HEADER OXIDOREDUCTASE 18-JAN-11 3QDL TITLE CRYSTAL STRUCTURE OF RDXA FROM HELICOBACTER PYROLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: OXYGEN-INSENSITIVE NADPH NITROREDUCTASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_COMMON: CAMPYLOBACTER PYLORI; SOURCE 4 ORGANISM_TAXID: 210; SOURCE 5 GENE: RDXA, HP_0954; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15BRDXA5 KEYWDS OXYGEN-INSENSITIVE NAD(P)H NITROREDUCTASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR A.L.ROJAS,M.MARTINEZ-JULVEZ,I.N.OLEKHNOVICH,P.S.HOFFMAN,J.SANCHO REVDAT 5 13-SEP-23 3QDL 1 REMARK REVDAT 4 30-JAN-13 3QDL 1 JRNL REVDAT 3 07-NOV-12 3QDL 1 JRNL REVDAT 2 31-OCT-12 3QDL 1 JRNL REVDAT 1 18-JAN-12 3QDL 0 JRNL AUTH M.MARTINEZ-JULVEZ,A.L.ROJAS,I.OLEKHNOVICH, JRNL AUTH 2 V.ESPINOSA ANGARICA,P.S.HOFFMAN,J.SANCHO JRNL TITL STRUCTURE OF RDXA--AN OXYGEN-INSENSITIVE NITROREDUCTASE JRNL TITL 2 ESSENTIAL FOR METRONIDAZOLE ACTIVATION IN HELICOBACTER JRNL TITL 3 PYLORI. JRNL REF FEBS J. V. 279 4306 2012 JRNL REFN ISSN 1742-464X JRNL PMID 23039228 JRNL DOI 10.1111/FEBS.12020 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 76.12 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 48807 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2511 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3435 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.39 REMARK 3 BIN R VALUE (WORKING SET) : 0.1900 REMARK 3 BIN FREE R VALUE SET COUNT : 167 REMARK 3 BIN FREE R VALUE : 0.2570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5444 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 136 REMARK 3 SOLVENT ATOMS : 170 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.94 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.36000 REMARK 3 B22 (A**2) : -0.36000 REMARK 3 B33 (A**2) : 0.73000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.033 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.083 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.964 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.910 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5672 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7630 ; 0.915 ; 2.002 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 676 ; 4.915 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 234 ;37.982 ;24.359 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1088 ;15.007 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;16.340 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 848 ; 0.061 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4068 ; 0.003 ; 0.021 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): 3416 ; 0.280 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5500 ; 0.509 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2256 ; 0.576 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2130 ; 0.933 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TWIN DETAILS REMARK 3 NUMBER OF TWIN DOMAINS : 2 REMARK 3 TWIN DOMAIN : 1 REMARK 3 TWIN OPERATOR : H, K, L REMARK 3 TWIN FRACTION : 0.499 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : K, H, -L REMARK 3 TWIN FRACTION : 0.501 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 3QDL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000063510. