HEADER TRANSPORT PROTEIN 05-JUN-08 3DDL TITLE CRYSTALLOGRAPHIC STRUCTURE OF XANTHORHODOPSIN, A LIGHT-DRIVEN ION PUMP TITLE 2 WITH DUAL CHROMOPHORE COMPND MOL_ID: 1; COMPND 2 MOLECULE: XANTHORHODOPSIN; COMPND 3 CHAIN: A, B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SALINIBACTER RUBER; SOURCE 3 ORGANISM_TAXID: 146919 KEYWDS RHODOPSIN, CAROTENOID, ION PUMP, LIGHT-HARVESTING, ANTENNA, RETINAL, KEYWDS 2 TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.STAGNO,H.LUECKE,B.SCHOBERT,J.K.LANYI,E.S.IMASHEVA,J.M.WANG, AUTHOR 2 S.P.BALASHOV REVDAT 4 30-OCT-24 3DDL 1 LINK REVDAT 3 08-JUN-16 3DDL 1 HETATM VERSN REVDAT 2 13-JAN-09 3DDL 1 ATOM VERSN JRNL REVDAT 1 14-OCT-08 3DDL 0 JRNL AUTH H.LUECKE,B.SCHOBERT,J.STAGNO,E.S.IMASHEVA,J.M.WANG, JRNL AUTH 2 S.P.BALASHOV,J.K.LANYI JRNL TITL CRYSTALLOGRAPHIC STRUCTURE OF XANTHORHODOPSIN, THE JRNL TITL 2 LIGHT-DRIVEN PROTON PUMP WITH A DUAL CHROMOPHORE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 16561 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 18922772 JRNL DOI 10.1073/PNAS.0807162105 REMARK 2 REMARK 2 RESOLUTION. 1.90 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.10 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) (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 46278 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.247 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 2333 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 : 3925 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 430 REMARK 3 SOLVENT ATOMS : 62 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 16.93300 REMARK 3 B22 (A**2) : -0.76600 REMARK 3 B33 (A**2) : -16.16700 REMARK 3 B12 (A**2) : 3.30200 REMARK 3 B13 (A**2) : -16.01300 REMARK 3 B23 (A**2) : -6.76500 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) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 1.349 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) : 1.413 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.257 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.973 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.859 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 97.15 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 : DMP.PAR REMARK 3 PARAMETER FILE 3 : WATER.PARAM REMARK 3 PARAMETER FILE 4 : LIP.PAR REMARK 3 PARAMETER FILE 5 : SXN.PAR REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DMP.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : LIP.TOP REMARK 3 TOPOLOGY FILE 5 : SXN.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3DDL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000047905. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-DEC-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK 9.7L REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46289 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 45.