HEADER OXIDOREDUCTASE 21-MAY-09 3HJ9 TITLE CRYSTAL STRUCTURE OF A PUTATIVE NITROREDUCTASE (REUT_A1228) FROM TITLE 2 RALSTONIA EUTROPHA JMP134 AT 2.00 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: OXIDOREDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RALSTONIA EUTROPHA; SOURCE 3 ORGANISM_TAXID: 264198; SOURCE 4 STRAIN: JMP134; SOURCE 5 GENE: REUT_A1228, YP_295443.1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, PSI-2, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 5 24-JUL-19 3HJ9 1 REMARK LINK REVDAT 4 01-NOV-17 3HJ9 1 REMARK REVDAT 3 13-JUL-11 3HJ9 1 VERSN REVDAT 2 23-MAR-11 3HJ9 1 TITLE KEYWDS REVDAT 1 16-JUN-09 3HJ9 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF OXIDOREDUCTASE (YP_295443.1) FROM JRNL TITL 2 RALSTONIA EUTROPHA JMP134 AT 2.00 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0053 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 68.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 33851 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) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1715 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) : 2299 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.13 REMARK 3 BIN R VALUE (WORKING SET) : 0.2470 REMARK 3 BIN FREE R VALUE SET COUNT : 142 REMARK 3 BIN FREE R VALUE : 0.2580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3231 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 75 REMARK 3 SOLVENT ATOMS : 287 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 22.83 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.67000 REMARK 3 B22 (A**2) : -1.67000 REMARK 3 B33 (A**2) : 2.51000 REMARK 3 B12 (A**2) : -0.84000 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): 0.162 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.143 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.104 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.948 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3463 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2354 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4743 ; 1.736 ; 2.009 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5734 ; 1.378 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 449 ; 4.077 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 139 ;31.933 ;22.662 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 545 ;11.602 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;13.849 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 519 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3863 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 683 ; 0.002 ; 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): 2163 ; 1.166 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 863 ; 0.260 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3470 ; 1.899 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1300 ; 1.251 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1260 ; 1.915 ; 3.000 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 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 216 REMARK 3 ORIGIN FOR THE GROUP (A): -20.1126 52.0091 7.0021 REMARK 3 T TENSOR REMARK 3 T11: 0.0583 T22: 0.0148 REMARK 3 T33: 0.0044 T12: -0.0183 REMARK 3 T13: 0.0002 T23: 0.0036 REMARK 3 L TENSOR REMARK 3 L11: 2.2017 L22: 1.8790 REMARK 3 L33: 2.0064 