HEADER TRANSCRIPTION 05-FEB-05 1YRX TITLE STRUCTURE OF A NOVEL PHOTORECEPTOR: THE BLUF DOMAIN OF APPA FROM TITLE 2 RHODOBACTER SPHAEROIDES COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN RSPH03001874; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 17-133; COMPND 5 SYNONYM: APPA BLUF DOMAIN; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODOBACTER SPHAEROIDES 2.4.1; SOURCE 3 ORGANISM_TAXID: 272943; SOURCE 4 STRAIN: ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS FERREDOXIN-LIKE FOLD, FLAVIN BINDING, PHOTORECEPTOR, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR S.ANDERSON,V.DRAGNEA,S.MASUDA,J.YBE,K.MOFFAT,C.BAUER REVDAT 3 13-JUL-11 1YRX 1 VERSN REVDAT 2 24-FEB-09 1YRX 1 VERSN REVDAT 1 28-JUN-05 1YRX 0 JRNL AUTH S.ANDERSON,V.DRAGNEA,S.MASUDA,J.YBE,K.MOFFAT,C.BAUER JRNL TITL STRUCTURE OF A NOVEL PHOTORECEPTOR, THE BLUF DOMAIN OF APPA JRNL TITL 2 FROM RHODOBACTER SPHAEROIDES JRNL REF BIOCHEMISTRY V. 44 7998 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 15924418 JRNL DOI 10.1021/BI0502691 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 25947 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.243 REMARK 3 R VALUE (WORKING SET) : 0.241 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1378 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 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2696 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 169 REMARK 3 SOLVENT ATOMS : 97 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1YRX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-MAR-05. REMARK 100 THE RCSB ID CODE IS RCSB031861. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-04 REMARK 200 TEMPERATURE (KELVIN) : 105 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9, 0.97939, 0.97962, 0.96113 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27558 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 24.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 200 DATA REDUNDANCY : 13.700 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL 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) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.24000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: XTALVIEW REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3350, ETHYLENEGLYCOL, TRIS, DDMG, REMARK 280 PH 8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -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 -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 63.72650 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 49.33550 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 49.33550 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 31.86325 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 49.33550 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 49.33550 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 95.58975 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 49.33550 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.33550 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 31.86325 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 49.33550 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.33550 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 95.58975 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 63.72650 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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 300 REMARK: THE BIOLOGICAL UNIT IS A HOMODIMER, A+B CHAINS FORM ONE REMARK 300 HOMODIMER AND THE C CHAIN HALF OF A HOMODIMER 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: DIMERIC 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 63.72650 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 25720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -137.