HEADER TRANSCRIPTION 30-JUL-08 2VZ4 TITLE THE N-TERMINAL DOMAIN OF MERR-LIKE PROTEIN TIPAL BOUND TO PROMOTER DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HTH-TYPE TRANSCRIPTIONAL ACTIVATOR TIPA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DNA-BINDING DOMAIN TIPAN, RESIDUES 2-109; COMPND 5 SYNONYM: TIPAL; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*CP*TP*CP*CP*TP*CP*AP*CP*GP*TP COMPND 9 *CP*AP*CP*GP*TP*GP*AP*GP*GP*TP*G)-3'; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: TIPA PROMOTER; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES LIVIDANS; SOURCE 3 ORGANISM_TAXID: 1916; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_PLASMID: MODIFIED PET22B; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: STREPTOMYCES LIVIDANS; SOURCE 11 ORGANISM_TAXID: 1916 KEYWDS TRANSCRIPTION, RESISTANCE, ANTIBIOTIC, DNA-BINDING, STREPTOMYCES, KEYWDS 2 TRANSCRIPTION FACTOR, ALTERNATIVE INITIATION, TRANSCRIPTION KEYWDS 3 REGULATION, DNA, MERR, DRUG, TIPAL, TIPAN, TIPAS, ACTIVATOR EXPDTA X-RAY DIFFRACTION AUTHOR M.G.ALLAN,J.STETEFELD,T.SCHIRMER REVDAT 4 13-DEC-23 2VZ4 1 REMARK REVDAT 3 08-MAY-19 2VZ4 1 REMARK REVDAT 2 13-JUL-11 2VZ4 1 VERSN REVDAT 1 17-NOV-09 2VZ4 0 JRNL AUTH M.G.ALLAN,K.J.NEWBERRY,J.SCHUMAN,R.G.BRENNAN,J.STETEFELD, JRNL AUTH 2 S.GRZESIEK,T.SCHIRMER JRNL TITL STRUCTURE OF THE TRANSCRIPTIONALLY INACTIVE MERR DOMAIN JRNL TITL 2 TIPAN IN COMPLEX WITH DNA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.90 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : 4922 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) : 0.240 REMARK 3 R VALUE (WORKING SET) : 0.239 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.500 REMARK 3 FREE R VALUE TEST SET COUNT : 230 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) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 356 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3580 REMARK 3 BIN FREE R VALUE SET COUNT : 13 REMARK 3 BIN FREE R VALUE : 0.4150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 794 REMARK 3 NUCLEIC ACID ATOMS : 428 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.50000 REMARK 3 B22 (A**2) : -4.37000 REMARK 3 B33 (A**2) : 2.87000 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): 1.777 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.401 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.423 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 56.040 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.923 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.872 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1245 ; 0.008 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 712 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1771 ; 1.337 ; 2.391 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1730 ; 0.912 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 98 ; 5.115 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 34 ;38.988 ;22.353 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 122 ;15.313 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;18.876 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 203 ; 0.051 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1084 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 207 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 244 ; 0.201 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 739 ; 0.176 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 545 ; 0.199 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 511 ; 0.084 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 18 ; 0.122 ; 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): 12 ; 0.152 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 38 ; 0.374 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.075 ; 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): 