HEADER PROTON TRANSPORT 06-APR-16 5J7A TITLE BACTERIORHODOPSIN GROUND STATE STRUCTURE OBTAINED WITH SERIAL TITLE 2 FEMTOSECOND CRYSTALLOGRAPHY COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACTERIORHODOPSIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BR,BACTERIOOPSIN,BO; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HALOBACTERIUM SALINARUM (STRAIN ATCC 700922 / SOURCE 3 JCM 11081 / NRC-1); SOURCE 4 ORGANISM_TAXID: 64091; SOURCE 5 STRAIN: ATCC 700922 / JCM 11081 / NRC-1; SOURCE 6 TISSUE: PURPLE MEMBRANE; SOURCE 7 GENE: BOP, VNG_1467G; SOURCE 8 EXPRESSION_SYSTEM: HALOBACTERIUM SALINARUM; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 2242 KEYWDS LIGHT-DRIVEN PROTON PUMP, RETINAL BINDING, SEVEN TRANSMEMBRANE HELIX KEYWDS 2 PROTEIN, PROTON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR P.NOGLY,V.PANNEELS,G.NELSON,C.GATI,T.KIMURA,C.MILNE,D.MILATHIANAKI, AUTHOR 2 M.KUBO,W.WU,C.CONRAD,J.COE,R.BEAN,Y.ZHAO,P.BATH,R.DODS, AUTHOR 3 R.HARIMOORTHY,K.R.BEYERLEIN,J.RHEINBERGER,D.JAMES,D.DEPONTE,C.LI, AUTHOR 4 L.SALA,G.WILLIAMS,M.HUNTER,J.E.KOGLIN,P.BERNTSEN,E.NANGO,S.IWATA, AUTHOR 5 H.N.CHAPMAN,P.FROMME,M.FRANK,R.ABELA,S.BOUTET,A.BARTY,T.A.WHITE, AUTHOR 6 U.WEIERSTALL,J.SPENCE,R.NEUTZE,G.SCHERTLER,J.STANDFUSS REVDAT 5 13-NOV-24 5J7A 1 REMARK REVDAT 4 10-JAN-24 5J7A 1 REMARK REVDAT 3 14-NOV-18 5J7A 1 REMARK REVDAT 2 24-JAN-18 5J7A 1 REMARK REVDAT 1 31-AUG-16 5J7A 0 JRNL AUTH P.NOGLY,V.PANNEELS,G.NELSON,C.GATI,T.KIMURA,C.MILNE, JRNL AUTH 2 D.MILATHIANAKI,M.KUBO,W.WU,C.CONRAD,J.COE,R.BEAN,Y.ZHAO, JRNL AUTH 3 P.BATH,R.DODS,R.HARIMOORTHY,K.R.BEYERLEIN,J.RHEINBERGER, JRNL AUTH 4 D.JAMES,D.DEPONTE,C.LI,L.SALA,G.J.WILLIAMS,M.S.HUNTER, JRNL AUTH 5 J.E.KOGLIN,P.BERNTSEN,E.NANGO,S.IWATA,H.N.CHAPMAN,P.FROMME, JRNL AUTH 6 M.FRANK,R.ABELA,S.BOUTET,A.BARTY,T.A.WHITE,U.WEIERSTALL, JRNL AUTH 7 J.SPENCE,R.NEUTZE,G.SCHERTLER,J.STANDFUSS JRNL TITL LIPIDIC CUBIC PHASE INJECTOR IS A VIABLE CRYSTAL DELIVERY JRNL TITL 2 SYSTEM FOR TIME-RESOLVED SERIAL CRYSTALLOGRAPHY. JRNL REF NAT COMMUN V. 7 12314 2016 JRNL REFN ESSN 2041-1723 JRNL PMID 27545823 JRNL DOI 10.1038/NCOMMS12314 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.NOGLY,D.JAMES,D.WANG,T.A.WHITE,N.ZATSEPIN,A.SHILOVA, REMARK 1 AUTH 2 G.NELSON,H.LIU,L.JOHANSSON,M.HEYMANN,K.JAEGER,M.METZ, REMARK 1 AUTH 3 C.WICKSTRAND,W.WU,P.BATH,P.BERNTSEN,D.OBERTHUER,V.PANNEELS, REMARK 1 AUTH 4 V.CHEREZOV,H.CHAPMAN,G.SCHERTLER,R.NEUTZE,J.SPENCE,I.MORAES, REMARK 1 AUTH 5 M.BURGHAMMER,J.STANDFUSS,U.WEIERSTALL REMARK 1 TITL LIPIDIC CUBIC PHASE SERIAL MILLISECOND CRYSTALLOGRAPHY USING REMARK 1 TITL 2 SYNCHROTRON RADIATION. REMARK 1 REF IUCRJ V. 2 168 2015 REMARK 1 REFN ESSN 2052-2525 REMARK 1 PMID 25866654 REMARK 1 DOI 10.1107/S2052252514026487 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.66 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 10010 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.100 REMARK 3 FREE R VALUE TEST SET COUNT : 650 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 709 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 46 REMARK 3 BIN FREE R VALUE : 0.2800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1715 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 77 REMARK 3 SOLVENT ATOMS : 17 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.45000 REMARK 3 B22 (A**2) : 1.45000 REMARK 3 B33 (A**2) : -4.69000 REMARK 3 B12 (A**2) : 0.72000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.363 