HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 28-APR-14 4PFD TITLE CRYSTAL STRUCTURE OF M. TUBERCULOSIS IN COMPLEX WITH A CBT - NON- TITLE 2 COVALENT ADDUCT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE DECAPRENYLPHOSPHORYL-BETA-D-RIBOSE OXIDASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.-.-.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: ATCC 25618 / H37RV; SOURCE 5 GENE: DPRE1, RV3790; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS DPRE1, INHIBITOR, COVALENT, OXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.NERES,M.PANDA,S.COLE REVDAT 3 27-DEC-23 4PFD 1 REMARK REVDAT 2 22-NOV-17 4PFD 1 REMARK REVDAT 1 21-OCT-15 4PFD 0 JRNL AUTH J.NERES,S.COLE JRNL TITL CRYSTAL STRUCTURE OF M. TUBERCULOSIS IN COMPLEX WITH A CBT JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 36486 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) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1928 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2482 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.46 REMARK 3 BIN R VALUE (WORKING SET) : 0.2810 REMARK 3 BIN FREE R VALUE SET COUNT : 118 REMARK 3 BIN FREE R VALUE : 0.2970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6412 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 174 REMARK 3 SOLVENT ATOMS : 174 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.419 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.239 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.177 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.254 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6765 ; 0.005 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9210 ; 1.054 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 837 ; 4.868 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 282 ;30.501 ;22.518 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1051 ;15.173 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 59 ;13.470 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1016 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5143 ; 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): 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4PFD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-MAY-14. REMARK 100 THE DEPOSITION ID IS D_1000201297. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-FEB-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : BARTELS MONOCHROMATOR WITH DUAL REMARK 200 CHANNEL CUT CRYSTALS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36486 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 2.480 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.3400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.51 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.320 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 34% POLYPROPYLENEGLYCOL 400, 100 MM REMARK 280 IMIDAZOLE, PH 7.