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-FEB-10; 10-APR-10 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : ESRF; ESRF REMARK 200 BEAMLINE : ID23-2; BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8726; 0.97625 REMARK 200 MONOCHROMATOR : SI (111) MONOCHROMATOR; SI (111) REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD; MARMOSAIC REMARK 200 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48813 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 76.120 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.14500 REMARK 200 FOR THE DATA SET : 8.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.32000 REMARK 200 R SYM FOR SHELL (I) : 0.32000 REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: PDB ENTRY 1ICR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25 % PEG 3350, 0.1 M BIS-TRIS, 0.2 M REMARK 280 MGCL2, PH 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 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 152.24000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 76.12000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 228.36000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 19740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -115.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 HIS A 97 REMARK 465 GLY A 98 REMARK 465 HIS A 99 REMARK 465 TYR A 100 REMARK 465 MET A 101 REMARK 465 GLN A 102 REMARK 465 ASN A 103 REMARK 465 LEU A 104 REMARK 465 TYR A 105 REMARK 465 PRO A 106 REMARK 465 GLU A 107 REMARK 465 SER A 108 REMARK 465 TYR A 109 REMARK 465 LYS A 110 REMARK 465 VAL A 111 REMARK 465 ARG A 112 REMARK 465 VAL A 113 REMARK 465 ILE A 114 REMARK 465 PRO A 115 REMARK 465 SER A 116 REMARK 465 PHE A 117 REMARK 465 ALA A 118 REMARK 465 GLN A 119 REMARK 465 MET A 120 REMARK 465 LEU A 121 REMARK 465 GLY A 122 REMARK 465 VAL A 123 REMARK 465 ARG A 124 REMARK 465 PHE A 125 REMARK 465 ASN A 126 REMARK 465 HIS A 127 REMARK 465 SER A 128 REMARK 465 ARG B 90 REMARK 465 PRO B 91 REMARK 465 SER B 92 REMARK 465 GLU B 93 REMARK 465 LEU B 94 REMARK 465 LEU B 95 REMARK 465 PRO B 96 REMARK 465 HIS B 97 REMARK 465 GLY B 98 REMARK 465 HIS B 99 REMARK 465 TYR B 100 REMARK 465 MET B 101 REMARK 465 GLN B 102 REMARK 465 ASN B 103 REMARK 465 LEU B 104 REMARK 465 TYR B 105 REMARK 465 PRO B 106 REMARK 465 GLU B 107 REMARK 465 SER B 108 REMARK 465 TYR B 109 REMARK 465 LYS B 110 REMARK 465 VAL B 111 REMARK 465 ARG B 112 REMARK 465 VAL B 113 REMARK 465 ILE B 114 REMARK 465 PRO B 115 REMARK 465 SER B 116 REMARK 465 PHE B 117 REMARK 