PDB Short entry for 2VKV HEADER TRANSCRIPTION 02-JAN-08 2VKV TITLE TETR (BD) VARIANT L17G WITH REVERSE PHENOTYPE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TETRACYCLINE REPRESSOR PROTEIN CLASS B FROM TRANSPOSON COMPND 3 TN10, TETRACYCLINE REPRESSOR PROTEIN CLASS D; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: RESIDUES 1-50,51-208; COMPND 6 SYNONYM: TETRACYCLINE REPRESSOR BD VARIANT L17G; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: RESIDUES 1-50 ARE FROM VARIANT B, RESIDUES 51-208 ARE COMPND 10 FROM VARIANT D 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_VECTOR: PWH610; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PWH610/LEU17GLYTETR KEYWDS TRANSCRIPTION, TRANSCRIPTION REGULATION, DISORDER TO ORDER MECHANISM, KEYWDS 2 ANTIBIOTIC RESISTANCE, HELIX-TURN-HELIX MOTIF, BACTERIAL REPRESSOR, KEYWDS 3 ANHYDROTETRACYCLINE, METAL-BINDING, REVERSE PHENOTYPE, TETR, KEYWDS 4 PLASMID, REPRESSOR, MAGNESIUM, DNA-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR M.RESCH,H.STRIEGL,E.M.HENSSLER,M.SEVVANA,C.EGERER-SIEBER,E.SCHILTZ, AUTHOR 2 W.HILLEN,Y.A.MULLER REVDAT 5 06-MAR-19 2VKV 1 REMARK REVDAT 4 28-JUN-17 2VKV 1 REMARK REVDAT 3 24-FEB-09 2VKV 1 VERSN REVDAT 2 29-JUL-08 2VKV 1 JRNL REVDAT 1 08-JUL-08 2VKV 0 JRNL AUTH M.RESCH,H.STRIEGL,E.M.HENSSLER,M.SEVVANA,C.EGERER-SIEBER, JRNL AUTH 2 E.SCHILTZ,W.HILLEN,Y.A.MULLER JRNL TITL A PROTEIN FUNCTIONAL LEAP: HOW A SINGLE MUTATION REVERSES JRNL TITL 2 THE FUNCTION OF THE TRANSCRIPTION REGULATOR TETR. JRNL REF NUCLEIC ACIDS RES. V. 36 4390 2008 JRNL REFN ISSN 0305-1048 JRNL PMID 18587152 JRNL DOI 10.1093/NAR/GKN400 REMARK 2 REMARK 2 RESOLUTION. 1.74 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) : 1.74 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.66 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 20625 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) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.700 REMARK 3 FREE R VALUE TEST SET COUNT : 2218 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 15 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.74 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1936 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2080 REMARK 3 BIN FREE R VALUE SET COUNT : 229 REMARK 3 BIN FREE R VALUE : 0.2540 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1555 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 166 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : -0.08000 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): 0.186 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.120 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.073 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.058 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1694 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1139 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2318 ; 1.116 ; 1.990 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2776 ; 0.895 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 219 ; 4.440 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 86 ;37.594 ;23.837 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 289 ;14.312 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;15.788 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 259 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1933 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 348 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 397 ; 0.220 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1139 ; 0.182 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 846 ; 0.180 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 842 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 121 ; 0.182 ; 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): 17 ; 0.173 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 52 ; 0.279 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.149 ; 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): 1347 ; 1.423 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1646 ; 1.626 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 777 ; 2.206 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 663 ; 3.289 ; 