PDB Short entry for 2VKE HEADER TRANSCRIPTION 18-DEC-07 2VKE TITLE TET REPRESSOR CLASS D COMPLEXED WITH COBALT AND TETRACYCLINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TETRACYCLINE REPRESSOR PROTEIN CLASS D; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 2-208; COMPND 5 SYNONYM: TET REPRESSOR CLASS D; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: C-TERMINUS REMOVED FOR BETTER CRYSTALLIZATION SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: RB791; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PWH1590 KEYWDS TRANSCRIPTION, METAL-BINDING, HELIX-TURN-HELIX, TRANSCRIPTION KEYWDS 2 REGULATOR, TRANSCRIPTION REGULATION, METAL COORDINATION, ANTIBIOTIC KEYWDS 3 RESISTANCE, COBALT, REPRESSOR, MAGNESIUM, DNA-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR G.J.PALM,W.HINRICHS REVDAT 7 13-DEC-23 2VKE 1 REMARK LINK REVDAT 6 08-MAY-19 2VKE 1 REMARK REVDAT 5 28-NOV-12 2VKE 1 REMARK SEQADV REVDAT 4 13-JUL-11 2VKE 1 VERSN REVDAT 3 24-FEB-09 2VKE 1 VERSN REVDAT 2 07-OCT-08 2VKE 1 COMPND JRNL REMARK DBREF REVDAT 2 2 1 SEQRES MASTER REVDAT 1 01-JUL-08 2VKE 0 JRNL AUTH G.J.PALM,T.LEDERER,P.ORTH,W.SAENGER,M.TAKAHASHI,W.HILLEN, JRNL AUTH 2 W.HINRICHS JRNL TITL SPECIFIC BINDING OF DIVALENT METAL IONS TO TETRACYCLINE AND JRNL TITL 2 TO THE TET REPRESSOR/TETRACYCLINE COMPLEX. JRNL REF J.BIOL.INORG.CHEM. V. 13 1097 2008 JRNL REFN ISSN 0949-8257 JRNL PMID 18548290 JRNL DOI 10.1007/S00775-008-0395-2 REMARK 2 REMARK 2 RESOLUTION. 1.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 62.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 85.4 REMARK 3 NUMBER OF REFLECTIONS : 21642 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) : 0.247 REMARK 3 R VALUE (WORKING SET) : 0.245 REMARK 3 FREE R VALUE : 0.297 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1143 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) : 1.62 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.66 REMARK 3 REFLECTION IN BIN (WORKING SET) : 353 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3570 REMARK 3 BIN FREE R VALUE SET COUNT : 13 REMARK 3 BIN FREE R VALUE : 0.5180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1590 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 111 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 31.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.56 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.67000 REMARK 3 B22 (A**2) : 0.67000 REMARK 3 B33 (A**2) : -1.35000 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): 0.148 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.147 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.116 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.773 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 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): 1679 ; 0.020 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2285 ; 1.783 ; 1.991 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 204 ; 5.250 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 83 ;37.222 ;23.614 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 291 ;14.981 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;15.805 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 259 ; 0.149 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1284 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 811 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1175 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 96 ; 0.173 ; 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): 82 ; 0.260 