PDB Short entry for 2XPV HEADER TRANSCRIPTION 30-AUG-10 2XPV TITLE TETR(D) IN COMPLEX WITH MINOCYCLINE AND MAGNESIUM. 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: TETRACYCLINE REPRESSOR; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: C-TERMINUS REMOVED 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: 83333; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: K-12; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: DELTA H1 DELTA TRP; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PWH 610 KEYWDS TRANSCRIPTION, TRANSCRIPTION REGULATOR, HELIX-TURN-HELIX, METAL KEYWDS 2 COORDINATION EXPDTA X-RAY DIFFRACTION AUTHOR D.DALM,J.PROFT,G.J.PALM,W.HINRICHS REVDAT 4 20-DEC-23 2XPV 1 COMPND REMARK HETNAM LINK REVDAT 3 24-JUL-19 2XPV 1 REMARK REVDAT 2 21-SEP-11 2XPV 1 HETATM REVDAT 1 07-SEP-11 2XPV 0 JRNL AUTH D.DALM,G.J.PALM,J.PROFT,W.HINRICHS JRNL TITL TETR(D) IN COMPLEX WITH MINOCYCLINE. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH W.HINRICHS,C.KISKER,M.DUVEL,A.MULLER,K.TOVAR,W.HILLEN, REMARK 1 AUTH 2 W.SAENGER REMARK 1 TITL STRUCTURE OF THE TET REPRESSOR-TETRACYCLINE COMPLEX AND REMARK 1 TITL 2 REGULATION OF ANTIBIOTIC RESISTANCE. REMARK 1 REF SCIENCE V. 264 418 1994 REMARK 1 REFN ISSN 0036-8075 REMARK 1 PMID 8153629 REMARK 2 REMARK 2 RESOLUTION. 1.49 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.49 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 64.55 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 32272 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) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1703 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) : 1.49 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.52 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2328 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.2580 REMARK 3 BIN FREE R VALUE SET COUNT : 120 REMARK 3 BIN FREE R VALUE : 0.3000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1579 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 42 REMARK 3 SOLVENT ATOMS : 272 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.58000 REMARK 3 B22 (A**2) : 0.58000 REMARK 3 B33 (A**2) : -1.16000 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): 0.081 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.077 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.052 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.383 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.963 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1746 ; 0.018 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1174 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2387 ; 1.692 ; 2.014 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2855 ; 0.933 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 219 ; 5.371 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 84 ;36.035 ;23.452 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 305 ;13.331 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;15.319 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 270 ; 0.135 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1987 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 365 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1053 ; 1.034 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 426 ; 0.297 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1697 ; 1.697 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 693 ; 2.660 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 690 ; 3.968 ; 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 : NULL 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 : 1.40 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. U VALUES REFINED INDIVIDUALLY. REMARK 4 REMARK 4 2XPV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-AUG-10. REMARK 100 THE DEPOSITION ID IS D_1290045202. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-APR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH SX-165 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32272 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.490 REMARK 200 RESOLUTION RANGE LOW (A) : 64.550 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 32.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.52 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.63000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: PDB ENTRY 2TCT REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12% PEG 6000, 2.0 M NACL, PH 8 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 34.34300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 34.34300 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 89.33650 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 34.34300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 44.66825 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 34.34300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 134.00475 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 34.34300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 134.00475 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 34.34300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 44.66825 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 34.34300 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 34.34300 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 89.33650 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 34.34300 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 34.34300 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 89.33650 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 34.34300 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 134.00475 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 34.34300 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 44.66825 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 34.34300 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 44.66825 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 34.34300 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 134.00475 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 34.34300 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 34.34300 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 89.33650 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: 9310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -196.3 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 68.68600 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 68.68600 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 A2022 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2192 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 THR A 156 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 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 GLU A 164 CG CD OE1 OE2 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 ASP A 11 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 MET A 84 CG - SD - CE ANGL. DEV. = -26.2 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 TYR A 66 49.72 -107.76 REMARK 500 TYR A 66 56.48 -107.76 REMARK 500 LEU A 204 -112.51 49.