HEADER SIGNALING PROTEIN 20-JUL-23 8PWJ TITLE LIGHT STRUCTURE OF SENSORY RHODOPSIN-II SOLVED BY SERIAL MILLISECOND TITLE 2 CRYSTALLOGRAPHY. 30-60 MILLISECONDS TIME-BIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SENSORY RHODOPSIN-2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SENSORY RHODOPSIN II,SR-II; COMPND 5 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; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SRII, SERIAL MILLISECOND CRYSTALLOGRAPHY, SENSORY RHODOPSIN, SENSORY KEYWDS 2 RHODOPSIN II, SMX, SSX, TIME-RESOLVED CRYSTALLOGRAPHY, TRX, KEYWDS 3 SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR R.BOSMAN,G.ORTOLANI,G.BRANDEN,R.NEUTZE REVDAT 2 23-APR-25 8PWJ 1 JRNL REVDAT 1 05-FEB-25 8PWJ 0 JRNL AUTH R.BOSMAN,G.ORTOLANI,S.GHOSH,D.JAMES,P.NORDER,G.HAMMARIN, JRNL AUTH 2 T.B.ULFARSDOTTIR,L.OSTOJIC,T.WEINERT,F.DWORKOWSKI, JRNL AUTH 3 T.TOMIZAKI,J.STANDFUSS,G.BRANDEN,R.NEUTZE JRNL TITL STRUCTURAL BASIS FOR THE PROLONGED PHOTOCYCLE OF SENSORY JRNL TITL 2 RHODOPSIN II REVEALED BY SERIAL SYNCHROTRON CRYSTALLOGRAPHY. JRNL REF NAT COMMUN V. 16 3460 2025 JRNL REFN ESSN 2041-1723 JRNL PMID 40216733 JRNL DOI 10.1038/S41467-025-58263-X REMARK 2 REMARK 2 RESOLUTION. 2.14 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.14 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.88 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 72.8 REMARK 3 NUMBER OF REFLECTIONS : 4429 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.253 REMARK 3 R VALUE (WORKING SET) : 0.249 REMARK 3 FREE R VALUE : 0.314 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.270 REMARK 3 FREE R VALUE TEST SET COUNT : 654 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 44.8800 - 3.6600 1.00 3372 180 0.2167 0.2938 REMARK 3 2 3.6600 - 2.9100 1.00 3244 186 0.2534 0.3171 REMARK 3 3 2.9100 - 2.5400 0.99 3150 186 0.2861 0.3247 REMARK 3 4 2.5400 - 2.3100 0.56 1805 91 0.3496 0.3655 REMARK 3 5 2.3100 - 2.1400 0.06 194 11 0.4846 0.6171 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.402 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 43.431 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.017 3247 REMARK 3 ANGLE : 1.608 4452 REMARK 3 CHIRALITY : 0.080 540 REMARK 3 PLANARITY : 0.014 530 REMARK 3 DIHEDRAL : 16.835 1074 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8PWJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1292131745. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAY-19 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000342 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTFEL REMARK 200 DATA SCALING SOFTWARE : CRYSTFEL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 4429 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.140 REMARK 200 RESOLUTION RANGE LOW (A) : 67.190 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 51.88 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 0.7500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 44.90 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT 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 (%): 56.