L12: -0.1332 REMARK 3 L13: -0.5132 L23: -0.0937 REMARK 3 S TENSOR REMARK 3 S11: -0.0402 S12: 0.1088 S13: 0.0675 REMARK 3 S21: -0.1179 S22: 0.0452 S23: -0.0585 REMARK 3 S31: -0.0593 S32: 0.0617 S33: -0.0050 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 7 B 216 REMARK 3 ORIGIN FOR THE GROUP (A): -32.8998 41.5341 25.6409 REMARK 3 T TENSOR REMARK 3 T11: 0.0618 T22: 0.0518 REMARK 3 T33: 0.0146 T12: -0.0207 REMARK 3 T13: -0.0012 T23: 0.0091 REMARK 3 L TENSOR REMARK 3 L11: 1.6264 L22: 2.4878 REMARK 3 L33: 1.9209 L12: 0.5239 REMARK 3 L13: -0.4282 L23: -0.1221 REMARK 3 S TENSOR REMARK 3 S11: 0.0492 S12: -0.1613 S13: -0.1055 REMARK 3 S21: 0.1830 S22: -0.0018 S23: 0.0259 REMARK 3 S31: 0.1599 S32: -0.0925 S33: -0.0474 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. ATOM RECORDS CONTAIN RESIDUAL B FACTORS REMARK 3 ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE REMARK 3 ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED REMARK 3 SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. ACETATE REMARK 3 ION (ACT), MG ION, AND 2-METHYL-2,4-PENTANEDIOL (MPD) MOLECULE REMARK 3 FROM THE CRYSTALLIZATION/CRYOPROTECTION SOLUTIONS ARE MODELED. REMARK 3 5. ONE FLAVIN MONONUCLEOTIDE (FMN) MOLECULE IS MODELED IN EACH REMARK 3 CHAIN BASED ON THE DENSITY. REMARK 4 REMARK 4 3HJ9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-MAY-09. REMARK 100 THE DEPOSITION ID IS D_1000053200. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-FEB-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837,0.97837 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.25 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33910 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 68.359 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.10500 REMARK 200 R SYM (I) : 0.10500 REMARK 200 FOR THE DATA SET : 5.9250 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 (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.45100 REMARK 200 R SYM FOR SHELL (I) : 0.45100 REMARK 200 FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1860M MAGNESIUM ACETATE, 13.6000% REMARK 280 POLYETHYLENE GLYCOL 3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 NANODROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 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 REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 91.03667 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 45.51833 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 0.00000 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 45.51833 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 91.03667 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 300 REMARK: CRYSTAL PACKING ANALYSIS SUGGESTS THE ASSIGNMENT OF A REMARK 300 DIMER AS THE SIGNIFICANT OLIGOMERIZATION STATE. 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: 7220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.0 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 GLY A 0 REMARK 465 MSE A 1 REMARK 465 VAL A 217 REMARK 465 THR A 218 REMARK 465 THR A 219 REMARK 465 THR A 220 REMARK 465 GLN A 221 REMARK 465 ALA A 222 REMARK 465 GLY B 0 REMARK 465 MSE B 1 REMARK 465 ASN B 2 REMARK 465 ASP B 3 REMARK 465 LEU B 4 REMARK 465 LYS B 5 REMARK 465 ARG B 6 REMARK 465 VAL B 217 REMARK 465 THR B 218 REMARK 465 THR B 219 REMARK 465 THR B 220 