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 (4S,4AS,5AR,12AS)-4,7-BIS(DIMETHYLAMINO)- 3,10,12, REMARK 600 12A-TETRAHYDROXY-1,11-DIOXO -1,4,4A,5,5A,6,11,12A- REMARK 600 OCTAHYDROTETRACENE-2-CARBOXAMIDE (MIY): MINOCYCLINE 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 A1210 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 100 NE2 REMARK 620 2 MIY A1209 O5 173.2 REMARK 620 3 MIY A1209 O6 90.2 85.9 REMARK 620 4 HOH A2163 O 88.8 86.0 94.9 REMARK 620 5 HOH A2165 O 93.5 90.5 176.2 86.2 REMARK 620 6 HOH A2272 O 94.5 91.1 90.9 173.3 87.8 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 MIY A 1209 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1210 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1211 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1216 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1217 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1218 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XGC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A DESIGNED HETERODIMERIC VARIANT T -A(I)B OF REMARK 900 THE TETRACYCLINE REPRESSOR REMARK 900 RELATED ID: 2XPW RELATED DB: PDB REMARK 900 TETR(D) IN COMPLEX WITH OXYTETRACYCLINE AND MAGNESIUM. REMARK 900 RELATED ID: 3ZQG RELATED DB: PDB REMARK 900 STRUCTURE OF TETRACYCLINE REPRESSOR IN COMPLEX WITH ANTIINDUCER REMARK 900 PEPTIDE-TAP2 REMARK 900 RELATED ID: 2X9D RELATED DB: PDB REMARK 900 TET REPRESSOR (CLASS D) IN COMPLEX WITH ISO-7- CHLORTETRACYCLINE 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: 3ZQH RELATED DB: PDB REMARK 900 STRUCTURE OF TETRACYCLINE REPRESSOR IN COMPLEX WITH INDUCER PEPTIDE- REMARK 900 TIP3 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: 2XGE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A DESIGNED HETERODIMERIC VARIANT T -A(A)B OF REMARK 900 THE TETRACYCLINE REPRESSOR REMARK 900 RELATED ID: 1A6I RELATED DB: PDB REMARK 900 TET REPRESSOR, CLASS D VARIANT REMARK 900 RELATED ID: 2X6O RELATED DB: PDB REMARK 900 TET REPRESSOR CLASS D IN COMPLEX WITH 7-CHLOR-2- CYANO-ISO- REMARK 900 TETRACYCLINE REMARK 900 RELATED ID: 1QPI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TETRACYCLINE REPRESSOR/OPERATOR COMPLEX REMARK 900 RELATED ID: 2VKE RELATED DB: PDB REMARK 900 TET REPRESSOR CLASS D COMPLEXED WITH COBALT AND TETRACYCLINE 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: 2XGD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A DESIGNED HOMODIMERIC VARIANT T- A(L)A(L) OF REMARK 900 THE TETRACYCLINE REPRESSOR REMARK 900 RELATED ID: 2XRL RELATED DB: PDB REMARK 900 TET-REPRESSOR CLASS D T103A WITH DOXYCYCLINE REMARK 900 RELATED ID: 2XPT RELATED DB: PDB REMARK 900 TETR(D) IN COMPLEX WITH MINOCYCLINE AND MAGNESIUM. REMARK 900 RELATED ID: 2XPU RELATED DB: PDB REMARK 900 TETR(D) IN COMPLEX WITH ANHYDROTETRACYCLINE. REMARK 900 RELATED ID: 2XB5 RELATED DB: PDB REMARK 900 TET REPRESSOR (CLASS D) IN COMPLEX WITH 7- IODOTETRACYCLINE REMARK 900 RELATED ID: 3ZQF RELATED DB: PDB REMARK 900 STRUCTURE OF TETRACYCLINE REPRESSOR IN COMPLEX WITH ANTIINDUCER REMARK 900 PEPTIDE-TAP1 REMARK 900 RELATED ID: 3ZQI RELATED DB: PDB REMARK 900 STRUCTURE OF TETRACYCLINE REPRESSOR IN COMPLEX WITH INDUCER PEPTIDE- REMARK 900 TIP2 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: 2XPS RELATED DB: PDB REMARK 900 TETR(D) IN COMPLEX WITH ANHYDROTETRACYCLINE AND MAGNESIUM 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 C-TERMINUS (209-218) REMOVED FOR BETTER CRYSTALLIZATION DBREF 2XPV A 2 208 UNP P0ACT4 TETR4_ECOLX 2 208 SEQADV 2XPV 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 MIY A1209 35 HET MG A1210 1 HET CL A1211 1 HET CL A1212 1 HET CL A1213 1 HET CL A1214 1 HET CL A1215 1 HET CL A1216 1 HET CL A1217 1 HET CL A1218 1 HETNAM MIY (4S,4AS,5AR,12AS)-4,7-BIS(DIMETHYLAMINO)-3,10,12,12A- HETNAM 2 MIY TETRAHYDROXY-1,11-DIOXO-1,4,4A,5,5A,6,11,12A- HETNAM 3 MIY OCTAHYDROTETRACENE-2- CARBOXAMIDE HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETSYN MIY MINOCYCLINE FORMUL 2 MIY C23 H27 N3 O7 FORMUL 3 MG MG 2+ FORMUL 4 CL 8(CL 1-) FORMUL 12 HOH *272(H2 O) HELIX 1 1 ASN A 5 LEU A 25 1 21 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 ARG A 92 1 19 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 ASP A 178 1 12 HELIX 11 11 GLY A 182 LEU A 204 1 23 LINK NE2 HIS A 100 MG MG A1210 1555 1555 2.21 LINK O5 MIY A1209 MG MG A1210 1555 1555 2.03 LINK O6 MIY A1209 MG MG A1210 1555 1555 1.93 LINK MG MG A1210 O HOH A2163 1555 1555 2.10 LINK MG MG A1210 O HOH A2165 1555 1555 2.13 LINK MG MG A1210 O HOH A2272 1555 1555 2.10 SITE 1 AC1 21 HIS A 64 SER A 67 ASN A 82 PHE A 86 SITE 2 AC1 21 HIS A 100 THR A 103 ARG A 104 PRO A 105 SITE 3 AC1 21 THR A 112 VAL A 113 GLN A 116 LEU A 131 SITE 4 AC1 21 SER A 138 LEU A 170 ALA A 173 MET A 177 SITE 5 AC1 21 MG A1210 HOH A2163 HOH A2165 HOH A2180 SITE 6 AC1 21 HOH A2272 SITE 1 AC2 5 HIS A 100 MIY A1209 HOH A2163 HOH A2165 SITE 2 AC2 5 HOH A2272 SITE 1 AC3 4 SER A 2 ARG A 3 SER A 74 SER A 77 SITE 1 AC4 4 LEU A 4 GLN A 76 ARG A 80 HOH A2253 SITE 1 AC5 2 THR A 26 THR A 27 SITE 1 AC6 4 ASN A 5 ARG A 6 GLU A 7 HOH A2029 SITE 1 AC7 2 SER A 2 ASN A 81 SITE 1 AC8 2 TRP A 75 GLN A 76 SITE 1 AC9 1 ARG A 195 SITE 1 BC1 4 THR A 26 ARG A 28 HOH A2030 HOH A2071 CRYST1 68.686 68.686 178.673 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 0.014559 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014559 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005597 0.00000