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.194 ; 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): 1048 ; 1.059 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1617 ; 1.556 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 715 ; 2.839 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 668 ; 3.756 ; 4.500 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 : 4 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 70 REMARK 3 ORIGIN FOR THE GROUP (A): 18.5760 27.8440 15.7030 REMARK 3 T TENSOR REMARK 3 T11: 0.0791 T22: 0.1895 REMARK 3 T33: 0.0326 T12: -0.0450 REMARK 3 T13: -0.0189 T23: -0.0062 REMARK 3 L TENSOR REMARK 3 L11: 1.9187 L22: 0.4466 REMARK 3 L33: 3.3672 L12: 0.1234 REMARK 3 L13: 2.3839 L23: 0.5750 REMARK 3 S TENSOR REMARK 3 S11: 0.0880 S12: 0.2511 S13: 0.0069 REMARK 3 S21: 0.0854 S22: -0.0949 S23: -0.0035 REMARK 3 S31: 0.3206 S32: 0.0732 S33: 0.0069 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 : A 71 A 143 REMARK 3 ORIGIN FOR THE GROUP (A): 21.0870 32.5240 37.7280 REMARK 3 T TENSOR REMARK 3 T11: -0.0195 T22: -0.0104 REMARK 3 T33: -0.0266 T12: 0.0005 REMARK 3 T13: -0.0094 T23: 0.0109 REMARK 3 L TENSOR REMARK 3 L11: 1.2273 L22: 1.0846 REMARK 3 L33: 3.5893 L12: -0.1859 REMARK 3 L13: 0.1520 L23: 0.2985 REMARK 3 S TENSOR REMARK 3 S11: -0.0127 S12: 0.0315 S13: 0.0073 REMARK 3 S21: 0.0490 S22: 0.0190 S23: 0.0903 REMARK 3 S31: 0.0223 S32: -0.2506 S33: -0.0063 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 144 A 208 REMARK 3 ORIGIN FOR THE GROUP (A): 38.4100 26.9360 40.1280 REMARK 3 T TENSOR REMARK 3 T11: 0.0688 T22: -0.0090 REMARK 3 T33: -0.0259 T12: 0.0125 REMARK 3 T13: -0.0107 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 1.8405 L22: 0.3825 REMARK 3 L33: 1.5090 L12: 0.3067 REMARK 3 L13: -0.5709 L23: -0.2878 REMARK 3 S TENSOR REMARK 3 S11: -0.0754 S12: 0.0614 S13: -0.2038 REMARK 3 S21: 0.0087 S22: -0.0005 S23: -0.0201 REMARK 3 S31: 0.2793 S32: 0.0499 S33: 0.0758 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 222 A 226 REMARK 3 ORIGIN FOR THE GROUP (A): 20.2670 35.2080 34.4090 REMARK 3 T TENSOR REMARK 3 T11: -0.0718 T22: -0.1336 REMARK 3 T33: -0.0293 T12: -0.0289 REMARK 3 T13: -0.0089 T23: -0.0154 REMARK 3 L TENSOR REMARK 3 L11: 9.3652 L22: 6.9606 REMARK 3 L33: 4.5715 L12: 0.2947 REMARK 3 L13: 4.3139 L23: 0.3335 REMARK 3 S TENSOR REMARK 3 S11: -0.1329 S12: 0.1239 S13: 0.3070 REMARK 3 S21: 0.4148 S22: 0.1732 S23: -0.2719 REMARK 3 S31: -0.0488 S32: 0.1818 S33: -0.0403 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2VKE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-DEC-07. REMARK 100 THE DEPOSITION ID IS D_1290034797. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-AUG-07 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SATURN REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21642 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.620 REMARK 200 RESOLUTION RANGE LOW (A) : 62.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 85.4 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 19.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.26 REMARK 200 R MERGE FOR SHELL (I) : 0.65000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 0.