HEADER FLAVOPROTEIN,SIGNALING PROTEIN 09-OCT-12 4HH0 TITLE DARK-STATE STRUCTURE OF APPA C20S WITHOUT THE CYS-RICH REGION FROM RB. TITLE 2 SPHAEROIDES COMPND MOL_ID: 1; COMPND 2 MOLECULE: APPA PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 3-399; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODOBACTER SPHAEROIDES; SOURCE 3 ORGANISM_COMMON: RHODOPSEUDOMONAS SPHAEROIDES; SOURCE 4 ORGANISM_TAXID: 1063; SOURCE 5 STRAIN: 2.4.1; SOURCE 6 GENE: APPA; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS BLUF DOMAIN, SCHIC DOMAIN, PHOTORECEPTOR, PPSR, FLAVOPROTEIN, KEYWDS 2 SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.WINKLER,U.HEINTZ,R.LINDNER,J.REINSTEIN,R.SHOEMAN,I.SCHLICHTING REVDAT 4 28-FEB-24 4HH0 1 REMARK SEQADV REVDAT 3 17-JUL-13 4HH0 1 JRNL REVDAT 2 10-JUL-13 4HH0 1 JRNL REVDAT 1 05-JUN-13 4HH0 0 JRNL AUTH A.WINKLER,U.HEINTZ,R.LINDNER,J.REINSTEIN,R.L.SHOEMAN, JRNL AUTH 2 I.SCHLICHTING JRNL TITL A TERNARY APPA-PPSR-DNA COMPLEX MEDIATES LIGHT REGULATION OF JRNL TITL 2 PHOTOSYNTHESIS-RELATED GENE EXPRESSION. JRNL REF NAT.STRUCT.MOL.BIOL. V. 20 859 2013 JRNL REFN ISSN 1545-9993 JRNL PMID 23728293 JRNL DOI 10.1038/NSMB.2597 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8_1069) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.60 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 33844 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 1715 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 47.6091 - 5.5988 1.00 3384 168 0.1671 0.1837 REMARK 3 2 5.5988 - 4.4450 0.99 3197 197 0.1575 0.1984 REMARK 3 3 4.4450 - 3.8834 1.00 3232 162 0.1634 0.2364 REMARK 3 4 3.8834 - 3.5285 1.00 3220 160 0.1816 0.2144 REMARK 3 5 3.5285 - 3.2756 1.00 3221 182 0.1984 0.2527 REMARK 3 6 3.2756 - 3.0825 1.00 3164 179 0.2357 0.2871 REMARK 3 7 3.0825 - 2.9282 1.00 3150 172 0.2512 0.3094 REMARK 3 8 2.9282 - 2.8007 1.00 3219 175 0.2486 0.2903 REMARK 3 9 2.8007 - 2.6929 1.00 3143 162 0.2479 0.2786 REMARK 3 10 2.6929 - 2.6000 1.00 3199 158 0.2408 0.2703 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 1.10 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.980 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 67.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 76.80 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 : 0.005 5960 REMARK 3 ANGLE : 0.870 8104 REMARK 3 CHIRALITY : 0.056 961 REMARK 3 PLANARITY : 0.004 1045 REMARK 3 DIHEDRAL : 12.773 2188 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 14:117) REMARK 3 ORIGIN FOR THE GROUP (A): 54.3202 23.0267 211.7907 REMARK 3 T TENSOR REMARK 3 T11: 0.7211 T22: 0.5297 REMARK 3 T33: 0.3826 T12: 0.2164 REMARK 3 T13: -0.0038 T23: 0.0079 REMARK 3 L TENSOR REMARK 3 L11: 5.8980 L22: 