HEADER TRANSCRIPTION REGULATOR 30-DEC-05 2FJ1 TITLE CRYSTAL STRUCTURE ANALYSIS OF TET REPRESSOR (CLASS D) IN COMPLEX WITH TITLE 2 7-CHLORTETRACYCLINE-NICKEL(II) COMPND MOL_ID: 1; COMPND 2 MOLECULE: TETRACYCLINE REPRESSOR PROTEIN CLASS D; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 2-208; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: TETR; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: K12 DELTA H1 DELTA TRP; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PWH610 KEYWDS TRANSCRIPTION REGULATION, HELIX-TURN-HELIX, METAL COORDINATION, KEYWDS 2 TRANSCRIPTION REGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR P.ORTH,W.SAENGER,G.J.PALM,W.HINRICHS REVDAT 7 30-AUG-23 2FJ1 1 REMARK REVDAT 6 20-OCT-21 2FJ1 1 REMARK SEQADV LINK REVDAT 5 18-OCT-17 2FJ1 1 REMARK REVDAT 4 13-JUL-11 2FJ1 1 VERSN REVDAT 3 24-FEB-09 2FJ1 1 VERSN REVDAT 2 07-OCT-08 2FJ1 1 JRNL REVDAT 1 09-JAN-07 2FJ1 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 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH W.HINRICHS,C.KISKER,M.DUEVEL,A.MUELLER,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 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 64.55 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 10706 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) : 0.149 REMARK 3 R VALUE (WORKING SET) : 0.146 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 544 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 713 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2080 REMARK 3 BIN FREE R VALUE SET COUNT : 38 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1641 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 102 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.78000 REMARK 3 B22 (A**2) : 0.78000 REMARK 3 B33 (A**2) : -1.55000 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): 0.240 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.200 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.133 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.467 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1750 ; 0.034 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1595 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2387 ; 2.464 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3688 ; 1.146 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 214 ; 6.039 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 267 ; 0.167 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1979 ; 0.014 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 363 ; 0.010 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 412 ; 0.242 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1720 ; 0.252 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1034 ; 0.113 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 69 ; 0.195 ; 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): 21 ; 0.240 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 97 ; 0.312 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.245 ; 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): 1054 ; 1.609 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1690 ; 3.042 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 696 ; 4.094 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 697 ; 6.745 ; 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 REMARK 4 REMARK 4 2FJ1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JAN-06. REMARK 100 THE DEPOSITION ID IS D_1000035933. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JAN-97 REMARK 200 TEMPERATURE (KELVIN) : 277 REMARK 200 PH : 7.2 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 : ENRAF-NONIUS FR571 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10706 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 64.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.26800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2TCT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.58 M AMMONIUM SULPHATE, PH 7.2, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.0K 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 34.46850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 34.46850 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 90.44650 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 34.46850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 45.22325 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 34.46850 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 135.66975 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 34.46850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 135.66975 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 34.46850 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 45.22325 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 34.46850 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 34.46850 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 90.44650 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 34.46850 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 34.46850 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 90.44650 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 34.46850 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 135.66975 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 34.46850 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 45.22325 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 34.46850 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 45.22325 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 34.46850 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 135.66975 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 34.46850 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 34.46850 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 90.44650 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 8520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -96.0 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 68.93700 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 68.93700 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 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 OD2 ASP A 65 O HOH A 374 2.04 REMARK 500 O HOH A 327 O HOH A 396 2.06 REMARK 500 NH2 ARG A 49 O HOH A 371 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 TYR A 42 CZ TYR A 42 CE2 0.091 REMARK 500 GLU A 58 CD GLU A 58 OE1 0.085 REMARK 500 GLU A 122 CD GLU A 122 OE1 0.069 REMARK 500 MET A 177 SD MET A 177 CE 0.525 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 49 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 49 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 88 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 104 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 LEU A 142 CA - CB - CG ANGL. DEV. = 15.7 DEGREES REMARK 500 ARG A 171 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 171 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP A 180 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 195 NE - CZ - NH2 ANGL. DEV. = 3.6 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 62.92 -103.81 REMARK 500 THR A 156 -60.31 -159.62 REMARK 500 ALA A 160 -172.52 48.39 REMARK 500 ALA A 161 101.67 -160.71 REMARK 500 PRO A 162 84.83 -59.23 REMARK 500 ASP A 163 -18.00 -48.63 REMARK 500 GLU A 164 -72.80 -59.54 REMARK 500 LEU A 204 -116.79 56.79 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 NI A 223 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 100 NE2 REMARK 620 2 CTC A 222 O11 165.9 REMARK 620 3 CTC A 222 O12 87.9 86.6 REMARK 620 4 HOH A 224 O 91.5 92.8 174.9 REMARK 620 5 HOH A 225 O 99.9 93.1 90.5 94.6 REMARK 620 6 HOH A 226 O 84.5 82.7 91.2 83.7 175.3 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 NI A 223 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CTC A 222 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2TCT RELATED DB: PDB REMARK 900 SAME PROTEIN, SAME 7-CHLORTETRACYCLINE, BUT WITH MG2+ INSTEAD OF REMARK 900 NI2+ REMARK 900 RELATED ID: 2TRT RELATED DB: PDB REMARK 900 SAME PROTEIN, TETRACYCLINE-MAGNESIUM COMPLEX REMARK 900 RELATED ID: 1QPI RELATED DB: PDB REMARK 900 TET REPRESSOR / DNA COMPLEX (15 BASEPAIRS) DBREF 2FJ1 A 2 208 UNP P0ACT4 TETR4_ECOLI 2 208 SEQADV 2FJ1 SER A 2 UNP P0ACT4 ALA 2 ENGINEERED MUTATION 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 NI A 223 1 HET CL A 301 1 HET CL A 302 1 HET CL A 303 1 HET CTC A 222 33 HETNAM NI NICKEL (II) ION HETNAM CL CHLORIDE ION HETNAM CTC 7-CHLOROTETRACYCLINE FORMUL 2 NI NI 2+ FORMUL 3 CL 3(CL 1-) FORMUL 6 CTC C22 H23 CL N2 O8 FORMUL 7 HOH *102(H2 O) HELIX 1 1 ASN A 5 GLY A 21 1 17 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 NI NI A 223 1555 1555 2.08 LINK O11 CTC A 222 NI NI A 223 1555 1555 2.01 LINK O12 CTC A 222 NI NI A 223 1555 1555 1.96 LINK NI NI A 223 O HOH A 224 1555 1555 2.16 LINK NI NI A 223 O HOH A 225 1555 1555 2.22 LINK NI NI A 223 O HOH A 226 1555 1555 2.22 SITE 1 AC1 5 HIS A 100 CTC A 222 HOH A 224 HOH A 225 SITE 2 AC1 5 HOH A 226 SITE 1 AC2 5 ARG A 3 LEU A 4 GLN A 76 ARG A 80 SITE 2 AC2 5 HOH A 400 SITE 1 AC3 2 ARG A 3 SER A 74 SITE 1 AC4 1 ARG A 118 SITE 1 AC5 16 HIS A 64 SER A 67 ASN A 82 PHE A 86 SITE 2 AC5 16 HIS A 100 ARG A 104 VAL A 113 GLN A 116 SITE 3 AC5 16 ILE A 134 SER A 138 NI A 223 HOH A 224 SITE 4 AC5 16 HOH A 225 HOH A 226 HOH A 305 HOH A 317 CRYST1 68.937 68.937 180.893 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 0.014506 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014506 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005528 0.00000