10 20 30 40 50 60 70 80 1QKO - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER PHOTORECEPTOR 30-JUL-99 1QKO
TITLE HIGH RESOLUTION X-RAY STRUCTURE OF AN EARLY INTERMEDIATE IN TITLE 2 THE BACTERIORHODOPSIN PHOTOCYCLE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACTERIORHODOPSIN; COMPND 3 CHAIN: A; COMPND 4 BIOLOGICAL_UNIT: TRIMER; COMPND 5 OTHER_DETAILS: RETINAL LINKED TO LYS 216 VIA A SCHIFF BASE
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HALOBACTERIUM SALINARIUM; SOURCE 3 ORGANISM_TAXID: 2242; SOURCE 4 STRAIN: S9; SOURCE 5 CELLULAR_LOCATION: PLASMA MEMBRANE
KEYWDS PHOTORECEPTOR, PROTON PUMP, MEMBRANE PROTEIN, RETINAL KEYWDS 2 PROTEIN, INTERMEDIATE STATE, PHOTOCYCLE, LIPIDIC CUBIC KEYWDS 3 PHASES
EXPDTA X-RAY DIFFRACTION
AUTHOR K.EDMAN,P.NOLLERT,A.ROYANT,H.BELRHALI,E.PEBAY-PEYROULA, AUTHOR 2 J.HAJDU,R.NEUTZE,E.M.LANDAU
REVDAT 3 24-FEB-09 1QKO 1 VERSN REVDAT 2 04-NOV-99 1QKO 1 REMARK REVDAT 1 24-OCT-99 1QKO 0
JRNL AUTH K.EDMAN,P.NOLLERT,A.ROYANT,H.BELRHALI, JRNL AUTH 2 E.PEBAY-PEYROULA,J.HAJDU,R.NEUTZE,E.M.LANDAU JRNL TITL HIGH RESOLUTION X-RAY STRUCTURE OF AN EARLY JRNL TITL 2 INTERMEDIATE IN THE BACTERIORHODOPSIN PHOTOCYCLE JRNL REF NATURE V. 401 822 1999 JRNL REFN ISSN 0028-0836 JRNL PMID 10548112 JRNL DOI 10.1038/44623
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.BELRHALI,P.NOLLERT,A.ROYANT,C.MENZEL, REMARK 1 AUTH 2 J.P.ROSENBUSCH,E.M.LANDAU,E.PEBAY-PEYROULA REMARK 1 TITL PROTEIN, LIPID AND WATER ORGANIZATION IN REMARK 1 TITL 2 BACTERIORHODOPSIN: A MOLECULAR VIEW OF THE PURPLE REMARK 1 TITL 3 MEMBRANE AT 1.9 ANGSTROM RESOLUTION REMARK 1 REF STRUCTURE V. 7 909 1999 REMARK 1 REFN ISSN 0969-2126 REMARK 1 PMID 10467143 REMARK 1 DOI 10.1016/S0969-2126(99)80118-X
REMARK 2 REMARK 2 RESOLUTION. 2.1 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.5 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.0 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 10000.00 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 13628 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : THE SAME TEST SET AS FOR REMARK 3 THE REFINEMENT OF 1QHJ WAS REMARK 3 USED REMARK 3 R VALUE (WORKING SET) : 0.2607 REMARK 3 FREE R VALUE : 0.3033 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.0 REMARK 3 FREE R VALUE TEST SET COUNT : 642 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 : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.18 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.9 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1307 REMARK 3 BIN R VALUE (WORKING SET) : 0.3355 REMARK 3 BIN FREE R VALUE : 0.3905 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.0 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 59 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 : 1765 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 25 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.0 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.6 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.547 REMARK 3 B22 (A**2) : 3.547 REMARK 3 B33 (A**2) : -7.094 REMARK 3 B12 (A**2) : -0.633 REMARK 3 B13 (A**2) : 0.000 REMARK 3 B23 (A**2) : 0.000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.31 REMARK 3 ESD FROM SIGMAA (A) : 0.31 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) : 0.38 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.35 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.01302 REMARK 3 BOND ANGLES (DEGREES) : 1.1929 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 18.0628 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.8641 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 : FLAT MODEL REMARK 3 KSOL : 0.513 REMARK 3 BSOL : 112 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 : WATER.PARAM REMARK 3 PARAMETER FILE 3 : RETFIN.PAR REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : RETFIN.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THIS STRUCTURE WAS REFINED AGAINST REMARK 3 EXTRAPOLATED STRUCTURE FACTORS AS DESCRIBED BELOW. THE REMARK 3 STRUCTURE FACTORS FROM AN ILLUMINATED CRYSTAL REPRESENTING A REMARK 3 MIXTURE OF THE GROUND STATE AND THE LOW TEMPERATURE K STATE OF REMARK 3 BACTERIORHODOPSIN WHERE COMBINED WITH THE STRUCTURE FACTORS OF REMARK 3 GROUND STATE DATA (R1QHJSF) CONSIDERING 35% OF EXCITED STATE REMARK 3 AND 65% OF GROUND STATE. THREE DATA SETS FROM ILLUMINATED REMARK 3 CRYSTALS WERE COLLECTED. FROM THE 3 EXPERIMENTAL DIFFERENCE REMARK 3 MAPS, FEXC-FGROUND (DATA IN R1QHJSF), 9 RESIDUES SHOWED REMARK 3 SIGNIFICANT CHANGES IN THE EXCITED STATE. THESE 9 RESIDUES REMARK 3 WERE REFINED AGAINST EXTRAPOLATED STRUCTURE F.
