HEADER FLAVOPROTEIN 08-JUN-18 6A1W TITLE MANDELATE OXIDASE WITH THE ENOYL FMN EPOXIDE ADDUCT COMPND MOL_ID: 1; COMPND 2 MOLECULE: 4-HYDROXYMANDELATE OXIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.1.3.46; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AMYCOLATOPSIS ORIENTALIS; SOURCE 3 ORGANISM_COMMON: NOCARDIA ORIENTALIS; SOURCE 4 ORGANISM_TAXID: 31958; SOURCE 5 GENE: HMO; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS FMN-DEPENDENT OXIDASE, FLAVOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.L.LI,K.H.LIN REVDAT 4 22-NOV-23 6A1W 1 REMARK REVDAT 3 15-JUL-20 6A1W 1 JRNL REVDAT 2 29-APR-20 6A1W 1 COMPND REMARK HELIX SHEET REVDAT 2 2 1 LINK SITE SCALE ATOM REVDAT 1 19-JUN-19 6A1W 0 JRNL AUTH K.H.LIN,S.Y.LYU,H.W.YEH,Y.S.LI,N.S.HSU,C.M.HUANG,Y.L.WANG, JRNL AUTH 2 H.W.SHIH,Z.C.WANG,C.J.WU,T.L.LI JRNL TITL STRUCTURAL AND CHEMICAL TRAPPING OF FLAVIN-OXIDE JRNL TITL 2 INTERMEDIATES REVEALS SUBSTRATE-DIRECTED REACTION JRNL TITL 3 MULTIPLICITY. JRNL REF PROTEIN SCI. V. 29 1655 2020 JRNL REFN ESSN 1469-896X JRNL PMID 32362037 JRNL DOI 10.1002/PRO.3879 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0222 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 53954 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) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2913 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3380 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.31 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 180 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2490 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 346 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.09000 REMARK 3 B22 (A**2) : -0.09000 REMARK 3 B33 (A**2) : 0.17000 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): 0.077 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.077 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.052 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.631 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2717 ; 0.018 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 2493 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3731 ; 2.110 ; 1.671 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5833 ; 1.159 ; 1.638 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 373 ; 6.141 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 151 ;26.852 ;19.205 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 438 ;14.846 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;16.981 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 350 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3198 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 492 ; 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): 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 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6A1W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 15-JUN-18. REMARK 100 THE DEPOSITION ID IS D_1300008027. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-AUG-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL15A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58282 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 9.800 REMARK 200 R MERGE (I) : 0.03700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 34.