HEADER TRANSPORT PROTEIN 22-JUN-12 4FPD TITLE DEPROTONATION OF D96 IN BACTERIORHODOPSIN OPENS THE PROTON UPTAKE TITLE 2 PATHWAY COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACTERIORHODOPSIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BR, BACTERIOOPSIN, BO; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HALOBACTERIUM SP. NRC-1; SOURCE 3 ORGANISM_TAXID: 64091; SOURCE 4 STRAIN: ATCC 700922 / JCM 11081 / NRC-1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS 7 HELIX, TRANSMEMBRANE, PROTON PUMP, ION TRANSPORT, DEPROTONATION, KEYWDS 2 RETINAL BINDING, MEMBRANE, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.WANG,A.O.SESSIONS,C.S.LUNDE,S.ROUANI,R.M.GLAESER,M.T.FACCIOTTI, AUTHOR 2 Y.DUAN REVDAT 3 13-SEP-23 4FPD 1 REMARK SEQADV LINK REVDAT 2 29-AUG-18 4FPD 1 COMPND SOURCE REVDAT 1 27-FEB-13 4FPD 0 JRNL AUTH T.WANG,A.O.SESSIONS,C.S.LUNDE,S.ROUHANI,R.M.GLAESER,Y.DUAN, JRNL AUTH 2 M.T.FACCIOTTI JRNL TITL DEPROTONATION OF D96 IN BACTERIORHODOPSIN OPENS THE PROTON JRNL TITL 2 UPTAKE PATHWAY. JRNL REF STRUCTURE V. 21 290 2013 JRNL REFN ISSN 0969-2126 JRNL PMID 23394942 JRNL DOI 10.1016/J.STR.2012.12.018 REMARK 2 REMARK 2 RESOLUTION. 2.65 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1243318.860 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 6565 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) : 0.223 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.700 REMARK 3 FREE R VALUE TEST SET COUNT : 568 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.010 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.82 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 962 REMARK 3 BIN R VALUE (WORKING SET) : 0.2900 REMARK 3 BIN FREE R VALUE : 0.2970 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 8.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 88 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.032 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1729 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 119 REMARK 3 SOLVENT ATOMS : 31 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.34 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.68000 REMARK 3 B22 (A**2) : -2.68000 REMARK 3 B33 (A**2) : 5.35000 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) : 0.32 REMARK 3 ESD FROM SIGMAA (A) : 0.32 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) : 0.34 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.34 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.021 REMARK 3 BOND ANGLES (DEGREES) : 2.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 2.600 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) : 1.280 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.210 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.600 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.360 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 53.84 REMARK 3 REMARK 3 NCS MODEL : NONE 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.PARAM REMARK 3 PARAMETER FILE 2 : RET.PAR REMARK 3 PARAMETER FILE 3 : WATER.PARAM REMARK 3 PARAMETER FILE 4 : LI1.PAR REMARK 3 PARAMETER FILE 5 : ION.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : RET.TOP REMARK 3 TOPOLOGY FILE 4 : LI1.TOP REMARK 3 TOPOLOGY FILE 5 : ION.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 4FPD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1000073187. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-JAN-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.11588 REMARK 200 MONOCHROMATOR : SI(111) KHOZU DOUBLE FLAT REMARK 200 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6565 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 47.