PDB Short entry for 1F88 HEADER SIGNALING PROTEIN 29-JUN-00 1F88 TITLE CRYSTAL STRUCTURE OF BOVINE RHODOPSIN CAVEAT 1F88 MAN E 3 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RHODOPSIN; COMPND 3 CHAIN: A, B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 ORGAN: RETINA; SOURCE 6 OTHER_DETAILS: BOVINE RETINA, ROD CELL OUTER SEGMENTS KEYWDS PHOTORECEPTOR, G PROTEIN-COUPLED RECEPTOR, MEMBRANE PROTEIN, RETINAL KEYWDS 2 PROTEIN, VISUAL PIGMENT, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.OKADA,K.PALCZEWSKI,R.E.STENKAMP,M.MIYANO REVDAT 5 29-JUL-20 1F88 1 CAVEAT COMPND REMARK HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 13-JUL-11 1F88 1 VERSN REVDAT 3 24-FEB-09 1F88 1 VERSN REVDAT 2 19-AUG-08 1F88 1 REMARK REVDAT 1 04-AUG-00 1F88 0 JRNL AUTH K.PALCZEWSKI,T.KUMASAKA,T.HORI,C.A.BEHNKE,H.MOTOSHIMA, JRNL AUTH 2 B.A.FOX,I.LE TRONG,D.C.TELLER,T.OKADA,R.E.STENKAMP, JRNL AUTH 3 M.YAMAMOTO,M.MIYANO JRNL TITL CRYSTAL STRUCTURE OF RHODOPSIN: A G PROTEIN-COUPLED JRNL TITL 2 RECEPTOR. JRNL REF SCIENCE V. 289 739 2000 JRNL REFN ISSN 0036-8075 JRNL PMID 10926528 JRNL DOI 10.1126/SCIENCE.289.5480.739 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 88.0 REMARK 3 NUMBER OF REFLECTIONS : 30094 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1525 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5067 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 173 REMARK 3 SOLVENT ATOMS : 27 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 56.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : 1.490 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: TWINNED R FACTOR AS CALCULATED BY CNS REMARK 3 TWIN FRACTION 0.288 REMARK 4 REMARK 4 1F88 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JUL-00. REMARK 100 THE DEPOSITION ID IS D_1000011363. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-DEC-99 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-2 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33221 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.200 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 3.350 REMARK 200 R MERGE (I) : 0.12100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.69000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MES, 2-MERCAPTOETHANOL, ZINC ACETATE, REMARK 280 HEPTANETRIOL, NONYL-GLUCOSIDE, AMMONIUM SULFATE ARE IN THE REMARK 280 HANGING DROPS. MERCURY ACETATE, PH 6.0, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 4K, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 74.77200 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 37.38600 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 112.15800 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -266.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, D 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E, F 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 GLN A 236 REMARK 465 GLN A 237 REMARK 465 GLN A 238 REMARK 465 GLU A 239 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 MET B 143 REMARK 465 SER B 144 REMARK 465 ASN B 145 REMARK 465 PHE B 146 REMARK 465 ARG B 147 REMARK 465 VAL B 227 REMARK 465 PHE B 228 REMARK 465 THR B 229 REMARK 465 VAL B 230 REMARK 465 LYS B 231 REMARK 465 GLU B 232 REMARK 465 ALA B 233 REMARK 465 ALA B 234 REMARK 465 ALA B 235 REMARK 465 GLN B 236 REMARK 465 GLN B 237 REMARK 465 GLN B 238 REMARK 