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 9.70 REMARK 200 R MERGE FOR SHELL (I) : 0.65000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX (1.11.1_2575) REMARK 200 STARTING MODEL: 3SGZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35% TASCIMATE, 0.1M BIS-TRIS PROPANE REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+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 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 0.00000 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 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 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 68.77050 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 68.77050 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 56.09000 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 68.77050 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 68.77050 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 56.09000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 68.77050 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 68.77050 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 56.09000 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 68.77050 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 68.77050 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 56.09000 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 68.77050 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 68.77050 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 56.09000 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 68.77050 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 68.77050 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 56.09000 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 68.77050 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 68.77050 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 56.09000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 68.77050 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 68.77050 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 56.09000 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: 10380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -86.0 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 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 184 REMARK 465 GLY A 185 REMARK 465 THR A 186 REMARK 465 ALA A 187 REMARK 465 ALA A 188 REMARK 465 HIS A 189 REMARK 465 ARG A 190 REMARK 465 ARG A 191 REMARK 465 THR A 192 REMARK 465 GLN A 193 REMARK 465 GLY A 194 REMARK 465 VAL A 195 REMARK 465 SER A 196 REMARK 465 ALA A 197 REMARK 465 VAL A 198 REMARK 465 ALA A 199 REMARK 465 ASP A 200 REMARK 465 HIS A 201 REMARK 465 THR A 202 REMARK 465 ALA A 203 REMARK 465 ARG A 204 REMARK 465 GLU A 205 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 ASP A 183 CG OD1 OD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 564 O HOH A 691 1.74 REMARK 500 O HOH A 824 O HOH A 839 1.90 REMARK 500 NE2 HIS A 252 CBI 9P3 A 402 1.92 REMARK 500 O HOH A 641 O HOH A 805 2.02 REMARK 500 O HOH A 680 O HOH A 750 2.03 REMARK 500 O HOH A 746 O HOH A 770 2.06 REMARK 500 O HOH A 810 O HOH A 837 2.09 REMARK 500 O ARG A 122 O HOH A 501 2.09 REMARK 500 OD2 ASP A 138 O HOH A 502 2.12 REMARK 500 O HOH A 822 O HOH A 846 2.12 REMARK 500 O HOH A 503 O HOH A 