465 ALA B 118 REMARK 465 GLN B 119 REMARK 465 MET B 120 REMARK 465 LEU B 121 REMARK 465 GLY B 122 REMARK 465 VAL B 123 REMARK 465 ARG B 124 REMARK 465 PHE B 125 REMARK 465 ASN B 126 REMARK 465 HIS B 127 REMARK 465 SER B 128 REMARK 465 MET B 129 REMARK 465 GLN B 130 REMARK 465 ARG B 131 REMARK 465 LEU B 132 REMARK 465 GLU B 133 REMARK 465 LYS B 179 REMARK 465 HIS C 97 REMARK 465 GLY C 98 REMARK 465 HIS C 99 REMARK 465 TYR C 100 REMARK 465 MET C 101 REMARK 465 GLN C 102 REMARK 465 ASN C 103 REMARK 465 LEU C 104 REMARK 465 TYR C 105 REMARK 465 PRO C 106 REMARK 465 GLU C 107 REMARK 465 SER C 108 REMARK 465 TYR C 109 REMARK 465 LYS C 110 REMARK 465 VAL C 111 REMARK 465 ARG C 112 REMARK 465 VAL C 113 REMARK 465 ILE C 114 REMARK 465 PRO C 115 REMARK 465 SER C 116 REMARK 465 PHE C 117 REMARK 465 ALA C 118 REMARK 465 GLN C 119 REMARK 465 MET C 120 REMARK 465 LEU C 121 REMARK 465 GLY C 122 REMARK 465 VAL C 123 REMARK 465 ARG C 124 REMARK 465 PHE C 125 REMARK 465 ASN C 126 REMARK 465 HIS C 127 REMARK 465 SER C 128 REMARK 465 ARG D 90 REMARK 465 PRO D 91 REMARK 465 SER D 92 REMARK 465 GLU D 93 REMARK 465 LEU D 94 REMARK 465 LEU D 95 REMARK 465 PRO D 96 REMARK 465 HIS D 97 REMARK 465 GLY D 98 REMARK 465 HIS D 99 REMARK 465 TYR D 100 REMARK 465 MET D 101 REMARK 465 GLN D 102 REMARK 465 ASN D 103 REMARK 465 LEU D 104 REMARK 465 TYR D 105 REMARK 465 PRO D 106 REMARK 465 GLU D 107 REMARK 465 SER D 108 REMARK 465 TYR D 109 REMARK 465 LYS D 110 REMARK 465 VAL D 111 REMARK 465 ARG D 112 REMARK 465 VAL D 113 REMARK 465 ILE D 114 REMARK 465 PRO D 115 REMARK 465 SER D 116 REMARK 465 PHE D 117 REMARK 465 ALA D 118 REMARK 465 GLN D 119 REMARK 465 MET D 120 REMARK 465 LEU D 121 REMARK 465 GLY D 122 REMARK 465 VAL D 123 REMARK 465 ARG D 124 REMARK 465 PHE D 125 REMARK 465 ASN D 126 REMARK 465 HIS D 127 REMARK 465 SER D 128 REMARK 465 MET D 129 REMARK 465 GLN D 130 REMARK 465 ARG D 131 REMARK 465 LEU D 132 REMARK 465 GLU D 133 REMARK 465 LYS D 179 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 ARG A 16 97.66 -69.81 REMARK 500 TYR A 47 22.11 47.63 REMARK 500 TYR A 71 -120.20 59.93 REMARK 500 LYS A 179 109.69 -51.83 REMARK 500 TYR B 71 -121.20 46.50 REMARK 500 LEU B 156 -166.14 -115.57 REMARK 500 ARG B 176 -64.04 -123.12 REMARK 500 TYR C 71 -120.43 40.86 REMARK 500 ARG D 16 97.07 -67.35 REMARK 500 TYR D 47 12.33 59.00 REMARK 500 PRO D 51 43.27 -82.33 REMARK 500 TYR D 71 -117.95 51.34 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 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN B 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN C 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN D 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL D 211 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 211 DBREF 3QDL A 1 210 UNP O25608 RDXA_HELPY 1 210 DBREF 3QDL B 1 210 UNP O25608 RDXA_HELPY 1 210 DBREF 3QDL C 1 210 UNP O25608 RDXA_HELPY 1 210 DBREF 