465 GLU B 239 REMARK 465 SER B 240 REMARK 465 ALA B 241 REMARK 465 THR B 242 REMARK 465 PRO B 327 REMARK 465 LEU B 328 REMARK 465 GLY B 329 REMARK 465 ASP B 330 REMARK 465 ASP B 331 REMARK 465 GLU B 332 REMARK 465 ALA B 333 REMARK 465 SER B 334 REMARK 465 THR B 335 REMARK 465 THR B 336 REMARK 465 VAL B 337 REMARK 465 SER B 338 REMARK 465 LYS B 339 REMARK 465 THR B 340 REMARK 465 GLU B 341 REMARK 465 THR B 342 REMARK 465 SER B 343 REMARK 465 GLN B 344 REMARK 465 VAL B 345 REMARK 465 ALA B 346 REMARK 465 PRO B 347 REMARK 465 ALA B 348 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 SER A 334 OG REMARK 470 THR A 335 CB OG1 CG2 REMARK 470 THR A 336 OG1 CG2 REMARK 470 VAL A 337 CG1 CG2 REMARK 470 SER A 338 OG REMARK 470 LYS A 339 CG CD CE NZ REMARK 470 THR A 340 OG1 CG2 REMARK 470 GLU A 341 CG CD OE1 OE2 REMARK 470 THR A 342 OG1 CG2 REMARK 470 SER A 343 OG REMARK 470 GLN A 344 CG CD OE1 NE2 REMARK 470 VAL A 345 CG1 CG2 REMARK 470 PRO A 347 CG CD 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 GLU A 25 CD GLU A 25 OE2 0.079 REMARK 500 GLU B 25 CD GLU B 25 OE2 0.083 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 PRO A 12 28.31 -71.16 REMARK 500 PRO A 23 9.49 -67.32 REMARK 500 GLN A 28 31.33 -92.01 REMARK 500 ALA A 32 159.55 173.33 REMARK 500 GLU A 33 152.44 -46.65 REMARK 500 PHE A 52 -70.61 -68.82 REMARK 500 VAL A 137 -15.60 -48.41 REMARK 500 CYS A 140 42.89 -76.24 REMARK 500 MET A 143 -129.54 60.25 REMARK 500 SER A 144 -21.66 -159.43 REMARK 500 ASN A 145 -17.26 -163.72 REMARK 500 SER A 176 -165.65 58.32 REMARK 500 HIS A 195 60.95 27.46 REMARK 500 GLU A 196 -16.95 -46.72 REMARK 500 GLU A 197 51.82 -110.79 REMARK 500 THR A 198 2.04 -167.55 REMARK 500 PHE A 212 -69.27 -168.90 REMARK 500 LEU A 226 33.55 -74.75 REMARK 500 THR A 229 -85.53 -114.50 REMARK 500 LYS A 231 -80.02 -55.76 REMARK 500 GLU A 232 -14.21 -145.40 REMARK 500 ALA A 234 37.40 172.17 REMARK 500 THR A 242 -60.00 -100.99 REMARK 500 THR A 243 -132.71 -144.77 REMARK 500 PHE A 287 -64.80 -27.93 REMARK 500 LYS A 339 16.74 -64.67 REMARK 500 GLU A 341 97.14 105.56 REMARK 500 THR A 342 62.47 28.56 REMARK 500 SER A 343 23.73 -75.29 REMARK 500 ALA A 346 31.90 -141.23 REMARK 500 PRO A 347 -148.62 -74.50 REMARK 500 TYR B 10 95.84 -167.25 REMARK 500 PRO B 12 62.14 -67.76 REMARK 500 ASN B 15 34.15 -92.97 REMARK 500 GLN B 28 33.58 -94.96 REMARK 500 LYS B 67 30.13 -97.78 REMARK 500 VAL B 139 -43.43 -132.07 REMARK 500 LYS B 141 92.10 19.90 REMARK 500 GLU B 150 4.47 -60.82 REMARK 500 ASN B 151 -74.65 -101.74 REMARK 500 SER B 176 179.79 70.18 REMARK 500 MET B 183 24.25 -75.45 REMARK 500 ASP B 190 81.87 -67.94 REMARK 500 HIS B 195 77.61 29.97 REMARK 500 ASN B 199 67.22 33.00 REMARK 500 PHE B 212 -76.07 -147.46 REMARK 500 HIS B 278 53.34 -97.28 REMARK 500 GLN B 279 99.13 -66.27 REMARK 500 SER B 281 -179.47 -54.24 REMARK 500 ASP B 282 47.14 -107.64 REMARK 500 REMARK 500 THIS ENTRY HAS 52 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HG A 903 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 132 O REMARK 620 2 CYS A 222 SG 49.3 REMARK 620 3 TYR A 223 N 121.9 77.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 908 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 196 OE2 REMARK 620 2 GLU A 196 OE1 57.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 907 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 201 OE1 REMARK 620 2 GLN A 279 NE2 110.