1 THR A 340 HG22 VAL A 345 0.36 REMARK 500 N PHE A 52 CZ PHE A 56 0.37 REMARK 500 CG PHE A 103 HB VAL A 104 0.45 REMARK 500 HG3 MET A 207 H31 RET A 400 0.46 REMARK 500 CE3 TRP A 265 H7 RET A 400 0.47 REMARK 500 CE1 PHE A 103 CG1 VAL A 104 0.54 REMARK 500 C GLU A 134 HD1 TYR A 136 0.56 REMARK 500 CD2 PHE A 105 C GLY A 106 0.56 REMARK 500 HB2 TYR A 102 HB2 PHE A 103 0.58 REMARK 500 C LEU A 72 HE3 MET A 309 0.59 REMARK 500 CD2 LEU A 72 CB MET A 309 0.60 REMARK 500 C PHE A 52 HE2 PHE A 56 0.61 REMARK 500 O PHE A 52 HE2 PHE A 56 0.63 REMARK 500 HG CYS A 185 HA2 GLY A 188 0.64 REMARK 500 CZ3 TRP A 265 C7 RET A 400 0.65 REMARK 500 H PHE A 52 HZ PHE A 56 0.67 REMARK 500 CG PHE A 313 HD3 LYS A 339 0.67 REMARK 500 HG CYS A 185 CA GLY A 188 0.69 REMARK 500 OG1 THR A 340 HG21 VAL A 345 0.71 REMARK 500 SD MET A 86 C15 RET A 400 0.71 REMARK 500 CZ PHE A 105 HD3 PRO A 107 0.74 REMARK 500 CD1 LEU A 72 HB1 ALA A 246 0.75 REMARK 500 N ASN A 73 HE3 MET A 309 0.77 REMARK 500 CA PRO A 53 HD2 PHE A 56 0.77 REMARK 500 CD2 PHE A 105 O GLY A 106 0.78 REMARK 500 HA PHE A 52 CG PHE A 56 0.79 REMARK 500 CA PHE A 52 CE2 PHE A 56 0.80 REMARK 500 N ARG A 135 CD1 TYR A 136 0.80 REMARK 500 HZ3 TRP A 265 C7 RET A 400 0.81 REMARK 500 CG LEU A 72 HB2 MET A 309 0.82 REMARK 500 C PHE A 52 CE2 PHE A 56 0.84 REMARK 500 CD1 PHE A 313 HD3 LYS A 339 0.86 REMARK 500 CZ PHE A 313 HE2 LYS A 339 0.87 REMARK 500 O ALA A 117 H173 RET A 400 0.88 REMARK 500 CE2 PHE A 103 N PHE A 105 0.89 REMARK 500 O THR A 93 OG SER A 98 0.90 REMARK 500 HB3 MET A 207 H41 RET A 400 0.91 REMARK 500 H PHE A 52 CZ PHE A 56 0.91 REMARK 500 SD MET A 86 H15 RET A 400 0.92 REMARK 500 CZ3 TRP A 265 H7 RET A 400 0.92 REMARK 500 CZ3 TRP A 265 C6 RET A 400 0.93 REMARK 500 N ARG A 135 CE1 TYR A 136 0.93 REMARK 500 CD1 PHE A 313 CD LYS A 339 0.93 REMARK 500 OG1 THR A 340 HG22 VAL A 345 0.96 REMARK 500 CG MET A 86 H15 RET A 400 0.96 REMARK 500 CE2 PHE A 103 H PHE A 105 0.97 REMARK 500 O ALA A 132 HB3 TYR A 136 0.97 REMARK 500 REMARK 500 THIS ENTRY HAS 286 CLOSE CONTACTS REMARK 500 REMARK 500 REMARK: NULL 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),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 69 NE ARG A 69 CZ 0.101 REMARK 500 GLY A 90 CA GLY A 90 C 0.111 REMARK 500 HIS A 100 CG HIS A 100 CD2 0.078 REMARK 500 HIS A 152 CG HIS A 152 CD2 0.065 REMARK 500 GLY A 156 CA GLY A 156 C 0.103 REMARK 500 GLY A 182 CA GLY A 182 C 0.098 REMARK 500 HIS A 211 CG HIS A 211 CD2 0.070 REMARK 500 VAL A 250 CB VAL A 250 CG1 0.128 REMARK 500 GLY A 324 N GLY A 324 CA 0.150 REMARK 500 REMARK 500 REMARK: NULL 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 TYR A 43 CB - CG - CD2 ANGL. DEV. = -7.9 