3QDL D 1 210 UNP O25608 RDXA_HELPY 1 210 SEQRES 1 A 210 MET LYS PHE LEU ASP GLN GLU LYS ARG ARG GLN LEU LEU SEQRES 2 A 210 ASN GLU ARG HIS SER CYS LYS MET PHE ASP SER HIS TYR SEQRES 3 A 210 GLU PHE SER SER THR GLU LEU GLU GLU ILE ALA GLU ILE SEQRES 4 A 210 ALA ARG LEU SER PRO SER SER TYR ASN THR GLN PRO TRP SEQRES 5 A 210 HIS PHE VAL MET VAL THR ASP LYS ASP LEU LYS LYS GLN SEQRES 6 A 210 ILE ALA ALA HIS SER TYR PHE ASN GLU GLU MET ILE LYS SEQRES 7 A 210 SER ALA SER ALA LEU MET VAL VAL CYS SER LEU ARG PRO SEQRES 8 A 210 SER GLU LEU LEU PRO HIS GLY HIS TYR MET GLN ASN LEU SEQRES 9 A 210 TYR PRO GLU SER TYR LYS VAL ARG VAL ILE PRO SER PHE SEQRES 10 A 210 ALA GLN MET LEU GLY VAL ARG PHE ASN HIS SER MET GLN SEQRES 11 A 210 ARG LEU GLU SER TYR ILE LEU GLU GLN CYS TYR ILE ALA SEQRES 12 A 210 VAL GLY GLN ILE CYS MET GLY VAL SER LEU MET GLY LEU SEQRES 13 A 210 ASP SER CYS ILE ILE GLY GLY PHE ASP PRO LEU LYS VAL SEQRES 14 A 210 GLY GLU VAL LEU GLU GLU ARG ILE ASN LYS PRO LYS ILE SEQRES 15 A 210 ALA CYS LEU ILE ALA LEU GLY LYS ARG VAL ALA GLU ALA SEQRES 16 A 210 SER GLN LYS SER ARG LYS SER LYS VAL ASP ALA ILE THR SEQRES 17 A 210 TRP LEU SEQRES 1 B 210 MET LYS PHE LEU ASP GLN GLU LYS ARG ARG GLN LEU LEU SEQRES 2 B 210 ASN GLU ARG HIS SER CYS LYS MET PHE ASP SER HIS TYR SEQRES 3 B 210 GLU PHE SER SER THR GLU LEU GLU GLU ILE ALA GLU ILE SEQRES 4 B 210 ALA ARG LEU SER PRO SER SER TYR ASN THR GLN PRO TRP SEQRES 5 B 210 HIS PHE VAL MET VAL THR ASP LYS ASP LEU LYS LYS GLN SEQRES 6 B 210 ILE ALA ALA HIS SER TYR PHE ASN GLU GLU MET ILE LYS SEQRES 7 B 210 SER ALA SER ALA LEU MET VAL VAL CYS SER LEU ARG PRO SEQRES 8 B 210 SER GLU LEU LEU PRO HIS GLY HIS TYR MET GLN ASN LEU SEQRES 9 B 210 TYR PRO GLU SER TYR LYS VAL ARG VAL ILE PRO SER PHE SEQRES 10 B 210 ALA GLN MET LEU GLY VAL ARG PHE ASN HIS SER MET GLN SEQRES 11 B 210 ARG LEU GLU SER TYR ILE LEU GLU GLN CYS TYR ILE ALA SEQRES 12 B 210 VAL GLY GLN ILE CYS MET GLY VAL SER LEU MET GLY LEU SEQRES 13 B 210 ASP SER CYS ILE ILE GLY GLY PHE ASP PRO LEU LYS VAL SEQRES 14 B 210 GLY GLU VAL LEU GLU GLU ARG ILE ASN LYS PRO LYS ILE SEQRES 15 B 210 ALA CYS LEU ILE ALA LEU GLY LYS ARG VAL ALA GLU ALA SEQRES 16 B 210 SER GLN LYS SER ARG LYS SER LYS VAL ASP ALA ILE THR SEQRES 17 B 210 TRP LEU SEQRES 1 C 210 MET LYS PHE LEU ASP GLN GLU LYS ARG ARG GLN LEU LEU SEQRES 2 C 210 ASN GLU ARG HIS SER CYS LYS MET PHE ASP SER HIS TYR SEQRES 3 C 210 GLU PHE SER SER THR GLU LEU GLU GLU ILE ALA GLU ILE SEQRES 4 C 210 ALA ARG LEU SER PRO SER SER TYR ASN THR GLN PRO TRP SEQRES 5 C 210 HIS PHE VAL MET VAL THR ASP LYS ASP LEU LYS LYS GLN SEQRES 6 C 210 ILE ALA ALA HIS SER TYR PHE ASN GLU GLU MET ILE LYS SEQRES 7 C 210 SER ALA SER ALA LEU MET VAL VAL CYS SER LEU ARG PRO SEQRES 8 C 210 SER GLU LEU LEU PRO HIS GLY HIS TYR MET GLN ASN LEU SEQRES 9 C 210 TYR PRO GLU SER TYR LYS VAL ARG VAL ILE PRO SER PHE SEQRES 10 C 210 ALA GLN MET LEU GLY VAL