REMARK 465 GLN B 221 REMARK 465 ALA B 222 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 13 CG CD CE NZ REMARK 470 GLU A 53 CD OE1 OE2 REMARK 470 GLN A 57 CD OE1 NE2 REMARK 470 GLU A 149 CD OE1 OE2 REMARK 470 LYS B 13 CG CD CE NZ REMARK 470 GLN B 57 CD OE1 NE2 REMARK 470 LEU B 78 CG CD1 CD2 REMARK 470 ARG B 190 CD NE CZ NH1 NH2 REMARK 470 GLU B 200 CG CD OE1 OE2 REMARK 470 ARG B 212 NE CZ NH1 NH2 REMARK 470 HIS B 216 CG ND1 CD2 CE1 NE2 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 B 105 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG B 117 NE - CZ - NH1 ANGL. DEV. = 3.5 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 THR A 36 -82.79 -80.00 REMARK 500 TYR A 88 14.75 55.19 REMARK 500 LYS B 13 -178.31 -63.63 REMARK 500 REMARK 500 REMARK: NULL 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 MG B 223 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 229 O REMARK 620 2 HOH B 239 O 88.4 REMARK 620 3 HOH B 228 O 85.2 88.9 REMARK 620 4 HOH B 226 O 79.7 86.5 164.3 REMARK 620 5 HOH B 235 O 76.2 163.9 94.3 86.3 REMARK 620 6 HOH B 240 O 167.8 99.0 104.4 91.1 95.4 REMARK 620 N 1 2 3 4 5 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 ACT A 223 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 224 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN B 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 223 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 391221 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3HJ9 A 1 222 UNP Q472T4 Q472T4_RALEJ 1 222 DBREF 3HJ9 B 1 222 UNP Q472T4 Q472T4_RALEJ 1 222 SEQADV 3HJ9 GLY A 0 UNP Q472T4 LEADER SEQUENCE SEQADV 3HJ9 GLY B 0 UNP Q472T4 LEADER SEQUENCE SEQRES 1 A 223 GLY MSE ASN ASP LEU LYS ARG LEU PRO TYR GLU PRO VAL SEQRES 2 A 223 LYS GLY LEU LEU PRO ARG PRO ALA VAL GLY THR SER GLU SEQRES 3 A 223 ARG VAL ILE THR LEU PRO GLU PRO ASP ARG THR SER GLY SEQRES 4 A 223 MSE PRO LEU MSE GLY THR LEU TRP LEU ARG LYS SER THR SEQRES 5 A 223 ARG GLU PHE ASP GLN GLN PRO LEU PRO LEU LYS GLN LEU SEQRES 6 A 223 SER GLU LEU LEU TRP ALA ALA ALA GLY VAL ASN ARG SER SEQRES 7 A 223 LEU GLY GLY GLY ARG THR ALA PRO SER PRO TYR GLY GLU SEQRES 8 A 223 THR VAL ILE ASP VAL TYR VAL ALA LEU PRO ALA GLY LEU SEQRES 9 A 223 TYR ARG TYR ASP PRO VAL HIS HIS CYS LEU GLU LEU LYS SEQRES 10 A 223 ARG ALA ALA ASP LEU ARG SER MSE THR GLY TYR GLN ASP SEQRES 11 A 223 PHE VAL GLY MSE ALA PRO LEU ASP LEU VAL PHE VAL ALA SEQRES 12 A 223 ASN HIS GLY ARG MSE GLN GLU MSE PRO PRO LYS LEU ARG SEQRES 13 A 223 GLU THR PHE SER ALA ALA ALA ALA GLY ALA MSE ALA GLU SEQRES 14 A 223 ASN ALA TYR LEU TYR CYS ALA SER ALA GLY LEU GLY ALA SEQRES 15 A 223 VAL VAL ARG GLY TRP LEU ASN ARG ARG GLN LEU ALA GLU SEQRES 16 A 223 HIS MSE SER LEU ASN GLU ASP GLU GLU PRO ILE LEU SER SEQRES 17 A 223 GLN THR ILE GLY ARG ALA ALA SER HIS VAL THR THR THR SEQRES 18 A 223 GLN ALA SEQRES 1 B 223 GLY MSE ASN ASP LEU LYS ARG LEU PRO TYR GLU PRO VAL SEQRES 2 B 223 LYS GLY LEU LEU PRO ARG PRO ALA VAL GLY THR SER GLU SEQRES 3 B 223 ARG VAL ILE THR LEU PRO GLU PRO ASP ARG THR SER GLY SEQRES 4 B 223 MSE PRO LEU MSE GLY THR LEU TRP LEU ARG LYS SER THR SEQRES 5 B 223 ARG GLU PHE ASP GLN GLN PRO LEU PRO LEU LYS GLN LEU SEQRES 6 B 223 SER GLU LEU LEU TRP ALA ALA ALA GLY VAL ASN ARG SER SEQRES 7 B 223 LEU GLY GLY GLY ARG THR ALA PRO SER PRO TYR GLY GLU SEQRES 8 B 223 