7.2976 REMARK 3 L33: 5.2192 L12: 2.6105 REMARK 3 L13: 0.9226 L23: 0.5756 REMARK 3 S TENSOR REMARK 3 S11: 0.0123 S12: -0.3029 S13: -0.0708 REMARK 3 S21: 0.7805 S22: -0.0045 S23: -0.1325 REMARK 3 S31: 0.5555 S32: 0.5554 S33: 0.0060 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 118:263) REMARK 3 ORIGIN FOR THE GROUP (A): 42.4785 42.7519 203.9098 REMARK 3 T TENSOR REMARK 3 T11: 0.6249 T22: 0.3852 REMARK 3 T33: 0.3295 T12: 0.0078 REMARK 3 T13: -0.0218 T23: 0.0092 REMARK 3 L TENSOR REMARK 3 L11: 4.1333 L22: 4.7684 REMARK 3 L33: 4.4102 L12: -3.0311 REMARK 3 L13: -3.3405 L23: 2.8988 REMARK 3 S TENSOR REMARK 3 S11: 0.3994 S12: 0.2839 S13: 0.2857 REMARK 3 S21: -0.3000 S22: -0.2054 S23: -0.1714 REMARK 3 S31: -0.3247 S32: 0.0782 S33: -0.1410 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 264:398) REMARK 3 ORIGIN FOR THE GROUP (A): 51.5821 56.6928 218.7072 REMARK 3 T TENSOR REMARK 3 T11: 0.7408 T22: 0.5057 REMARK 3 T33: 0.6322 T12: -0.2110 REMARK 3 T13: 0.1264 T23: -0.0720 REMARK 3 L TENSOR REMARK 3 L11: 7.1178 L22: 5.3982 REMARK 3 L33: 4.3032 L12: 1.0192 REMARK 3 L13: 1.0991 L23: 1.2633 REMARK 3 S TENSOR REMARK 3 S11: 0.1460 S12: -0.0693 S13: 0.9728 REMARK 3 S21: 0.1022 S22: -0.0871 S23: -0.4192 REMARK 3 S31: -0.7119 S32: 0.8900 S33: -0.0688 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESSEQ 15:118) REMARK 3 ORIGIN FOR THE GROUP (A): 9.0677 24.0085 235.1534 REMARK 3 T TENSOR REMARK 3 T11: 0.9735 T22: 0.3955 REMARK 3 T33: 0.5833 T12: -0.2924 REMARK 3 T13: -0.0983 T23: 0.0185 REMARK 3 L TENSOR REMARK 3 L11: 6.2947 L22: 7.6899 REMARK 3 L33: 3.9236 L12: 1.6778 REMARK 3 L13: -0.0468 L23: 1.6046 REMARK 3 S TENSOR REMARK 3 S11: -0.0987 S12: 0.4143 S13: -0.4539 REMARK 3 S21: -0.9290 S22: 0.2263 S23: 0.3493 REMARK 3 S31: 0.5141 S32: -0.3202 S33: -0.0530 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESSEQ 119:263) REMARK 3 ORIGIN FOR THE GROUP (A): 21.3550 44.8429 240.2534 REMARK 3 T TENSOR REMARK 3 T11: 0.8172 T22: 0.3979 REMARK 3 T33: 0.5087 T12: -0.2491 REMARK 3 T13: -0.0008 T23: -0.0125 REMARK 3 L TENSOR REMARK 3 L11: 2.5757 L22: 3.4384 REMARK 3 L33: 3.2628 L12: 2.0978 REMARK 3 L13: -2.0524 L23: -1.9738 REMARK 3 S TENSOR REMARK 3 S11: 0.4049 S12: -0.4088 S13: 0.2386 REMARK 3 S21: 0.3025 S22: -0.2972 S23: 0.1354 REMARK 3 S31: -0.3201 S32: 0.1340 S33: -0.0544 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESSEQ 264:398) REMARK 3 ORIGIN FOR THE GROUP (A): 11.2921 55.4753 223.6542 REMARK 3 T TENSOR REMARK 3 T11: 0.6715 T22: 0.4476 REMARK 3 T33: 0.5002 T12: -0.0597 REMARK 3 T13: 0.1046 T23: 0.0546 REMARK 3 L TENSOR REMARK 3 L11: 8.3046 L22: 5.0538 REMARK 3 L33: 5.9573 L12: -1.7911 REMARK 3 L13: 0.1826 L23: -2.1233 REMARK 3 S TENSOR REMARK 3 S11: 0.4304 S12: 0.1975 S13: 0.3803 REMARK 3 S21: 0.0444 S22: -0.0326 S23: 0.4685 REMARK 3 S31: -0.4584 S32: -1.0922 S33: -0.2885 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 4HH0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-NOV-12. REMARK 100 THE DEPOSITION ID IS D_1000075455. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : DYNAMICALLY BENDABLE MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33847 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 48.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.62900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.630 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NATIVE DATA FOR SAD PHASE REMARK 200 EXTENSION REMARK 200 SOFTWARE USED: PHENIX-AUTOSOL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.3M TRIS CHLORIDE BUFFER, 1.3M SODIUM REMARK 280 CHLORIDE, 0.3M MAGNESIUM CHLORIDE, PH 7.4, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 1 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -Y,-X,-Z+1/3 REMARK 290 5555 -X+Y,Y,-Z+2/3 REMARK 290 6555 X,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 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 254.73333 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 127.36667 REMARK 290 SMTRY1 4 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 127.36667 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 254.73333 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 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 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 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -215.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 ALA A 2 REMARK 465 HIS A 3 REMARK 465 ASP A 4 REMARK 465 LEU A 5 REMARK 465 GLU A 6 REMARK 465 ALA A 7 REMARK 465 ASP A 8 REMARK 465 VAL A 9 REMARK 465 THR A 10 REMARK 465 MET A 11 REMARK 465 THR A 12 REMARK 465 GLY A 13 REMARK 465 ALA A 121 REMARK 465 GLU A 122 REMARK 465 SER A 399 REMARK 465 SER A 400 REMARK 465 ALA A 401 REMARK 465 HIS A 402 REMARK 465 HIS A 403 REMARK 465 HIS A 404 REMARK 465 HIS A 405 REMARK 465 HIS A 406 REMARK 465 HIS A 407 REMARK 465 ALA B 2 REMARK 465 HIS B 3 REMARK 465 ASP B 4 REMARK 465 LEU B 5 REMARK 465 GLU B 6 REMARK 465 ALA B 7 REMARK 465 ASP B 8 REMARK 465 VAL B 9 REMARK 465 THR B 10 REMARK 465 MET B 11 REMARK 465 THR B 12 REMARK 465 GLY B 13 REMARK 465 SER B 14 REMARK 465 ALA B 121 REMARK 465 GLU B 122 REMARK 465 SER B 399 REMARK 465 SER B 400 REMARK 465 ALA B 401 REMARK 465 HIS B 402 REMARK 465 HIS B 403 REMARK 465 HIS B 404 REMARK 465 HIS B 405 REMARK 465 HIS B 406 REMARK 465 HIS B 407 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 106 101.45 -162.74 REMARK 500 THR A 201 -81.07 -95.65 REMARK 500 HIS A 265 66.30 -161.46 REMARK 500 ARG A 323 18.97 57.67 REMARK 500 GLU A 338 38.61 -146.67 REMARK 500 PRO A 372 -14.09 -49.89 REMARK 500 ASP B 165 45.73 -104.91 REMARK 500 THR B 201 -77.65 -123.57 REMARK 500 HIS B 265 65.92 -160.26 REMARK 500 LEU B 334 -29.86 -141.19 REMARK 500 GLU B 338 40.17 -82.