REMARK 4 REMARK 4 1QKO COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-JUL-99. REMARK 100 THE PDBE ID CODE IS EBI-2993.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-99 REMARK 200 TEMPERATURE (KELVIN) : 110.0 REMARK 200 PH : 5.60 REMARK 200 NUMBER OF CRYSTALS USED : 3 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.936 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : CCP4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13653 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 38.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.37000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS 0.5 REMARK 200 STARTING MODEL: 1QHJ REMARK 200 REMARK 200 REMARK: THE CRYSTAL FORM WAS THE SAME AS FOR 1QHJ, THEREFORE REMARK 200 1QHJ WAS DIRECTLY USED FOR THE INITIAL PHASING
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.0 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN FROM THE PURPLE REMARK 280 MEMBRANE WAS DELIPIDATED AND SOLUBILIZED IN OCTYL REMARK 280 GLUCOSIDE. PROTEIN WAS CRYSTALLIZED FROM 60 - 70% (W/W) REMARK 280 MONOOLEIN, 0.7 - 4.0 M NA/K - PHOSPHATE IN A PHOSPHATE REMARK 280 BUFFER AT PH 5.6, AT 20C AND IN THE DARK. THE MIXTURE WAS REMARK 280 CENTRIFUGED AT 10000G FOR 150 MN PRIOR TO CRYSTALLISATION.
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 55.28500 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 55.28500 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 55.28500 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 350 REMARK 350 GENERATING THE BIOMOLECULE 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: TRIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 4420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.2 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 -30.53000 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 52.87951 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 -0.866025 0.000000 30.53000 REMARK 350 BIOMT2 3 0.866025 -0.500000 0.000000 52.87951 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 GLN A 1 REMARK 465 ALA A 2 REMARK 465 GLN A 3 REMARK 465 ILE A 4 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 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 MET A 163 CG SD CE REMARK 470 ARG A 227 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 232 O CG CD OE1 OE2 REMARK 470 RET A 300 O1
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 TYR A 57 CE2 TYR A 57 CZ 0.104 REMARK 500 TRP A 86 CG TRP A 86 CD1 0.106 REMARK 500 ALA A 215 CA ALA A 215 CB 0.134 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 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 -73.64 -149.12 REMARK 500 PHE A 156 -57.33 -120.20 REMARK 500 SER A 162 19.60 -66.32 REMARK 500 MET A 163 -163.23 -127.32 REMARK 500 LYS A 216 -65.28 -91.45 REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE):
REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: DSSP
REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP
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 300