DEGREES REMARK 500 TYR A 43 CB - CG - CD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 PHE A 45 CB - CG - CD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 PHE A 52 CG - CD2 - CE2 ANGL. DEV. = -6.8 DEGREES REMARK 500 PRO A 53 N - CA - CB ANGL. DEV. = -7.2 DEGREES REMARK 500 PHE A 56 N - CA - CB ANGL. DEV. = -11.8 DEGREES REMARK 500 TYR A 60 CG - CD1 - CE1 ANGL. DEV. = -5.0 DEGREES REMARK 500 ARG A 69 CA - CB - CG ANGL. DEV. = 14.1 DEGREES REMARK 500 ARG A 69 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 69 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 TYR A 74 CB - CG - CD2 ANGL. DEV. = -4.1 DEGREES REMARK 500 TYR A 74 CB - CG - CD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 PHE A 88 CB - CG - CD2 ANGL. DEV. = 4.5 DEGREES REMARK 500 PHE A 105 CB - CG - CD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 SER A 127 N - CA - CB ANGL. DEV. = -10.2 DEGREES REMARK 500 TYR A 136 N - CA - CB ANGL. DEV. = -10.9 DEGREES REMARK 500 TYR A 136 CB - CG - CD1 ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG A 147 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 PHE A 159 CB - CG - CD1 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG A 177 NH1 - CZ - NH2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ARG A 177 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 MET A 183 CA - CB - CG ANGL. DEV. = 10.6 DEGREES REMARK 500 THR A 193 CB - CA - C ANGL. DEV. = 18.8 DEGREES REMARK 500 PHE A 203 CB - CG - CD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 PHE A 208 CB - CG - CD1 ANGL. DEV. = -5.0 DEGREES REMARK 500 PHE A 212 CG - CD2 - CE2 ANGL. DEV. = -7.0 DEGREES REMARK 500 VAL A 230 CA - CB - CG2 ANGL. DEV. = 9.2 DEGREES REMARK 500 ALA A 241 N - CA - CB ANGL. DEV. = -10.8 DEGREES REMARK 500 VAL A 250 CG1 - CB - CG2 ANGL. DEV. = -10.8 DEGREES REMARK 500 PHE A 261 CB - CG - CD1 ANGL. DEV. = -4.3 DEGREES REMARK 500 TRP A 265 CB - CA - C ANGL. DEV. = 12.4 DEGREES REMARK 500 SER A 281 N - CA - CB ANGL. DEV. = -10.6 DEGREES REMARK 500 ASP A 282 CB - CG - OD2 ANGL. DEV. = 6.7 DEGREES REMARK 500 TYR A 306 CB - CG - CD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 PHE A 313 CB - CG - CD1 ANGL. DEV. = -4.5 DEGREES REMARK 500 MET A 317 N - CA - CB ANGL. DEV. = -12.9 DEGREES REMARK 500 ASP A 331 CB - CG - OD2 ANGL. DEV. = 7.5 DEGREES REMARK 500 GLU A 332 OE1 - CD - OE2 ANGL. DEV. = -7.6 DEGREES REMARK 500 SER A 334 CB - CA - C ANGL. DEV. = 13.6 DEGREES REMARK 500 SER A 338 N - CA - CB ANGL. DEV. = -10.3 DEGREES REMARK 500 VAL A 345 CB - CA - C ANGL. DEV. = -11.7 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 ALA A 41 -82.45 -57.24 REMARK 500 PHE A 45 -37.70 -37.63 REMARK 500 LEU A 46 -66.67 -121.31 REMARK 500 LEU A 50 -45.88 -174.86 REMARK 500 THR A 62 -81.37 -95.18 REMARK 500 GLN A 64 87.08 36.50 REMARK 500 LYS A 66 82.84 49.31 REMARK 500 LEU A 72 84.42 -34.11 REMARK 500 ASN A 73 29.42 -161.62 REMARK 500 ALA A 80 76.65 -49.91 REMARK 500 VAL A 81 -41.43 -143.95 REMARK 500 ALA A 82 -82.65 -83.45 REMARK 500 ASP A 83 -54.84 -15.39 REMARK 500 PHE A 88 79.24 -159.39 REMARK 500 THR A 93 11.79 -156.85 REMARK 500 THR A 94 45.42 -168.75 REMARK 500 LEU A 95 -54.41 -166.32 REMARK 500 SER A 98 68.15 146.80 REMARK 500 LEU A 99 -50.61 97.24 REMARK 500 PHE A 103 -154.10 118.89 REMARK 500 VAL A 104 -140.52 121.58 REMARK 500 PHE A 105 -132.51 85.43 REMARK 500 PRO A 107 -103.88 -59.78 REMARK 500 CYS A 110 -65.04 123.29 REMARK 500 ASN A 111 45.19 -108.46 REMARK 500 GLU A 113 -83.71 -37.78 REMARK 500 PHE A 115 -100.11 -83.44 REMARK 500 ALA A 117 8.61 -63.91 REMARK 500 THR A 118 -35.70 -136.85 REMARK 500 GLU A 122 -83.70 -14.02 REMARK 500 GLU A 134 -88.18 -178.23 REMARK 500 ARG A 135 77.74 -55.62 REMARK 500 TYR A 136 -111.57 160.01 REMARK 500 VAL A 139 -107.84 -135.31 REMARK 500 CYS A 140 -52.18 -173.41 REMARK 500 LYS A 141 83.78 47.54 REMARK 500 MET A 143 -24.27 62.34 REMARK 500 SER A 144 -61.63 81.14 REMARK 500 ASN A 145 -144.55 -165.20 REMARK 500 GLU A 150 70.89 -62.04 REMARK 500 HIS A 152 -140.78 -62.32 REMARK 500 ALA A 153 -90.50 62.68 REMARK 500 PHE A 159 -75.18 -163.84 REMARK 500 TRP A 161 29.90 -79.16 REMARK 500 VAL A 162 -60.27 -127.93 REMARK 500 ALA A 166 15.11 -66.10 REMARK 500 CYS A 167 4.00 -59.01 REMARK 500 PRO A 171 -93.11 -51.37 REMARK 500 TYR A 178 67.92 -167.17 REMARK 500 MET A 183 -50.52 -152.69 REMARK 500 REMARK 500 THIS ENTRY HAS 100 RAMACHANDRAN OUTLIERS. 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 ASN A 78 LEU A 79 39.03 REMARK 500 PRO A 107 THR A 108 -135.70 REMARK 500 ARG A 135 TYR A 136 -128.91 REMARK 500 ARG A 147 PHE A 148 -38.34 REMARK 500 MET A 163 ALA A 164 144.90 REMARK 500 CYS A 187 GLY A 188 -144.53 REMARK 500 PHE A 203 VAL A 204 137.07 REMARK 500 ALA A 246 GLU A 247 -148.72 REMARK 500 MET A 253 VAL A 254 145.17 REMARK 500 PRO A 285 ILE A 286 49.00 REMARK 500 LYS A 311 GLN A 312 148.60 REMARK 500 PHE A 313 ARG A 314 -149.34 REMARK 500 GLY A 329 ASP A 330 -32.16 REMARK 500 GLU A 341 THR A 342 34.98 REMARK 500 ALA A 346 PRO A 347 140.