HEADER OXIDOREDUCTASE 30-JAN-16 5HXI TITLE 2-METHYL-3-HYDROXYPYRIDINE-5-CARBOXYLIC ACID OXYGENASE, 5HN BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-METHYL-3-HYDROXYPYRIDINE-5-CARBOXYLIC ACID OXYGENASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHIZOBIUM LOTI (STRAIN MAFF303099); SOURCE 3 ORGANISM_TAXID: 266835; SOURCE 4 STRAIN: MAFF303099; SOURCE 5 GENE: MLR6788; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS ALPHA/BETA FOLD, FLAVOENZYME, SUBSTRATE COMPLEX, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.KOBAYASHI,B.MIKAMI REVDAT 4 20-MAR-24 5HXI 1 REMARK REVDAT 3 19-FEB-20 5HXI 1 REMARK REVDAT 2 08-FEB-17 5HXI 1 JRNL REVDAT 1 12-OCT-16 5HXI 0 JRNL AUTH J.KOBAYASHI,H.YOSHIDA,T.YAGI,S.KAMITORI,H.HAYASHI, JRNL AUTH 2 K.MIZUTANI,N.TAKAHASHI,B.MIKAMI JRNL TITL ROLE OF THE TYR270 RESIDUE IN JRNL TITL 2 2-METHYL-3-HYDROXYPYRIDINE-5-CARBOXYLIC ACID OXYGENASE FROM JRNL TITL 3 MESORHIZOBIUM LOTI JRNL REF J. BIOSCI. BIOENG. V. 123 154 2017 JRNL REFN ISSN 1347-4421 JRNL PMID 27568368 JRNL DOI 10.1016/J.JBIOSC.2016.07.022 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 65011 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) : 0.152 REMARK 3 R VALUE (WORKING SET) : 0.151 REMARK 3 FREE R VALUE : 0.174 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3468 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4624 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.88 REMARK 3 BIN R VALUE (WORKING SET) : 0.1760 REMARK 3 BIN FREE R VALUE SET COUNT : 247 REMARK 3 BIN FREE R VALUE : 0.1920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2866 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 100 REMARK 3 SOLVENT ATOMS : 476 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.59 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.73000 REMARK 3 B22 (A**2) : -0.48000 REMARK 3 B33 (A**2) : -0.25000 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): 0.076 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.062 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.036 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.097 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3175 ; 0.005 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2999 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4339 ; 1.191 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6908 ; 0.854 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 414 ; 5.863 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 140 ;32.868 ;23.214 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 516 ;10.864 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;14.948 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 471 ; 0.067 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3606 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 740 ; 0.001 ; 0.020 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): 1530 ; 0.460 ; 1.203 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1529 ; 0.459 ; 1.203 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1926 ; 0.559 ; 1.806 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1927 ; 0.559 ; 1.806 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1645 ; 0.509 ; 1.325 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1645 ; 0.509 ; 1.325 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2394 ; 0.607 ; 1.933 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4162 ; 1.471 ;11.309 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4163 ; 1.471 ;11.311 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 6173 ; 0.425 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 113 ;18.160 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 6456 ; 4.071 ; 5.000 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 REMARK 4 REMARK 4 5HXI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000216315. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-MAY-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 68494 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 93.130 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.37900 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: REFMAC REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8% PEG8000, 0.1M TRIS-HCL PH 8.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+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 0.00000 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 0.00000 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 24.66900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 65.57000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 66.14100 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 24.66900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 65.57000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 66.14100 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 24.66900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 65.57000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 66.14100 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 24.66900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 65.57000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 66.14100 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 54190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 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 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 811 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 815 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 ALA A 2 REMARK 465 ASN A 3 REMARK 465 VAL A 4 REMARK 465 ASN A 5 REMARK 465 LYS A 6 REMARK 465 THR A 7 REMARK 465 PRO A 8 REMARK 465 GLY A 9 REMARK 465 LYS A 10 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 45 CD OE1 OE2 REMARK 480 ARG A 47 CD 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 ARG A 47 CD ARG A 47 NE 0.325 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 ARG A 47 CB - CG - CD ANGL. DEV. = 21.9 DEGREES REMARK 500 ARG A 47 CG - CD - NE ANGL. DEV. = 16.9 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 ALA A 51 -75.13 72.81 REMARK 500 GLU A 195 68.27 -115.80 REMARK 500 GLU A 195 69.21 -116.38 REMARK 500 ASN A 218 -174.04 -176.01 REMARK 500 HIS A 291 38.53 -150.70 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 47 0.16 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 974 DISTANCE = 6.00 ANGSTROMS REMARK 525 HOH A 975 DISTANCE = 