739 2.13 REMARK 500 O LYS A 134 O HOH A 503 2.15 REMARK 500 OE1 GLU A 269 O HOH A 504 2.16 REMARK 500 SG CYS A 106 O HOH A 573 2.17 REMARK 500 OE1 GLU A 43 O HOH A 505 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 O HOH A 750 O HOH A 750 5554 1.93 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 GLU A 43 CD GLU A 43 OE2 0.088 REMARK 500 GLU A 234 CD GLU A 234 OE1 -0.098 REMARK 500 GLU A 234 CD GLU A 234 OE2 0.069 REMARK 500 GLU A 269 CD GLU A 269 OE2 -0.069 REMARK 500 GLU A 269 CD GLU A 269 OE2 0.080 REMARK 500 GLU A 342 CD GLU A 342 OE2 0.098 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 67 NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 94 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 237 NE - CZ - NH1 ANGL. DEV. = -4.5 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 LEU A 108 37.67 -95.38 REMARK 500 ARG A 122 77.88 27.82 REMARK 500 GLN A 256 -109.32 -111.45 REMARK 500 ALA A 316 23.42 -154.09 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 44 0.10 SIDE CHAIN REMARK 500 ARG A 82 0.11 SIDE CHAIN REMARK 500 ARG A 135 0.12 SIDE CHAIN REMARK 500 ARG A 163 0.09 SIDE CHAIN 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 A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 304 O REMARK 620 2 9P3 A 402 OBF 110.9 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 MG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 9P3 A 402 DBREF 6A1W A 1 357 UNP O52792 HMO_AMYOR 1 357 SEQADV 6A1W MET A -19 UNP O52792 EXPRESSION TAG SEQADV 6A1W GLY A -18 UNP O52792 EXPRESSION TAG SEQADV 6A1W SER A -17 UNP O52792 EXPRESSION TAG SEQADV 6A1W SER A -16 UNP O52792 EXPRESSION TAG SEQADV 6A1W HIS A -15 UNP O52792 EXPRESSION TAG SEQADV 6A1W HIS A -14 UNP O52792 EXPRESSION TAG SEQADV 6A1W HIS A -13 UNP O52792 EXPRESSION TAG SEQADV 6A1W HIS A -12 UNP O52792 EXPRESSION TAG SEQADV 6A1W HIS A -11 UNP O52792 EXPRESSION TAG SEQADV 6A1W HIS A -10 UNP O52792 EXPRESSION TAG SEQADV 6A1W SER A -9 UNP O52792 EXPRESSION TAG SEQADV 6A1W SER A -8 UNP O52792 EXPRESSION TAG SEQADV 6A1W GLY A -7 UNP O52792 EXPRESSION TAG SEQADV 6A1W LEU A -6 UNP O52792 EXPRESSION TAG SEQADV 6A1W VAL A -5 UNP O52792 EXPRESSION TAG SEQADV 6A1W PRO A -4 UNP O52792 EXPRESSION TAG SEQADV 6A1W ARG A -3 UNP O52792 EXPRESSION TAG SEQADV 6A1W GLY A -2 UNP O52792 EXPRESSION TAG SEQADV 6A1W SER A -1 UNP O52792 EXPRESSION TAG SEQADV 6A1W HIS A 0 UNP O52792 EXPRESSION TAG SEQRES 1 A 377 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 377 LEU VAL PRO ARG GLY SER HIS MET THR TYR VAL SER LEU SEQRES 3 A 377 ALA ASP LEU GLU ARG ALA ALA ARG ASP VAL LEU PRO GLY SEQRES 4 A 377 GLU ILE PHE ASP PHE LEU ALA GLY GLY SER GLY THR GLU SEQRES 5 A 377 ALA SER LEU VAL ALA ASN ARG THR ALA LEU GLU ARG VAL SEQRES 6 A 377 PHE VAL ILE PRO ARG MET LEU ARG ASP LEU THR ASP VAL SEQRES 7 A 377 THR THR GLU ILE ASP ILE PHE GLY ARG ARG ALA ALA LEU SEQRES 8 A 377 PRO MET ALA VAL ALA PRO VAL ALA TYR GLN ARG LEU PHE SEQRES 9 A 377 HIS PRO GLU GLY GLU LEU ALA VAL ALA ARG ALA ALA ARG SEQRES 10 A 377 ASP ALA GLY VAL PRO TYR THR ILE CYS THR LEU SER SER SEQRES 11 A 377 VAL SER LEU GLU GLU ILE ALA ALA VAL GLY GLY ARG PRO SEQRES 12 A 377 TRP PHE GLN LEU TYR TRP LEU ARG ASP GLU LYS ARG SER SEQRES 13 A 377 LEU ASP LEU VAL ARG ARG ALA GLU ASP ALA GLY CYS GLU SEQRES 14 A 377 ALA ILE