10 20 30 40 50 60 70 80 3EF6 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER OXIDOREDUCTASE 08-SEP-08 3EF6
TITLE CRYSTAL STRUCTURE OF TOLUENE 2,3-DIOXYGENASE REDUCTASE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: TOLUENE 1,2-DIOXYGENASE SYSTEM FERREDOXIN--NAD(+) COMPND 3 REDUCTASE; COMPND 4 CHAIN: A; COMPND 5 EC: 1.18.1.3; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PUTIDA; SOURCE 3 ORGANISM_TAXID: 351746; SOURCE 4 STRAIN: F1; SOURCE 5 GENE: PPUT_2878, TODA, TODC1C2BA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: CGSC#7692; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PDTG601A
KEYWDS FAD BINDING PROTEIN, NADH BINDING PROTEIN, AROMATIC HYDROCARBONS KEYWDS 2 CATABOLISM, FAD, FLAVOPROTEIN, NAD, OXIDOREDUCTASE
EXPDTA X-RAY DIFFRACTION
AUTHOR R.FRIEMANN,K.LEE,E.N.BROWN,D.T.GIBSON,H.EKLUND,S.RAMASWAMY
REVDAT 2 13-JUL-11 3EF6 1 VERSN REVDAT 1 10-MAR-09 3EF6 0
JRNL AUTH R.FRIEMANN,K.LEE,E.N.BROWN,D.T.GIBSON,H.EKLUND,S.RAMASWAMY JRNL TITL STRUCTURES OF THE MULTICOMPONENT RIESKE NON-HEME IRON JRNL TITL 2 TOLUENE 2,3-DIOXYGENASE ENZYME SYSTEM JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 65 24 2009 JRNL REFN ISSN 0907-4449 JRNL PMID 19153463 JRNL DOI 10.1107/S0907444908036524
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.LEE,R.FRIEMANN,J.V.PARALES,D.T.GIBSON,S.RAMASWAMY REMARK 1 TITL PURIFICATION, CRYSTALLIZATION AND PRELIMINARY X-RAY REMARK 1 TITL 2 DIFFRACTION STUDIES OF THE THREE COMPONENTS OF THE TOLUENE REMARK 1 TITL 3 2,3-DIOXYGENASE ENZYME SYSTEM REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 61 669 2005 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 16511124 REMARK 1 DOI 10.1107/S1744309105017549
REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 44198 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) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2229 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3026 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.2540 REMARK 3 BIN FREE R VALUE SET COUNT : 140 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2940 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 105 REMARK 3 SOLVENT ATOMS : 465 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.09000 REMARK 3 B22 (A**2) : 1.09000 REMARK 3 B33 (A**2) : -2.18000 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): 0.134 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.130 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.087 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.762 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3154 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4293 ; 1.521 ; 2.005 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 415 ; 5.622 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 123 ;33.310 ;22.683 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 492 ;13.779 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;17.776 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 493 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2361 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1524 ; 0.195 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2136 ; 0.297 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 436 ; 0.136 ; 0.200 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): 41 ; 0.220 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.168 ; 0.200 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): 2066 ; 0.860 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3218 ; 1.299 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1291 ; 2.071 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1075 ; 3.389 ; 4.500 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS