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 509 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4HH1 RELATED DB: PDB REMARK 900 STRUCTURE OF APPA WILD-TYPE WITHOUT THE CYS-RICH REGION REMARK 900 RELATED ID: 4HH3 RELATED DB: PDB REMARK 900 STRUCTURE OF THE APPA PPSR2 CORE COMPLEX REMARK 900 RELATED ID: 4HH2 RELATED DB: PDB REMARK 900 STRUCTURE OF PPSR WITHOUT THE HTH MOTIF REMARK 900 RELATED ID: 2IYG RELATED DB: PDB REMARK 900 DARK STATE STRUCTURE OF THE APPA BLUF DOMAIN REMARK 900 RELATED ID: 2IYI RELATED DB: PDB REMARK 900 LIGHT-INDUCED INTERMEDIATE STRUCTURE OF THE APPA BLUF DOMAIN REMARK 900 RELATED ID: 1YRX RELATED DB: PDB REMARK 900 THE BLUF DOMAIN OF APPA FROM RHODOBACTER SPHAEROIDES DBREF 4HH0 A 3 399 UNP Q53119 Q53119_RHOSH 3 399 DBREF 4HH0 B 3 399 UNP Q53119 Q53119_RHOSH 3 399 SEQADV 4HH0 ALA A 2 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 SER A 20 UNP Q53119 CYS 20 ENGINEERED MUTATION SEQADV 4HH0 SER A 399 UNP Q53119 CYS 399 ENGINEERED MUTATION SEQADV 4HH0 SER A 400 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 ALA A 401 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS A 402 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS A 403 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS A 404 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS A 405 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS A 406 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS A 407 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 ALA B 2 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 SER B 20 UNP Q53119 CYS 20 ENGINEERED MUTATION SEQADV 4HH0 SER B 399 UNP Q53119 CYS 399 ENGINEERED MUTATION SEQADV 4HH0 SER B 400 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 ALA B 401 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS B 402 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS B 403 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS B 404 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS B 405 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS B 406 UNP Q53119 EXPRESSION TAG SEQADV 4HH0 HIS B 407 UNP Q53119 EXPRESSION TAG SEQRES 1 A 406 ALA HIS ASP LEU GLU ALA ASP VAL THR MET THR GLY SER SEQRES 2 A 406 ASP LEU VAL SER CYS SER TYR ARG SER LEU ALA ALA PRO SEQRES 3 A 406 ASP LEU THR LEU ARG ASP LEU LEU ASP ILE VAL GLU THR SEQRES 4 A 406 SER GLN ALA HIS ASN ALA ARG ALA GLN LEU