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CACL2 150 MM, GLYCINE 100 MM, 38% REMARK 280 (V/V) PEG 400, PH 7.5, LIPIDIC CUBIC PHASE, TEMPERATURE 296.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 25.50000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 25.50000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 44.87500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 65.85000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 44.87500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 65.85000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 25.50000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 44.87500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 65.85000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 25.50000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 44.87500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 65.85000 REMARK 290 SMTRY3 8 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 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 TOTAL BURIED SURFACE AREA: 910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 419 LIES ON A SPECIAL POSITION. 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 ARG A 27 REMARK 465 ASP A 28 REMARK 465 ALA A 29 REMARK 465 GLY A 30 REMARK 465 SER A 31 REMARK 465 GLY A 32 REMARK 465 GLU A 33 REMARK 465 ARG A 34 REMARK 465 ALA A 217 REMARK 465 THR A 218 REMARK 465 LEU A 219 REMARK 465 ARG A 220 REMARK 465 ALA A 221 REMARK 465 GLU A 222 REMARK 465 HIS A 223 REMARK 465 GLY A 224 REMARK 465 GLU A 225 REMARK 465 SER A 226 REMARK 465 LEU A 227 REMARK 465 ALA A 228 REMARK 465 GLY A 229 REMARK 465 VAL A 230 REMARK 465 ASP A 231 REMARK 465 THR A 232 REMARK 465 ASP A 233 REMARK 465 ALA A 234 REMARK 465 PRO A 235 REMARK 465 ALA A 236 REMARK 465 VAL A 237 REMARK 465 ALA A 238 REMARK 465 ASP A 239 REMARK 465 GLU A 240 REMARK 465 ASN A 241 REMARK 465 SER A 242 REMARK 465 HIS A 243 REMARK 465 HIS A 244 REMARK 465 HIS A 245 REMARK 465 HIS A 246 REMARK 465 HIS A 247 REMARK 465 HIS A 248 REMARK 465 HIS A 249 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 GLU A 97 CG CD OE1 OE2 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 O ALA A 25 N GLY A 26 1.73 REMARK 500 C ALA A 25 CA GLY A 26 1.78 REMARK 500 REMARK 500 REMARK: NULL 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 ALA A 25 C GLY A 26 N -0.678 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 LEU A 16 CA - CB - CG ANGL. DEV. = -15.4 DEGREES REMARK 500 LEU A 56 CA - CB - CG ANGL. DEV. = -20.4 DEGREES REMARK 500 LEU A 89 CA - CB - CG ANGL. DEV. = 19.8 DEGREES REMARK 500 ILE A 169 CG1 - CB - CG2 ANGL. DEV. = 13.3 DEGREES REMARK 500 LEU A 196 CA - CB - CG ANGL. DEV. = 16.6 DEGREES 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 LEU A 16 -82.19 -43.65 REMARK 500 VAL A 17 -73.00 -24.21 REMARK 500 ALA A 64 -106.96 55.36 REMARK 500 ALA A 64 -109.17 57.81 REMARK 500 TYR A 85 -80.44 -48.54 REMARK 500 PHE A 86 -30.89 -34.55 REMARK 500 LEU A 87 -74.05 -76.75 REMARK 500 LEU A 89 -8.98 -58.97 REMARK 500 SER A 95 -7.62 -59.71 REMARK 