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 6 A 45 REMARK 3 ORIGIN FOR THE GROUP (A): -21.3232 4.2169 3.3675 REMARK 3 T TENSOR REMARK 3 T11: -0.0127 T22: 0.1349 REMARK 3 T33: -0.1945 T12: 0.0015 REMARK 3 T13: -0.0998 T23: -0.0131 REMARK 3 L TENSOR REMARK 3 L11: 3.2917 L22: 4.5242 REMARK 3 L33: 17.9289 L12: 3.3096 REMARK 3 L13: 4.9027 L23: 8.4953 REMARK 3 S TENSOR REMARK 3 S11: -0.0213 S12: 0.2256 S13: 0.2841 REMARK 3 S21: 0.6330 S22: 0.1720 S23: 0.7594 REMARK 3 S31: 0.4998 S32: 1.1341 S33: -0.1507 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 46 A 91 REMARK 3 ORIGIN FOR THE GROUP (A): -20.8453 2.2629 -20.5885 REMARK 3 T TENSOR REMARK 3 T11: 0.0261 T22: 0.0454 REMARK 3 T33: 0.0642 T12: 0.0011 REMARK 3 T13: -0.0088 T23: 0.0004 REMARK 3 L TENSOR REMARK 3 L11: 0.4124 L22: 0.7114 REMARK 3 L33: 1.9157 L12: 0.1232 REMARK 3 L13: -0.7596 L23: 0.1105 REMARK 3 S TENSOR REMARK 3 S11: 0.0085 S12: -0.0526 S13: -0.0107 REMARK 3 S21: 0.0013 S22: -0.0610 S23: -0.1932 REMARK 3 S31: 0.0561 S32: 0.0733 S33: 0.0525 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 92 A 161 REMARK 3 ORIGIN FOR THE GROUP (A): -27.8637 3.8010 -20.4894 REMARK 3 T TENSOR REMARK 3 T11: 0.0442 T22: 0.0360 REMARK 3 T33: 0.0535 T12: -0.0050 REMARK 3 T13: 0.0070 T23: 0.0055 REMARK 3 L TENSOR REMARK 3 L11: 0.5366 L22: 0.9039 REMARK 3 L33: 0.6396 L12: 0.3295 REMARK 3 L13: -0.1384 L23: -0.5587 REMARK 3 S TENSOR REMARK 3 S11: 0.0158 S12: -0.0517 S13: 0.0137 REMARK 3 S21: -0.0065 S22: 0.0055 S23: -0.0373 REMARK 3 S31: 0.0119 S32: 0.0128 S33: -0.0214 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 162 A 205 REMARK 3 ORIGIN FOR THE GROUP (A): -36.0467 -10.1173 -29.2965 REMARK 3 T TENSOR REMARK 3 T11: 0.0369 T22: 0.0318 REMARK 3 T33: 0.0719 T12: 0.0091 REMARK 3 T13: -0.0121 T23: -0.0074 REMARK 3 L TENSOR REMARK 3 L11: 0.9323 L22: 1.8952 REMARK 3 L33: 0.6658 L12: 1.3280 REMARK 3 L13: -0.4836 L23: -0.6635 REMARK 3 S TENSOR REMARK 3 S11: -0.0132 S12: 0.1026 S13: -0.1559 REMARK 3 S21: -0.1215 S22: 0.0518 S23: -0.1261 REMARK 3 S31: 0.0913 S32: 0.0061 S33: -0.0386 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 2VKV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1290034796. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JAN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.7 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 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22843 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.740 REMARK 200 RESOLUTION RANGE LOW (A) : 19.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 10.50 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 26.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.74 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.9 REMARK 200 DATA REDUNDANCY IN SHELL : 8.84 REMARK 200 R MERGE FOR SHELL (I) : 0.38000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.800 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 2TCT REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL (PH 8.7), 0.3 M MGCL2, REMARK 280 20 % PEG 4000, 3 % DIOXANE, AT 277 K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 35.32500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.23000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.32500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 27.23000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 7050 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.9 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 -70.65000 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, LEU 17 TO GLY 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 SER A 2 REMARK 465 ARG A 3 REMARK 465 LEU A 4 REMARK 465 ASP A 5 REMARK 465 GLN A 206 REMARK 465 ILE A 207 REMARK 465 VAL A 208 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 8 CG CD CE NZ REMARK 470 ARG A 28 CG CD NE CZ NH1 NH2 REMARK 470 TRP A 43 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 43 CZ3 CH2 REMARK 470 LYS A 46 CG CD CE NZ 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 OE1 GLN A 149 O HOH A 2126 1.90 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 A1207 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2078 O REMARK 620 2 HOH A2122 O 86.7 REMARK 620 3 HIS A 100 NE2 94.4 92.7 REMARK 620 4 TDC A1206 O12 178.3 92.4 87.1 REMARK 620 5 TDC A1206 O11 97.8 98.1 164.1 80.8 REMARK 620 6 HOH A2079 O 85.6 171.6 84.4 95.3 86.