10 20 30 40 50 60 70 80 2F93 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER MEMBRANE PROTEIN 05-DEC-05 2F93
TITLE K INTERMEDIATE STRUCTURE OF SENSORY RHODOPSIN II/TRANSDUCER COMPLEX IN TITLE 2 COMBINATION WITH THE GROUND STATE STRUCTURE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: SENSORY RHODOPSIN II; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SR-II; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: SENSORY RHODOPSIN II TRANSDUCER; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: HTR-II, METHYL-ACCEPTING PHOTOTAXIS PROTEIN II, MPP-II; COMPND 10 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NATRONOMONAS PHARAONIS; SOURCE 3 ORGANISM_TAXID: 2257; SOURCE 4 GENE: SOP2, SOPII; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET27BMOD; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: NATRONOMONAS PHARAONIS; SOURCE 12 ORGANISM_TAXID: 2257; SOURCE 13 GENE: HTR2, HTRII; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PET27BMOD
KEYWDS MENBRANE PROTEIN COMPLEX, SIGNAL TRANSDUCTION, PHOTOCYCLE STATE, KEYWDS 2 MEMBRANE PROTEIN
EXPDTA X-RAY DIFFRACTION
NUMMDL 2
AUTHOR R.I.MOUKHAMETZIANOV,J.P.KLARE,R.G.EFREMOV,C.BAECKEN,A.GOEPPNER, AUTHOR 2 J.LABAHN,M.ENGELHARD,G.BUELDT,V.I.GORDELIY
REVDAT 4 13-JUL-11 2F93 1 VERSN REVDAT 3 24-FEB-09 2F93 1 VERSN REVDAT 2 08-JAN-08 2F93 1 JRNL REMARK REVDAT 1 07-MAR-06 2F93 0
JRNL AUTH R.MOUKHAMETZIANOV,J.P.KLARE,R.EFREMOV,C.BAEKEN,A.GOPPNER, JRNL AUTH 2 J.LABAHN,M.ENGELHARD,G.BULDT,V.I.GORDELIY JRNL TITL DEVELOPMENT OF THE SIGNAL IN SENSORY RHODOPSIN AND ITS JRNL TITL 2 TRANSFER TO THE COGNATE TRANSDUCER. JRNL REF NATURE V. 440 115 2006 JRNL REFN ISSN 0028-0836 JRNL PMID 16452929 JRNL DOI 10.1038/NATURE04520
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH V.I.GORDELIY,J.LABAHN,R.I.MOUKHAMETZIANOV,R.EFREMOV, REMARK 1 AUTH 2 J.GRANZIN,R.SCHLESINGER,G.BUELDT,T.SAVAPOL,A.J.SCHEDIG, REMARK 1 AUTH 3 J.P.KLARE,M.ENGELHARD REMARK 1 TITL MOLECULAR BASIS OF TRANSMEMBRANE SIGNALLING BY SENSORY REMARK 1 TITL 2 RHODOPSIN II - TRANSDUCER COMPLEX REMARK 1 REF NATURE V. 419 484 2002 REMARK 1 REFN ISSN 0028-0836 REMARK 1 PMID 12368857 REMARK 1 DOI 10.1038/NATURE01109
REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1775916.280 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 92.2 REMARK 3 NUMBER OF REFLECTIONS : 20360 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 985 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.07 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1926 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE : 0.2390 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 99 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.024 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2001 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 35 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.09000 REMARK 3 B22 (A**2) : 2.82000 REMARK 3 B33 (A**2) : -5.91000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : 0.08 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.16 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.20 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 16.