530 ; 1.519 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 203 ; 0.342 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 771 ; 2.385 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 980 ; 3.359 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1000 ; 5.019 ; 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 71 REMARK 3 ORIGIN FOR THE GROUP (A): -2.3614 16.1282 -22.1389 REMARK 3 T TENSOR REMARK 3 T11: -0.1605 T22: -0.2264 REMARK 3 T33: 0.0883 T12: -0.0967 REMARK 3 T13: 0.0309 T23: -0.0553 REMARK 3 L TENSOR REMARK 3 L11: 4.5435 L22: 10.6024 REMARK 3 L33: 8.1752 L12: -0.2020 REMARK 3 L13: 2.3173 L23: -2.8074 REMARK 3 S TENSOR REMARK 3 S11: 0.2364 S12: -0.0725 S13: -0.1755 REMARK 3 S21: 0.3104 S22: -0.0824 S23: 0.2870 REMARK 3 S31: 0.5090 S32: -0.5064 S33: -0.1541 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 77 A 106 REMARK 3 ORIGIN FOR THE GROUP (A): -4.6635 34.3850 -40.2169 REMARK 3 T TENSOR REMARK 3 T11: -0.1271 T22: 0.0360 REMARK 3 T33: 0.0274 T12: 0.0135 REMARK 3 T13: -0.0256 T23: 0.0266 REMARK 3 L TENSOR REMARK 3 L11: 9.4978 L22: 9.2033 REMARK 3 L33: 1.2258 L12: 3.1998 REMARK 3 L13: -0.4585 L23: 0.2660 REMARK 3 S TENSOR REMARK 3 S11: 0.5280 S12: -0.6104 S13: 0.1876 REMARK 3 S21: 0.1041 S22: -0.6046 S23: 0.4823 REMARK 3 S31: 0.0742 S32: -0.1395 S33: 0.0766 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 : B -11 B -2 REMARK 3 ORIGIN FOR THE GROUP (A): 7.2860 18.6586 -7.7848 REMARK 3 T TENSOR REMARK 3 T11: 0.5467 T22: -0.0703 REMARK 3 T33: 0.1681 T12: -0.1269 REMARK 3 T13: -0.2977 T23: 0.2134 REMARK 3 L TENSOR REMARK 3 L11: 5.2678 L22: 14.5735 REMARK 3 L33: 5.8529 L12: 1.4491 REMARK 3 L13: 3.2124 L23: 0.3431 REMARK 3 S TENSOR REMARK 3 S11: -0.0416 S12: -0.7602 S13: -0.1438 REMARK 3 S21: 1.4002 S22: -0.0204 S23: -0.3927 REMARK 3 S31: -0.1113 S32: 0.5620 S33: 0.0620 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 : B 1 B 11 REMARK 3 ORIGIN FOR THE GROUP (A): -7.8658 48.3020 -8.0472 REMARK 3 T TENSOR REMARK 3 T11: 0.5439 T22: 0.1859 REMARK 3 T33: 0.3402 T12: -0.0573 REMARK 3 T13: 0.3816 T23: -0.1964 REMARK 3 L TENSOR REMARK 3 L11: 1.5232 L22: 3.6188 REMARK 3 L33: 3.3314 L12: 2.0451 REMARK 3 L13: 1.6340 L23: 1.0201 REMARK 3 S TENSOR REMARK 3 S11: -0.1944 S12: -0.8847 S13: 0.6753 REMARK 3 S21: 1.8058 S22: -0.3093 S23: 1.1840 REMARK 3 S31: 0.3043 S32: -0.6806 S33: 0.5037 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. ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 4 REMARK 4 2VZ4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1290037028. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9001 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 5321 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 72.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.10 REMARK 200 R MERGE FOR SHELL (I) : 0.35000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.500 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 1R8D REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SITTING DROP CONTAINING 4 MICROLITERS REMARK 280 PROTEIN-DNA SOLUTION PLUS 6 MICROLITERS RESERVOIR SOLUTION. REMARK 280 PROTEIN-DNA SOLUTION: 500 MICROMOLAR (6 MILLIGRAMS/MILLILITER) REMARK 280 PROTEIN, 275 MICROMOLAR DOUBLE-STRANDED DNA, 123 MILLIMOLAR REMARK 280 SODIUM CHLORIDE, 16 MILLIMOLAR TRIS (TRIS(HYDROXYMETHYL) REMARK 280 AMINOMETHANE), 8 MILLIMOLAR SODIUM CACODYLATE, 4 MILLIMOLAR REMARK 280 MAGNESIUM CHLORIDE, 0.8 MILLIMOLAR EDTA REMARK 280 (ETHYLENEDIAMINETETRAACETIC ACID), PH 8. RESERVOIR SOLUTION: 15% REMARK 280 (WEIGHT/VOLUME) PEG-8K (POLY(ETHYLENE GLYCOL) WITH MOLECULAR REMARK 280 MASS 8000 GRAMS/MOLE), 200 MILLIMOLAR MAGNESIUM CHLORIDE, 100 REMARK 280 MILLIMOLAR TRIS (TRIS(HYDROXYMETHYL)AMINOMETHANE), PH 8.5., REMARK 280 VAPOR DIFFUSION, SITTING DROP 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 