REMARK 4 REMARK 4 3EF6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-OCT-08. REMARK 100 THE RCSB ID CODE IS RCSB049246.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-FEB-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0332 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44352 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 19.860 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 9.240 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.4 REMARK 200 DATA REDUNDANCY IN SHELL : 7.04 REMARK 200 R MERGE FOR SHELL (I) : 0.38600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY: 1D7Y INCLUDING ALL SIDE CHAINS REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS PH 8.5, 1.5 M (NH)4SO 2 AND REMARK 280 12% (V/V) GLYCEROL, PH 7.7, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 286K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 78.18600 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 38.56400 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 38.56400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 39.09300 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 38.56400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 38.56400 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 117.27900 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 38.56400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.56400 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 39.09300 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 38.56400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.56400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 117.27900 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 78.18600 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: MONOMERIC 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 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 A4135 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 ARG A 403 REMARK 465 ALA A 404 REMARK 465 ASN A 405 REMARK 465 GLU A 406 REMARK 465 GLY A 407 REMARK 465 ASP A 408 REMARK 465 LEU A 409 REMARK 465 THR A 410
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 LEU A 289 CA - CB - CG ANGL. DEV. = -19.7 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 PRO A 37 35.27 -77.31 REMARK 500 LYS A 48 -110.65 -111.89 REMARK 500 ARG A 359 -9.52 79.32 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 A4305 DISTANCE = 5.15 ANGSTROMS REMARK 525 HOH A4308 DISTANCE = 5.80 ANGSTROMS REMARK 525 HOH A4363 DISTANCE = 5.38 ANGSTROMS REMARK 525 HOH A4373 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A4474 DISTANCE = 6.54 ANGSTROMS REMARK 525 HOH A4520 DISTANCE = 5.24 ANGSTROMS REMARK 525 HOH A4545 DISTANCE = 7.11 ANGSTROMS REMARK 525 HOH A4577 DISTANCE = 6.57 ANGSTROMS REMARK 525 HOH A4584 DISTANCE = 6.09 ANGSTROMS