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QKP RELATED DB: PDB REMARK 900 HIGH RESOLUTION X-RAY STRUCTURE OF AN EARLY INTERMEDIATE IN REMARK 900 THE BACTERIORHODOPSIN PHOTOCYCLE REMARK 900 RELATED ID: 1QHJ RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF BACTERIORHODOPSIN GROWN IN REMARK 900 LIPIDIC CUBIC PHASES REMARK 900 RELATED ID: 1BRD RELATED DB: PDB REMARK 900 BACTERIORHODOPSIN REMARK 900 RELATED ID: 2BRD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BACTERIORHODOPSIN IN PURPLE MEMBRANE REMARK 900 RELATED ID: 1BRR RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF THE BACTERIORHODOPSIN TRIMER/LIPID COMPLEX REMARK 900 RELATED ID: 1BRX RELATED DB: PDB REMARK 900 BACTERIORHODOPSIN/LIPID COMPLEX REMARK 900 RELATED ID: 1BAC RELATED DB: PDB REMARK 900 RHODOPSIN (7-HELIX BUNDLE) COMPLEX WITH ALL-TRANS RETINAL REMARK 900 RELATED ID: 1BAD RELATED DB: PDB REMARK 900 BACTERIORHODOPSIN (7-HELIX BUNDLE) WITH 13-CIS RETINAL REMARK 900 RELATED ID: 1BHA RELATED DB: PDB REMARK 900 BACTERIORHODOPSIN (PROTEOLYTIC FRAGMENT 1 - 71, SOLUBILIZED REMARK 900 IN SDS MICELLES) REMARK 900 RELATED ID: 1BHB RELATED DB: PDB REMARK 900 BACTERIORHODOPSIN (PROTEOLYTIC FRAGMENT 1 - 71, SOLUBILIZED REMARK 900 IN METHANOL-CHLOROFORM) REMARK 900 RELATED ID: 1BCT RELATED DB: PDB REMARK 900 BACTERIORHODOPSIN (FRAGMENT 163-231) REMARK 900 RELATED ID: 1AP9 RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF BACTERIORHODOPSIN FROM MICROCRYSTALS REMARK 900 GROWN IN LIPIDIC CUBIC PHASES REMARK 900 RELATED ID: 1AT9 RELATED DB: PDB REMARK 900 STRUCTURE OF BACTERIORHODOPSIN AT 3.0 ANGSTROM DETERMINED REMARK 900 BY ELECTRON CRYSTALLOGRAPHY
DBREF 1QKO A 1 248 UNP P02945 BACR_HALHA 14 261
SEQRES 1 A 248 GLN ALA GLN ILE THR GLY ARG PRO GLU TRP ILE TRP LEU SEQRES 2 A 248 ALA LEU GLY THR ALA LEU MET GLY LEU GLY THR LEU TYR SEQRES 3 A 248 PHE LEU VAL LYS GLY MET GLY VAL SER ASP PRO ASP ALA SEQRES 4 A 248 LYS LYS PHE TYR ALA ILE THR THR LEU VAL PRO ALA ILE SEQRES 5 A 248 ALA PHE THR MET TYR LEU SER MET LEU LEU GLY TYR GLY SEQRES 6 A 248 LEU THR MET VAL PRO PHE GLY GLY GLU GLN ASN PRO ILE SEQRES 7 A 248 TYR TRP ALA ARG TYR ALA ASP TRP LEU PHE THR THR PRO SEQRES 8 A 248 LEU LEU LEU LEU ASP LEU ALA LEU LEU VAL ASP ALA ASP SEQRES 9 A 248 GLN GLY THR ILE LEU ALA LEU VAL GLY ALA ASP GLY ILE SEQRES 10 A 248 MET ILE GLY THR GLY LEU VAL GLY ALA LEU THR LYS VAL SEQRES 11 A 248 TYR SER TYR ARG PHE VAL TRP TRP ALA ILE SER THR ALA SEQRES 12 A 248 ALA MET LEU TYR ILE LEU TYR VAL LEU PHE PHE GLY PHE SEQRES 13 A 248 THR SER LYS ALA GLU SER MET ARG PRO GLU VAL ALA SER SEQRES 14 A 248 THR PHE LYS VAL LEU ARG ASN VAL THR VAL VAL LEU TRP SEQRES 15 A 248 SER ALA TYR PRO VAL VAL TRP LEU ILE GLY SER GLU GLY SEQRES 16 A 248 ALA GLY ILE VAL PRO LEU ASN ILE GLU THR LEU LEU PHE SEQRES 17 A 248 MET VAL LEU ASP VAL SER ALA LYS VAL GLY PHE GLY LEU SEQRES 18 A 248 ILE LEU LEU ARG SER ARG ALA ILE PHE GLY GLU ALA GLU SEQRES 19 A 248 ALA PRO GLU PRO SER ALA GLY ASP GLY ALA ALA ALA THR SEQRES 20 A 248 SER
HET RET A 300 20
HETNAM RET RETINAL
FORMUL 2 RET C20 H28 O FORMUL 3 HOH *25(H2 O1)
HELIX 1 A GLY A 6 MET A 32 1 27 HELIX 2 B PRO A 37 LEU A 58 1 22 HELIX 3 C TRP A 80 LEU A 100 1 21 HELIX 4 D GLN A 105 LEU A 127 1 23 HELIX 5 E TYR A 131 ALA A 160 1 30 HELIX 6 F PRO A 165 ILE A 191 1 27 HELIX 7 G LEU A 201 LEU A 224 1 24
SHEET 1 A 2 LEU A 66 PHE A 71 0 SHEET 2 A 2 GLU A 74 TYR A 79 -1 O GLU A 74 N PHE A 71
LINK NZ LYS A 216 C15 RET A 300 1555 1555 1.38
SITE 1 AC1 11 TRP A 86 THR A 89 THR A 90 MET A 118 SITE 2 AC1 11 TRP A 138 SER A 141 THR A 142 TRP A 182 SITE 3 AC1 11 TYR A 185 ASP A 212 LYS A 216
CRYST1 61.060 61.060 110.570 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 0.016377 0.009455 0.000000 0.00000
SCALE2 0.000000 0.018911 0.000000 0.00000
SCALE3 0.000000 0.000000 0.009044 0.00000