500 VAL A 107 -71.58 -58.72 REMARK 500 THR A 146 -75.91 -68.82 REMARK 500 GLU A 147 -67.49 -27.98 REMARK 500 SER A 150 -4.06 -57.90 REMARK 500 ARG A 162 -72.43 -61.15 REMARK 500 LEU A 166 -78.96 -46.62 REMARK 500 THR A 167 -65.77 -17.76 REMARK 500 PRO A 175 -38.00 -37.88 REMARK 500 ALA A 186 20.93 48.22 REMARK 500 LEU A 187 -112.57 -65.00 REMARK 500 LEU A 188 103.50 -21.72 REMARK 500 THR A 189 150.06 -28.41 REMARK 500 LEU A 196 11.82 -67.02 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 ARG A 72 0.12 SIDE CHAIN REMARK 500 ARG A 123 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8PWG RELATED DB: PDB REMARK 900 RELATED ID: 8PWI RELATED DB: PDB REMARK 900 RELATED ID: 7PNC RELATED DB: PDB REMARK 900 RELATED ID: 8PWQ RELATED DB: PDB REMARK 900 RELATED ID: 8PWJ RELATED DB: PDB REMARK 900 RELATED ID: 8PWP RELATED DB: PDB DBREF 8PWJ A 1 239 UNP P42196 BACS2_NATPH 1 239 SEQADV 8PWJ GLU A 240 UNP P42196 EXPRESSION TAG SEQADV 8PWJ ASN A 241 UNP P42196 EXPRESSION TAG SEQADV 8PWJ SER A 242 UNP P42196 EXPRESSION TAG SEQADV 8PWJ HIS A 243 UNP P42196 EXPRESSION TAG SEQADV 8PWJ HIS A 244 UNP P42196 EXPRESSION TAG SEQADV 8PWJ HIS A 245 UNP P42196 EXPRESSION TAG SEQADV 8PWJ HIS A 246 UNP P42196 EXPRESSION TAG SEQADV 8PWJ HIS A 247 UNP P42196 EXPRESSION TAG SEQADV 8PWJ HIS A 248 UNP P42196 EXPRESSION TAG SEQADV 8PWJ HIS A 249 UNP P42196 EXPRESSION TAG SEQRES 1 A 249 MET VAL GLY LEU THR THR LEU PHE TRP LEU GLY ALA ILE SEQRES 2 A 249 GLY MET LEU VAL GLY THR LEU ALA PHE ALA TRP ALA GLY SEQRES 3 A 249 ARG ASP ALA GLY SER GLY GLU ARG ARG TYR TYR VAL THR SEQRES 4 A 249 LEU VAL GLY ILE SER GLY ILE ALA ALA VAL ALA TYR VAL SEQRES 5 A 249 VAL MET ALA LEU GLY VAL GLY TRP VAL PRO VAL ALA GLU SEQRES 6 A 249 ARG THR VAL PHE ALA PRO ARG TYR ILE ASP TRP ILE LEU SEQRES 7 A 249 THR THR PRO LEU ILE VAL TYR PHE LEU GLY LEU LEU ALA SEQRES 8 A 249 GLY LEU ASP SER ARG GLU PHE GLY ILE VAL ILE THR LEU SEQRES 9 A 249 ASN THR VAL VAL MET LEU ALA GLY PHE ALA GLY ALA MET SEQRES 10 A 249 VAL PRO GLY ILE GLU ARG TYR ALA LEU PHE GLY MET GLY SEQRES 11 A 249 ALA VAL ALA PHE LEU GLY LEU VAL TYR TYR LEU VAL GLY SEQRES 12 A 249 PRO MET THR GLU SER ALA SER GLN ARG SER SER GLY ILE SEQRES 13 A 249 LYS SER LEU TYR VAL ARG LEU ARG ASN LEU THR VAL ILE SEQRES 14 A 249 LEU TRP ALA ILE TYR PRO PHE ILE TRP LEU LEU GLY PRO SEQRES 15 A 249 PRO GLY VAL ALA LEU LEU THR PRO THR VAL ASP VAL ALA SEQRES 16 A 249 LEU ILE VAL TYR LEU ASP LEU VAL THR LYS VAL GLY PHE SEQRES 17 A 249 GLY PHE ILE ALA LEU ASP ALA ALA ALA THR LEU ARG ALA SEQRES 18 A 249 GLU HIS GLY GLU SER LEU ALA GLY VAL ASP THR ASP ALA SEQRES 19 A 249 PRO ALA VAL ALA ASP GLU ASN SER HIS HIS HIS HIS HIS SEQRES 20 A 249 HIS HIS HET RET A 301 40 HET CL A 302 1 HETNAM RET RETINAL HETNAM CL CHLORIDE ION FORMUL 2 RET C20 H28 O FORMUL 3 CL CL 1- FORMUL 4 HOH *20(H2 O) HELIX 1 AA1 GLY A 3 GLY A 26 1 24 HELIX 2 AA2 TYR A 36 LEU A 56 1 21 HELIX 3 AA3 ALA A 70 GLY A 92 1 23 HELIX 4 AA4 ASP A 94 VAL A 118 1 25 HELIX 5 AA5 ILE A 121 GLY A 143 1 23 HELIX 6 AA6 GLY A 143 SER A 150 1 8 HELIX 7 AA7 SER A 153 ALA A 172 1 