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.78 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.000 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: 1KGB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 95% MONOMETHYL-DOPE, 5% DOPE-MPEG350, REMARK 280 67% HYDRATION WITH DETERGENT/RETINAL/MEMBRANE SUSPENSION, REMARK 280 CONTINUOUS LIPID BI-LAYER GEL, TEMPERATURE 295K, PH 5.5, REMARK 280 TEMPERATURE 298K, EVAPORATION REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 53.85050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 53.85050 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 53.85050 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -219.0 KCAL/MOL 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 30.46550 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 52.76779 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -30.46550 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 52.76779 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 18030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -224.0 KCAL/MOL 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 30.46550 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 52.76779 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -30.46550 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 52.76779 REMARK 350 BIOMT3 3 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 A -12 REMARK 465 LEU A -11 REMARK 465 GLU A -10 REMARK 465 LEU A -9 REMARK 465 LEU A -8 REMARK 465 PRO A -7 REMARK 465 THR A -6 REMARK 465 ALA A -5 REMARK 465 VAL A -4 REMARK 465 GLU A -3 REMARK 465 GLY A -2 REMARK 465 VAL A -1 REMARK 465 SER A 0 REMARK 465 GLN A 1 REMARK 465 ALA A 2 REMARK 465 GLN A 3 REMARK 465 ILE A 4 REMARK 465 PHE A 230 REMARK 465 GLY A 231 REMARK 465 GLU A 232 REMARK 465 ALA A 233 REMARK 465 GLU A 234 REMARK 465 ALA A 235 REMARK 465 PRO A 236 REMARK 465 GLU A 237 REMARK 465 PRO A 238 REMARK 465 SER A 239 REMARK 465 ALA A 240 REMARK 465 GLY A 241 REMARK 465 ASP A 242 REMARK 465 GLY A 243 REMARK 465 ALA A 244 REMARK 465 ALA A 245 REMARK 465 ALA A 246 REMARK 465 THR A 247 REMARK 465 SER A 248 REMARK 465 ASP A 249 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 NZ LYS A 216 C15 RET A 301 1.46 REMARK 500 O ARG A 225 N ARG A 227 1.94 REMARK 500 O ARG A 227 N ILE A 229 2.02 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 ARG A 7 127.58 -28.69 REMARK 500 ASP A 102 46.34 32.71 REMARK 500 SER A 162 3.69 154.54 REMARK 500 THR A 170 -54.40 -163.71 REMARK 500 CYS A 171 3.93 -56.97 REMARK 500 VAL A 217 -63.67 -93.67 REMARK 500 ARG A 225 -97.60 -39.80 REMARK 500 SER A 226 56.59 -38.07 REMARK 500 ARG A 227 -75.56 -77.16 REMARK 500 ALA A 228 95.08 -38.33 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 LI1 A 303 REMARK 610 LI1 A 304 REMARK 610 LI1 A 305 REMARK 610 LI1 A 306 REMARK 610 LI1 A 307 REMARK 610 LI1 A 308 REMARK 610 LI1 A 309 REMARK 610 LI1 A 310 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI1 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI1 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI1 A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI1 A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI1 A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI1 A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI1 A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI1 A 310 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1KGB RELATED DB: PDB REMARK 900 STRUCTURE OF GROUND-STATE BACTERIORHODOPSIN REMARK 900 RELATED ID: 1KG8 RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF AN EARLY-M INTERMEDIATE OF BACTERIORHODOPSIN REMARK 900 RELATED ID: 1KG9 RELATED DB: PDB REMARK 900 STRUCTURE OF A "MOCK-TRAPPED" EARLY-M INTERMEDIATE OF REMARK 900 BACTERIORHOSOPSIN REMARK 900 RELATED ID: 1JV7 RELATED DB: PDB REMARK 900 BACTERIORHODOPSIN O-LIKE INTERMEDIATE STATE OF THE D85S MUTANT AT REMARK 900 2.25 ANGSTROM RESOLUTION REMARK 900 RELATED ID: 1FBK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CYTOPLASMICALLY OPEN CONFORMATION OF REMARK 900 BACTERIORHODOPSIN DBREF 4FPD A -12 249 UNP P02945 BACR_HALSA 1 262 SEQADV 4FPD GLY A 96 UNP P02945 ASP 109 ENGINEERED MUTATION SEQADV 4FPD CYS A 171 UNP P02945 PHE 184 ENGINEERED MUTATION SEQADV 4FPD LEU A 219 UNP P02945 PHE 232 ENGINEERED MUTATION SEQRES 1 A 262 MET LEU GLU LEU LEU PRO THR ALA VAL GLU GLY VAL SER SEQRES 2 A 262 GLN ALA GLN ILE THR GLY ARG PRO GLU TRP ILE TRP LEU SEQRES 3 A 262 ALA LEU GLY THR ALA LEU MET GLY LEU GLY THR LEU TYR SEQRES 4 A 262 PHE LEU VAL LYS GLY MET GLY VAL SER ASP PRO ASP ALA SEQRES 5 A 262 LYS LYS PHE TYR ALA ILE THR THR LEU VAL PRO ALA ILE SEQRES 6 A 262 ALA PHE THR MET TYR LEU SER MET LEU LEU GLY TYR GLY SEQRES 7 A 262 LEU THR MET VAL PRO PHE GLY GLY GLU GLN ASN PRO ILE SEQRES 8 A 262 TYR TRP ALA ARG TYR ALA ASP TRP LEU PHE THR THR PRO SEQRES 9 A 262 LEU LEU LEU LEU GLY LEU ALA LEU LEU VAL ASP ALA ASP SEQRES 10 A 262 GLN GLY THR ILE LEU ALA LEU VAL GLY ALA ASP GLY ILE SEQRES 11 A 262 MET ILE GLY THR GLY LEU VAL GLY ALA LEU THR LYS VAL SEQRES 12 A 262 TYR SER TYR ARG PHE VAL TRP TRP ALA ILE SER THR ALA SEQRES 13 A 262 ALA MET LEU TYR ILE LEU TYR VAL LEU PHE PHE GLY PHE SEQRES 14 A 262 THR SER LYS ALA GLU SER MET ARG PRO GLU VAL ALA SER SEQRES 15 A 262 THR CYS LYS VAL LEU ARG ASN VAL THR VAL VAL LEU TRP SEQRES 16 A 262 SER ALA TYR PRO VAL VAL TRP LEU ILE GLY SER GLU GLY SEQRES 17 A 262 ALA GLY ILE VAL PRO LEU ASN ILE GLU THR LEU LEU PHE SEQRES 18 A 262 MET VAL LEU ASP VAL SER ALA LYS VAL GLY LEU GLY LEU SEQRES 19 A 262 ILE LEU LEU ARG SER ARG ALA ILE PHE GLY GLU ALA GLU SEQRES 20 A 262 ALA PRO GLU PRO SER ALA GLY ASP GLY ALA ALA ALA THR SEQRES 21 A 262 SER ASP HET RET A 301 40 HET CL A 302 1 HET LI1 A 303 11 HET LI1 A 304 18 HET LI1 A 305 8 HET LI1 A 306 5 HET LI1 A 307 29 HET LI1 A 308 3 HET LI1 A 309 14 HET LI1 A 310 10 HETNAM RET RETINAL HETNAM CL CHLORIDE ION HETNAM LI1 1-[2,6,10.14-TETRAMETHYL-HEXADECAN-16-YL]-2-[2,10,14- HETNAM 2 LI1 TRIMETHYLHEXADECAN-16-YL]GLYCEROL HETSYN LI1 LIPID FRAGMENT FORMUL 2 RET C20 H28 O FORMUL 3 CL CL 1- FORMUL 4 LI1 8(C42 H86 O3) FORMUL 12 HOH *31(H2 O) HELIX 1 1 GLU A 9 GLY A 31 1 23 HELIX 2 2 ASP A 36 LEU A 62 1 27 HELIX 3 3 TRP A 80 VAL A 101 1 22 HELIX 4 4 ASP A 104 THR A 128 1 25 HELIX 5 5 VAL A 130 GLU A 161 1 32 HELIX 6 6 THR A 170 GLY A 192 1 23 HELIX 7 7 PRO A 200 VAL A 217 1 18 HELIX 8 8 VAL A 217 SER A 226 1 10 SHEET 1 A 2 THR A 67 PRO A 70 0 SHEET 2 A 2 GLN A 75 ILE A 78 -1 O ILE A 78 N THR A 67 LINK NZ LYS A 216 C15ARET A 301 1555 1555 1.30 SITE 1 AC1 11 TRP A 86 THR A 90 MET A 118 SER A 141 SITE 2 AC1 11 THR A 142 MET A 145 TRP A 182 TYR A 185 SITE 3 AC1 11 TRP A 189 ASP A 212 LYS A 216 SITE 1 AC2 4 TYR A 64 THR A 128 TRP A 137 HOH A 406 SITE 1 AC3 2 LEU A 58 LI1 A 306 SITE 1 AC4 4 TYR A 131 PHE A 135 ILE A 203 LI1 A 305 SITE 1 AC5 3 LEU A 190 PRO A 200 LI1 A 304 SITE 1 AC6 1 LI1 A 303 SITE 1 AC7 9 ILE A 52 MET A 56 TYR A 64 TRP A 80 SITE 2 AC7 9 LEU A 87 PHE A 88 GLY A 116 ILE A 117 SITE 3 AC7 9 LEU A 127 SITE 1 AC8 2 LEU A 25 TYR A 26 SITE 1 AC9 6 LEU A 28 THR A 47 PHE A 54 ILE A 117 SITE 2 AC9 6 ALA A 144 TYR A 147 SITE 1 BC1 3 PHE A 88 PRO A 91 LEU A 92 CRYST1 60.931 60.931 107.701 90.00 90.00 120.00 P 63 6 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 0.016412 0.009475 0.000000 0.00000 SCALE2 0.000000 0.018951 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009285 0.00000