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2FJ1 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HANGING DROP VAPOR DIFFUSION WITH 2 UL REMARK 280 (18 MG/ML PROTEIN) AND 2 UL (0.8 M AS, 50 MM TRIS/CL PH 7.5, 200 REMARK 280 MM NACL, 5 MM COCL2). CRYSTAL WAS CRYOCOOLED WITH PARAFFIN OIL REMARK 280 AS CRYOPROTECTANT. CRYSTAL SIZE WAS 0.6 X 0.6 X 0.2 MM, VAPOR REMARK 280 DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z 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 33.50700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 33.50700 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 90.40300 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 33.50700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 45.20150 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 33.50700 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 135.60450 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 33.50700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 135.60450 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 33.50700 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 45.20150 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 33.50700 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 33.50700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 90.40300 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 33.50700 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 33.50700 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 90.40300 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 33.50700 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 135.60450 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 33.50700 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 45.20150 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 33.50700 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 45.20150 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 33.50700 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 135.60450 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 33.50700 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 33.50700 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 90.40300 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -101.9 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 67.01400 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 67.01400 REMARK 350 BIOMT3 2 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 A2084 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 ASP A 157 REMARK 465 ARG A 158 REMARK 465 PRO A 159 REMARK 465 ALA A 160 REMARK 465 ALA A 161 REMARK 465 PRO A 162 REMARK 465 ASP A 163 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 118 CZ ARG A 118 NH1 0.210 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 118 NE - CZ - NH1 ANGL. DEV. = -5.3 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 ASP A 95 26.42 49.87 REMARK 500 LEU A 155 74.18 -55.68 REMARK 500 LEU A 204 -120.31 48.97 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 CO A 223 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 100 NE2 REMARK 620 2 TAC A 222 O11 172.9 REMARK 620 3 TAC A 222 O12 87.9 91.1 REMARK 620 4 HOH A 224 O 98.0 83.6 172.5 REMARK 620 5 HOH A 225 O 94.9 92.2 96.7 78.3 REMARK 620 6 HOH A 226 O 89.9 83.1 88.9 95.7 172.8 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 TAC A 222 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 223 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1227 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1228 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1229 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1A6I RELATED DB: PDB REMARK 900 TET REPRESSOR, CLASS D VARIANT REMARK 900 RELATED ID: 1QPI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TETRACYCLINE REPRESSOR/ OPERATOR COMPLEX REMARK 900 RELATED ID: 1BJZ RELATED DB: PDB REMARK 900 TETRACYCLINE CHELATED MG2+ -ION INITIATES HELIX UNWINDING FOR TET REMARK 