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.93 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.350 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.030 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.580 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.620 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.45 REMARK 3 BSOL : 94.10 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : BOG.PAR REMARK 3 PARAMETER FILE 3 : RETINAL.PAR REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : BOG.TOP REMARK 3 TOPOLOGY FILE 3 : RETINAL.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 MODEL USED FOR REFINEMENT CONSISTS REMARK 3 OF GROUND STATE COMPLEX (ALTERNATIVE CONFORMATION INDICATOR A AT REMARK 3 POSITION 17) REMARK 3 AND K STATE COMPLEX (ALTERNATIVE CONFORMATION INDICATOR B AT REMARK 3 POSITION 17) REMARK 3 WITH CORRESPONDING OCCUPANCIES. GROUND STATE MODEL WAS FIRST REMARK 3 REFINED AGAINST THE GROUND STATE DATA AND THEN THE K STATE REMARK 3 MODEL WAS REFINED WITH GROUND STATE MODEL FIXED AGAINST THE REMARK 3 ILLUMINATED CRYSTAL DATA
REMARK 4 REMARK 4 2F93 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-DEC-05. REMARK 100 THE RCSB ID CODE IS RCSB035604.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-SEP-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21010 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 34.060 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.800 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.49400 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY: 1H2S REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 150 MM NACL, 25 MM NAKPI 5.1 REMARK 280 0.8% B-OCTYLGLUCOSID , MONOVACCENIN (CUBIC PHASE) PRECIPITATED BY REMARK 280 1 M NA/KPI 5.8 , IN CUBIC LIPIDIC PHASE, TEMPERATURE 295K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 62.17000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.51500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 62.17000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 23.51500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
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 300 REMARK: FUNCTIONAL K STATE IS THOUGHT TO CONSIST OF ONE GROUND REMARK 300 STATE COMPLEX OF SENSORY RHOODPSIN II/TRANSDUCER AND ONE K STATE REMARK 300 COMPLEX WHICH IS TO BE GENERATED BY APPLYING THE TWO FOLD OPERATOR REMARK 300 TO THE K STATE: 1-X, -Y, Z