6.14 ANGSTROMS REMARK 525 HOH A 976 DISTANCE = 7.29 ANGSTROMS REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 GOL A 406 REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 404 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 343 OG REMARK 620 2 HOH A 827 O 64.5 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5HN A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 410 DBREF 5HXI A 1 379 UNP Q988D3 Q988D3_RHILO 1 379 SEQRES 1 A 379 MET ALA ASN VAL ASN LYS THR PRO GLY LYS THR ARG ARG SEQRES 2 A 379 ALA GLU VAL ALA GLY GLY GLY PHE ALA GLY LEU THR ALA SEQRES 3 A 379 ALA ILE ALA LEU LYS GLN ASN GLY TRP ASP VAL ARG LEU SEQRES 4 A 379 HIS GLU LYS SER SER GLU LEU ARG ALA PHE GLY ALA GLY SEQRES 5 A 379 ILE TYR LEU TRP HIS ASN GLY LEU ARG VAL LEU GLU GLY SEQRES 6 A 379 LEU GLY ALA LEU ASP ASP VAL LEU GLN GLY SER HIS THR SEQRES 7 A 379 PRO PRO THR TYR GLU THR TRP MET HIS ASN LYS SER VAL SEQRES 8 A 379 SER LYS GLU THR PHE ASN GLY LEU PRO TRP ARG ILE MET SEQRES 9 A 379 THR ARG SER HIS LEU HIS ASP ALA LEU VAL ASN ARG ALA SEQRES 10 A 379 ARG ALA LEU GLY VAL ASP ILE SER VAL ASN SER GLU ALA SEQRES 11 A 379 VAL ALA ALA ASP PRO VAL GLY ARG LEU THR LEU GLN THR SEQRES 12 A 379 GLY GLU VAL LEU GLU ALA ASP LEU ILE VAL GLY ALA ASP SEQRES 13 A 379 GLY VAL GLY SER LYS VAL ARG ASP SER ILE GLY PHE LYS SEQRES 14 A 379 GLN ASP ARG TRP VAL SER LYS ASP GLY LEU ILE ARG LEU SEQRES 15 A 379 ILE VAL PRO ARG MET LYS LYS GLU LEU GLY HIS GLY GLU SEQRES 16 A 379 TRP ASP ASN THR ILE ASP MET TRP ASN PHE TRP PRO ARG SEQRES 17 A 379 VAL GLN ARG ILE LEU TYR SER PRO CYS ASN GLU ASN GLU SEQRES 18 A 379 LEU TYR LEU GLY LEU MET ALA PRO ALA ALA ASP PRO ARG SEQRES 19 A 379 GLY SER SER VAL PRO ILE ASP LEU GLU VAL TRP VAL GLU SEQRES 20 A 379 MET PHE PRO PHE LEU GLU PRO CYS LEU ILE GLU ALA ALA SEQRES 21 A 379 LYS LEU LYS THR ALA ARG TYR ASP LYS TYR GLU THR THR SEQRES 22 A 379 LYS LEU ASP SER TRP THR ARG GLY LYS VAL ALA LEU VAL SEQRES 23 A 379 GLY ASP ALA ALA HIS ALA MET CYS PRO ALA LEU ALA GLN SEQRES 24 A 379 GLY ALA GLY CYS ALA MET VAL ASN ALA PHE SER LEU SER SEQRES 25 A 379 GLN ASP LEU GLU GLU GLY SER SER VAL GLU ASP ALA LEU SEQRES 26 A 379 VAL ALA TRP GLU THR ARG ILE ARG PRO ILE THR ASP ARG SEQRES 27 A 379 CYS GLN ALA LEU SER GLY ASP TYR ALA ALA ASN ARG SER SEQRES 28 A 379 LEU SER LYS GLY ASN MET PHE THR PRO ALA ALA LEU GLU SEQRES 29 A 379 ALA ALA ARG TYR ASP PRO LEU ARG ARG VAL TYR SER TRP SEQRES 30 A 379 PRO GLN HET FAD A 401 53 HET BME A 402 4 HET 5HN A 403 10 HET NA A 404 1 HET NA A 405 1 HET GOL A 406 6 HET GOL A 407 6 HET GOL A 408 6 HET GOL A 409 6 HET PEG A 410 14 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM BME BETA-MERCAPTOETHANOL HETNAM 5HN 5-HYDROXYPYRIDINE-3-CARBOXYLIC ACID HETNAM NA SODIUM ION HETNAM GOL GLYCEROL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN 5HN 5-HYDROXYNICOTINIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 BME C2 H6 O S FORMUL 4 5HN C6 H5 N O3 FORMUL 5 NA 2(NA 1+) FORMUL 7 GOL 4(C3 H8 O3) FORMUL 11 PEG C4 H10 O3 FORMUL 12 HOH *476(H2 O) HELIX 1 AA1 GLY A 20 ASN A 33 1 14 HELIX 2 AA2 HIS A 57 LEU A 66 1 10 HELIX 3 AA3 ALA A 68 GLN A 74 1 7 HELIX 4 AA4 THR A 95 LEU A 99 5 5 HELIX 5 AA5 ARG A 106 GLY