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z 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 42.06450 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: THE BIOLOGICAL ASSEMBLY IS UNKNOWN AS PER THE AUTHORS 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 -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 LEU A 2 REMARK 465 SER A 3 REMARK 465 VAL A 4 REMARK 465 GLY A 5 REMARK 465 ALA A 6 REMARK 465 ASP A 268 REMARK 465 ALA A 269 REMARK 465 PRO A 270 REMARK 465 GLN A 271 REMARK 465 LEU A 272 REMARK 465 LEU A 273 REMARK 465 THR A 274 REMARK 465 LEU A 275 REMARK 465 PRO A 276 REMARK 465 ASP A 277 REMARK 465 VAL A 278 REMARK 465 PHE A 279 REMARK 465 PRO A 280 REMARK 465 ASN A 281 REMARK 465 GLY A 282 REMARK 465 LEU A 283 REMARK 465 ALA A 284 REMARK 465 ASN A 285 REMARK 465 LYS A 286 REMARK 465 TYR A 287 REMARK 465 THR A 288 REMARK 465 PHE A 289 REMARK 465 PHE A 320 REMARK 465 GLY A 321 REMARK 465 GLU A 322 REMARK 465 TRP A 323 REMARK 465 ASN A 324 REMARK 465 ARG A 325 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 LEU B 2 REMARK 465 SER B 3 REMARK 465 VAL B 4 REMARK 465 GLY B 5 REMARK 465 ALA B 6 REMARK 465 ASP B 268 REMARK 465 ALA B 269 REMARK 465 PRO B 270 REMARK 465 GLN B 271 REMARK 465 LEU B 272 REMARK 465 LEU B 273 REMARK 465 THR B 274 REMARK 465 LEU B 275 REMARK 465 PRO B 276 REMARK 465 ASP B 277 REMARK 465 VAL B 278 REMARK 465 PHE B 279 REMARK 465 PRO B 280 REMARK 465 ASN B 281 REMARK 465 GLY B 282 REMARK 465 LEU B 283 REMARK 465 ALA B 284 REMARK 465 ASN B 285 REMARK 465 LYS B 286 REMARK 465 TYR B 287 REMARK 465 THR B 288 REMARK 465 PHE B 289 REMARK 465 GLY B 290 REMARK 465 PRO B 291 REMARK 465 ILE B 292 REMARK 465 GLY B 293 REMARK 465 GLU B 294 REMARK 465 LEU B 295 REMARK 465 TRP B 296 REMARK 465 TYR B 297 REMARK 465 ARG B 298 REMARK 465 PRO B 316 REMARK 465 LEU B 317 REMARK 465 ASP B 318 REMARK 465 MET B 319 REMARK 465 PHE B 320 REMARK 465 GLY B 321 REMARK 465 GLU B 322 REMARK 465 TRP B 323 REMARK 465 ASN B 324 REMARK 465 ARG B 325 REMARK 465 ALA B 326 REMARK 465 TYR B 327 REMARK 465 GLY B 328 REMARK 465 PRO B 329 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 GLN A 120 54.60 -90.26 REMARK 500 PRO A 316 55.88 -100.69 REMARK 500 SER B 420 19.02 -141.98 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 FAD A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMD A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 2R2 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 2R2 B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMD B 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4P8H RELATED DB: PDB REMARK 900 RELATED ID: 4PFA RELATED DB: PDB DBREF 4PFD A 1 461 UNP P9WJF1 DPRE1_MYCTU 1 461 DBREF 4PFD B 1 461 UNP P9WJF1 DPRE1_MYCTU 1 461 SEQADV 4PFD GLY A -18 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD SER A -17 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD SER A -16 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS A -15 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS A -14 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS A -13 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS A -12 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS A -11 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS A -10 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD SER A -9 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD SER A -8 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD GLY A -7 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD LEU A -6 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD VAL A -5 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD PRO A -4 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD ARG A -3 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD GLY A -2 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD SER A -1 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS A 0 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD GLY B -18 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD SER B -17 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD SER B -16 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS B -15 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS B -14 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS B -13 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS B -12 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS B -11 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS B -10 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD SER B -9 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD SER B -8 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD GLY B -7 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD LEU B -6 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD VAL B -5 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD PRO B -4 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD ARG B -3 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD GLY B -2 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD SER B -1 UNP P9WJF1 EXPRESSION TAG SEQADV 4PFD HIS B 0 UNP P9WJF1 EXPRESSION TAG SEQRES 1 A 480 GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY LEU SEQRES 2 A 480 VAL PRO ARG GLY SER HIS MET LEU SER VAL GLY ALA THR SEQRES 3 A 480 THR THR ALA THR ARG LEU THR GLY TRP GLY ARG THR ALA SEQRES 4 A 480 PRO SER VAL ALA ASN VAL LEU ARG THR PRO ASP ALA GLU SEQRES 5 A 480 MET ILE VAL LYS ALA VAL ALA ARG VAL ALA GLU SER GLY SEQRES 6 A 480 GLY GLY ARG GLY ALA ILE ALA ARG GLY LEU GLY ARG SER SEQRES 7 A 480 TYR GLY ASP ASN ALA GLN ASN GLY GLY GLY LEU VAL ILE SEQRES 8 A 480 ASP MET THR PRO LEU ASN THR ILE HIS SER ILE ASP ALA SEQRES 9 A 480 ASP THR LYS LEU VAL ASP ILE ASP ALA GLY VAL ASN LEU SEQRES 10 A 480 ASP GLN LEU MET LYS ALA ALA LEU PRO PHE GLY LEU TRP SEQRES 11 A 480 VAL PRO VAL LEU PRO GLY THR ARG GLN VAL THR VAL GLY SEQRES 12 A 480 GLY ALA ILE ALA CYS ASP ILE HIS GLY LYS ASN HIS HIS SEQRES 13 A 480 SER ALA GLY SER PHE GLY ASN HIS VAL ARG SER MET ASP SEQRES 14 A 480 LEU LEU THR ALA ASP GLY GLU ILE ARG HIS LEU THR PRO SEQRES 15 A 480 THR GLY GLU ASP ALA GLU LEU PHE TRP ALA THR VAL GLY SEQRES 16 A 480 GLY ASN GLY LEU THR GLY ILE ILE MET ARG ALA THR ILE SEQRES 17 A 480 GLU MET THR PRO THR SER THR ALA TYR PHE ILE ALA ASP SEQRES 18 A 480 GLY ASP VAL THR ALA SER LEU ASP GLU THR ILE ALA LEU SEQRES 19 A 480 HIS SER ASP GLY SER GLU ALA ARG TYR THR TYR SER