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1208 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2003 O REMARK 620 2 HOH A2070 O 168.4 REMARK 620 3 HOH A2071 O 76.3 115.3 REMARK 620 4 HOH A2072 O 78.0 90.5 153.7 REMARK 620 5 HOH A2073 O 90.0 88.7 98.6 75.9 REMARK 620 6 HOH A2128 O 85.0 93.3 94.5 88.6 164.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TDC A1206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1208 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: 2VKE RELATED DB: PDB REMARK 900 TET REPRESSOR CLASS D COMPLEXED WITH COBALT AND TETRACYCLINE 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: 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: 1BJ0 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 900 MOL_ID: 1; MOLECULE: TETRACYCLINE REPRESSOR; CHAIN: NULL; SYNONYM: REMARK 900 TET REPRESSOR, CLASS D ; ENGINEERED: YES REMARK 900 RELATED ID: 1BJY RELATED DB: PDB REMARK 900 TETRACYCLINE CHELATED MG2+ -ION INITIATES HELIX UNWINDING FOR TET REMARK 900 REPRESSOR INDUCTION DBREF 2VKV A 1 50 UNP P04483 TETR2_ECOLX 1 50 DBREF 2VKV A 51 208 UNP P0ACT4 TETR4_ECOLX 51 208 SEQADV 2VKV GLY A 17 UNP P0ACT4 LEU 17 ENGINEERED MUTATION SEQRES 1 A 208 MET SER ARG LEU ASP LYS SER LYS VAL ILE ASN SER ALA SEQRES 2 A 208 LEU GLU LEU GLY ASN GLU VAL GLY ILE GLU GLY LEU THR SEQRES 3 A 208 THR ARG LYS LEU ALA GLN LYS LEU GLY VAL GLU GLN PRO SEQRES 4 A 208 THR LEU TYR TRP HIS VAL LYS ASN LYS ARG ALA LEU LEU SEQRES 5 A 208 ASP ALA LEU ALA VAL GLU ILE LEU ALA ARG HIS HIS ASP SEQRES 6 A 208 TYR SER LEU PRO ALA ALA GLY GLU SER TRP GLN SER PHE SEQRES 7 A 208 LEU ARG ASN ASN ALA MET SER PHE ARG ARG ALA LEU LEU SEQRES 8 A 208 ARG TYR ARG ASP GLY ALA LYS VAL HIS LEU GLY THR ARG SEQRES 9 A 208 PRO ASP GLU LYS GLN TYR ASP THR VAL GLU THR GLN LEU SEQRES 10 A 208 ARG PHE MET THR GLU ASN GLY PHE SER LEU ARG ASP GLY SEQRES 11 A 208 LEU TYR ALA ILE SER ALA VAL SER HIS PHE THR LEU GLY SEQRES 12 A 208 ALA VAL LEU GLU GLN GLN GLU HIS THR ALA ALA LEU THR SEQRES 13 A 208 ASP ARG PRO ALA ALA PRO ASP GLU ASN LEU PRO PRO LEU SEQRES 14 A 208 LEU ARG GLU ALA LEU GLN ILE MET ASP SER ASP ASP GLY SEQRES 15 A 208 GLU GLN ALA PHE LEU HIS GLY LEU GLU SER LEU ILE ARG SEQRES 16 A 208 GLY PHE GLU VAL GLN LEU THR ALA LEU LEU GLN ILE VAL HET TDC A1206 31 HET MG A1207 1 HET MG A1208 1 HETNAM TDC 5A,6-ANHYDROTETRACYCLINE HETNAM MG MAGNESIUM ION FORMUL 2 TDC C22 H22 N2 O7 FORMUL 3 MG 2(MG 2+) FORMUL 5 HOH *166(H2 O) HELIX 1 1 LYS A 6 LEU A 25 1 20 HELIX 2 2 THR A 26 GLY A 35 1 10 HELIX 3 3 GLU A 37 VAL A 45 1 9 HELIX 4 4 ASN A 47 HIS A 64 1 18 HELIX 5 5 SER A 74 TYR A 93 1 20 HELIX 6 6 ASP A 95 LEU A 101 1 7 HELIX 7 7 ASP A 106 LYS A 108 5 3 HELIX 8 8 GLN A 109 ASN A 123 1 15 HELIX 9 9 SER A 126 LEU A 155 1 30 HELIX 10 10 PRO A 167 SER A 179 1 13 HELIX 11 11 GLY A 182 LEU A 205 1 24 LINK MG MG A1207 O HOH A2078 1555 1555 2.03 LINK MG MG A1207 O HOH A2122 1555 2455 2.05 LINK MG MG A1207 NE2 HIS A 100 1555 1555 2.31 LINK MG MG A1207 O12 TDC A1206 1555 1555 2.02 LINK MG MG A1207 O11 TDC A1206 1555 1555 1.98 LINK MG MG A1207 O HOH A2079 1555 1555 2.13 LINK MG MG A1208 O HOH A2003 1555 1555 2.05 LINK MG MG A1208 O HOH A2070 1555 1555 2.34 LINK MG MG A1208 O HOH A2071 1555 1555 2.15 LINK MG MG A1208 O HOH A2072 1555 1555 2.24 LINK MG MG A1208 O HOH A2073 1555 1555 2.17 LINK MG MG A1208 O HOH A2128 1555 1555 1.92 SITE 1 AC1 18 HIS A 64 SER A 67 ASN A 82 PHE A 86 SITE 2 AC1 18 HIS A 100 THR A 103 ARG A 104 PRO A 105 SITE 3 AC1 18 THR A 112 GLN A 116 ILE A 134 SER A 138 SITE 4 AC1 18 MET A 177 MG A1207 HOH A2078 HOH A2079 SITE 5 AC1 18 HOH A2122 HOH A2166 SITE 1 AC2 5 HIS A 100 TDC A1206 HOH A2078 HOH A2079 SITE 2 AC2 5 HOH A2122 SITE 1 AC3 6 HOH A2003 HOH A2070 HOH A2071 HOH A2072 SITE 2 AC3 6 HOH A2073 HOH A2128 CRYST1 70.650 54.460 56.850 90.00 90.00 90.00 P 21 21 2 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 0.014154 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018362 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017590 0.00000