THR VAL ILE ASP VAL TYR VAL ALA LEU PRO ALA GLY LEU SEQRES 9 B 223 TYR ARG TYR ASP PRO VAL HIS HIS CYS LEU GLU LEU LYS SEQRES 10 B 223 ARG ALA ALA ASP LEU ARG SER MSE THR GLY TYR GLN ASP SEQRES 11 B 223 PHE VAL GLY MSE ALA PRO LEU ASP LEU VAL PHE VAL ALA SEQRES 12 B 223 ASN HIS GLY ARG MSE GLN GLU MSE PRO PRO LYS LEU ARG SEQRES 13 B 223 GLU THR PHE SER ALA ALA ALA ALA GLY ALA MSE ALA GLU SEQRES 14 B 223 ASN ALA TYR LEU TYR CYS ALA SER ALA GLY LEU GLY ALA SEQRES 15 B 223 VAL VAL ARG GLY TRP LEU ASN ARG ARG GLN LEU ALA GLU SEQRES 16 B 223 HIS MSE SER LEU ASN GLU ASP GLU GLU PRO ILE LEU SER SEQRES 17 B 223 GLN THR ILE GLY ARG ALA ALA SER HIS VAL THR THR THR SEQRES 18 B 223 GLN ALA MODRES 3HJ9 MSE A 39 MET SELENOMETHIONINE MODRES 3HJ9 MSE A 42 MET SELENOMETHIONINE MODRES 3HJ9 MSE A 124 MET SELENOMETHIONINE MODRES 3HJ9 MSE A 133 MET SELENOMETHIONINE MODRES 3HJ9 MSE A 147 MET SELENOMETHIONINE MODRES 3HJ9 MSE A 150 MET SELENOMETHIONINE MODRES 3HJ9 MSE A 166 MET SELENOMETHIONINE MODRES 3HJ9 MSE A 196 MET SELENOMETHIONINE MODRES 3HJ9 MSE B 39 MET SELENOMETHIONINE MODRES 3HJ9 MSE B 42 MET SELENOMETHIONINE MODRES 3HJ9 MSE B 124 MET SELENOMETHIONINE MODRES 3HJ9 MSE B 133 MET SELENOMETHIONINE MODRES 3HJ9 MSE B 147 MET SELENOMETHIONINE MODRES 3HJ9 MSE B 150 MET SELENOMETHIONINE MODRES 3HJ9 MSE B 166 MET SELENOMETHIONINE MODRES 3HJ9 MSE B 196 MET SELENOMETHIONINE HET MSE A 39 8 HET MSE A 42 8 HET MSE A 124 13 HET MSE A 133 8 HET MSE A 147 8 HET MSE A 150 8 HET MSE A 166 8 HET MSE A 196 8 HET MSE B 39 8 HET MSE B 42 8 HET MSE B 124 13 HET MSE B 133 8 HET MSE B 147 8 HET MSE B 150 13 HET MSE B 166 8 HET MSE B 196 8 HET FMN A 300 31 HET ACT A 223 4 HET MPD A 224 8 HET FMN B 300 31 HET MG B 223 1 HETNAM MSE SELENOMETHIONINE HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM ACT ACETATE ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM MG MAGNESIUM ION HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 1 MSE 16(C5 H11 N O2 SE) FORMUL 3 FMN 2(C17 H21 N4 O9 P) FORMUL 4 ACT C2 H3 O2 1- FORMUL 5 MPD C6 H14 O2 FORMUL 7 MG MG 2+ FORMUL 8 HOH *287(H2 O) HELIX 1 1 ASN A 2 LEU A 7 5 6 HELIX 2 2 PRO A 40 ARG A 48 1 9 HELIX 3 3 PRO A 60 GLY A 73 1 14 HELIX 4 4 SER A 77 GLY A 80 5 4 HELIX 5 5 SER A 86 GLU A 90 5 5 HELIX 6 6 GLY A 145 MSE A 147 5 3 HELIX 7 7 PRO A 151 LYS A 153 5 3 HELIX 8 8 LEU A 154 ALA A 177 1 24 HELIX 9 9 ASN A 188 MSE A 196 1 9 HELIX 10 10 PRO B 40 ARG B 48 1 9 HELIX 11 11 PRO B 60 GLY B 73 1 14 HELIX 12 12 SER B 86 GLU B 90 5 5 HELIX 13 13 GLY B 145 MSE B 147 5 3 HELIX 14 14 PRO B 151 GLY B 178 1 28 HELIX 15 15 ASN B 188 MSE B 196 1 9 SHEET 1 A 2 GLU A 10 PRO A 11 0 SHEET 2 A 2 TYR A 127 GLN A 128 -1 O GLN A 128 N GLU A 10 SHEET 1 B 2 ARG A 18 PRO A 19 0 SHEET 2 B 2 ALA A 119 ASP A 120 -1 O ASP A 120 N ARG A 18 SHEET 1 C 7 VAL A 27 THR A 29 0 SHEET 2 C 7 CYS A 112 ARG A 117 -1 O LEU A 113 N ILE A 28 SHEET 3 C 7 GLY A 102 ASP A 107 -1 N LEU A 103 O LYS A 116 SHEET 4 C 7 ILE A 93 LEU A 99 -1 N VAL A 97 O TYR A 104 SHEET 5 C 7 LEU A 136 ASN A 143 -1 O VAL A 141 N ASP A 94 SHEET 6 C 7 GLU A 202 GLY A 211 -1 O GLU A 203 N ALA A 142 SHEET 7 C 7 GLY A 180 ARG A 184 -1 N GLY A 180 O GLY A 211 SHEET 1 D 2 VAL A 74 ARG A 76 0 SHEET 2 D 2 GLY A 81 ARG A 82 -1 O GLY A 81 N ASN A 75 SHEET 1 E 2 GLU B 10 PRO B 11 0 SHEET 2 E 2 TYR B 127 GLN B 128 -1 O GLN B 128 N GLU