THR GLY ALA SEQRES 5 A 406 LEU PHE TYR SER GLN GLY VAL PHE PHE GLN TRP LEU GLU SEQRES 6 A 406 GLY ARG PRO ALA ALA VAL ALA GLU VAL MET THR HIS ILE SEQRES 7 A 406 GLN ARG ASP ARG ARG HIS SER ASN VAL GLU ILE LEU ALA SEQRES 8 A 406 GLU GLU PRO ILE ALA LYS ARG ARG PHE ALA GLY TRP HIS SEQRES 9 A 406 MET GLN LEU SER CYS SER GLU ALA ASP MET ARG SER LEU SEQRES 10 A 406 GLY LEU ALA GLU SER ARG GLN ILE VAL THR VAL GLY ARG SEQRES 11 A 406 SER LEU VAL ALA ASP ASN THR ASN ILE PHE SER PHE ASP SEQRES 12 A 406 ARG ILE ALA ALA VAL ARG ARG PHE LEU SER ASP VAL CYS SEQRES 13 A 406 ALA ALA ARG THR LEU ALA PRO ASP THR PRO VAL GLU ALA SEQRES 14 A 406 ASP THR PHE ALA LEU TYR ALA LEU THR GLU ALA GLN ALA SEQRES 15 A 406 GLY ARG SER GLY ARG ALA LYS ALA VAL ALA ARG LEU SER SEQRES 16 A 406 ASP LEU LEU SER THR ASP PRO LEU GLY ARG LEU THR GLU SEQRES 17 A 406 VAL GLU GLU LEU LEU ARG ALA HIS ALA PRO THR ALA ALA SEQRES 18 A 406 ASP PHE ALA ARG LEU PHE GLU ALA CYS ALA GLU ARG LEU SEQRES 19 A 406 THR ARG ALA LEU ALA GLU ASP ARG ILE SER ARG MET GLN SEQRES 20 A 406 VAL THR LEU ALA TYR SER ALA LEU GLN MET ALA LEU ARG SEQRES 21 A 406 ARG ILE HIS HIS LEU PRO ASP PRO GLN LYS SER VAL GLY SEQRES 22 A 406 ALA VAL LEU VAL ALA GLY VAL PRO GLY HIS LYS PRO ILE SEQRES 23 A 406 LEU GLU ALA ALA LEU ALA ALA GLU MET LEU ARG ALA VAL SEQRES 24 A 406 GLY TRP SER THR SER VAL VAL HIS PRO GLU SER VAL ALA SEQRES 25 A 406 ALA LEU ALA ALA ARG LEU LYS THR SER ARG THR SER THR SEQRES 26 A 406 LEU VAL VAL ALA PRO SER LEU LEU GLU GLY THR GLU GLN SEQRES 27 A 406 GLU ALA ASP THR LEU ARG PHE VAL SER ALA LEU ARG ALA SEQRES 28 A 406 ARG THR ASP LEU PRO GLY LEU SER ILE LEU VAL GLY GLY SEQRES 29 A 406 ARG LEU ALA GLN LEU PRO PRO SER LYS LEU LYS ASP SER SEQRES 30 A 406 GLY ALA ASP ALA GLY PHE ALA HIS LEU ALA LEU LEU PRO SEQRES 31 A 406 ALA ALA LEU ALA ARG VAL ALA SER SER ALA HIS HIS HIS SEQRES 32 A 406 HIS HIS HIS SEQRES 1 B 406 ALA HIS ASP LEU GLU ALA ASP VAL THR MET THR GLY SER SEQRES 2 B 406 ASP LEU VAL SER CYS SER TYR ARG SER LEU ALA ALA PRO SEQRES 3 B 406 ASP LEU THR LEU ARG ASP LEU LEU ASP ILE VAL GLU THR SEQRES 4 B 406 SER GLN ALA HIS ASN ALA ARG ALA GLN LEU THR GLY ALA SEQRES 5 B 406 LEU PHE TYR SER GLN GLY VAL PHE PHE GLN TRP LEU GLU SEQRES 6 B 406 GLY ARG PRO ALA ALA VAL ALA GLU VAL MET THR HIS ILE SEQRES 7 B 406 GLN ARG ASP ARG ARG HIS SER ASN VAL GLU ILE LEU ALA SEQRES 8 B 406 GLU GLU PRO ILE ALA LYS ARG ARG PHE ALA GLY TRP HIS SEQRES 9 B 406 MET GLN LEU SER CYS SER GLU ALA ASP MET ARG SER LEU SEQRES 10 B 406 GLY LEU ALA GLU SER ARG GLN ILE VAL THR VAL GLY ARG SEQRES 11 B 406 SER LEU VAL ALA ASP ASN THR ASN ILE PHE SER PHE ASP SEQRES 12 B 406 ARG ILE ALA ALA VAL ARG ARG PHE LEU SER ASP VAL CYS SEQRES 13 B 406 ALA ALA