900 REPRESSOR INDUCTION REMARK 900 RELATED ID: 1DU7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TET REPRESSOR CLASS D WITH 4-EPI- TETRACYCLINE REMARK 900 RELATED ID: 2TRT RELATED DB: PDB REMARK 900 TETRACYCLINE REPRESSOR CLASS D REMARK 900 RELATED ID: 2VKV RELATED DB: PDB REMARK 900 TETR (BD) VARIANT L17G WITH REVERSE PHENOTYPE REMARK 900 RELATED ID: 1ORK RELATED DB: PDB REMARK 900 TET REPRESSOR, CLASS D IN COMPLEX WITH 9 -(N,N-DIMETHYLGLYCYLAMIDO)- REMARK 900 6-DEMETHYL-6- DEOXY-TETRACYCLINE REMARK 900 RELATED ID: 1BJY RELATED DB: PDB REMARK 900 TETRACYCLINE CHELATED MG2+ -ION INITIATES HELIX UNWINDING FOR TET REMARK 900 REPRESSOR INDUCTION REMARK 900 RELATED ID: 2TCT RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES 209-218 DELETED BY CLONING DBREF 2VKE A 2 208 UNP P0ACT4 TETR4_ECOLX 2 208 SEQADV 2VKE SER A 2 UNP P0ACT4 ALA 2 CLONING ARTIFACT SEQRES 1 A 207 SER ARG LEU ASN ARG GLU SER VAL ILE ASP ALA ALA LEU SEQRES 2 A 207 GLU LEU LEU ASN GLU THR GLY ILE ASP GLY LEU THR THR SEQRES 3 A 207 ARG LYS LEU ALA GLN LYS LEU GLY ILE GLU GLN PRO THR SEQRES 4 A 207 LEU TYR TRP HIS VAL LYS ASN LYS ARG ALA LEU LEU ASP SEQRES 5 A 207 ALA LEU ALA VAL GLU ILE LEU ALA ARG HIS HIS ASP TYR SEQRES 6 A 207 SER LEU PRO ALA ALA GLY GLU SER TRP GLN SER PHE LEU SEQRES 7 A 207 ARG ASN ASN ALA MET SER PHE ARG ARG ALA LEU LEU ARG SEQRES 8 A 207 TYR ARG ASP GLY ALA LYS VAL HIS LEU GLY THR ARG PRO SEQRES 9 A 207 ASP GLU LYS GLN TYR ASP THR VAL GLU THR GLN LEU ARG SEQRES 10 A 207 PHE MET THR GLU ASN GLY PHE SER LEU ARG ASP GLY LEU SEQRES 11 A 207 TYR ALA ILE SER ALA VAL SER HIS PHE THR LEU GLY ALA SEQRES 12 A 207 VAL LEU GLU GLN GLN GLU HIS THR ALA ALA LEU THR ASP SEQRES 13 A 207 ARG PRO ALA ALA PRO ASP GLU ASN LEU PRO PRO LEU LEU SEQRES 14 A 207 ARG GLU ALA LEU GLN ILE MET ASP SER ASP ASP GLY GLU SEQRES 15 A 207 GLN ALA PHE LEU HIS GLY LEU GLU SER LEU ILE ARG GLY SEQRES 16 A 207 PHE GLU VAL GLN LEU THR ALA LEU LEU GLN ILE VAL HET TAC A 222 32 HET CO A 223 1 HET CL A1227 1 HET CL A1228 1 HET CL A1229 1 HETNAM TAC TETRACYCLINE HETNAM CO COBALT (II) ION HETNAM CL CHLORIDE ION FORMUL 2 TAC C22 H24 N2 O8 FORMUL 3 CO CO 2+ FORMUL 4 CL 3(CL 1-) FORMUL 7 HOH *111(H2 O) HELIX 1 1 ASN A 5 GLY A 21 1 17 HELIX 2 2 ILE A 22 LEU A 25 5 4 HELIX 3 3 THR A 26 GLY A 35 1 10 HELIX 4 4 GLU A 37 VAL A 45 1 9 HELIX 5 5 ASN A 47 HIS A 64 1 18 HELIX 6 6 SER A 74 ARG A 92 1 19 HELIX 7 7 ASP A 95 LEU A 101 1 7 HELIX 8 8 ASP A 106 LYS A 108 5 3 HELIX 9 9 GLN A 109 ASN A 123 1 15 HELIX 10 10 SER A 126 LEU A 155 1 30 HELIX 11 11 PRO A 167 ASP A 178 1 12 HELIX 12 12 GLY A 182 LEU A 204 1 23 LINK NE2 HIS A 100 CO CO A 223 1555 1555 2.13 LINK O11 TAC A 222 CO CO A 223 1555 1555 2.18 LINK O12 TAC A 222 CO CO A 223 1555 1555 1.91 LINK CO CO A 223 O HOH A 224 1555 1555 1.79 LINK CO CO A 223 O HOH A 225 1555 1555 2.11 LINK CO CO A 223 O HOH A 226 1555 1555 2.30 SITE 1 AC1 17 HIS A 64 SER A 67 ASN A 82 PHE A 86 SITE 2 AC1 17 HIS A 100 THR A 103 ARG A 104 PRO A 105 SITE 3 AC1 17 VAL A 113 GLN A 116 SER A 138 MET A 177 SITE 4 AC1 17 CO A 223 HOH A 224 HOH A 225 HOH A 226 SITE 5 AC1 17 HOH A2108 SITE 1 AC2 5 HIS A 100 TAC A 222 HOH A 224 HOH A 225 SITE 2 AC2 5 HOH A 226 SITE 1 AC3 4 SER A 2 ARG A 3 SER A 74 SER A 77 SITE 1 AC4 5 ARG A 3 LEU A 4 GLN A 76 ARG A 80 SITE 2 AC4 5 HOH A2098 SITE 1 AC5 2 TRP A 75 GLN A 76 CRYST1 67.014 67.014 180.806 90.00 90.00 90.00 I 41 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 0.014922 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014922 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005531 0.00000