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.218 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.160 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.346 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.946 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1834 ; 0.008 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 1855 ; 0.001 ; 0.021 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2487 ; 1.165 ; 1.996 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4231 ; 0.890 ; 2.986 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 222 ; 4.452 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 55 ;34.630 ;22.182 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 268 ;13.320 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;16.008 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 292 ; 0.059 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1947 ; 0.006 ; 0.022 REMARK 3 GENERAL PLANES OTHERS (A): 406 ; 0.002 ; 0.022 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 894 ; 0.370 ; 1.724 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 893 ; 0.370 ; 1.723 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1114 ; 0.694 ; 2.578 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 5 A 301 REMARK 3 ORIGIN FOR THE GROUP (A): 16.8190 39.3210 34.9340 REMARK 3 T TENSOR REMARK 3 T11: 0.0180 T22: 0.0229 REMARK 3 T33: 0.5363 T12: -0.0018 REMARK 3 T13: -0.0354 T23: -0.0059 REMARK 3 L TENSOR REMARK 3 L11: 1.4776 L22: 2.4409 REMARK 3 L33: 0.9092 L12: -0.3488 REMARK 3 L13: -0.2806 L23: -0.0007 REMARK 3 S TENSOR REMARK 3 S11: -0.0253 S12: -0.1030 S13: 0.0395 REMARK 3 S21: 0.2012 S22: 0.0122 S23: -0.1565 REMARK 3 S31: -0.0217 S32: 0.1353 S33: 0.0131 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 5J7A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-APR-16. REMARK 100 THE DEPOSITION ID IS D_1000218324. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-14 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : FREE ELECTRON LASER REMARK 200 BEAMLINE : CXI REMARK 200 X-RAY GENERATOR MODEL : SLAC LCLS BEAMLINE CXI REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.83 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : CS-PAD CXI-2 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTFEL 0.6.1 REMARK 200 DATA SCALING SOFTWARE : CRYSTFEL 0.6.1 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11027 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 21.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 163.0 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.5600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.41 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 16.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.580 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.6 REMARK 200 STARTING MODEL: 1H68 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PRECIPITANT: 29%-38% PEG 2000, 100 MM REMARK 280 PHOSPHATE BUFFER PH 5.6. MAG 9.9 USED FOR LCP FORMATION. REMARK 280 CRYSTALLIZATION SETUP IN HAMILTON SYRINGE WITH TUBE OF LCP REMARK 280 SURROUNDED BY PRECIPITANT., LIPIDIC CUBIC PHASE, TEMPERATURE 293K 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 55.00000 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 55.00000 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 55.00000 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 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: 13770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -150.0 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 31.