ARG THR LEU ALA PRO ASP THR PRO VAL GLU ALA SEQRES 14 B 406 ASP THR PHE ALA LEU TYR ALA LEU THR GLU ALA GLN ALA SEQRES 15 B 406 GLY ARG SER GLY ARG ALA LYS ALA VAL ALA ARG LEU SER SEQRES 16 B 406 ASP LEU LEU SER THR ASP PRO LEU GLY ARG LEU THR GLU SEQRES 17 B 406 VAL GLU GLU LEU LEU ARG ALA HIS ALA PRO THR ALA ALA SEQRES 18 B 406 ASP PHE ALA ARG LEU PHE GLU ALA CYS ALA GLU ARG LEU SEQRES 19 B 406 THR ARG ALA LEU ALA GLU ASP ARG ILE SER ARG MET GLN SEQRES 20 B 406 VAL THR LEU ALA TYR SER ALA LEU GLN MET ALA LEU ARG SEQRES 21 B 406 ARG ILE HIS HIS LEU PRO ASP PRO GLN LYS SER VAL GLY SEQRES 22 B 406 ALA VAL LEU VAL ALA GLY VAL PRO GLY HIS LYS PRO ILE SEQRES 23 B 406 LEU GLU ALA ALA LEU ALA ALA GLU MET LEU ARG ALA VAL SEQRES 24 B 406 GLY TRP SER THR SER VAL VAL HIS PRO GLU SER VAL ALA SEQRES 25 B 406 ALA LEU ALA ALA ARG LEU LYS THR SER ARG THR SER THR SEQRES 26 B 406 LEU VAL VAL ALA PRO SER LEU LEU GLU GLY THR GLU GLN SEQRES 27 B 406 GLU ALA ASP THR LEU ARG PHE VAL SER ALA LEU ARG ALA SEQRES 28 B 406 ARG THR ASP LEU PRO GLY LEU SER ILE LEU VAL GLY GLY SEQRES 29 B 406 ARG LEU ALA GLN LEU PRO PRO SER LYS LEU LYS ASP SER SEQRES 30 B 406 GLY ALA ASP ALA GLY PHE ALA HIS LEU ALA LEU LEU PRO SEQRES 31 B 406 ALA ALA LEU ALA ARG VAL ALA SER SER ALA HIS HIS HIS SEQRES 32 B 406 HIS HIS HIS HET FMN A 501 31 HET CL A 502 1 HET CL A 503 1 HET CL A 504 1 HET CL A 505 1 HET CL A 506 1 HET CL A 507 1 HET CL A 508 1 HET CL A 509 1 HET CL A 510 1 HET CL A 511 1 HET FMN B 501 31 HET CL B 502 1 HET CL B 503 1 HET CL B 504 1 HET CL B 505 1 HET CL B 506 1 HET CL B 507 1 HET CL B 508 1 HET CL B 509 1 HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM CL CHLORIDE ION HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 3 FMN 2(C17 H21 N4 O9 P) FORMUL 4 CL 18(CL 1-) FORMUL 23 HOH *80(H2 O) HELIX 1 1 THR A 30 GLN A 49 1 20 HELIX 2 2 ARG A 68 ARG A 81 1 14 HELIX 3 3 GLU A 112 GLY A 119 1 8 HELIX 4 4 PHE A 141 ALA A 163 1 23 HELIX 5 5 ASP A 171 ASP A 202 1 32 HELIX 6 6 ARG A 206 ALA A 218 1 13 HELIX 7 7 THR A 220 GLU A 241 1 22 HELIX 8 8 SER A 245 HIS A 264 1 20 HELIX 9 9 PRO A 286 VAL A 300 1 15 HELIX 10 10 SER A 311 ARG A 323 1 13 HELIX 11 11 GLU A 338 THR A 354 1 17 HELIX 12 12 GLY A 365 LEU A 370 5 6 HELIX 13 13 PRO A 371 GLY A 379 1 9 HELIX 14 14 HIS A 386 ALA A 388 5 3 HELIX 15 15 LEU A 389 ALA A 398 1 10 HELIX 16 16 THR B 30 GLN B 49 1 20 HELIX 17 17 ARG B 68 ASP B 82 1 15 HELIX 18 18 GLU B 112 SER B 117 1 6 HELIX 19 19 PHE B 141 ALA B 163 1 23 HELIX 20 20 ASP B 171 ASP B 202 1 32 HELIX 21 21 ARG B 206 ALA B 218 1 13 HELIX 22 22 THR B 220 GLU B 241 1 22 HELIX 23 23 SER B 245 HIS B 264 1 20 HELIX 24 24 PRO B 286 VAL B 300 1 15 HELIX 25 25 SER B 311 ARG B 323 1 13 HELIX 26 