SER SEQRES 20 A 480 ALA TRP PHE ASP ALA ILE SER ALA PRO PRO LYS LEU GLY SEQRES 21 A 480 ARG ALA ALA VAL SER ARG GLY ARG LEU ALA THR VAL GLU SEQRES 22 A 480 GLN LEU PRO ALA LYS LEU ARG SER GLU PRO LEU LYS PHE SEQRES 23 A 480 ASP ALA PRO GLN LEU LEU THR LEU PRO ASP VAL PHE PRO SEQRES 24 A 480 ASN GLY LEU ALA ASN LYS TYR THR PHE GLY PRO ILE GLY SEQRES 25 A 480 GLU LEU TRP TYR ARG LYS SER GLY THR TYR ARG GLY LYS SEQRES 26 A 480 VAL GLN ASN LEU THR GLN PHE TYR HIS PRO LEU ASP MET SEQRES 27 A 480 PHE GLY GLU TRP ASN ARG ALA TYR GLY PRO ALA GLY PHE SEQRES 28 A 480 LEU GLN TYR GLN PHE VAL ILE PRO THR GLU ALA VAL ASP SEQRES 29 A 480 GLU PHE LYS LYS ILE ILE GLY VAL ILE GLN ALA SER GLY SEQRES 30 A 480 HIS TYR SER PHE LEU ASN VAL PHE LYS LEU PHE GLY PRO SEQRES 31 A 480 ARG ASN GLN ALA PRO LEU SER PHE PRO ILE PRO GLY TRP SEQRES 32 A 480 ASN ILE CYS VAL ASP PHE PRO ILE LYS ASP GLY LEU GLY SEQRES 33 A 480 LYS PHE VAL SER GLU LEU ASP ARG ARG VAL LEU GLU PHE SEQRES 34 A 480 GLY GLY ARG LEU TYR THR ALA LYS ASP SER ARG THR THR SEQRES 35 A 480 ALA GLU THR PHE HIS ALA MET TYR PRO ARG VAL ASP GLU SEQRES 36 A 480 TRP ILE SER VAL ARG ARG LYS VAL ASP PRO LEU ARG VAL SEQRES 37 A 480 PHE ALA SER ASP MET ALA ARG ARG LEU GLU LEU LEU SEQRES 1 B 480 GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY LEU SEQRES 2 B 480 VAL PRO ARG GLY SER HIS MET LEU SER VAL GLY ALA THR SEQRES 3 B 480 THR THR ALA THR ARG LEU THR GLY TRP GLY ARG THR ALA SEQRES 4 B 480 PRO SER VAL ALA ASN VAL LEU ARG THR PRO ASP ALA GLU SEQRES 5 B 480 MET ILE VAL LYS ALA VAL ALA ARG VAL ALA GLU SER GLY SEQRES 6 B 480 GLY GLY ARG GLY ALA ILE ALA ARG GLY LEU GLY ARG SER SEQRES 7 B 480 TYR GLY ASP ASN ALA GLN ASN GLY GLY GLY LEU VAL ILE SEQRES 8 B 480 ASP MET THR PRO LEU ASN THR ILE HIS SER ILE ASP ALA SEQRES 9 B 480 ASP THR LYS LEU VAL ASP ILE ASP ALA GLY VAL ASN LEU SEQRES 10 B 480 ASP GLN LEU MET LYS ALA ALA LEU PRO PHE GLY LEU TRP SEQRES 11 B 480 VAL PRO VAL LEU PRO GLY THR ARG GLN VAL THR VAL GLY SEQRES 12 B 480 GLY ALA ILE ALA CYS ASP ILE HIS GLY LYS ASN HIS HIS SEQRES 13 B 480 SER ALA GLY SER PHE GLY ASN HIS VAL ARG SER MET ASP SEQRES 14 B 480 LEU LEU THR ALA ASP GLY GLU ILE ARG HIS LEU THR PRO SEQRES 15 B 480 THR GLY GLU ASP ALA GLU LEU PHE TRP ALA THR VAL GLY SEQRES 16 B 480 GLY ASN GLY LEU THR GLY ILE ILE MET ARG ALA THR ILE SEQRES 17 B 480 GLU MET THR PRO THR SER THR ALA TYR PHE ILE ALA ASP SEQRES 18 B 480 GLY ASP VAL THR ALA SER LEU ASP GLU THR ILE ALA LEU SEQRES 19 B 480 HIS SER ASP GLY SER GLU ALA ARG TYR THR TYR SER SER SEQRES 20 B 480 ALA TRP PHE ASP ALA ILE SER ALA PRO PRO LYS LEU GLY SEQRES 21 B 480 ARG ALA ALA VAL SER ARG GLY ARG LEU ALA THR VAL GLU SEQRES 22 B 480 GLN LEU PRO ALA LYS LEU ARG SER GLU PRO LEU LYS PHE SEQRES 23 B 480 ASP ALA PRO GLN LEU LEU THR LEU PRO ASP VAL PHE PRO SEQRES 24 B 480 ASN GLY LEU ALA ASN LYS TYR THR PHE GLY PRO ILE GLY SEQRES 25 B 480 GLU LEU TRP TYR ARG LYS SER GLY THR TYR ARG GLY LYS SEQRES 26 B 480 VAL GLN ASN LEU THR GLN PHE TYR HIS PRO LEU ASP MET SEQRES 27 B 480 PHE GLY GLU TRP ASN ARG ALA TYR GLY PRO ALA GLY PHE SEQRES 28 B 480 LEU GLN TYR