B 10 SHEET 1 F 2 ARG B 18 PRO B 19 0 SHEET 2 F 2 ALA B 119 ASP B 120 -1 O ASP B 120 N ARG B 18 SHEET 1 G 7 VAL B 27 THR B 29 0 SHEET 2 G 7 CYS B 112 ARG B 117 -1 O LEU B 113 N ILE B 28 SHEET 3 G 7 GLY B 102 ASP B 107 -1 N LEU B 103 O LYS B 116 SHEET 4 G 7 ILE B 93 LEU B 99 -1 N VAL B 97 O TYR B 104 SHEET 5 G 7 LEU B 136 ASN B 143 -1 O VAL B 141 N ASP B 94 SHEET 6 G 7 GLU B 202 GLY B 211 -1 O LEU B 206 N PHE B 140 SHEET 7 G 7 GLY B 180 ARG B 184 -1 N ARG B 184 O SER B 207 SHEET 1 H 2 VAL B 74 ARG B 76 0 SHEET 2 H 2 GLY B 81 ARG B 82 -1 O GLY B 81 N ASN B 75 LINK C GLY A 38 N MSE A 39 1555 1555 1.33 LINK C MSE A 39 N PRO A 40 1555 1555 1.36 LINK C LEU A 41 N MSE A 42 1555 1555 1.34 LINK C MSE A 42 N GLY A 43 1555 1555 1.34 LINK C SER A 123 N MSE A 124 1555 1555 1.34 LINK C MSE A 124 N THR A 125 1555 1555 1.34 LINK C GLY A 132 N MSE A 133 1555 1555 1.33 LINK C MSE A 133 N ALA A 134 1555 1555 1.32 LINK C ARG A 146 N MSE A 147 1555 1555 1.34 LINK C MSE A 147 N GLN A 148 1555 1555 1.34 LINK C GLU A 149 N MSE A 150 1555 1555 1.35 LINK C MSE A 150 N PRO A 151 1555 1555 1.36 LINK C ALA A 165 N MSE A 166 1555 1555 1.33 LINK C MSE A 166 N ALA A 167 1555 1555 1.33 LINK C HIS A 195 N MSE A 196 1555 1555 1.34 LINK C MSE A 196 N SER A 197 1555 1555 1.35 LINK C GLY B 38 N MSE B 39 1555 1555 1.33 LINK C MSE B 39 N PRO B 40 1555 1555 1.34 LINK C LEU B 41 N MSE B 42 1555 1555 1.33 LINK C MSE B 42 N GLY B 43 1555 1555 1.34 LINK C SER B 123 N MSE B 124 1555 1555 1.33 LINK C MSE B 124 N THR B 125 1555 1555 1.33 LINK C GLY B 132 N MSE B 133 1555 1555 1.33 LINK C MSE B 133 N ALA B 134 1555 1555 1.33 LINK C ARG B 146 N MSE B 147 1555 1555 1.34 LINK C MSE B 147 N GLN B 148 1555 1555 1.34 LINK C GLU B 149 N MSE B 150 1555 1555 1.33 LINK C MSE B 150 N PRO B 151 1555 1555 1.35 LINK C ALA B 165 N MSE B 166 1555 1555 1.31 LINK C MSE B 166 N ALA B 167 1555 1555 1.34 LINK C HIS B 195 N MSE B 196 1555 1555 1.33 LINK C MSE B 196 N SER B 197 1555 1555 1.35 LINK MG MG B 223 O HOH B 229 1555 1555 2.05 LINK MG MG B 223 O HOH B 239 1555 1555 1.97 LINK MG MG B 223 O HOH B 228 1555 1555 1.94 LINK MG MG B 223 O HOH B 226 1555 1555 1.96 LINK MG MG B 223 O HOH B 235 1555 1555 2.02 LINK MG MG B 223 O HOH B 240 1555 1555 1.98 SITE 1 AC1 22 ARG A 48 LYS A 49 SER A 50 ARG A 52 SITE 2 AC1 22 ASP A 129 VAL A 131 VAL A 183 ARG A 184 SITE 3 AC1 22 GLY A 185 TRP A 186 ACT A 223 HOH A 236 SITE 4 AC1 22 HOH A 247 HOH A 248 HOH A 254 HOH A 356 SITE 5 AC1 22 ARG B 76 PRO B 85 SER B 86 GLY B 89 SITE 6 AC1 22 PHE B 158 ALA B 161 SITE 1 AC2 5 TYR A 9 FMN A 300 HOH A 356 TYR B 88 SITE 2 AC2 5 PHE B 158 SITE 1 AC3 6 LEU A 7 ARG A 26 ARG A 105 LEU A 115 SITE 2 AC3 6 LYS A 116 HOH A 290 SITE 1 AC4 21 ARG A 76 PRO A 85 SER A 86 PRO A 87 SITE 2 AC4 21 GLY A 89 TYR B 9 ARG B 48 LYS B 49 SITE 3 AC4 21 SER B 50 ARG B 52 ASP B 129 VAL B 131 SITE 4 AC4 21 VAL B 182 VAL B 183 ARG B 184 GLY B 185 SITE 5 AC4 21 TRP B 186 HOH B 244 HOH B 251 HOH B 253 SITE 6 AC4 21 HOH B 316 SITE 1 AC5 6 HOH B 226 HOH B 228 HOH B 229 HOH B 235 SITE 2 AC5 6 HOH B 239 HOH B 240 CRYST1 78.865 78.865 136.555 90.00 90.00 120.00 P 32 2 1 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 0.012680 0.007321 0.000000 0.00000 SCALE2 0.000000 0.014641 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007323 0.00000 MASTER 426 0 21 15 26 0 18 6 0 0 0 36 END