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 PHE A 52 0.08 SIDE CHAIN REMARK 500 TYR A 60 0.11 SIDE CHAIN REMARK 500 ARG A 135 0.19 SIDE CHAIN REMARK 500 TYR A 306 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 RET A 400 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RET A 400 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EDS RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF INTRADISKAL LOOP 1 OF BOVINE RHODOPSIN REMARK 900 (RHODOPSIN RESIDUES 92-123) REMARK 900 RELATED ID: 1EDV RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF 2ND INTRADISKAL LOOP OF BOVINE RHODOPSIN REMARK 900 (RESIDUES 172-205) REMARK 900 RELATED ID: 1EDW RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THIRD INTRADISKAL LOOP OF BOVINE RHODOPSIN REMARK 900 (RESIDUES 268-293) REMARK 900 RELATED ID: 1FDF RELATED DB: PDB REMARK 900 HELIX 7 BOVINE RHODOPSIN REMARK 900 RELATED ID: 1JFP RELATED DB: PDB REMARK 900 STRUCTURE OF BOVINE RHODOPSIN (DARK ADAPTED) DBREF 1LN6 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 A 400 38 HETNAM RET RETINAL FORMUL 2 RET C20 H28 O HELIX 1 1 LEU A 40 LEU A 46 1 7 HELIX 2 2 LEU A 50 VAL A 63 1 14 HELIX 3 3 ASN A 73 ASN A 78 1 6 HELIX 4 4 VAL A 81 VAL A 87 1 7 HELIX 5 5 GLY A 89 THR A 94 1 6 HELIX 6 6 PHE A 115 GLY A 120 1 6 HELIX 7 7 GLY A 121 SER A 127 1 7 HELIX 8 8 LEU A 128 ILE A 133 1 6 HELIX 9 9 ALA A 153 ALA A 158 1 6 HELIX 10 10 PHE A 159 ALA A 164 1 6 HELIX 11 11 PRO A 171 SER A 176 1 6 HELIX 12 12 VAL A 210 PHE A 212 5 3 HELIX 13 13 ILE A 213 VAL A 218 1 6 HELIX 14 14 PHE A 220 PHE A 228 5 9 HELIX 15 15 GLN A 237 THR A 242 1 6 HELIX 16 16 GLU A 247 MET A 253 1 7 HELIX 17 17 VAL A 254 PHE A 261 5 8 HELIX 18 18 TRP A 265 PRO A 267 5 3 HELIX 19 19 TYR A 268 TYR A 274 1 7 HELIX 20 20 MET A 288 PHE A 293 1 6 HELIX 21 21 PHE A 294 VAL A 300 5 7 HELIX 22 22 ASN A 302 ILE A 307 1 6 SSBOND 1 CYS A 110 CYS A 187 1555 1555 1.26 CISPEP 1 PHE A 52 PRO A 53 0 -20.62 CISPEP 2 ARG A 69 THR A 70 0 -3.83 CISPEP 3 PHE A 88 GLY A 89 0 -21.62 CISPEP 4 HIS A 100 GLY A 101 0 -14.02 CISPEP 5 GLY A 101 TYR A 102 0 -0.43 CISPEP 6 TYR A 102 PHE A 103 0 5.68 CISPEP 7 PHE A 103 VAL A 104 0 -23.47 CISPEP 8 PHE A 105 GLY A 106 0 17.06 CISPEP 9 GLY A 106 PRO A 107 0 17.34 CISPEP 10 CYS A 110 ASN A 111 0 -1.27 CISPEP 11 MET A 155 GLY A 156 0 -11.62 CISPEP 12 TYR A 178 ILE A 179 0 -5.24 CISPEP 13 ILE A 179 PRO A 180 0 -15.08 CISPEP 14 GLY A 188 ILE A 189 0 21.53 CISPEP 15 ILE A 189 ASP A 190 0 6.11 CISPEP 16 PRO A 194 HIS A 195 0 -8.00 CISPEP 17 VAL A 204 ILE A 205 0 -2.38 CISPEP 18 ILE A 219 PHE A 220 0 1.13 CISPEP 19 TYR A 274 ILE A 275 0 7.63 CISPEP 20 GLY A 284 PRO A 285 0 7.31 CISPEP 21 ASN A 326 PRO A 327 0 -6.38 CISPEP 22 VAL A 345 ALA A 346 0 -12.34 CISPEP 23 PRO A 347 ALA A 348 0 24.31 SITE 1 AC1 12 ASP A 83 MET A 86 PHE A 116 ALA A 117 SITE 2 AC1 12 THR A 118 GLY A 120 GLY A 121 ALA A 169 SITE 3 AC1 12 MET A 207 TRP A 265 ALA A 295 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