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.53 REMARK 200 R MERGE FOR SHELL (I) : 0.48500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5MG/ML XANTHORHODOPSIN IN 30MM REMARK 280 PHOSPHATE PH 5.6, 1MM NA AZIDE WAS SOLUBILIZED IN 1/3 VOLUME OF REMARK 280 16.7% DIMYRISTOYL PHOSHATIDYLCHOLINE IN 20% NONYL MALTOSIDE. REMARK 280 CRYSTALS GREW IN 2.5-3M NA PHOSPHATE, PH 5.6, 2.5 MM NA AZIDE REMARK 280 AFTER 3-4 MONTHS, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 1 REMARK 465 LEU A 2 REMARK 465 GLN A 3 REMARK 465 ALA A 212 REMARK 465 PHE A 213 REMARK 465 PRO A 214 REMARK 465 GLU A 215 REMARK 465 ALA A 216 REMARK 465 PHE A 217 REMARK 465 VAL A 262 REMARK 465 SER A 263 REMARK 465 GLU A 264 REMARK 465 MET A 265 REMARK 465 VAL A 266 REMARK 465 GLU A 267 REMARK 465 PRO A 268 REMARK 465 ALA A 269 REMARK 465 THR A 270 REMARK 465 ALA A 271 REMARK 465 SER A 272 REMARK 465 ALA A 273 REMARK 465 MET B 1 REMARK 465 LEU B 2 REMARK 465 GLN B 3 REMARK 465 GLU B 4 REMARK 465 PHE B 213 REMARK 465 PRO B 214 REMARK 465 GLU B 215 REMARK 465 ALA B 216 REMARK 465 PHE B 217 REMARK 465 PRO B 218 REMARK 465 SER B 219 REMARK 465 VAL B 262 REMARK 465 SER B 263 REMARK 465 GLU B 264 REMARK 465 MET B 265 REMARK 465 VAL B 266 REMARK 465 GLU B 267 REMARK 465 PRO B 268 REMARK 465 ALA B 269 REMARK 465 THR B 270 REMARK 465 ALA B 271 REMARK 465 SER B 272 REMARK 465 ALA B 273 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 ALA A 146 41.71 -93.81 REMARK 500 SER A 219 -59.38 -16.43 REMARK 500 ASN A 220 50.45 -141.61 REMARK 500 GLU A 258 38.72 -81.76 REMARK 500 GLU B 258 37.69 -86.65 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 243 0.08 SIDE CHAIN REMARK 500 TYR B 243 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 THE HETERO GROUPS UNL 402-409 CHAIN A AND UNL 402-414 CHAIN B ARE REMARK 600 CARBON CHAINS THAT REPRESENT FATTY ACID CHAINS OF PHOSPHOLIPIDS REMARK 600 INTERACTING WITH THE PROTEIN. AS THE ELECTRON DENSITY WAS NOT CLEAR REMARK 600 ENOUGH TO SUPPORT THE ENTIRE PHOSPHOLIPID IN EACH CASE, THE ACTUAL REMARK 600 IDENTITY OF EACH UNL HETERO GROUP IS UNKNOWN. ELECTRON DENSITY WAS REMARK 600 NOT CLEAR ENOUGH TO DETERMINE WHETHER THE FATTY ACID CHAIN IS REMARK 600 UNSATURATED. THEREFORE, ALL C-C BONDS FOR PCW HETERO GROUP WERE REMARK 600 REFINED AS SINGLE BONDS. 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 PX4 B 1415 REMARK 610 PCW B 1416 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SXN A1401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A1402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A1403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A1404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A1405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A1406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A1407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A1408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A1409 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RET A1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SXN B1401 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1402 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1403 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1404 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1405 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1406 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1408 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1409 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1410 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1411 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1412 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL B1413 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RET B1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PX4 B1415 