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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 7490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 BIOMT1 2 -1.000000 0.000000 0.000000 124.34000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 1 VAL A 2 REMARK 465 1 HIS A 223 REMARK 465 1 GLY A 224 REMARK 465 1 GLU A 225 REMARK 465 1 SER A 226 REMARK 465 1 LEU A 227 REMARK 465 1 ALA A 228 REMARK 465 1 GLY A 229 REMARK 465 1 VAL A 230 REMARK 465 1 ASP A 231 REMARK 465 1 THR A 232 REMARK 465 1 ASP A 233 REMARK 465 1 ALA A 234 REMARK 465 1 PRO A 235 REMARK 465 1 ALA A 236 REMARK 465 1 VAL A 237 REMARK 465 1 ALA A 238 REMARK 465 1 ASP A 239 REMARK 465 1 GLU A 240 REMARK 465 1 ASN A 241 REMARK 465 1 SER A 242 REMARK 465 1 HIS A 243 REMARK 465 1 HIS A 244 REMARK 465 1 HIS A 245 REMARK 465 1 HIS A 246 REMARK 465 1 HIS A 247 REMARK 465 1 HIS A 248 REMARK 465 1 HIS A 249 REMARK 465 1 ALA B 2 REMARK 465 1 LEU B 3 REMARK 465 1 ASN B 4 REMARK 465 1 VAL B 5 REMARK 465 1 SER B 6 REMARK 465 1 ARG B 7 REMARK 465 1 LEU B 8 REMARK 465 1 LEU B 9 REMARK 465 1 LEU B 10 REMARK 465 1 PRO B 11 REMARK 465 1 SER B 12 REMARK 465 1 ARG B 13 REMARK 465 1 VAL B 14 REMARK 465 1 ARG B 15 REMARK 465 1 HIS B 16 REMARK 465 1 SER B 17 REMARK 465 1 TYR B 18 REMARK 465 1 THR B 19 REMARK 465 1 GLY B 20 REMARK 465 1 LYS B 21 REMARK 465 1 MET B 22 REMARK 465 1 GLY B 23 REMARK 465 1 ALA B 24 REMARK 465 1 VAL B 25 REMARK 465 1 PHE B 26 REMARK 465 1 ILE B 27 REMARK 465 1 PHE B 28 REMARK 465 1 ALA B 80 REMARK 465 1 THR B 81 REMARK 465 1 LEU B 82 REMARK 465 1 GLY B 83 REMARK 465 1 GLY B 84 REMARK 465 1 ASP B 85 REMARK 465 1 THR B 86 REMARK 465 1 ALA B 87 REMARK 465 1 ALA B 88 REMARK 465 1 SER B 89 REMARK 465 1 LEU B 90 REMARK 465 1 SER B 91 REMARK 465 1 THR B 92 REMARK 465 1 LEU B 93 REMARK 465 1 ALA B 94 REMARK 465 1 ALA B 95 REMARK 465 1 LYS B 96 REMARK 465 1 ALA B 97 REMARK 465 1 SER B 98 REMARK 465 1 ARG B 99 REMARK 465 1 MET B 100 REMARK 465 1 GLY B 101 REMARK 465 1 ASP B 102 REMARK 465 1 GLY B 103 REMARK 465 1 ASP B 104 REMARK 465 1 LEU B 105 REMARK 465 1 ASP B 106 REMARK 465 1 VAL B 107 REMARK 465 1 GLU B 108 REMARK 465 1 LEU B 109 REMARK 465 1 GLU B 110 REMARK 465 1 THR B 111 REMARK 465 1 ARG B 112 REMARK 465 1 ARG B 113 REMARK 465 1 GLU B 114 REMARK 465 1 ASN B 115 REMARK 465 1 SER B 116 REMARK 465 1 HIS B 117 REMARK 465 1 HIS B 118 REMARK 465 1 HIS B 119 REMARK 465 1 HIS B 120 REMARK 465 1 HIS B 121 REMARK 465 1 HIS B 122 REMARK 465 1 HIS B 123 REMARK 465 2 VAL A 2 REMARK 465 2 HIS A 223 REMARK 465 2 GLY A 224 REMARK 465 2 GLU A 225 REMARK 465 2 SER A 226 REMARK 465 2 LEU A 227 REMARK 465 2 ALA A 228 REMARK 465 2 GLY A 229 REMARK 465 2 VAL A 230 REMARK 465 2 ASP A 231 REMARK 465 2 THR A 232 REMARK 465 2 ASP A 233 REMARK 465 2 ALA A 234 REMARK 465 2 PRO A 235 REMARK 465 2 ALA A 236 REMARK 465 2 VAL A 237 REMARK 465 2 ALA A 238 REMARK 465 2 ASP A 239 REMARK 465 2 GLU A 240 REMARK 465 2 ASN A 241 REMARK 465 2 SER A 242 REMARK 465 2 HIS A 243 REMARK 465 2 HIS A 244 REMARK 465 2 HIS A 245 REMARK 465 2 HIS A 246 REMARK 465 2 HIS A 247 REMARK 465 2 HIS A 248 REMARK 465 2 HIS A 249 REMARK 465 2 ALA B 2 REMARK 465 2 LEU B 3 REMARK 465 2 ASN B 4 REMARK 465 2 VAL B 5 REMARK 465 2 SER B 6 REMARK 465 2 ARG B 7 REMARK 465 2 LEU B 8 REMARK 465 2 LEU B 9 REMARK 465 2 LEU B 10 REMARK 465 2 PRO B 11 REMARK 465 2 SER B 12 REMARK 465 2 ARG B 13 REMARK 465 2 VAL B 14 REMARK 465 2 ARG B 15 REMARK 465 2 HIS B 16 REMARK 