ARG PHE ASN HIS SER MET GLN SEQRES 11 C 210 ARG LEU GLU SER TYR ILE LEU GLU GLN CYS TYR ILE ALA SEQRES 12 C 210 VAL GLY GLN ILE CYS MET GLY VAL SER LEU MET GLY LEU SEQRES 13 C 210 ASP SER CYS ILE ILE GLY GLY PHE ASP PRO LEU LYS VAL SEQRES 14 C 210 GLY GLU VAL LEU GLU GLU ARG ILE ASN LYS PRO LYS ILE SEQRES 15 C 210 ALA CYS LEU ILE ALA LEU GLY LYS ARG VAL ALA GLU ALA SEQRES 16 C 210 SER GLN LYS SER ARG LYS SER LYS VAL ASP ALA ILE THR SEQRES 17 C 210 TRP LEU SEQRES 1 D 210 MET LYS PHE LEU ASP GLN GLU LYS ARG ARG GLN LEU LEU SEQRES 2 D 210 ASN GLU ARG HIS SER CYS LYS MET PHE ASP SER HIS TYR SEQRES 3 D 210 GLU PHE SER SER THR GLU LEU GLU GLU ILE ALA GLU ILE SEQRES 4 D 210 ALA ARG LEU SER PRO SER SER TYR ASN THR GLN PRO TRP SEQRES 5 D 210 HIS PHE VAL MET VAL THR ASP LYS ASP LEU LYS LYS GLN SEQRES 6 D 210 ILE ALA ALA HIS SER TYR PHE ASN GLU GLU MET ILE LYS SEQRES 7 D 210 SER ALA SER ALA LEU MET VAL VAL CYS SER LEU ARG PRO SEQRES 8 D 210 SER GLU LEU LEU PRO HIS GLY HIS TYR MET GLN ASN LEU SEQRES 9 D 210 TYR PRO GLU SER TYR LYS VAL ARG VAL ILE PRO SER PHE SEQRES 10 D 210 ALA GLN MET LEU GLY VAL ARG PHE ASN HIS SER MET GLN SEQRES 11 D 210 ARG LEU GLU SER TYR ILE LEU GLU GLN CYS TYR ILE ALA SEQRES 12 D 210 VAL GLY GLN ILE CYS MET GLY VAL SER LEU MET GLY LEU SEQRES 13 D 210 ASP SER CYS ILE ILE GLY GLY PHE ASP PRO LEU LYS VAL SEQRES 14 D 210 GLY GLU VAL LEU GLU GLU ARG ILE ASN LYS PRO LYS ILE SEQRES 15 D 210 ALA CYS LEU ILE ALA LEU GLY LYS ARG VAL ALA GLU ALA SEQRES 16 D 210 SER GLN LYS SER ARG LYS SER LYS VAL ASP ALA ILE THR SEQRES 17 D 210 TRP LEU HET FMN A 300 31 HET GOL A 211 6 HET FMN B 300 31 HET FMN C 300 31 HET FMN D 300 31 HET GOL D 211 6 HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM GOL GLYCEROL HETSYN FMN RIBOFLAVIN MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 FMN 4(C17 H21 N4 O9 P) FORMUL 6 GOL 2(C3 H8 O3) FORMUL 11 HOH *170(H2 O) HELIX 1 1 ASP A 5 ARG A 16 1 12 HELIX 2 2 SER A 29 LEU A 42 1 14 HELIX 3 3 SER A 45 THR A 49 5 5 HELIX 4 4 ASP A 59 ALA A 68 1 10 HELIX 5 5 HIS A 69 PHE A 72 5 4 HELIX 6 6 ASN A 73 ALA A 80 1 8 HELIX 7 7 ARG A 90 LEU A 95 1 6 HELIX 8 8 GLN A 130 GLY A 155 1 26 HELIX 9 9 ASP A 165 VAL A 172 1 8 HELIX 10 10 SER A 202 ALA A 206 1 5 HELIX 11 11 ASP B 5 ARG B 16 1 12 HELIX 12 12 SER B 29 LEU B 42 1 14 HELIX 13 13 SER B 45 THR B 49 5 5 HELIX 14 14 ASP B 59 ALA B 68 1 10 HELIX 15 15 HIS B 69 PHE B 72 5 4 HELIX 16 16 ASN B 73 ALA B 80 1 8 HELIX 17 17 TYR B 135 GLU B 138 5 4 HELIX 18 18 GLN B 139 MET B 154 1 16 HELIX 19 19 ASP B 165 GLU B 174 1 10 HELIX 20 20 SER B 202 ALA B 206 1 5 HELIX 21 21 ASP C 5 ARG C 16 1 12 HELIX 22 22 SER C 29 LEU C 42 1 14 HELIX 23 23 SER C 45 THR C 49 5 5 HELIX 24 24 ASP C 59 ALA C 68 1 10 HELIX 25 25 HIS C 69 PHE C 72 5 4 HELIX 26 26 ASN C 73 ALA C 80 1 8 HELIX 27 27 ARG C 90 LEU C 95 1 6 HELIX 28 28 GLN C 130 MET C 154 1 25 HELIX 29 29 ASP C 165 GLU C 175 1 11 HELIX 30 30 