GLN PHE VAL ILE PRO THR GLU ALA VAL ASP SEQRES 29 B 480 GLU PHE LYS LYS ILE ILE GLY VAL ILE GLN ALA SER GLY SEQRES 30 B 480 HIS TYR SER PHE LEU ASN VAL PHE LYS LEU PHE GLY PRO SEQRES 31 B 480 ARG ASN GLN ALA PRO LEU SER PHE PRO ILE PRO GLY TRP SEQRES 32 B 480 ASN ILE CYS VAL ASP PHE PRO ILE LYS ASP GLY LEU GLY SEQRES 33 B 480 LYS PHE VAL SER GLU LEU ASP ARG ARG VAL LEU GLU PHE SEQRES 34 B 480 GLY GLY ARG LEU TYR THR ALA LYS ASP SER ARG THR THR SEQRES 35 B 480 ALA GLU THR PHE HIS ALA MET TYR PRO ARG VAL ASP GLU SEQRES 36 B 480 TRP ILE SER VAL ARG ARG LYS VAL ASP PRO LEU ARG VAL SEQRES 37 B 480 PHE ALA SER ASP MET ALA ARG ARG LEU GLU LEU LEU HET FAD A 501 53 HET IMD A 502 5 HET 2R2 A 503 29 HET FAD B 501 53 HET 2R2 B 502 29 HET IMD B 503 5 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM IMD IMIDAZOLE HETNAM 2R2 [4-(2-METHOXYETHYL)PIPERAZIN-1-YL][6-METHYL-7-NITRO-5- HETNAM 2 2R2 (TRIFLUOROMETHYL)-1,3-BENZOTHIAZOL-2-YL]METHANONE FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 IMD 2(C3 H5 N2 1+) FORMUL 5 2R2 2(C17 H19 F3 N4 O4 S) FORMUL 9 HOH *174(H2 O) HELIX 1 AA1 ASP A 31 SER A 45 1 15 HELIX 2 AA2 ASN A 97 LEU A 106 1 10 HELIX 3 AA3 THR A 122 CYS A 129 1 8 HELIX 4 AA4 ASN A 135 GLY A 140 1 6 HELIX 5 AA5 SER A 141 ASN A 144 5 4 HELIX 6 AA6 ASP A 167 VAL A 175 1 9 HELIX 7 AA7 SER A 208 ASP A 218 1 11 HELIX 8 AA8 GLY A 219 TYR A 224 5 6 HELIX 9 AA9 THR A 252 LEU A 256 5 5 HELIX 10 AB1 PRO A 257 SER A 262 1 6 HELIX 11 AB2 PRO A 291 SER A 300 1 10 HELIX 12 AB3 LEU A 310 HIS A 315 1 6 HELIX 13 AB4 ALA A 343 ALA A 356 1 14 HELIX 14 AB5 GLY A 395 PHE A 410 1 16 HELIX 15 AB6 THR A 416 ASP A 419 5 4 HELIX 16 AB7 THR A 423 TYR A 431 1 9 HELIX 17 AB8 ARG A 433 ASP A 445 1 13 HELIX 18 AB9 SER A 452 LEU A 458 1 7 HELIX 19 AC1 ASP B 31 SER B 45 1 15 HELIX 20 AC2 ASN B 97 LEU B 106 1 10 HELIX 21 AC3 THR B 122 CYS B 129 1 8 HELIX 22 AC4 ASN B 135 GLY B 140 1 6 HELIX 23 AC5 SER B 141 ASN B 144 5 4 HELIX 24 AC6 ASP B 167 VAL B 175 1 9 HELIX 25 AC7 SER B 208 ASP B 218 1 11 HELIX 26 AC8 GLY B 219 TYR B 224 5 6 HELIX 27 AC9 THR B 252 LEU B 256 5 5 HELIX 28 AD1 PRO B 257 SER B 262 1 6 HELIX 29 AD2 LEU B 310 HIS B 315 1 6 HELIX 30 AD3 ALA B 343 SER B 357 1 15 HELIX 31 AD4 GLY B 395 PHE B 410 1 16 HELIX 32 AD5 THR B 416 ASP B 419 5 4 HELIX 33 AD6 THR B 423 TYR B 431 1 9 HELIX 34 AD7 ARG B 433 ASP B 445 1 13 HELIX 35 AD8 SER B 452 LEU B 458 1 7 SHEET 1 AA1 4 THR A 9 LEU A 13 0 SHEET 2 AA1 4 SER A 22 ARG A 28 -1 O ALA A 24 N THR A 11 SHEET 3 AA1 4 LEU A 70 ASP A 73 1 O VAL A 71 N ASN A 25 SHEET 4 AA1 4 ALA A 51 ARG A 54 1 N ILE A 52 O ILE A 72 SHEET 1 AA2 5 ILE A 80 ILE A 83 0 SHEET 2 AA2 5 LEU A 89 ASP A 93 -1 O ASP A 91 N SER A 82 SHEET 3 AA2 5 ILE A 183 GLU A 190 -1 O ALA A 187 N ILE A 92 SHEET 4 AA2 5 VAL A 146 LEU A 152 -1 N LEU A 152 O ILE A 183 SHEET 5 AA2 5 ILE A 158 LEU A 161 -1 O LEU A 161 N MET A 149 SHEET 1 AA3 2 LEU A 110 TRP A 111 0 SHEET 2 AA3 2 THR A 192 PRO A 193 -1 O THR A 192 N TRP A 111 SHEET 1 AA4 8 TYR A 303 ASN A 309 0 SHEET 2 AA4 8 TYR A 198 VAL A 205 -1 N PHE A 199 O GLN A 308 SHEET 3 AA4 8 ALA A 243 LEU A 250 -1 O ARG A 247 N