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 -63.72650 REMARK 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -63.72650 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 ARG A 131 REMARK 465 SER A 132 REMARK 465 LEU A 133 REMARK 465 ALA B 13 REMARK 465 GLY B 130 REMARK 465 ARG B 131 REMARK 465 SER B 132 REMARK 465 LEU B 133 REMARK 465 ALA C 13 REMARK 465 GLY C 14 REMARK 465 GLY C 130 REMARK 465 ARG C 131 REMARK 465 SER C 132 REMARK 465 LEU C 133 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 98 CG CD CE NZ REMARK 470 LYS B 98 CG CD CE NZ REMARK 470 HIS C 15 CG ND1 CD2 CE1 NE2 REMARK 470 ARG C 47 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 68 CG CD NE CZ NH1 NH2 REMARK 470 ILE C 96 CG1 CG2 CD1 REMARK 470 LYS C 98 CG CD CE NZ REMARK 470 ARG C 100 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 112 CG CD OE1 OE2 REMARK 470 ARG C 116 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OD1 ASP A 36 NH2 ARG C 32 7555 2.10 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 B 97 C ALA B 97 O 0.171 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 GLN A 58 51.03 31.89 REMARK 500 ARG B 47 -43.34 150.72 REMARK 500 SER B 117 40.10 -99.79 REMARK 500 LEU B 118 -0.94 -150.07 REMARK 500 GLN C 49 31.55 76.47 REMARK 500 GLN C 58 80.12 50.68 REMARK 500 ALA C 92 103.13 -160.23 REMARK 500 ALA C 113 -37.78 177.71 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 D9G A 303 REMARK 610 D9G C 304 REMARK 610 D9G C 305 REMARK 610 D9G 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 FMN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN C 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE D9G C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE D9G A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE D9G C 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE D9G C 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE D9G A 306 DBREF 1YRX A 17 133 UNP Q53119 Q53119_RHOSH 17 133 DBREF 1YRX B 17 133 UNP Q53119 Q53119_RHOSH 17 133 DBREF 1YRX C 17 133 UNP Q53119 Q53119_RHOSH 17 133 SEQADV 1YRX ALA A 13 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX GLY A 14 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX HIS A 15 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX MET A 16 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX ALA B 13 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX GLY B 14 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX HIS B 15 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX MET B 16 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX ALA C 13 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX GLY C 14 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX HIS C 15 UNP Q53119 CLONING ARTIFACT SEQADV 1YRX MET C 16 UNP Q53119 CLONING ARTIFACT SEQRES 1 A 121 ALA GLY HIS MET VAL SER CYS CYS TYR ARG SER LEU ALA SEQRES 2 A 121 ALA PRO ASP LEU THR LEU ARG ASP LEU LEU ASP ILE VAL SEQRES 3 A 121 GLU THR SER GLN ALA HIS ASN ALA ARG ALA GLN LEU THR SEQRES 4 A 121 GLY ALA LEU PHE TYR SER GLN GLY VAL PHE PHE GLN TRP SEQRES 5 A 121 LEU GLU GLY ARG PRO ALA ALA VAL ALA GLU VAL MET THR SEQRES 6 A 121 HIS ILE GLN ARG ASP ARG ARG HIS SER ASN VAL GLU ILE SEQRES 7 A 121 LEU ALA GLU GLU PRO ILE ALA LYS ARG ARG PHE ALA GLY SEQRES 8 A 121 TRP HIS MET GLN LEU SER CYS SER GLU ALA ASP MET ARG SEQRES 9 A 121 SER LEU GLY LEU ALA GLU SER ARG GLN ILE VAL THR VAL SEQRES 10 A 121 GLY ARG SER LEU SEQRES 1 B 121 ALA GLY HIS MET VAL SER CYS CYS TYR ARG SER LEU ALA SEQRES 2 B 121 ALA PRO ASP LEU THR LEU ARG ASP LEU LEU ASP ILE VAL SEQRES 3 B 121 GLU THR SER GLN ALA HIS ASN ALA ARG ALA GLN LEU THR SEQRES 4 B 