A 121 1 16 HELIX 6 AA6 SER A 160 GLY A 167 1 8 HELIX 7 AA7 MET A 187 GLY A 192 1 6 HELIX 8 AA8 ASP A 241 PHE A 249 1 9 HELIX 9 AA9 LEU A 252 LYS A 261 1 10 HELIX 10 AB1 GLY A 287 ALA A 292 1 6 HELIX 11 AB2 CYS A 294 ALA A 298 5 5 HELIX 12 AB3 GLN A 299 LEU A 315 1 17 HELIX 13 AB4 SER A 320 ARG A 350 1 31 HELIX 14 AB5 SER A 351 GLY A 355 5 5 HELIX 15 AB6 LEU A 363 ARG A 367 1 5 SHEET 1 AA1 6 ASP A 123 SER A 125 0 SHEET 2 AA1 6 ASP A 36 HIS A 40 1 N LEU A 39 O ASP A 123 SHEET 3 AA1 6 ARG A 13 ALA A 17 1 N VAL A 16 O ARG A 38 SHEET 4 AA1 6 LEU A 151 GLY A 154 1 O VAL A 153 N ALA A 17 SHEET 5 AA1 6 VAL A 283 LEU A 285 1 O ALA A 284 N GLY A 154 SHEET 6 AA1 6 THR A 279 ARG A 280 -1 N ARG A 280 O VAL A 283 SHEET 1 AA2 2 GLY A 52 TRP A 56 0 SHEET 2 AA2 2 TRP A 101 THR A 105 -1 O ARG A 102 N LEU A 55 SHEET 1 AA3 7 LYS A 89 GLU A 94 0 SHEET 2 AA3 7 TYR A 82 MET A 86 -1 N TYR A 82 O GLU A 94 SHEET 3 AA3 7 THR A 199 TRP A 203 1 O ASP A 201 N TRP A 85 SHEET 4 AA3 7 ARG A 211 PRO A 216 -1 O ILE A 212 N MET A 202 SHEET 5 AA3 7 GLU A 221 ALA A 228 -1 O MET A 227 N ARG A 211 SHEET 6 AA3 7 GLN A 170 PRO A 185 -1 N VAL A 184 O LEU A 222 SHEET 7 AA3 7 TYR A 267 LEU A 275 -1 O TYR A 270 N SER A 175 SHEET 1 AA4 3 ALA A 130 ASP A 134 0 SHEET 2 AA4 3 ARG A 138 LEU A 141 -1 O THR A 140 N ALA A 132 SHEET 3 AA4 3 VAL A 146 GLU A 148 -1 O LEU A 147 N LEU A 139 SHEET 1 AA5 2 TYR A 368 ASP A 369 0 SHEET 2 AA5 2 VAL A 374 TYR A 375 -1 O VAL A 374 N ASP A 369 LINK OG BSER A 343 NA NA A 404 1555 1555 3.05 LINK NA NA A 404 O HOH A 827 1555 1555 2.71 CISPEP 1 TRP A 206 PRO A 207 0 -0.74 CISPEP 2 VAL A 238 PRO A 239 0 -8.51 SITE 1 AC1 40 GLY A 18 GLY A 20 PHE A 21 ALA A 22 SITE 2 AC1 40 HIS A 40 GLU A 41 LYS A 42 SER A 43 SITE 3 AC1 40 ILE A 53 TYR A 54 ARG A 106 SER A 128 SITE 4 AC1 40 GLU A 129 ALA A 130 ALA A 155 ASP A 156 SITE 5 AC1 40 LEU A 179 ARG A 181 GLY A 287 ASP A 288 SITE 6 AC1 40 PRO A 295 ALA A 298 GLY A 300 ALA A 301 SITE 7 AC1 40 GLY A 302 5HN A 403 HOH A 506 HOH A 507 SITE 8 AC1 40 HOH A 527 HOH A 546 HOH A 576 HOH A 584 SITE 9 AC1 40 HOH A 604 HOH A 624 HOH A 653 HOH A 669 SITE 10 AC1 40 HOH A 671 HOH A 674 HOH A 696 HOH A 803 SITE 1 AC2 5 TYR A 270 CYS A 294 HOH A 533 HOH A 537 SITE 2 AC2 5 HOH A 539 SITE 1 AC3 12 ARG A 211 LEU A 213 TYR A 223 PRO A 295 SITE 2 AC3 12 ALA A 296 LEU A 352 FAD A 401 HOH A 502 SITE 3 AC3 12 HOH A 503 HOH A 505 HOH A 506 HOH A 510 SITE 1 AC4 6 MET A 293 GLN A 299 CYS A 339 SER A 343 SITE 2 AC4 6 NA A 405 HOH A 827 SITE 1 AC5 4 GLN A 299 CYS A 303 CYS A 339 NA A 404 SITE 1 AC6 7 GLN A 74 GLY A 75 SER A 76 ASN A 97 SITE 2 AC6 7 GLU A 219 PRO A 378 HOH A 560 SITE 1 AC7 3 GLU A 364 ARG A 367 TYR A 375 SITE 1 AC8 6 ARG A 47 LYS A 169 ASP A 171 LYS A 274 SITE 2 AC8 6 ASP A 276 HOH A 549 SITE 1 AC9 8 HIS A 57 ARG A 61 LEU A 69 ASP A 369 SITE 2 AC9 8 ARG A 372 SER A 376 TRP A 377 HOH A 854 SITE 1 AD1 7 ASN A 88 PRO A 207 GLU A 247 HOH A 555 SITE 2 AD1 7 HOH A 559 HOH A 608 HOH A 976 CRYST1 49.338 131.140 132.282 90.00 90.00 90.00 I 2 2 2 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 0.020268 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007625 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007560 0.00000