465 2 SER B 17 REMARK 465 2 TYR B 18 REMARK 465 2 THR B 19 REMARK 465 2 GLY B 20 REMARK 465 2 LYS B 21 REMARK 465 2 MET B 22 REMARK 465 2 GLY B 23 REMARK 465 2 ALA B 24 REMARK 465 2 VAL B 25 REMARK 465 2 PHE B 26 REMARK 465 2 ILE B 27 REMARK 465 2 PHE B 28 REMARK 465 2 ALA B 80 REMARK 465 2 THR B 81 REMARK 465 2 LEU B 82 REMARK 465 2 GLY B 83 REMARK 465 2 GLY B 84 REMARK 465 2 ASP B 85 REMARK 465 2 THR B 86 REMARK 465 2 ALA B 87 REMARK 465 2 ALA B 88 REMARK 465 2 SER B 89 REMARK 465 2 LEU B 90 REMARK 465 2 SER B 91 REMARK 465 2 THR B 92 REMARK 465 2 LEU B 93 REMARK 465 2 ALA B 94 REMARK 465 2 ALA B 95 REMARK 465 2 LYS B 96 REMARK 465 2 ALA B 97 REMARK 465 2 SER B 98 REMARK 465 2 ARG B 99 REMARK 465 2 MET B 100 REMARK 465 2 GLY B 101 REMARK 465 2 ASP B 102 REMARK 465 2 GLY B 103 REMARK 465 2 ASP B 104 REMARK 465 2 LEU B 105 REMARK 465 2 ASP B 106 REMARK 465 2 VAL B 107 REMARK 465 2 GLU B 108 REMARK 465 2 LEU B 109 REMARK 465 2 GLU B 110 REMARK 465 2 THR B 111 REMARK 465 2 ARG B 112 REMARK 465 2 ARG B 113 REMARK 465 2 GLU B 114 REMARK 465 2 ASN B 115 REMARK 465 2 SER B 116 REMARK 465 2 HIS B 117 REMARK 465 2 HIS B 118 REMARK 465 2 HIS B 119 REMARK 465 2 HIS B 120 REMARK 465 2 HIS B 121 REMARK 465 2 HIS B 122 REMARK 465 2 HIS B 123
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 2 GLU A 65 -1.72 75.05 REMARK 500 2 LYS A 205 -60.83 -106.31 REMARK 500 2 ALA B 49 19.45 -69.83 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 2 ASN B 74 11.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 2 GLU A 65 23.7 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BOG A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RET A 301
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1H2S RELATED DB: PDB REMARK 900 GROUND STATE STRUCTURE OF SENSORY RHODOPSIN II AND ITS REMARK 900 TRANSDUCER
DBREF 2F93 A 2 239 UNP P42196 BACS2_NATPH 2 239 DBREF 2F93 B 3 114 UNP P42259 HTR2_NATPH 3 114
SEQADV 2F93 GLU A 240 UNP P42196 CLONING ARTIFACT SEQADV 2F93 ASN A 241 UNP P42196 CLONING ARTIFACT SEQADV 2F93 SER A 242 UNP P42196 CLONING ARTIFACT SEQADV 2F93 HIS A 243 UNP P42196 EXPRESSION TAG SEQADV 2F93 HIS A 244 UNP P42196 EXPRESSION TAG SEQADV 2F93 HIS A 245 UNP P42196 EXPRESSION TAG SEQADV 2F93 HIS A 246 UNP P42196 EXPRESSION TAG SEQADV 2F93 HIS A 247 UNP P42196 EXPRESSION TAG SEQADV 2F93 HIS A 248 UNP P42196 EXPRESSION TAG SEQADV 2F93 HIS A 249 UNP P42196 EXPRESSION TAG SEQADV 2F93 ALA B 2 UNP P42259 CLONING ARTIFACT SEQADV 2F93 ASN B 115 UNP P42259 CLONING ARTIFACT SEQADV 2F93 SER B 116 UNP P42259 CLONING ARTIFACT SEQADV 2F93 HIS B 117 UNP P42259 EXPRESSION TAG SEQADV 2F93 HIS B 118 UNP P42259 EXPRESSION TAG SEQADV 2F93 HIS B 119 UNP P42259 EXPRESSION TAG SEQADV 2F93 HIS B 120 UNP P42259 EXPRESSION TAG SEQADV 2F93 HIS B 121 UNP P42259 EXPRESSION TAG SEQADV 2F93 HIS B 122 UNP P42259 EXPRESSION TAG SEQADV 2F93 HIS B 123 UNP P42259 EXPRESSION TAG