22.92500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.73350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.92500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.73350 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6320 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -57.4 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 67.46700 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 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 PRO A 72 REMARK 465 ALA A 73 REMARK 465 ALA A 74 REMARK 465 ASP A 75 REMARK 465 PRO A 76 REMARK 465 ALA A 107 REMARK 465 ARG A 108 REMARK 465 SER A 109 REMARK 465 DT B -14 REMARK 465 DT B -13 REMARK 465 DG B -12 REMARK 465 DG B 12 REMARK 465 DC B 13 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ASP A 24 CG OD1 OD2 REMARK 480 GLU A 32 CG CD OE1 OE2 REMARK 480 ARG A 33 CG CD NE CZ NH1 NH2 REMARK 480 HIS A 35 CG ND1 CD2 CE1 NE2 REMARK 480 ASP A 71 CG OD1 OD2 REMARK 480 ARG A 77 CG CD NE CZ NH1 NH2 REMARK 480 ARG A 82 NE CZ NH1 NH2 REMARK 480 GLN A 103 CG CD OE1 NE2 REMARK 480 GLU A 106 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 DC B -11 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DT B -10 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DC B -9 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DC B -8 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC B -6 O4' - C1' - N1 ANGL. DEV. = 4.1 DEGREES REMARK 500 DA B -5 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DA B -5 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DC B -4 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DC B 1 O4' - C1' - C2' ANGL. DEV. = -5.5 DEGREES REMARK 500 DC B 3 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG B 6 O4' - C1' - N9 ANGL. DEV. = 8.1 DEGREES REMARK 500 DG B 9 O4' - C1' - N9 ANGL. DEV. = 6.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NY9 RELATED DB: PDB REMARK 900 ANTIBIOTIC BINDING DOMAIN OF A TIPA-CLASS MULTIDRUGRESISTANCE REMARK 900 TRANSCRIPTIONAL REGULATOR REMARK 999 REMARK 999 SEQUENCE REMARK 999 TIPAN IS THE N-TERMINAL DOMAIN OF TIPAL. RESIDUE M1 WAS REMARK 999 CLEAVED DURING EXPRESSION. REMARK 999 THE SEQUENCE IS DESCRIBED IN HOLMES ET AL. (1993) EMBO J, REMARK 999 VOL. 12, P. 3183. REMARK 999 THE CRYSTAL CONTAINED DOUBLE-STRANDED DNA WITH SEQUENCES REMARK 999 TTGCACCTCACGTCACGTGAGGAGGC (PLUS STRAND) AND REMARK 999 AGCCTCCTCACGTGACGTGAGGTGCA (MINUS STRAND). BOTH STRANDS REMARK 999 WERE MODELED AS CHAIN B WITH SEQUENCE REMARK 999 CTCCTCACGTCACGTGAGGTG. DBREF 2VZ4 A 2 109 UNP P0A4T9 TIPA_STRLI 2 109 DBREF 2VZ4 B -14 13 GB 408222 AAB27737 63 88 SEQADV 2VZ4 DT B -10 GB 408222 DA 67 SEE REMARK 999 SEQADV 2VZ4 DT B 10 GB 408222 DA 85 SEE REMARK 999 SEQRES 1 A 108 SER TYR SER VAL GLY GLN VAL ALA GLY PHE ALA GLY VAL SEQRES 2 A 108 THR VAL ARG THR LEU HIS HIS TYR ASP ASP ILE GLY LEU SEQRES 3 A 108 LEU VAL PRO SER GLU ARG SER HIS ALA GLY HIS ARG ARG SEQRES 4 A 108 TYR SER ASP ALA ASP LEU ASP ARG LEU GLN GLN ILE LEU SEQRES 5 A 108 PHE TYR ARG GLU LEU GLY PHE PRO LEU ASP GLU VAL ALA SEQRES 6 A 108 ALA LEU LEU ASP ASP PRO ALA ALA ASP PRO ARG ALA HIS SEQRES 7 A 108 LEU ARG ARG GLN HIS GLU LEU LEU SER ALA ARG ILE GLY SEQRES 8 A 108 LYS LEU GLN LYS MET ALA ALA ALA VAL GLU GLN ALA MET SEQRES 9 A 108 GLU ALA ARG SER SEQRES 1 B 26 DT DT DG DC DT DC DC DT DC DA DC DG DT SEQRES 2 B 26 DC DA DC DG DT DG DA DG DG DT DG DG DC HELIX 1 1 SER A 4 GLY A 13 1 10 HELIX 2 2 THR A 15 ILE A 25 1 11 HELIX 3 3 SER A 42 LEU A 58 1 17 HELIX 4 4 PRO A 61 ASP A 70 1 10 HELIX 5 5 ALA A 78 GLU A 106 1 29 SHEET 1 AA 2 GLU A 32 ARG A 33 0 SHEET 2 AA 2 ARG A 39 ARG A 40 -1 N ARG A 40 O GLU A 32 CRYST1 45.850 67.467 73.129 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 0.021810 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014822 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013674 0.00000