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PCW B1416 DBREF 3DDL A 1 273 UNP Q2S2F8 Q2S2F8_SALRD 1 273 DBREF 3DDL B 1 273 UNP Q2S2F8 Q2S2F8_SALRD 1 273 SEQRES 1 A 273 MET LEU GLN GLU LEU PRO THR LEU THR PRO GLY GLN TYR SEQRES 2 A 273 SER LEU VAL PHE ASN MET PHE SER PHE THR VAL ALA THR SEQRES 3 A 273 MET THR ALA SER PHE VAL PHE PHE VAL LEU ALA ARG ASN SEQRES 4 A 273 ASN VAL ALA PRO LYS TYR ARG ILE SER MET MET VAL SER SEQRES 5 A 273 ALA LEU VAL VAL PHE ILE ALA GLY TYR HIS TYR PHE ARG SEQRES 6 A 273 ILE THR SER SER TRP GLU ALA ALA TYR ALA LEU GLN ASN SEQRES 7 A 273 GLY MET TYR GLN PRO THR GLY GLU LEU PHE ASN ASP ALA SEQRES 8 A 273 TYR ARG TYR VAL ASP TRP LEU LEU THR VAL PRO LEU LEU SEQRES 9 A 273 THR VAL GLU LEU VAL LEU VAL MET GLY LEU PRO LYS ASN SEQRES 10 A 273 GLU ARG GLY PRO LEU ALA ALA LYS LEU GLY PHE LEU ALA SEQRES 11 A 273 ALA LEU MET ILE VAL LEU GLY TYR PRO GLY GLU VAL SER SEQRES 12 A 273 GLU ASN ALA ALA LEU PHE GLY THR ARG GLY LEU TRP GLY SEQRES 13 A 273 PHE LEU SER THR ILE PRO PHE VAL TRP ILE LEU TYR ILE SEQRES 14 A 273 LEU PHE THR GLN LEU GLY ASP THR ILE GLN ARG GLN SER SEQRES 15 A 273 SER ARG VAL SER THR LEU LEU GLY ASN ALA ARG LEU LEU SEQRES 16 A 273 LEU LEU ALA THR TRP GLY PHE TYR PRO ILE ALA TYR MET SEQRES 17 A 273 ILE PRO MET ALA PHE PRO GLU ALA PHE PRO SER ASN THR SEQRES 18 A 273 PRO GLY THR ILE VAL ALA LEU GLN VAL GLY TYR THR ILE SEQRES 19 A 273 ALA ASP VAL LEU ALA LYS ALA GLY TYR GLY VAL LEU ILE SEQRES 20 A 273 TYR ASN ILE ALA LYS ALA LYS SER GLU GLU GLU GLY PHE SEQRES 21 A 273 ASN VAL SER GLU MET VAL GLU PRO ALA THR ALA SER ALA SEQRES 1 B 273 MET LEU GLN GLU LEU PRO THR LEU THR PRO GLY GLN TYR SEQRES 2 B 273 SER LEU VAL PHE ASN MET PHE SER PHE THR VAL ALA THR SEQRES 3 B 273 MET THR ALA SER PHE VAL PHE PHE VAL LEU ALA ARG ASN SEQRES 4 B 273 ASN VAL ALA PRO LYS TYR ARG ILE SER MET MET VAL SER SEQRES 5 B 273 ALA LEU VAL VAL PHE ILE ALA GLY TYR HIS TYR PHE ARG SEQRES 6 B 273 ILE THR SER SER TRP GLU ALA ALA TYR ALA LEU GLN ASN SEQRES 7 B 273 GLY MET TYR GLN PRO THR GLY GLU LEU PHE ASN ASP ALA SEQRES 8 B 273 TYR ARG TYR VAL ASP TRP LEU LEU THR VAL PRO LEU LEU SEQRES 9 B 273 THR VAL GLU LEU VAL LEU VAL MET GLY LEU PRO LYS ASN SEQRES 10 B 273 GLU ARG GLY PRO LEU ALA ALA LYS LEU GLY PHE LEU ALA SEQRES 11 B 273 ALA LEU MET ILE VAL LEU GLY TYR PRO GLY GLU VAL SER SEQRES 12 B 273 GLU ASN ALA ALA LEU PHE GLY THR ARG GLY LEU TRP GLY SEQRES 13 B 273 PHE LEU SER THR ILE PRO PHE VAL TRP ILE LEU TYR ILE SEQRES 14 B 273 LEU PHE THR GLN LEU GLY ASP THR ILE GLN ARG GLN SER SEQRES 15 B 273 SER ARG VAL SER THR LEU LEU GLY ASN ALA ARG LEU LEU SEQRES 16 B 273 LEU LEU ALA THR TRP GLY PHE TYR PRO ILE ALA TYR MET SEQRES 17 B 273 ILE PRO MET ALA PHE PRO GLU ALA PHE PRO SER ASN THR SEQRES 18 B 273 PRO GLY THR ILE VAL ALA LEU GLN VAL GLY TYR THR ILE SEQRES 19 B 273 ALA ASP VAL LEU ALA LYS ALA GLY TYR GLY VAL LEU ILE SEQRES 20 B 273 TYR ASN ILE ALA LYS ALA LYS SER GLU GLU GLU GLY PHE SEQRES 21 B 273 ASN VAL SER GLU MET VAL GLU PRO ALA THR ALA SER ALA HET SXN A1401 70 HET UNL A1402 7 HET UNL A1403 7 HET UNL A1404 9 HET UNL A1405 7 HET UNL A1406 12 HET UNL A1407 7 HET UNL A1408 7 HET UNL A1409 6 HET RET A1301 20 HET SXN B1401 70 HET UNL B1402 10 HET UNL B1403 16 HET UNL B1404 7 HET UNL B1405 7 HET UNL B1406 12 HET UNL B1407 8 HET UNL B1408 7 HET UNL B1409 7 HET UNL B1410 8 HET UNL B1411 