HEADER DNA BINDING PROTEIN 11-AUG-05 2AN7 TITLE SOLUTION STRUCTURE OF THE BACTERIAL ANTIDOTE PARD COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN PARD; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: RK2-RP4 KEYWDS BACTERIAL ANTIDOTE, RIBBON-HELIX-HELIX, DNA-BINDING MOTIF, PLASMID KEYWDS 2 ADDICTION, DNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 24 AUTHOR M.OBERER,K.ZANGGER,K.GRUBER,W.KELLER REVDAT 4 14-JUN-23 2AN7 1 REMARK REVDAT 3 26-FEB-20 2AN7 1 REMARK REVDAT 2 24-FEB-09 2AN7 1 JRNL VERSN REVDAT 1 05-SEP-06 2AN7 0 JRNL AUTH M.OBERER,K.ZANGGER,K.GRUBER,W.KELLER JRNL TITL THE SOLUTION STRUCTURE OF PARD, THE ANTIDOTE OF THE PARDE JRNL TITL 2 TOXIN ANTITOXIN MODULE, PROVIDES THE STRUCTURAL BASIS FOR JRNL TITL 3 DNA AND TOXIN BINDING. JRNL REF PROTEIN SCI. V. 16 1676 2007 JRNL REFN ISSN 0961-8368 JRNL PMID 17656583 JRNL DOI 10.1110/PS.062680707 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.OBERER,K.ZANGGER,S.PRYTULLA,W.KELLER REMARK 1 TITL THE ANTI-TOXIN PARD OF PLASMID RK2 CONSISTS OF TWO REMARK 1 TITL 2 STRUCTURALLY DISTINCT MOIETIES AND BELONGS TO THE REMARK 1 TITL 3 RIBBON-HELIX-HELIX FAMILY OF DNA-BINDING PROTEINS REMARK 1 REF BIOCHEM.J. V. 361 41 2002 REMARK 1 REFN ISSN 0264-6021 REMARK 1 PMID 11743881 REMARK 1 DOI 10.1042/0264-6021:3610041 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE REMARK 3 -KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU,READ,RICE, REMARK 3 SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2AN7 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-AUG-05. REMARK 100 THE DEPOSITION ID IS D_1000034090. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 180MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.6MM PARD U-15N,13C; 20MM REMARK 210 PHOSPHATE BUFFER PH 6.0; 50MM REMARK 210 KCL, 0.1% NAN3, 90% H2O, 10% D2O; REMARK 210 0.6MM PARD U-15N; 20MM REMARK 210 PHOSPHATE BUFFER PH 6.0; 50MM REMARK 210 KCL, 0.1% NAN3, 90% H2O, 10% D2O; REMARK 210 0.3MM PARD U-15N, 13C + 0.3MM REMARK 210 PARD UNLABELED; 20MM PHOSPHATE REMARK 210 BUFFER PH 6.0; 50MM KCL, 0.1% REMARK 210 NAN3, 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 13C,15N-EDITED, REMARK 210 13C,15N-FILTERED NOESY-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS 1.1, NMRPIPE 2005, NMRVIEW REMARK 210 4.6 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 150 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 24 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: DIMERIC 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 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 1 MET A 52 -81.99 -92.35 REMARK 500 1 ASN A 58 120.14 62.89 REMARK 500 1 ALA A 62 -43.80 -176.05 REMARK 500 1 LYS A 64 131.87 64.49 REMARK 500 1 VAL A 65 35.21 -148.31 REMARK 500 1 SER A 66 121.64 62.28 REMARK 500 1 THR A 67 -45.27 -176.04 REMARK 500 1 GLU A 76 121.11 -177.39 REMARK 500 1 ASP A 81 -70.03 66.94 