26 GLU B 338 THR B 354 1 17 HELIX 27 27 GLY B 365 LEU B 370 5 6 HELIX 28 28 PRO B 371 SER B 378 1 8 HELIX 29 29 HIS B 386 ALA B 388 5 3 HELIX 30 30 LEU B 389 ALA B 398 1 10 SHEET 1 A 6 HIS A 85 ILE A 96 0 SHEET 2 A 6 LEU A 16 ALA A 25 -1 N SER A 18 O GLU A 94 SHEET 3 A 6 VAL A 60 GLY A 67 -1 O LEU A 65 N CYS A 19 SHEET 4 A 6 THR A 51 SER A 57 -1 N PHE A 55 O PHE A 62 SHEET 5 A 6 GLN A 107 SER A 111 1 O GLN A 107 N LEU A 54 SHEET 6 A 6 VAL A 127 VAL A 129 1 O VAL A 129 N CYS A 110 SHEET 1 B 5 TRP A 302 VAL A 307 0 SHEET 2 B 5 GLY A 274 ALA A 279 1 N VAL A 278 O SER A 305 SHEET 3 B 5 THR A 326 VAL A 329 1 O VAL A 328 N LEU A 277 SHEET 4 B 5 SER A 360 VAL A 363 1 O SER A 360 N LEU A 327 SHEET 5 B 5 ALA A 382 GLY A 383 1 O ALA A 382 N VAL A 363 SHEET 1 C 6 HIS B 85 PRO B 95 0 SHEET 2 C 6 VAL B 17 ALA B 25 -1 N SER B 18 O GLU B 94 SHEET 3 C 6 VAL B 60 GLY B 67 -1 O LEU B 65 N CYS B 19 SHEET 4 C 6 THR B 51 SER B 57 -1 N PHE B 55 O PHE B 62 SHEET 5 C 6 GLN B 107 SER B 111 1 O GLN B 107 N LEU B 54 SHEET 6 C 6 VAL B 127 VAL B 129 1 O VAL B 129 N CYS B 110 SHEET 1 D 5 SER B 303 VAL B 307 0 SHEET 2 D 5 ALA B 275 ALA B 279 1 N VAL B 278 O SER B 305 SHEET 3 D 5 THR B 326 VAL B 329 1 O VAL B 328 N LEU B 277 SHEET 4 D 5 SER B 360 VAL B 363 1 O SER B 360 N LEU B 327 SHEET 5 D 5 ALA B 382 GLY B 383 1 O ALA B 382 N VAL B 363 CISPEP 1 ARG A 124 GLN A 125 0 4.42 CISPEP 2 ARG B 124 GLN B 125 0 2.53 CISPEP 3 PRO B 357 GLY B 358 0 3.02 SITE 1 AC1 13 TYR A 21 ILE A 37 SER A 41 HIS A 44 SITE 2 AC1 13 ASN A 45 GLN A 63 LEU A 65 VAL A 75 SITE 3 AC1 13 HIS A 78 ILE A 79 ASP A 82 ARG A 84 SITE 4 AC1 13 HOH A 634 SITE 1 AC2 1 ARG A 194 SITE 1 AC3 3 ASP A 202 PRO A 203 LEU A 204 SITE 1 AC4 2 ARG A 206 GLU A 209 SITE 1 AC5 3 ARG A 323 LEU A 356 GLY A 358 SITE 1 AC6 1 ARG A 22 SITE 1 AC7 4 GLU A 112 ALA A 113 ARG A 131 SER A 132 SITE 1 AC8 3 ARG A 131 ARG A 145 PHE A 173 SITE 1 AC9 2 SER A 20 TRP A 64 SITE 1 BC1 2 ARG A 150 ARG A 151 SITE 1 BC2 1 ARG A 188 SITE 1 BC3 15 TYR B 21 ILE B 37 SER B 41 HIS B 44 SITE 2 BC3 15 ASN B 45 PHE B 61 GLN B 63 LEU B 65 SITE 3 BC3 15 VAL B 75 HIS B 78 ILE B 79 ASP B 82 SITE 4 BC3 15 ARG B 84 HIS B 85 HOH B 632 SITE 1 BC4 3 PRO B 203 LEU B 204 HOH B 630 SITE 1 BC5 2 ARG B 206 GLU B 209 SITE 1 BC6 3 SER B 20 TRP B 64 ARG B 150 SITE 1 BC7 3 ILE B 244 SER B 245 GLN B 248 SITE 1 BC8 2 ARG B 150 ARG B 151 SITE 1 BC9 3 ARG B 131 ARG B 145 PHE B 173 SITE 1 CC1 3 GLU B 112 ALA B 113 ARG B 131 SITE 1 CC2 2 ARG B 188 PRO B 219 CRYST1 70.260 70.260 382.100 90.00 90.00 120.00 P 32 1 2 12 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 0.014233 0.008217 0.000000 0.00000 SCALE2 0.000000 0.016435 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002617 0.00000