6 HET UNL B1412 11 HET UNL B1413 7 HET UNL B1414 8 HET RET B1301 20 HET PX4 B1415 34 HET PCW B1416 40 HETNAM SXN SALINIXANTHIN HETNAM UNL UNKNOWN LIGAND HETNAM RET RETINAL HETNAM PX4 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE HETNAM PCW 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE HETSYN SXN (3'E)-2'-HYDROXY-4-OXO-3',4'-DIDEHYDRO-1',2'-DIHYDRO- HETSYN 2 SXN BETA,PSI-CAROTEN-1'-YL 6-O-(13-METHYLTETRADECANOYL)- HETSYN 3 SXN ALPHA-L-IDOPYRANOSIDE HETSYN PCW (Z,Z)-4-HYDROXY-N,N,N-TRIMETHYL-10-OXO-7-[(1-OXO-9- HETSYN 2 PCW OCTADECENYL)OXY]-3,5,9-TRIOXA-4-PHOSPHAHEPTACOS-18-EN- HETSYN 3 PCW 1-AMINIUM-4-OXIDE FORMUL 3 SXN 2(C61 H92 O9) FORMUL 12 RET 2(C20 H28 O) FORMUL 28 PX4 C36 H73 N O8 P 1+ FORMUL 29 PCW C44 H85 N O8 P 1+ FORMUL 30 HOH *62(H2 O) HELIX 1 1 THR A 9 ALA A 37 1 29 HELIX 2 2 ARG A 38 VAL A 41 5 4 HELIX 3 3 ALA A 42 LYS A 44 5 3 HELIX 4 4 TYR A 45 ALA A 73 1 29 HELIX 5 5 ASP A 90 MET A 112 1 23 HELIX 6 6 PRO A 115 VAL A 142 1 28 HELIX 7 7 GLY A 150 GLN A 173 1 24 HELIX 8 8 LEU A 174 GLN A 179 1 6 HELIX 9 9 SER A 182 ILE A 209 1 28 HELIX 10 10 THR A 221 GLU A 258 1 38 HELIX 11 11 THR B 9 ARG B 38 1 30 HELIX 12 12 ASN B 39 VAL B 41 5 3 HELIX 13 13 ALA B 42 LYS B 44 5 3 HELIX 14 14 TYR B 45 ALA B 73 1 29 HELIX 15 15 ASP B 90 MET B 112 1 23 HELIX 16 16 PRO B 115 VAL B 142 1 28 HELIX 17 17 GLY B 150 THR B 172 1 23 HELIX 18 18 LEU B 174 ARG B 180 1 7 HELIX 19 19 SER B 182 ILE B 209 1 28 HELIX 20 20 THR B 221 GLU B 258 1 38 SHEET 1 A 2 TYR A 74 LEU A 76 0 SHEET 2 A 2 TYR A 81 PRO A 83 -1 O GLN A 82 N ALA A 75 SHEET 1 B 2 TYR B 74 LEU B 76 0 SHEET 2 B 2 TYR B 81 PRO B 83 -1 O GLN B 82 N ALA B 75 LINK NZ LYS A 240 C15 RET A1301 1555 1555 1.47 LINK NZ LYS B 240 C15 RET B1301 1555 1555 1.45 SITE 1 AC1 11 LEU A 148 GLY A 156 THR A 160 ARG A 184 SITE 2 AC1 11 ASN A 191 LEU A 194 ALA A 198 TYR A 207 SITE 3 AC1 11 MET A 208 MET A 211 UNL A1408 SITE 1 AC2 2 MET A 19 ILE A 234 SITE 1 AC3 1 PRO A 139 SITE 1 AC4 2 LEU A 36 LEU B 154 SITE 1 AC5 3 SER A 21 PHE A 22 UNL B1403 SITE 1 AC6 1 PHE A 202 SITE 1 AC7 2 TYR A 168 PHE A 171 SITE 1 AC8 3 GLY A 242 ASN A 249 SXN A1401 SITE 1 AC9 2 VAL A 164 TYR A 168 SITE 1 BC1 10 TRP A 97 VAL A 101 MET A 133 SER A 159 SITE 2 BC1 10 PHE A 163 TRP A 200 TYR A 203 ASP A 236 SITE 3 BC1 10 ALA A 239 LYS A 240 SITE 1 BC2 10 LEU B 148 GLY B 156 THR B 160 ARG B 184 SITE 2 BC2 10 ASN B 191 LEU B 194 ALA B 198 TYR B 207 SITE 3 BC2 10 MET B 211 PCW B1416 SITE 1 BC3 3 GLY A 11 PRO B 102 PHE B 128 SITE 1 BC4 3 UNL A1405 LYS B 125 TRP B 165 SITE 1 BC5 2 THR B 28 GLY B 60 SITE 1 BC6 3 LEU B 148 GLY B 153 LEU B 154 SITE 1 BC7 1 PHE B 202 SITE 1 BC8 1 LEU B 197 SITE 1 BC9 3 LEU A 136 VAL B 32 UNL B1412 SITE 1 CC1 2 VAL B 164 TRP B 165 SITE 1 CC2 1 PX4 B1415 SITE 1 CC3 4 VAL B 24 THR B 67 GLU B 71 UNL B1409 SITE 1 CC4 2 MET B 50 PHE B 57 SITE 1 CC5 9 TRP B 97 VAL B 101 MET B 133 SER B 159 SITE 2 CC5 9 TRP B 200 TYR B 203 ASP B 236 ALA B 239 SITE 3 CC5 9 LYS B 240 SITE 1 CC6 8 VAL A 106 GLY A 120 ALA A 123 PHE A 128 SITE 2 CC6 8 THR B 9 GLY B 11 UNL B1411 PCW B1416 SITE 1 CC7 4 GLY B 242 LEU B 246 SXN B1401 PX4 B1415 CRYST1 52.740 59.490 59.720 76.35 74.93 64.08 P 1 2 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 0.018961 -0.009215 -0.003846 0.00000 SCALE2 0.000000 0.018690 -0.002659 0.00000 SCALE3 0.000000 0.000000 0.017516 0.00000