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HG A 901 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 264 SG REMARK 620 2 THR A 297 OG1 76.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HG A 905 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 312 O REMARK 620 2 CYS A 316 SG 75.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HG B 906 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 65 ND1 REMARK 620 2 CYS B 316 SG 105.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HG B 904 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 132 O REMARK 620 2 CYS B 222 SG 48.7 REMARK 620 3 CYS B 222 O 99.9 58.9 REMARK 620 4 TYR B 223 N 120.5 71.8 38.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HG B 902 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 260 O REMARK 620 2 CYS B 264 SG 88.6 REMARK 620 3 THR B 297 OG1 152.1 69.3 REMARK 620 N 1 2 DBREF 1F88 A 1 348 UNP P02699 OPSD_BOVIN 1 348 DBREF 1F88 B 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 SEQRES 1 B 348 MET ASN GLY THR GLU GLY PRO ASN PHE TYR VAL PRO PHE SEQRES 2 B 348 SER ASN LYS THR GLY VAL VAL ARG SER PRO PHE GLU ALA SEQRES 3 B 348 PRO GLN TYR TYR LEU ALA GLU PRO TRP GLN PHE SER MET SEQRES 4 B 348 LEU ALA ALA TYR MET PHE LEU LEU ILE MET LEU GLY PHE SEQRES 5 B 348 PRO ILE ASN PHE LEU THR LEU TYR VAL THR VAL GLN HIS SEQRES 6 B 348 LYS LYS LEU ARG THR PRO LEU ASN TYR ILE LEU LEU ASN SEQRES 7 B 348 LEU ALA VAL ALA ASP LEU PHE MET VAL PHE GLY GLY PHE SEQRES 8 B 348 THR THR THR LEU TYR THR SER LEU HIS GLY TYR PHE VAL SEQRES 9 B 348 PHE GLY PRO THR GLY CYS ASN LEU GLU GLY PHE PHE ALA SEQRES 10 B 348 THR LEU GLY GLY GLU ILE ALA LEU TRP SER LEU VAL VAL SEQRES 11 B 348 LEU ALA ILE GLU ARG TYR VAL VAL VAL CYS LYS PRO MET SEQRES 12 B 348 SER ASN PHE ARG PHE GLY GLU ASN HIS ALA ILE MET GLY SEQRES 13 B 348 VAL ALA PHE THR TRP VAL MET ALA LEU ALA CYS ALA ALA SEQRES 14 B 348 PRO PRO LEU VAL GLY TRP SER ARG TYR ILE PRO GLU GLY SEQRES 15 B 348 MET GLN CYS SER CYS GLY ILE ASP TYR TYR THR PRO HIS SEQRES 16 B 348 GLU GLU THR ASN ASN GLU SER PHE VAL ILE TYR MET PHE SEQRES 17 B 348 VAL VAL HIS PHE ILE ILE PRO LEU ILE VAL ILE PHE PHE SEQRES 18 B 348 CYS TYR GLY GLN LEU VAL PHE THR VAL LYS GLU ALA ALA SEQRES 19 B 348 ALA GLN GLN GLN GLU SER ALA THR THR GLN LYS ALA GLU SEQRES 20 B 348 LYS GLU VAL THR ARG MET VAL ILE ILE MET VAL ILE ALA SEQRES 21 B 348 PHE LEU ILE CYS TRP LEU PRO TYR ALA GLY VAL ALA PHE SEQRES 22 B 348 TYR ILE PHE THR HIS GLN GLY SER ASP PHE GLY PRO ILE SEQRES 23 B 348 PHE MET THR ILE PRO ALA PHE PHE ALA LYS THR SER ALA SEQRES 24 B 348 VAL TYR ASN PRO VAL ILE TYR ILE MET MET ASN LYS GLN SEQRES 25 B 348 PHE ARG ASN CYS MET VAL THR THR LEU CYS CYS GLY LYS SEQRES 26 B 348 ASN PRO LEU GLY ASP ASP GLU ALA SER THR THR VAL SER SEQRES 27 B 348 LYS THR GLU THR SER GLN VAL ALA PRO ALA MODRES 1F88 ASN B 15 ASN GLYCOSYLATION SITE MODRES 1F88 ASN A 15 ASN GLYCOSYLATION SITE MODRES 1F88 ASN B 2 ASN GLYCOSYLATION SITE MODRES 1F88 ASN A 2 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET NAG E 1 14 HET NAG E 2 14 HET MAN E 3 11 HET NAG F 1 14 HET NAG F 2 14 HET HG A 901 1 HET HG A 903 1 HET HG A 905 1 HET ZN A 907 1 HET ZN A 910 1 HET RET A 977 20 HET HG B 902 1 HET HG B 904 1 HET HG B 906 1 HET ZN B 908 1 HET ZN B 909 1 HET RET B 978 20 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM HG MERCURY (II) ION HETNAM ZN ZINC ION HETNAM RET RETINAL FORMUL 3 NAG 8(C8 H15 N O6) FORMUL 5 MAN C6 H12 O6 FORMUL 7 HG 6(HG 2+) FORMUL 10 ZN 4(ZN 2+) FORMUL 12 RET 2(C20 H28 O) FORMUL 19 HOH *27(H2 O) HELIX 1 1 GLN A 28 ALA A 32 5 5 HELIX 2 2 GLU A 33 HIS A 65 1 33 HELIX 3 3 THR A 70 GLY A 90 1 21 HELIX 4 4 GLY A 90 GLY A 101 1 12 HELIX 5 5 PHE A 105 CYS A 140 1 36 HELIX 6 6 GLY A 149 ALA A 169 1 21 HELIX 7 7 PRO A 170 VAL A 173 5 4 HELIX 8 8 ASN A 199 HIS A 211 1 13 HELIX 9 9 PHE A 212 LEU A 226 1 15 HELIX 10 10 LYS A 245 ILE A 255 1 11 HELIX 11 11 ILE A 255 HIS A 278 1 24 HELIX 12 12 GLY A 284 LYS A 296 1 13 HELIX 13 13 THR A 297 ALA A 299 5 3 HELIX 14 14 VAL A 300 ASN A 310 1 11 HELIX 15 15 ASN A 310 CYS A 322 1 13 HELIX 16 16 GLU B 33 HIS B 65 1 33 HELIX 17 17 THR B 70 GLY B 90 1 21 HELIX 18 18 GLY B 90 LEU B 99 1 10 HELIX 19 19 GLY B 106 VAL B 138 1 33 HELIX 20 20 HIS B 152 ALA B 169 1 18 HELIX 21 21 ALA B 169 GLY B 174 1 6 HELIX 22 22 ASN B 199 HIS B 211 1 13 HELIX 23 23 PHE B 212 GLN B 225 1 14 HELIX 24 24 ALA B 246 HIS B 278 1 33 HELIX 25 25 PRO B 285 ALA B 295 1 11 HELIX 26 26 THR B 297 MET B 309 1 13 HELIX 27 27 ASN B 310 CYS B 323 1 14 SHEET 1 A 2 THR A 4 GLU A 5 0 SHEET 2 A 2 TYR A 10 VAL A 11 -1 N VAL A 11 O THR A 4 SHEET 1 B 2 TYR A 178 GLU A 181 0 SHEET 2 B 2 SER A 186 ILE A 189 -1 O SER A 186 N GLU A 181 SHEET 1 C 2 THR B 4 GLU B 5 0 SHEET 2 C 2 TYR B 10 VAL B 11 -1 N VAL B 11 O THR B 4 SHEET 1 D 2 TYR B 178 GLU B 181 0 SHEET 2 D 2 SER B 186 ILE B 189 -1 O SER B 186 N GLU B 181 SSBOND 1 CYS A 110 CYS A 187 1555 1555 2.03 SSBOND 2 CYS B 110 CYS B 187 1555 1555 2.03 LINK ND2 ASN A 2 C1 NAG D 1 1555 1555 1.45 LINK ND2 ASN A 15 C1 NAG C 1 1555 1555 1.45 LINK NZ LYS A 296 C15 RET A 977 1555 1555 1.46 LINK ND2 ASN B 2 C1 NAG F 1 1555 1555 1.45 LINK ND2 ASN B 15 C1 NAG E 1 1555 1555 1.44 LINK NZ LYS B 296 C15 RET B 978 1555 1555 1.46 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.40 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.39 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.38 LINK O4 NAG E 2 C1 MAN E 3 1555 1555 1.39 LINK O4 NAG F 1 C1 NAG F 2 1555 1555 1.39 LINK O ALA A 132 HG HG A 903 1555 1555 3.39 LINK OE2 GLU A 196 ZN ZN B 908 2655 1555 2.25 LINK OE1 GLU A 196 ZN ZN B 908 2655 1555 2.35 LINK OE1 GLU A 201 ZN ZN A 907 1555 1555 2.56 LINK SG CYS A 222 HG HG A 903 1555 1555 2.16 LINK N TYR A 223 HG HG A 903 1555 1555 3.47 LINK SG CYS A 264 HG HG A 901 1555 1555 2.71 LINK NE2 GLN A 279 ZN ZN A 907 1555 1555 2.24 LINK OG1 THR A 297 HG HG A 901 1555 1555 3.13 LINK O GLN A 312 HG HG A 905 1555 1555 3.30 LINK SG CYS A 316 HG HG A 905 1555 1555 2.29 LINK ND1 HIS B 65 HG HG B 906 1555 1555 3.47 LINK O ALA B 132 HG HG B 904 1555 1555 3.22 LINK NE2 HIS B 195 ZN ZN B 909 1555 1555 2.51 LINK SG CYS B 222 HG HG B 904 1555 1555 3.03 LINK O CYS B 222 HG HG B 904 1555 1555 3.37 LINK N TYR B 223 HG HG B 904 1555 1555 3.52 LINK O ALA B 260 HG HG B 902 1555 1555 3.09 LINK SG CYS B 264 HG HG B 902 1555 1555 2.13 LINK OG1 THR B 297 HG HG B 902 1555 1555 3.41 LINK SG CYS B 316 HG HG B 906 1555 1555 2.10 CRYST1 97.246 97.246 149.544 90.00 90.00 90.00 P 41 8 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 0.010283 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010283 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006687 0.00000