HEADER TRANSCRIPTION 09-JAN-08 2RNJ TITLE NMR STRUCTURE OF THE S. AUREUS VRAR DNA BINDING DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: RESPONSE REGULATOR PROTEIN VRAR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HTH LUXR-TYPE DOMAIN, UNP RESIDUES 138-209; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 STRAIN: MU50; SOURCE 5 GENE: VRAR; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21:DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET15B; SOURCE 11 OTHER_DETAILS: CLONED AS NDEI/BAMHI FRAGMENT KEYWDS HTH LUXR-TYPE DOMAIN, DNA BINDING DOMAIN, ACTIVATOR, ANTIBIOTIC KEYWDS 2 RESISTANCE, CYTOPLASM, DNA-BINDING, PHOSPHOPROTEIN, PHOSPHORYLATION, KEYWDS 3 TRANSCRIPTION, TRANSCRIPTION REGULATION, TWO-COMPONENT REGULATORY KEYWDS 4 SYSTEM EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR L.W.DONALDSON REVDAT 4 16-MAR-22 2RNJ 1 REMARK SEQADV REVDAT 3 24-FEB-09 2RNJ 1 VERSN REVDAT 2 25-MAR-08 2RNJ 1 JRNL REMARK REVDAT 1 22-JAN-08 2RNJ 0 JRNL AUTH L.W.DONALDSON JRNL TITL THE NMR STRUCTURE OF THE STAPHYLOCOCCUS AUREUS RESPONSE JRNL TITL 2 REGULATOR VRAR DNA BINDING DOMAIN REVEALS A DYNAMIC JRNL TITL 3 RELATIONSHIP BETWEEN IT AND ITS ASSOCIATED RECEIVER DOMAIN JRNL REF BIOCHEMISTRY V. 47 3379 2008 JRNL REFN ISSN 0006-2960 JRNL PMID 18293926 JRNL DOI 10.1021/BI701844Q REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.1, X-PLOR NIH REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR REMARK 3 NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE WAS DETERMINED FROM A REMARK 3 COMBINATION OF NOE DISTANCE RESTRAINTS AND BACKBONE DIHEDRAL REMARK 3 ANGLE RESTRAINTS. FINAL REFINEMENT WAS PERFORMED IN EXPLICIT REMARK 3 SOLVENT REMARK 4 REMARK 4 2RNJ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1000150066. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 7.8 REMARK 210 IONIC STRENGTH : 0.5 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 10MM SODIUM PHOSPHATE; 750MM REMARK 210 SODIUM CHLORIDE; 0.05% SODIUM REMARK 210 AZIDE; 0.3MM [U-98% 13C; U-98% REMARK 210 15N] PROTEIN SAMPLE; 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D CBCA(CO)NH; 3D C(CO)NH; 3D REMARK 210 HNCO; 3D HNCACB; 3D H(CCO)NH; 3D REMARK 210 HCCH-TOCSY; 3D 1H-15N NOESY; 3D REMARK 210 1H-13C NOESY; 2D (HB)CB(CGCD)HD; REMARK 210 2D (HB)CB(CGCDCE)HE REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : NMRS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 2.1, NMRPIPE, PISTACHIO, REMARK 210 NMRVIEW REMARK 210 METHOD USED : SIMULATED ANNEALING, ADDITIONAL REMARK 210 REFINEMENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 25 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 GLY A 119 REMARK 465 SER A 120 REMARK 465 SER A 121 REMARK 465 HIS A 122 REMARK 465 HIS A 123 REMARK 465 HIS A 124 REMARK 465 HIS A 125 REMARK 465 HIS A 126 REMARK 465 HIS A 127 REMARK 465 SER A 128 REMARK 465 SER A 129 REMARK 465 GLY A 130 REMARK 465 LEU A 131 REMARK 465 VAL A 132 REMARK 465 PRO A 133 REMARK 465 ARG A 134 REMARK 465 GLY A 135 REMARK 465 SER A 136 REMARK 465 HIS A 137 REMARK 465 MET A 138 REMARK 465 LYS A 139 REMARK 465 LYS A 140 REMARK 465 ARG A 141 REMARK 465 ALA A 142 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 1 GLU A 150 -175.87 167.34 REMARK 500 1 HIS A 173 41.51 71.85 REMARK 500 1 ARG A 195 -64.98 68.46 REMARK 500 1 HIS A 205 -89.25 -67.86 REMARK 500 1 ASN A 206 14.35 -164.08 REMARK 500 2 THR A 149 24.52 -162.80 REMARK 500 2 GLU A 150 -137.64 -142.24 REMARK 500 2 SER A 172 -76.47 -69.48 REMARK 500 2 HIS A 173 -14.30 157.91 REMARK 500 2 GLU A 191 19.78 59.49 REMARK 500 2 ARG A 195 -49.10 75.30 REMARK 500 2 ASN A 206 -29.79 -149.45 REMARK 500 3 GLU A 150 -98.29 41.92 REMARK 500 3 ASN A 165 -77.73 51.45 REMARK 500 3 GLN A 166 26.65 -140.10 REMARK 500 3 ARG A 195 -63.12 70.54 REMARK 500 3 HIS A 205 -81.46 -80.46 REMARK 500 3 ASN A 206 17.61 -162.31 REMARK 500 3 ILE A 208 115.38 -167.00 REMARK 500 4 GLU A 150 91.93 58.30 REMARK 500 4 ARG A 151 -40.61 72.58 REMARK 500 4 ASP A 194 121.84 -178.43 REMARK 500 4 HIS A 205 -102.89 -118.81 REMARK 500 5 THR A 149 -167.70 -116.05 REMARK 500 5 ARG A 151 -29.03 66.62 REMARK 500 5 ARG A 195 -57.74 68.71 REMARK 500 5 HIS A 205 -94.03 -74.70 REMARK 500 5 ASN A 206 28.67 -165.47 REMARK 500 6 HIS A 173 31.65 71.34 REMARK 500 6 ASP A 194 -74.18 -97.45 REMARK 500 6 ARG A 195 -48.50 170.24 REMARK 500 6 HIS A 205 -83.01 -88.47 REMARK 500 6 ILE A 208 109.76 -53.21 REMARK 500 7 ASN A 165 -85.69 42.89 REMARK 500 7 HIS A 173 36.29 70.04 REMARK 500 7 HIS A 205 -79.13 -86.75 REMARK 500 7 ASN A 206 17.10 -162.21 REMARK 500 7 ILE A 208 -11.67 -162.17 REMARK 500 8 THR A 149 24.56 -155.80 REMARK 500 8 GLU A 150 -146.17 -143.27 REMARK 500 8 ASN A 165 -85.83 63.30 REMARK 500 8 HIS A 205 -75.16 -68.64 REMARK 500 8 ASN A 206 6.12 -163.46 REMARK 500 9 THR A 149 -164.91 -106.93 REMARK 500 9 ARG A 151 -42.27 68.00 REMARK 500 9 GLN A 166 -62.68 -169.75 REMARK 500 9 ASP A 194 -109.12 43.82 REMARK 500 9 ARG A 195 -74.14 -83.01 REMARK 500 10 THR A 149 22.98 -148.44 REMARK 500 10 GLU A 150 -96.31 -116.92 REMARK 500 REMARK 500 THIS ENTRY HAS 55 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 3 ARG A 151 0.09 SIDE CHAIN REMARK 500 8 ARG A 151 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 15378 RELATED DB: BMRB REMARK 900 RELATED ID: 11024 RELATED DB: BMRB DBREF 2RNJ A 138 209 UNP Q7A2Q1 VRAR_STAAM 138 209 SEQADV 2RNJ GLY A 119 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ SER A 120 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ SER A 121 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ HIS A 122 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ HIS A 123 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ HIS A 124 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ HIS A 125 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ HIS A 126 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ HIS A 127 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ SER A 128 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ SER A 129 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ GLY A 130 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ LEU A 131 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ VAL A 132 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ PRO A 133 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ ARG A 134 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ GLY A 135 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ SER A 136 UNP Q7A2Q1 EXPRESSION TAG SEQADV 2RNJ HIS A 137 UNP Q7A2Q1 EXPRESSION TAG SEQRES 1 A 91 GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY LEU SEQRES 2 A 91 VAL PRO ARG GLY SER HIS MET LYS LYS ARG ALA GLU LEU SEQRES 3 A 91 TYR GLU MET LEU THR GLU ARG GLU MET GLU ILE LEU LEU SEQRES 4 A 91 LEU ILE ALA LYS GLY TYR SER ASN GLN GLU ILE ALA SER SEQRES 5 A 91 ALA SER HIS ILE THR ILE LYS THR VAL LYS THR HIS VAL SEQRES 6 A 91 SER ASN ILE LEU SER LYS LEU GLU VAL GLN ASP ARG THR SEQRES 7 A 91 GLN ALA VAL ILE TYR ALA PHE GLN HIS ASN LEU ILE GLN HELIX 1 1 LEU A 144 LEU A 148 5 5 HELIX 2 2 GLU A 150 LYS A 161 1 12 HELIX 3 3 GLN A 166 HIS A 173 1 8 HELIX 4 4 THR A 175 LEU A 190 1 16 HELIX 5 5 ARG A 195 ASN A 206 1 12 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1