VAL PHE THR VAL ASP VAL PRO TRP MET GLY ARG SEQRES 15 A 377 ARG LEU ARG ASP MET ARG ASN GLY PHE ALA LEU PRO GLU SEQRES 16 A 377 TRP VAL THR ALA ALA ASN PHE ASP ALA GLY THR ALA ALA SEQRES 17 A 377 HIS ARG ARG THR GLN GLY VAL SER ALA VAL ALA ASP HIS SEQRES 18 A 377 THR ALA ARG GLU PHE ALA PRO ALA THR TRP GLU SER VAL SEQRES 19 A 377 GLU ALA VAL ARG ALA HIS THR ASP LEU PRO VAL VAL LEU SEQRES 20 A 377 LYS GLY ILE LEU ALA VAL GLU ASP ALA ARG ARG ALA VAL SEQRES 21 A 377 ASP ALA GLY ALA GLY GLY ILE VAL VAL SER ASN HIS GLY SEQRES 22 A 377 GLY ARG GLN LEU ASP GLY ALA VAL PRO GLY ILE GLU MET SEQRES 23 A 377 LEU GLY GLU ILE VAL ALA ALA VAL SER GLY GLY CYS GLU SEQRES 24 A 377 VAL LEU VAL ASP GLY GLY ILE ARG SER GLY GLY ASP VAL SEQRES 25 A 377 LEU LYS ALA THR ALA LEU GLY ALA SER ALA VAL LEU VAL SEQRES 26 A 377 GLY ARG PRO VAL MET TRP ALA LEU ALA ALA ALA GLY GLN SEQRES 27 A 377 ASP GLY VAL ARG GLN LEU LEU GLU LEU LEU ALA GLU GLU SEQRES 28 A 377 VAL ARG ASP ALA MET GLY LEU ALA GLY CYS GLU SER VAL SEQRES 29 A 377 GLY ALA ALA ARG ARG LEU ASN THR LYS LEU GLY VAL VAL HET MG A 401 1 HET 9P3 A 402 35 HETNAM MG MAGNESIUM ION HETNAM 9P3 1-[(1AR,11R)-11-ACETYL-8,9-DIMETHYL-2,4-DIOXO-3,4- HETNAM 2 9P3 DIHYDROBENZO[G]OXAZIRENO[3,2-E]PTERIDIN-11-IUM-6(2H)- HETNAM 3 9P3 YL]-1-DEOXY-5-O-PHOSPHONO-D-RIBITOL FORMUL 2 MG MG 2+ FORMUL 3 9P3 C19 H24 N4 O11 P 1+ FORMUL 4 HOH *346(H2 O) HELIX 1 AA1 SER A 5 LEU A 17 1 13 HELIX 2 AA2 PRO A 18 GLY A 27 1 10 HELIX 3 AA3 GLU A 32 ARG A 44 1 13 HELIX 4 AA4 TYR A 80 PHE A 84 5 5 HELIX 5 AA5 GLU A 87 GLY A 100 1 14 HELIX 6 AA6 SER A 112 VAL A 119 1 8 HELIX 7 AA7 ASP A 132 ALA A 146 1 15 HELIX 8 AA8 ARG A 163 ASN A 169 1 7 HELIX 9 AA9 THR A 210 THR A 221 1 12 HELIX 10 AB1 ALA A 232 ALA A 242 1 11 HELIX 11 AB2 ASN A 251 ARG A 255 5 5 HELIX 12 AB3 PRO A 262 SER A 275 1 14 HELIX 13 AB4 SER A 288 LEU A 298 1 11 HELIX 14 AB5 GLY A 306 ALA A 339 1 34 HELIX 15 AB6 SER A 343 ARG A 349 1 7 SHEET 1 AA1 2 VAL A 45 ILE A 48 0 SHEET 2 AA1 2 ASN A 351 LEU A 354 -1 O ASN A 351 N ILE A 48 SHEET 1 AA2 2 ILE A 62 ILE A 64 0 SHEET 2 AA2 2 ARG A 67 ALA A 69 -1 O ALA A 69 N ILE A 62 SHEET 1 AA3 8 MET A 73 VAL A 75 0 SHEET 2 AA3 8 ALA A 302 VAL A 305 1 O VAL A 305 N ALA A 74 SHEET 3 AA3 8 GLU A 279 VAL A 282 1 N VAL A 282 O LEU A 304 SHEET 4 AA3 8 GLY A 246 VAL A 249 1 N VAL A 249 O LEU A 281 SHEET 5 AA3 8 VAL A 225 ILE A 230 1 N LEU A 227 O VAL A 248 SHEET 6 AA3 8 ILE A 151 THR A 154 1 N ILE A 151 O VAL A 226 SHEET 7 AA3 8 TRP A 124 LEU A 127 1 N PHE A 125 O VAL A 152 SHEET 8 AA3 8 THR A 104 CYS A 106 1 N ILE A 105 O GLN A 126 LINK O LEU A 304 MG MG A 401 1555 1555 2.75 LINK MG MG A 401 OBF 9P3 A 402 1555 1555 2.67 SITE 1 AC1 5 GLY A 284 GLY A 285 ILE A 286 LEU A 304 SITE 2 AC1 5 9P3 A 402 SITE 1 AC2 24 LEU A 25 ALA A 76 PRO A 77 VAL A 78 SITE 2 AC2 24 ALA A 79 CYS A 106 GLN A 126 TYR A 128 SITE 3 AC2 24 THR A 154 ARG A 163 LYS A 228 SER A 250 SITE 4 AC2 24 HIS A 252 ARG A 255 ASP A 283 GLY A 284 SITE 5 AC2 24 GLY A 285 ARG A 287 GLY A 306 ARG A 307 SITE 6 AC2 24 MG A 401 HOH A 575 HOH A 661 HOH A 713 CRYST1 137.541 137.541 112.180 90.00 90.00 90.00 I 4 2 2 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 0.007271 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007271 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008914 0.00000