SEQRES 1 A 248 VAL GLY LEU THR THR LEU PHE TRP LEU GLY ALA ILE GLY SEQRES 2 A 248 MET LEU VAL GLY THR LEU ALA PHE ALA TRP ALA GLY ARG SEQRES 3 A 248 ASP ALA GLY SER GLY GLU ARG ARG TYR TYR VAL THR LEU SEQRES 4 A 248 VAL GLY ILE SER GLY ILE ALA ALA VAL ALA TYR VAL VAL SEQRES 5 A 248 MET ALA LEU GLY VAL GLY TRP VAL PRO VAL ALA GLU ARG SEQRES 6 A 248 THR VAL PHE ALA PRO ARG TYR ILE ASP TRP ILE LEU THR SEQRES 7 A 248 THR PRO LEU ILE VAL TYR PHE LEU GLY LEU LEU ALA GLY SEQRES 8 A 248 LEU ASP SER ARG GLU PHE GLY ILE VAL ILE THR LEU ASN SEQRES 9 A 248 THR VAL VAL MET LEU ALA GLY PHE ALA GLY ALA MET VAL SEQRES 10 A 248 PRO GLY ILE GLU ARG TYR ALA LEU PHE GLY MET GLY ALA SEQRES 11 A 248 VAL ALA PHE LEU GLY LEU VAL TYR TYR LEU VAL GLY PRO SEQRES 12 A 248 MET THR GLU SER ALA SER GLN ARG SER SER GLY ILE LYS SEQRES 13 A 248 SER LEU TYR VAL ARG LEU ARG ASN LEU THR VAL ILE LEU SEQRES 14 A 248 TRP ALA ILE TYR PRO PHE ILE TRP LEU LEU GLY PRO PRO SEQRES 15 A 248 GLY VAL ALA LEU LEU THR PRO THR VAL ASP VAL ALA LEU SEQRES 16 A 248 ILE VAL TYR LEU ASP LEU VAL THR LYS VAL GLY PHE GLY SEQRES 17 A 248 PHE ILE ALA LEU ASP ALA ALA ALA THR LEU ARG ALA GLU SEQRES 18 A 248 HIS GLY GLU SER LEU ALA GLY VAL ASP THR ASP ALA PRO SEQRES 19 A 248 ALA VAL ALA ASP GLU ASN SER HIS HIS HIS HIS HIS HIS SEQRES 20 A 248 HIS SEQRES 1 B 122 ALA LEU ASN VAL SER ARG LEU LEU LEU PRO SER ARG VAL SEQRES 2 B 122 ARG HIS SER TYR THR GLY LYS MET GLY ALA VAL PHE ILE SEQRES 3 B 122 PHE VAL GLY ALA LEU THR VAL LEU PHE GLY ALA ILE ALA SEQRES 4 B 122 TYR GLY GLU VAL THR ALA ALA ALA ALA THR GLY ASP ALA SEQRES 5 B 122 ALA ALA VAL GLN GLU ALA ALA VAL SER ALA ILE LEU GLY SEQRES 6 B 122 LEU ILE ILE LEU LEU GLY ILE ASN LEU GLY LEU VAL ALA SEQRES 7 B 122 ALA THR LEU GLY GLY ASP THR ALA ALA SER LEU SER THR SEQRES 8 B 122 LEU ALA ALA LYS ALA SER ARG MET GLY ASP GLY ASP LEU SEQRES 9 B 122 ASP VAL GLU LEU GLU THR ARG ARG GLU ASN SER HIS HIS SEQRES 10 B 122 HIS HIS HIS HIS HIS
HET BOG A 300 20 HET RET A 301 20
HETNAM BOG B-OCTYLGLUCOSIDE HETNAM RET RETINAL
FORMUL 3 BOG C14 H28 O6 FORMUL 4 RET C20 H28 O FORMUL 5 HOH *35(H2 O)
HELIX 1 1 GLY A 3 GLY A 26 1 24 HELIX 2 2 GLU A 33 LEU A 56 1 24 HELIX 3 3 ALA A 70 GLY A 92 1 23 HELIX 4 4 ASP A 94 MET A 117 1 24 HELIX 5 5 ILE A 121 GLY A 143 1 23 HELIX 6 6 GLY A 143 SER A 150 1 8 HELIX 7 7 SER A 153 ALA A 172 1 20 HELIX 8 8 ILE A 173 GLY A 181 1 9 HELIX 9 9 THR A 189 GLU A 222 1 34 HELIX 10 10 VAL B 29 ALA B 49 1 21 HELIX 11 11 ASP B 52 ALA B 79 1 28
SHEET 1 A 2 TRP A 60 VAL A 63 0 SHEET 2 A 2 ARG A 66 PHE A 69 -1 O VAL A 68 N VAL A 61
LINK NZ ALYS A 205 C15ARET A 301 1555 1555 1.48
SITE 1 AC1 9 TYR A 36 TYR A 37 LEU A 40 ARG A 152 SITE 2 AC1 9 ILE A 156 ALA A 212 LEU A 213 LEU A 219 SITE 3 AC1 9 HOH A 329 SITE 1 AC2 12 TRP A 76 THR A 80 VAL A 108 GLY A 112 SITE 2 AC2 12 PHE A 127 PHE A 134 TRP A 171 TYR A 174 SITE 3 AC2 12 TRP A 178 ASP A 201 THR A 204 LYS A 205
CRYST1 124.340 47.030 53.820 90.00 90.00 90.00 P 21 21 2 4
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 0.008042 0.000000 0.000000 0.00000
SCALE2 0.000000 0.021263 0.000000 0.00000
SCALE3 0.000000 0.000000 0.018580 0.00000