20 HELIX 8 AA8 ILE A 173 GLY A 181 1 9 HELIX 9 AA9 THR A 189 ALA A 216 1 28 SHEET 1 AA1 2 TRP A 60 VAL A 63 0 SHEET 2 AA1 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 1.44 LINK NZ BLYS A 205 C15BRET A 301 1555 1555 1.27 CRYST1 89.750 131.700 51.000 90.00 90.00 90.00 C 2 2 21 8 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 0.011142 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007593 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019608 0.00000 TER 3125 ALA A 216 HETATM 3126 C1 ARET A 301 25.061 31.738 5.617 0.66 40.39 C HETATM 3127 C1 BRET A 301 24.583 31.998 5.288 0.34 33.76 C HETATM 3128 C2 ARET A 301 24.207 30.706 6.369 0.66 29.56 C HETATM 3129 C2 BRET A 301 23.612 31.089 6.050 0.34 33.14 C HETATM 3130 C3 ARET A 301 23.322 31.287 7.459 0.66 31.10 C HETATM 3131 C3 BRET A 301 22.610 31.788 6.956 0.34 32.12 C HETATM 3132 C4 ARET A 301 22.413 32.368 6.910 0.66 31.93 C HETATM 3133 C4 BRET A 301 21.859 32.860 6.196 0.34 27.42 C HETATM 3134 C5 ARET A 301 23.068 33.267 5.895 0.66 32.46 C HETATM 3135 C5 BRET A 301 22.756 33.740 5.367 0.34 33.92 C HETATM 3136 C6 ARET A 301 24.328 33.078 5.464 0.66 28.54 C HETATM 3137 C6 BRET A 301 24.036 33.422 5.085 0.34 26.32 C HETATM 3138 C7 ARET A 301 25.022 34.132 4.739 0.66 22.03 C HETATM 3139 C7 BRET A 301 24.868 34.432 4.432 0.34 24.69 C HETATM 3140 C8 ARET A 301 26.226 34.097 4.113 0.66 27.92 C HETATM 3141 C8 BRET A 301 26.135 34.482 3.753 0.34 30.38 C HETATM 3142 C9 ARET A 301 26.865 35.204 3.415 0.66 29.22 C HETATM 3143 C9 BRET A 301 26.745 35.684 3.129 0.34 28.90 C HETATM 3144 C10ARET A 301 28.141 35.055 2.980 0.66 32.83 C HETATM 3145 C10BRET A 301 28.090 35.727 2.886 0.34 28.78 C HETATM 3146 C11ARET A 301 28.962 36.032 2.321 0.66 22.90 C HETATM 3147 C11BRET A 301 28.881 36.813 2.347 0.34 26.05 C HETATM 3148 C12ARET A 301 30.251 35.804 2.028 0.66 28.50 C HETATM 3149 C12BRET A 301 30.187 36.717 1.894 0.34 25.47 C HETATM 3150 C13ARET A 301 31.185 36.738 1.423 0.66 37.55 C HETATM 3151 C13BRET A 301 31.017 37.819 1.398 0.34 25.21 C HETATM 3152 C14ARET A 301 32.491 36.390 1.324 0.66 25.59 C HETATM 3153 C14BRET A 301 32.347 37.649 1.084 0.34 21.26 C HETATM 3154 C15ARET A 301 33.570 37.184 0.795 0.66 20.38 C HETATM 3155 C15BRET A 301 33.165 36.455 1.052 0.34 24.91 C HETATM 3156 C16ARET A 301 26.365 31.926 6.403 0.66 17.23 C HETATM 3157 C16BRET A 301 25.852 32.033 6.151 0.34 28.72 C HETATM 3158 C17ARET A 301 25.393 31.142 4.242 0.66 34.99 C HETATM 3159 C17BRET A 301 24.884 31.316 3.941 0.34 32.55 C HETATM 3160 C18ARET A 301 22.293 34.539 5.687 0.66 31.04 C HETATM 3161 C18BRET A 301 22.118 35.058 5.035 0.34 31.32 C HETATM 3162 C19ARET A 301 26.071 36.465 3.208 0.66 31.19 C HETATM 3163 C19BRET A 301 25.829 36.823 2.817 0.34 30.84 C HETATM 3164 C20ARET A 301 30.662 38.081 0.994 0.66 19.47 C HETATM 3165 C20BRET A 301 30.375 39.175 1.317 0.34 29.88 C HETATM 3166 CL A CL A 302 30.772 24.550 3.413 0.63 30.00 CL HETATM 3167 O AHOH A 401 24.663 55.774 13.479 0.63 66.29 O HETATM 3168 O BHOH A 401 24.309 56.120 12.712 0.37 53.79 O HETATM 3169 O AHOH A 402 