121 GLY ALA LEU PHE TYR SER GLN GLY VAL PHE PHE GLN TRP SEQRES 5 B 121 LEU GLU GLY ARG PRO ALA ALA VAL ALA GLU VAL MET THR SEQRES 6 B 121 HIS ILE GLN ARG ASP ARG ARG HIS SER ASN VAL GLU ILE SEQRES 7 B 121 LEU ALA GLU GLU PRO ILE ALA LYS ARG ARG PHE ALA GLY SEQRES 8 B 121 TRP HIS MET GLN LEU SER CYS SER GLU ALA ASP MET ARG SEQRES 9 B 121 SER LEU GLY LEU ALA GLU SER ARG GLN ILE VAL THR VAL SEQRES 10 B 121 GLY ARG SER LEU SEQRES 1 C 121 ALA GLY HIS MET VAL SER CYS CYS TYR ARG SER LEU ALA SEQRES 2 C 121 ALA PRO ASP LEU THR LEU ARG ASP LEU LEU ASP ILE VAL SEQRES 3 C 121 GLU THR SER GLN ALA HIS ASN ALA ARG ALA GLN LEU THR SEQRES 4 C 121 GLY ALA LEU PHE TYR SER GLN GLY VAL PHE PHE GLN TRP SEQRES 5 C 121 LEU GLU GLY ARG PRO ALA ALA VAL ALA GLU VAL MET THR SEQRES 6 C 121 HIS ILE GLN ARG ASP ARG ARG HIS SER ASN VAL GLU ILE SEQRES 7 C 121 LEU ALA GLU GLU PRO ILE ALA LYS ARG ARG PHE ALA GLY SEQRES 8 C 121 TRP HIS MET GLN LEU SER CYS SER GLU ALA ASP MET ARG SEQRES 9 C 121 SER LEU GLY LEU ALA GLU SER ARG GLN ILE VAL THR VAL SEQRES 10 C 121 GLY ARG SER LEU HET FMN A 201 31 HET FMN B 202 31 HET FMN C 203 31 HET D9G C 301 19 HET D9G A 302 19 HET D9G A 303 12 HET D9G C 304 10 HET D9G C 305 10 HET D9G A 306 6 HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM D9G N-DODECYL-N,N-DIMETHYLGLYCINATE HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 4 FMN 3(C17 H21 N4 O9 P) FORMUL 7 D9G 6(C16 H33 N O2) FORMUL 13 HOH *97(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 SER A 111 LEU A 118 1 8 HELIX 4 4 THR B 30 ALA B 46 1 17 HELIX 5 5 ARG B 68 ASP B 82 1 15 HELIX 6 6 SER B 111 SER B 117 1 7 HELIX 7 7 THR C 30 GLN C 49 1 20 HELIX 8 8 ARG C 68 ARG C 81 1 14 HELIX 9 9 ALA C 113 LEU C 118 1 6 SHEET 1 A 5 HIS A 85 ILE A 96 0 SHEET 2 A 5 MET A 16 ALA A 25 -1 N LEU A 24 O SER A 86 SHEET 3 A 5 VAL A 60 GLY A 67 -1 O LEU A 65 N CYS A 19 SHEET 4 A 5 THR A 51 SER A 57 -1 N SER A 57 O VAL A 60 SHEET 5 A 5 TRP A 104 LEU A 108 1 O GLN A 107 N LEU A 54 SHEET 1 B 5 HIS B 85 ILE B 96 0 SHEET 2 B 5 MET B 16 ALA B 25 -1 N ARG B 22 O GLU B 89 SHEET 3 B 5 VAL B 60 GLY B 67 -1 O LEU B 65 N CYS B 19 SHEET 4 B 5 THR B 51 SER B 57 -1 N PHE B 55 O PHE B 62 SHEET 5 B 5 TRP B 104 LEU B 108 1 O HIS B 105 N LEU B 54 SHEET 1 C 5 HIS C 85 ILE C 96 0 SHEET 2 C 5 MET C 16 ALA C 25 -1 N SER C 18 O GLU C 94 SHEET 3 C 5 VAL C 60 GLY C 67 -1 O GLN C 63 N TYR C 21 SHEET 4 C 5 THR C 51 SER C 57 -1 N PHE C 55 O PHE C 62 SHEET 5 C 5 TRP C 104 LEU C 108 1 O GLN C 107 N LEU C 54 SITE 1 AC1 17 TYR A 21 ILE A 37 THR A 40 SER A 41 SITE 2 AC1 17 HIS A 44 ASN A 45 ARG A 47 PHE A 61 SITE 3 AC1 17 GLN A 63 VAL A 75 HIS A 78 ILE A 79 SITE 4 AC1 17 ASP A 82 ARG A 84 HIS A 85 HOH A 343 SITE 5 AC1 17 HOH A 351 SITE 1 AC2 14 TYR B 21 THR B 40 SER B 41 HIS B 44 SITE 2 AC2 14 ASN B 45 PHE B 61 GLN B 63 VAL B 75 SITE 3 AC2 14 HIS B 78 ILE B 79 ASP B 82 ARG B 84 SITE 4 AC2 14 HIS B 85 HOH B 222 SITE 1 AC3 18 ARG B 68 ALA B 70 TYR C 21 ILE C 37 SITE 2 AC3 18 THR C 40 SER C 41 HIS C 44 ASN C 45 SITE 3 AC3 18 PHE C 61 GLN C 63 VAL C 75 HIS C 78 SITE 4 AC3 18 ILE C 79 ARG C 81 ASP C 82 ARG C 84 SITE 5 AC3 18 HIS C 85 HOH C 324 SITE 1 AC4 9 LEU A 35 GLU A 39 LEU A 108 MET A 115 SITE 2 AC4 9 THR C 30 LEU C 31 ARG C 32 LEU C 118 SITE 3 AC4 9 D9G C 305 SITE 1 AC5 3 GLU A 122 ARG B 124 ARG C 124 SITE 1 AC6 2 GLN C 58 PHE C 62 SITE 1 AC7 6 LEU A 34 TYR A 56 CYS A 110 ASP A 114 SITE 2 AC7 6 LEU A 118 D9G C 301 SITE 1 AC8 2 PHE A 62 PHE B 55 CRYST1 98.671 98.671 127.453 90.00 90.00 90.00 P 41 21 2 24 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 0.010135 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010135 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007846 0.00000 MASTER 427 0 9 9 15 0 22 6 0 0 0 30 END