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 53.69358 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -31.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 53.69358 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 GLY A 155 REMARK 465 PHE A 156 REMARK 465 THR A 157 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 LYS A 30 CG CD CE NZ REMARK 470 GLU A 74 CG CD OE1 OE2 REMARK 470 SER A 158 OG REMARK 470 LYS A 172 CG CD CE NZ REMARK 470 ARG A 227 CG CD NE CZ NH1 NH2 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 MET A 163 -145.10 -110.73 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 302 REMARK 610 LI1 A 303 REMARK 610 LI1 A 304 REMARK 610 LI1 A 305 REMARK 610 LI1 A 306 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 LI1 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LI1 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LI1 A 305 DBREF 5J7A A 5 231 UNP P02945 BACR_HALSA 18 244 SEQRES 1 A 227 THR GLY ARG PRO GLU TRP ILE TRP LEU ALA LEU GLY THR SEQRES 2 A 227 ALA LEU MET GLY LEU GLY THR LEU TYR PHE LEU VAL LYS SEQRES 3 A 227 GLY MET GLY VAL SER ASP PRO ASP ALA LYS LYS PHE TYR SEQRES 4 A 227 ALA ILE THR THR LEU VAL PRO ALA ILE ALA PHE THR MET SEQRES 5 A 227 TYR LEU SER MET LEU LEU GLY TYR GLY LEU THR MET VAL SEQRES 6 A 227 PRO PHE GLY GLY GLU GLN ASN PRO ILE TYR TRP ALA ARG SEQRES 7 A 227 TYR ALA ASP TRP LEU PHE THR THR PRO LEU LEU LEU LEU SEQRES 8 A 227 ASP LEU ALA LEU LEU VAL ASP ALA ASP GLN GLY THR ILE SEQRES 9 A 227 LEU ALA LEU VAL GLY ALA ASP GLY ILE MET ILE GLY THR SEQRES 10 A 227 GLY LEU VAL GLY ALA LEU THR LYS VAL TYR SER TYR ARG SEQRES 11 A 227 PHE VAL TRP TRP ALA ILE SER THR ALA ALA MET LEU TYR SEQRES 12 A 227 ILE LEU TYR VAL LEU PHE PHE GLY PHE THR SER LYS ALA SEQRES 13 A 227 GLU SER MET ARG PRO GLU VAL ALA SER THR PHE LYS VAL SEQRES 14 A 227 LEU ARG ASN VAL THR VAL VAL LEU TRP SER ALA TYR PRO SEQRES 15 A 227 VAL VAL TRP LEU ILE GLY SER GLU GLY ALA GLY ILE VAL SEQRES 16 A 227 PRO LEU ASN ILE GLU THR LEU LEU PHE MET VAL LEU ASP SEQRES 17 A 227 VAL SER ALA LYS VAL GLY PHE GLY LEU ILE LEU LEU ARG SEQRES 18 A 227 SER ARG ALA ILE PHE GLY HET RET A 301 20 HET LI1 A 302 6 HET LI1 A 303 19 HET LI1 A 304 11 HET LI1 A 305 15 HET LI1 A 306 6 HETNAM RET RETINAL 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 LI1 5(C42 H86 O3) FORMUL 8 HOH *17(H2 O) HELIX 1 AA1 GLU A 9 GLY A 31 1 23 HELIX 2 AA2 ASP A 36 LEU A 62 1 27 HELIX 3 AA3 TRP A 80 VAL A 101 1 22 HELIX 4 AA4 ASP A 104 THR A 128 1 25 HELIX 5 AA5 VAL A 130 PHE A 154 1 25 HELIX 6 AA6 LYS A 159 MET A 163 5 5 HELIX 7 AA7 ARG A 164 GLY A 192 1 29 HELIX 8 AA8 PRO A 200 SER A 226 1 27 SHEET 1 AA1 2 THR A 67 PHE A 71 0 SHEET 2 AA1 2 GLU A 74 ILE A 78 -1 O ILE A 78 N THR A 67 LINK NZ LYS A 216 C15 RET A 301 1555 1555 1.30 SITE 1 AC1 10 TRP A 86 THR A 90 TRP A 138 SER A 141 SITE 2 AC1 10 THR A 142 TRP A 182 TYR A 185 TRP A 189 SITE 3 AC1 10 ASP A 212 LYS A 216 SITE 1 AC2 5 THR A 24 LEU A 28 LYS A 40 TYR A 147 SITE 2 AC2 5 LI1 A 305 SITE 1 AC3 1 TYR A 64 SITE 1 AC4 2 LEU A 58 LI1 A 303 CRYST1 62.000 62.000 110.000 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 0.016129 0.009312 0.000000 0.00000 SCALE2 0.000000 0.018624 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009091 0.00000