29.959 24.559 -1.067 0.63 46.13 O HETATM 3170 O BHOH A 402 31.249 23.597 -1.978 0.37 33.76 O HETATM 3171 O AHOH A 403 36.992 31.012 1.130 0.63 40.77 O HETATM 3172 O BHOH A 403 35.772 31.640 0.873 0.37 24.85 O HETATM 3173 O AHOH A 404 20.844 19.852 -6.939 0.63104.23 O HETATM 3174 O BHOH A 404 20.676 20.224 -7.676 0.37104.23 O HETATM 3175 O AHOH A 405 35.952 34.232 -0.164 0.63 39.92 O HETATM 3176 O AHOH A 406 34.530 30.056 0.397 0.63 40.35 O HETATM 3177 O AHOH A 407 30.222 42.518 -1.178 0.63 29.00 O HETATM 3178 O BHOH A 407 30.857 42.962 -1.364 0.37 29.07 O HETATM 3179 O AHOH A 408 31.975 38.238 11.341 0.63 40.83 O HETATM 3180 O BHOH A 408 31.647 38.406 11.475 0.37 39.14 O HETATM 3181 O AHOH A 409 30.348 16.615 -7.053 0.63 39.15 O HETATM 3182 O BHOH A 409 31.308 17.311 -6.404 0.37 44.36 O HETATM 3183 O AHOH A 410 39.651 17.249 -6.538 0.63 61.04 O HETATM 3184 O BHOH A 410 39.808 17.886 -5.850 0.37 51.41 O HETATM 3185 O AHOH A 411 40.157 19.459 -13.405 0.63 80.11 O HETATM 3186 O BHOH A 411 40.650 18.754 -14.120 0.37 73.83 O HETATM 3187 O AHOH A 412 34.006 27.964 -2.634 0.63 51.53 O HETATM 3188 O BHOH A 412 33.486 28.491 -3.400 0.37 40.40 O HETATM 3189 O AHOH A 413 17.265 17.406 5.353 0.63 80.32 O HETATM 3190 O BHOH A 413 17.943 16.941 5.151 0.37 73.50 O HETATM 3191 O AHOH A 414 30.128 22.120 1.415 0.63 53.09 O HETATM 3192 O BHOH A 414 29.074 22.852 0.360 0.37 45.06 O HETATM 3193 O AHOH A 415 48.199 17.966 -1.249 0.63 70.00 O HETATM 3194 O BHOH A 415 48.490 17.980 -1.140 0.37 70.00 O HETATM 3195 O AHOH A 416 22.012 14.411 -5.088 0.63 75.88 O HETATM 3196 O BHOH A 416 22.253 15.157 -5.428 0.37 70.96 O HETATM 3197 O AHOH A 417 37.249 55.228 -2.421 0.63 58.50 O HETATM 3198 O BHOH A 417 37.005 56.039 -2.540 0.37 55.07 O HETATM 3199 O AHOH A 418 17.186 34.365 3.652 0.63 53.89 O HETATM 3200 O BHOH A 418 16.758 33.047 3.737 0.37 47.84 O HETATM 3201 O AHOH A 419 44.875 26.017 -12.750 0.32 86.35 O HETATM 3202 O BHOH A 419 44.875 26.191 -12.750 0.37 85.87 O HETATM 3203 O AHOH A 420 35.331 32.337 -12.236 0.63 76.44 O HETATM 3204 O BHOH A 420 34.360 30.468 -11.868 0.37 62.76 O CONECT 2971 3154 CONECT 2972 3155 CONECT 3126 3128 3136 3156 3158 CONECT 3127 3129 3137 3157 3159 CONECT 3128 3126 3130 CONECT 3129 3127 3131 CONECT 3130 3128 3132 CONECT 3131 3129 3133 CONECT 3132 3130 3134 CONECT 3133 3131 3135 CONECT 3134 3132 3136 3160 CONECT 3135 3133 3137 3161 CONECT 3136 3126 3134 3138 CONECT 3137 3127 3135 3139 CONECT 3138 3136 3140 CONECT 3139 3137 3141 CONECT 3140 3138 3142 CONECT 3141 3139 3143 CONECT 3142 3140 3144 3162 CONECT 3143 3141 3145 3163 CONECT 3144 3142 3146 CONECT 3145 3143 3147 CONECT 3146 3144 3148 CONECT 3147 3145 3149 CONECT 3148 3146 3150 CONECT 3149 3147 3151 CONECT 3150 3148 3152 3164 CONECT 3151 3149 3153 3165 CONECT 3152 3150 3154 CONECT 3153 3151 3155 CONECT 3154 2971 3152 CONECT 3155 2972 3153 CONECT 3156 3126 CONECT 3157 3127 CONECT 3158 3126 CONECT 3159 3127 CONECT 3160 3134 CONECT 3161 3135 CONECT 3162 3142 CONECT 3163 3143 CONECT 3164 3150 CONECT 3165 3151 MASTER 393 0 2 9 2 0 0 6 1605 1 42 20 END