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 449 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A4120 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A4121 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A4122 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A4123 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A4124 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A4125 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A4126 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A4127 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A4128
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3DQY RELATED DB: PDB REMARK 900 STRUCTURE OF THE TOLUENE 2,3-DIOXYGENASE FERREDOXIN REMARK 900 COMPONENT REMARK 900 RELATED ID: 3EN1 RELATED DB: PDB REMARK 900 STRUCTURE OF THE TOLUENE 2,3-DIOXYGENASE COMPONENT REMARK 900 RELATED ID: 3EQQ RELATED DB: PDB REMARK 900 STRUCTURE OF THE APO-TOLUENE 2,3-DIOXYGENASE COMPONENT
DBREF 3EF6 A 1 410 UNP A5W4E9 TODA_PSEP1 1 410
SEQRES 1 A 410 MET ALA THR HIS VAL ALA ILE ILE GLY ASN GLY VAL GLY SEQRES 2 A 410 GLY PHE THR THR ALA GLN ALA LEU ARG ALA GLU GLY PHE SEQRES 3 A 410 GLU GLY ARG ILE SER LEU ILE GLY ASP GLU PRO HIS LEU SEQRES 4 A 410 PRO TYR ASP ARG PRO SER LEU SER LYS ALA VAL LEU ASP SEQRES 5 A 410 GLY SER LEU GLU ARG PRO PRO ILE LEU ALA GLU ALA ASP SEQRES 6 A 410 TRP TYR GLY GLU ALA ARG ILE ASP MET LEU THR GLY PRO SEQRES 7 A 410 GLU VAL THR ALA LEU ASP VAL GLN THR ARG THR ILE SER SEQRES 8 A 410 LEU ASP ASP GLY THR THR LEU SER ALA ASP ALA ILE VAL SEQRES 9 A 410 ILE ALA THR GLY SER ARG ALA ARG THR MET ALA LEU PRO SEQRES 10 A 410 GLY SER GLN LEU PRO GLY VAL VAL THR LEU ARG THR TYR SEQRES 11 A 410 GLY ASP VAL GLN VAL LEU ARG ASP SER TRP THR SER ALA SEQRES 12 A 410 THR ARG LEU LEU ILE VAL GLY GLY GLY LEU ILE GLY CYS SEQRES 13 A 410 GLU VAL ALA THR THR ALA ARG LYS LEU GLY LEU SER VAL SEQRES 14 A 410 THR ILE LEU GLU ALA GLY ASP GLU LEU LEU VAL ARG VAL SEQRES 15 A 410 LEU GLY ARG ARG ILE GLY ALA TRP LEU ARG GLY LEU LEU SEQRES 16 A 410 THR GLU LEU GLY VAL GLN VAL GLU LEU GLY THR GLY VAL SEQRES 17 A 410 VAL GLY PHE SER GLY GLU GLY GLN LEU GLU GLN VAL MET SEQRES 18 A 410 ALA SER ASP GLY ARG SER PHE VAL ALA ASP SER ALA LEU SEQRES 19 A 410 ILE CYS VAL GLY ALA GLU PRO ALA ASP GLN LEU ALA ARG SEQRES 20 A 410 GLN ALA GLY LEU ALA CYS ASP ARG GLY VAL ILE VAL ASP SEQRES 21 A 410 HIS CYS GLY ALA THR LEU ALA LYS GLY VAL PHE ALA VAL SEQRES 22 A 410 GLY ASP VAL ALA SER TRP PRO LEU ARG ALA GLY GLY ARG SEQRES 23 A 410 ARG SER LEU GLU THR TYR MET ASN ALA GLN ARG GLN ALA SEQRES 24 A 410 ALA ALA VAL ALA ALA ALA ILE LEU GLY LYS ASN VAL SER SEQRES 25 A 410 ALA PRO GLN LEU PRO VAL SER TRP THR GLU ILE ALA GLY SEQRES 26 A 410 HIS ARG MET GLN MET ALA GLY ASP ILE GLU GLY PRO GLY SEQRES 27 A 410 ASP PHE VAL SER ARG GLY MET PRO GLY SER GLY ALA ALA SEQRES 28 A 410 LEU LEU PHE ARG LEU GLN GLU ARG ARG ILE GLN ALA VAL SEQRES 29 A 410 VAL ALA VAL ASP ALA PRO ARG ASP PHE ALA LEU ALA THR SEQRES 30 A 410 ARG LEU VAL GLU ALA ARG ALA ALA ILE GLU PRO ALA ARG SEQRES 31 A 410 LEU ALA ASP LEU SER ASN SER MET ARG ASP PHE VAL ARG SEQRES 32 A 410 ALA ASN GLU GLY ASP LEU THR
HET FAD A 449 53 HET SO4 A4120 5 HET SO4 A4121 5 HET GOL A4122 6 HET GOL A4123 6 HET GOL A4124 6 HET GOL A4125 6 HET GOL A4126 6 HET GOL A4127 6 HET GOL A4128 6
HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL
HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL
FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 SO4 2(O4 S 2-) FORMUL 5 GOL 7(C3 H8 O3) FORMUL 12 HOH *465(H2 O)
HELIX 1 1 GLY A 11 GLU A 24 1 14 HELIX 2 2 ARG A 43 LYS A 48 5 6 HELIX 3 3 ASP A 65 ALA A 70 1 6 HELIX 4 4 THR A 129 TRP A 140 1 12 HELIX 5 5 GLY A 152 LEU A 165 1 14 HELIX 6 6 LEU A 179 GLY A 184 1 6 HELIX 7 7 GLY A 184 GLY A 199 1 16 HELIX 8 8 ASP A 243 ALA A 249 1 7 HELIX 9 9 THR A 291 LEU A 307 1 17 HELIX 10 10 ALA A 369 ARG A 383 1 15 HELIX 11 11 GLU A 387 ASP A 393 1 7 HELIX 12 12 SER A 397 PHE A 401 5 5
SHEET 1 A 5 ASP A 73 THR A 76 0 SHEET 2 A 5 ARG A 29 GLY A 34 1 N ILE A 30 O ASP A 73 SHEET 3 A 5 HIS A 4 ILE A 8 1 N ILE A 7 O SER A 31 SHEET 4 A 5 ALA A 102 ILE A 105 1 O VAL A 104 N ILE A 8 SHEET 5 A 5 VAL A 270 ALA A 272 1 O PHE A 271 N ILE A 105 SHEET 1 B 3 VAL A 80 ASP A 84 0 SHEET 2 B 3 THR A 89 LEU A 92 -1 O THR A 89 N ASP A 84 SHEET 3 B 3 THR A 97 SER A 99 -1 O LEU A 98 N ILE A 90 SHEET 1 C 2 SER A 109 ALA A 111 0 SHEET 2 C 2 ALA A 239 PRO A 241 -1 O GLU A 240 N ARG A 110 SHEET 1 D 5 VAL A 124 VAL A 125 0 SHEET 2 D 5 SER A 232 ILE A 235 1 O ALA A 233 N VAL A 125 SHEET 3 D 5 ARG A 145 VAL A 149 1 N LEU A 147 O SER A 232 SHEET 4 D 5 SER A 168 LEU A 172 1 O SER A 168 N LEU A 146 SHEET 5 D 5 GLN A 201 GLU A 203 1 O GLU A 203 N ILE A 171 SHEET 1 E 3 VAL A 208 SER A 212 0 SHEET 2 E 3 GLN A 219 ALA A 222 -1 O GLN A 219 N SER A 212 SHEET 3 E 3 SER A 227 VAL A 229 -1 O PHE A 228 N VAL A 220 SHEET 1 F 3 VAL A 257 ILE A 258 0 SHEET 2 F 3 ALA A 277 PRO A 280 1 O SER A 278 N VAL A 257 SHEET 3 F 3 ARG A 286 ARG A 287 -1 O ARG A 287 N TRP A 279 SHEET 1 G 5 VAL A 318 ILE A 323 0 SHEET 2 G 5 HIS A 326 ALA A 331 -1 O MET A 328 N THR A 321 SHEET 3 G 5 ARG A 360 VAL A 367 -1 O ALA A 366 N GLN A 329 SHEET 4 G 5 ALA A 351 GLN A 357 -1 N ALA A 351 O VAL A 367 SHEET 5 G 5 ASP A 339 ARG A 343 -1 N ARG A 343 O LEU A 352
SITE 1 AC1 34 GLY A 9 GLY A 11 VAL A 12 GLY A 13 SITE 2 AC1 34 GLY A 34 ASP A 35 GLU A 36 ARG A 43 SITE 3 AC1 34 PRO A 44 SER A 47 LYS A 48 GLU A 79 SITE 4 AC1 34 VAL A 80 ALA A 106 THR A 107 GLY A 108 SITE 5 AC1 34 ARG A 128 ILE A 154 LEU A 245 GLY A 274 SITE 6 AC1 34 ASP A 275 GLU A 290 THR A 291 TYR A 292 SITE 7 AC1 34 SER A 319 TRP A 320 GOL A4124 HOH A4129 SITE 8 AC1 34 HOH A4131 HOH A4134 HOH A4139 HOH A4149 SITE 9 AC1 34 HOH A4152 HOH A4263 SITE 1 AC2 8 LEU A 153 ILE A 154 CYS A 236 GLY A 238 SITE 2 AC2 8 GOL A4124 GOL A4125 HOH A4173 HOH A4276 SITE 1 AC3 6 ALA A 369 PRO A 370 ARG A 371 ASP A 372 SITE 2 AC3 6 HOH A4350 HOH A4470 SITE 1 AC4 4 PRO A 117 GLY A 118 GLN A 120 LEU A 121 SITE 1 AC5 8 LEU A 153 ARG A 287 LEU A 289 PRO A 317 SITE 2 AC5 8 HOH A4140 HOH A4218 HOH A4239 HOH A4392 SITE 1 AC6 8 ARG A 128 ASP A 275 GLU A 290 FAD A 449 SITE 2 AC6 8 SO4 A4120 HOH A4157 HOH A4174 HOH A4276 SITE 1 AC7 8 ALA A 111 LEU A 127 ILE A 235 CYS A 236 SITE 2 AC7 8 VAL A 237 GLY A 238 SO4 A4120 HOH A4174 SITE 1 AC8 10 ASP A 42 PRO A 44 SER A 45 LYS A 48 SITE 2 AC8 10 TRP A 320 GLU A 322 ARG A 327 HOH A4165 SITE 3 AC8 10 HOH A4403 HOH A4588 SITE 1 AC9 4 PRO A 37 HIS A 38 HOH A4208 HOH A4441 SITE 1 BC1 3 TYR A 292 GLN A 296 HOH A4290
CRYST1 77.128 77.128 156.372 90.00 90.00 90.00 P 41 21 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 0.012966 0.000000 0.000000 0.00000
SCALE2 0.000000 0.012966 0.000000 0.00000
SCALE3 0.000000 0.000000 0.006395 0.00000