REMARK 500 1 ASN B 155 31.69 -152.07 REMARK 500 1 ASP B 159 63.24 -160.45 REMARK 500 1 LEU B 161 108.09 55.19 REMARK 500 1 ALA B 162 53.73 -166.77 REMARK 500 1 SER B 169 -72.42 -86.51 REMARK 500 1 GLU B 176 -38.89 -177.81 REMARK 500 1 ASP B 181 -68.94 68.37 REMARK 500 2 ALA A 62 -48.42 -175.72 REMARK 500 2 LYS A 64 -73.19 65.48 REMARK 500 2 VAL A 65 -96.36 -141.11 REMARK 500 2 SER A 66 51.22 -165.24 REMARK 500 2 THR A 67 -168.67 62.07 REMARK 500 2 LYS A 68 -79.54 -52.09 REMARK 500 2 SER A 69 -163.07 59.00 REMARK 500 2 VAL A 70 72.05 56.55 REMARK 500 2 ILE A 73 115.10 61.95 REMARK 500 2 GLU A 76 -169.76 -56.20 REMARK 500 2 GLU A 77 -163.35 -61.27 REMARK 500 2 SER A 79 -41.81 -169.68 REMARK 500 2 ASP A 81 80.57 48.31 REMARK 500 2 GLU B 148 -41.35 -147.66 REMARK 500 2 ARG B 156 174.31 59.26 REMARK 500 2 ASN B 158 87.96 -58.59 REMARK 500 2 ALA B 162 42.96 -176.84 REMARK 500 2 SER B 166 88.65 -58.19 REMARK 500 2 LYS B 168 85.92 61.07 REMARK 500 2 VAL B 170 156.88 59.17 REMARK 500 2 GLU B 176 107.79 -175.82 REMARK 500 2 LEU B 178 -70.20 66.58 REMARK 500 3 SER A 2 89.50 -59.92 REMARK 500 3 ALA A 40 12.88 -145.35 REMARK 500 3 ARG A 56 -165.00 41.04 REMARK 500 3 ILE A 57 69.39 -159.68 REMARK 500 3 LEU A 61 -71.16 62.67 REMARK 500 3 ALA A 62 37.13 -177.12 REMARK 500 3 LYS A 64 -69.46 67.55 REMARK 500 3 LYS A 68 118.92 62.98 REMARK 500 3 SER A 69 -57.20 -158.96 REMARK 500 3 VAL A 70 155.63 60.33 REMARK 500 3 ILE A 73 86.29 -159.61 REMARK 500 3 GLU A 76 101.81 59.40 REMARK 500 REMARK 500 THIS ENTRY HAS 597 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4792 RELATED DB: BMRB DBREF 2AN7 A 1 83 UNP P22995 PARD4_ECOLI 1 83 DBREF 2AN7 B 101 183 UNP P22995 PARD4_ECOLI 1 83 SEQRES 1 A 83 MET SER ARG LEU THR ILE ASP MET THR ASP GLN GLN HIS SEQRES 2 A 83 GLN SER LEU LYS ALA LEU ALA ALA LEU GLN GLY LYS THR SEQRES 3 A 83 ILE LYS GLN TYR ALA LEU GLU ARG LEU PHE PRO GLY ASP SEQRES 4 A 83 ALA ASP ALA ASP GLN ALA TRP GLN GLU LEU LYS THR MET SEQRES 5 A 83 LEU GLY ASN ARG ILE ASN ASP GLY LEU ALA GLY LYS VAL SEQRES 6 A 83 SER THR LYS SER VAL GLY GLU ILE LEU ASP GLU GLU LEU SEQRES 7 A 83 SER GLY ASP ARG ALA SEQRES 1 B 83 MET SER ARG LEU THR ILE ASP MET THR ASP GLN GLN HIS SEQRES 2 B 83 GLN SER LEU LYS ALA LEU ALA ALA LEU GLN GLY LYS THR SEQRES 3 B 83 ILE LYS GLN TYR ALA LEU GLU ARG LEU PHE PRO GLY ASP SEQRES 4 B 83 ALA ASP ALA ASP GLN ALA TRP GLN GLU LEU LYS THR MET SEQRES 5 B 83 LEU GLY ASN ARG ILE ASN ASP GLY LEU ALA GLY LYS VAL SEQRES 6 B 83 SER THR LYS SER VAL GLY GLU ILE LEU ASP GLU GLU LEU SEQRES 7 B 83 SER GLY ASP ARG ALA HELIX 1 1 THR A 9 GLY A 24 1 16 HELIX 2 2 THR A 26 LEU A 35 1 10 HELIX 3 3 ASP A 41 LEU A 53 1 13 HELIX 4 4 THR B 109 GLY B 124 1 16 HELIX 5 5 THR B 126 PHE B 136 1 11 HELIX 6 6 ASP B 141 LYS B 150 1 10 SHEET 1 A 2 SER A 2 MET A 8 0 SHEET 2 A 2 SER B 102 MET B 108 -1 O ILE B 106 N LEU A 4 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