SER C 202 ALA C 206 1 5 HELIX 31 31 ASP D 5 ARG D 16 1 12 HELIX 32 32 SER D 29 LEU D 42 1 14 HELIX 33 33 SER D 45 THR D 49 5 5 HELIX 34 34 ASP D 59 ALA D 68 1 10 HELIX 35 35 HIS D 69 PHE D 72 5 4 HELIX 36 36 ASN D 73 ALA D 80 1 8 HELIX 37 37 TYR D 135 GLU D 138 5 4 HELIX 38 38 GLN D 139 MET D 154 1 16 HELIX 39 39 ASP D 165 GLU D 174 1 10 HELIX 40 40 GLU D 175 ILE D 177 5 3 HELIX 41 41 SER D 202 ALA D 206 1 5 SHEET 1 A 5 ASP A 157 ILE A 161 0 SHEET 2 A 5 LYS A 181 GLY A 189 -1 O GLY A 189 N ASP A 157 SHEET 3 A 5 ALA A 82 SER A 88 -1 N MET A 84 O ILE A 186 SHEET 4 A 5 TRP A 52 VAL A 57 -1 N HIS A 53 O CYS A 87 SHEET 5 A 5 ILE B 207 TRP B 209 1 O THR B 208 N MET A 56 SHEET 1 B 5 ILE A 207 LEU A 210 0 SHEET 2 B 5 TRP B 52 VAL B 57 1 O MET B 56 N THR A 208 SHEET 3 B 5 ALA B 82 SER B 88 -1 O VAL B 85 N VAL B 55 SHEET 4 B 5 ILE B 182 GLY B 189 -1 O ILE B 186 N MET B 84 SHEET 5 B 5 ASP B 157 ILE B 161 -1 N ILE B 161 O LEU B 185 SHEET 1 C 5 ASP C 157 ILE C 161 0 SHEET 2 C 5 ILE C 182 GLY C 189 -1 O LEU C 185 N ILE C 161 SHEET 3 C 5 ALA C 82 SER C 88 -1 N VAL C 86 O ALA C 183 SHEET 4 C 5 TRP C 52 VAL C 57 -1 N VAL C 55 O VAL C 85 SHEET 5 C 5 ILE D 207 TRP D 209 1 O THR D 208 N MET C 56 SHEET 1 D 5 ILE C 207 TRP C 209 0 SHEET 2 D 5 TRP D 52 VAL D 57 1 O MET D 56 N THR C 208 SHEET 3 D 5 ALA D 82 SER D 88 -1 O VAL D 85 N VAL D 55 SHEET 4 D 5 ILE D 182 GLY D 189 -1 O ALA D 183 N VAL D 86 SHEET 5 D 5 ASP D 157 ILE D 161 -1 N ILE D 161 O LEU D 185 CISPEP 1 SER B 134 TYR B 135 0 6.96 CISPEP 2 PRO B 180 LYS B 181 0 -7.22 CISPEP 3 PRO D 180 LYS D 181 0 0.42 SITE 1 AC1 19 ARG A 16 HIS A 17 SER A 18 LYS A 20 SITE 2 AC1 19 ASN A 73 CYS A 159 ILE A 160 ILE A 161 SITE 3 AC1 19 GLY A 162 GLY A 163 LYS A 198 ARG A 200 SITE 4 AC1 19 HOH A 216 PRO B 44 SER B 45 SER B 46 SITE 5 AC1 19 ASN B 48 GLN B 139 ILE B 142 SITE 1 AC2 18 PRO A 44 SER A 45 SER A 46 ASN A 48 SITE 2 AC2 18 ILE A 142 ARG B 16 HIS B 17 SER B 18 SITE 3 AC2 18 LYS B 20 ASN B 73 ILE B 160 ILE B 161 SITE 4 AC2 18 GLY B 162 GLY B 163 LYS B 198 ARG B 200 SITE 5 AC2 18 HOH B 211 HOH B 228 SITE 1 AC3 19 ARG C 16 HIS C 17 SER C 18 LYS C 20 SITE 2 AC3 19 PHE C 72 ASN C 73 ILE C 160 ILE C 161 SITE 3 AC3 19 GLY C 162 GLY C 163 LYS C 198 ARG C 200 SITE 4 AC3 19 HOH C 240 PRO D 44 SER D 45 SER D 46 SITE 5 AC3 19 ASN D 48 GLN D 139 ILE D 142 SITE 1 AC4 21 PRO C 44 SER C 45 SER C 46 ASN C 48 SITE 2 AC4 21 GLN C 139 ILE C 142 HOH C 249 ARG D 16 SITE 3 AC4 21 HIS D 17 SER D 18 LYS D 20 PHE D 72 SITE 4 AC4 21 ASN D 73 MET D 76 ILE D 160 ILE D 161 SITE 5 AC4 21 GLY D 162 GLY D 163 LYS D 198 ARG D 200 SITE 6 AC4 21 HOH D 233 SITE 1 AC5 2 TRP D 209 HOH D 260 SITE 1 AC6 1 GLU A 34 CRYST1 49.440 49.440 304.480 90.00 90.00 90.00 P 41 16 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 0.020227 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020227 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003284 0.00000