ASP A 202 SHEET 4 AA4 8 TYR A 226 PHE A 231 -1 N SER A 228 O SER A 246 SHEET 5 AA4 8 VAL A 365 PHE A 369 -1 O PHE A 366 N ALA A 229 SHEET 6 AA4 8 GLY A 383 PRO A 391 -1 O GLY A 383 N PHE A 369 SHEET 7 AA4 8 PHE A 332 PRO A 340 -1 N LEU A 333 O PHE A 390 SHEET 8 AA4 8 ARG A 413 LEU A 414 -1 O ARG A 413 N VAL A 338 SHEET 1 AA5 4 THR B 9 LEU B 13 0 SHEET 2 AA5 4 SER B 22 LEU B 27 -1 O VAL B 26 N THR B 9 SHEET 3 AA5 4 LEU B 70 ASP B 73 1 O ASP B 73 N LEU B 27 SHEET 4 AA5 4 ALA B 51 ARG B 54 1 N ARG B 54 O ILE B 72 SHEET 1 AA6 5 ILE B 80 ILE B 83 0 SHEET 2 AA6 5 LEU B 89 ASP B 93 -1 O ASP B 91 N SER B 82 SHEET 3 AA6 5 ILE B 183 GLU B 190 -1 O ALA B 187 N ILE B 92 SHEET 4 AA6 5 VAL B 146 LEU B 152 -1 N ASP B 150 O MET B 185 SHEET 5 AA6 5 ILE B 158 LEU B 161 -1 O ARG B 159 N LEU B 151 SHEET 1 AA7 2 LEU B 110 TRP B 111 0 SHEET 2 AA7 2 THR B 192 PRO B 193 -1 O THR B 192 N TRP B 111 SHEET 1 AA8 8 TYR B 303 ASN B 309 0 SHEET 2 AA8 8 TYR B 198 VAL B 205 -1 N PHE B 199 O GLN B 308 SHEET 3 AA8 8 ALA B 243 LEU B 250 -1 O VAL B 245 N ASP B 204 SHEET 4 AA8 8 TYR B 226 PHE B 231 -1 N SER B 228 O SER B 246 SHEET 5 AA8 8 VAL B 365 PHE B 369 -1 O PHE B 366 N ALA B 229 SHEET 6 AA8 8 GLY B 383 PRO B 391 -1 O ASN B 385 N LYS B 367 SHEET 7 AA8 8 PHE B 332 PRO B 340 -1 N LEU B 333 O PHE B 390 SHEET 8 AA8 8 ARG B 413 LEU B 414 -1 O ARG B 413 N VAL B 338 CISPEP 1 PRO A 237 PRO A 238 0 2.58 CISPEP 2 HIS A 315 PRO A 316 0 0.07 CISPEP 3 GLY B 47 GLY B 48 0 -7.55 CISPEP 4 PRO B 237 PRO B 238 0 2.01 SITE 1 AC1 34 TRP A 16 ILE A 52 ALA A 53 ARG A 54 SITE 2 AC1 34 GLY A 55 LEU A 56 GLY A 57 ARG A 58 SITE 3 AC1 34 SER A 59 TYR A 60 ASN A 63 ALA A 64 SITE 4 AC1 34 MET A 74 ALA A 94 PRO A 116 GLY A 117 SITE 5 AC1 34 THR A 118 VAL A 121 THR A 122 GLY A 124 SITE 6 AC1 34 GLY A 125 ALA A 128 CYS A 129 ILE A 131 SITE 7 AC1 34 HIS A 132 ASN A 178 GLY A 179 GLY A 182 SITE 8 AC1 34 ILE A 184 TYR A 415 ALA A 417 2R2 A 503 SITE 9 AC1 34 HOH A 620 HOH A 658 SITE 1 AC2 2 SER A 82 ASP A 84 SITE 1 AC3 14 TYR A 60 GLY A 117 HIS A 132 LYS A 134 SITE 2 AC3 14 SER A 228 TYR A 314 LEU A 317 GLN A 334 SITE 3 AC3 14 GLN A 336 LEU A 363 VAL A 365 ASN A 385 SITE 4 AC3 14 LYS A 418 FAD A 501 SITE 1 AC4 33 TRP B 16 ILE B 52 ALA B 53 GLY B 55 SITE 2 AC4 33 LEU B 56 GLY B 57 ARG B 58 SER B 59 SITE 3 AC4 33 TYR B 60 ASN B 63 ALA B 64 MET B 74 SITE 4 AC4 33 ALA B 94 PRO B 116 GLY B 117 THR B 118 SITE 5 AC4 33 VAL B 121 THR B 122 GLY B 124 GLY B 125 SITE 6 AC4 33 ALA B 128 CYS B 129 ILE B 131 HIS B 132 SITE 7 AC4 33 ASN B 178 GLY B 179 GLY B 182 ILE B 184 SITE 8 AC4 33 TYR B 415 ALA B 417 2R2 B 502 HOH B 627 SITE 9 AC4 33 HOH B 636 SITE 1 AC5 13 TYR B 60 GLY B 117 HIS B 132 LYS B 134 SITE 2 AC5 13 SER B 228 TYR B 314 GLN B 336 VAL B 365 SITE 3 AC5 13 ASN B 385 CYS B 387 ASP B 389 LYS B 418 SITE 4 AC5 13 FAD B 501 SITE 1 AC6 4 PRO B 116 GLY B 117 ARG B 119 LEU B 310 CRYST1 59.521 84.129 90.149 90.00 100.73 90.00 P 1 21 1 4 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 0.016801 0.000000 0.003184 0.00000 SCALE2 0.000000 0.011887 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011290 0.00000