HEADER TRANSFERASE 07-FEB-13 2M4K TITLE SOLUTION STRUCTURE OF THE DELTA SUBUNIT OF RNA POLYMERASE FROM TITLE 2 BACILLUS SUBTILIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-DIRECTED RNA POLYMERASE SUBUNIT DELTA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RNAP DELTA FACTOR; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS SUBSP. SUBTILIS; SOURCE 3 ORGANISM_TAXID: 224308; SOURCE 4 STRAIN: 168; SOURCE 5 GENE: RPOE, BSU37160; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: BL21(DE3) KEYWDS DELTA SUBUNIT, RNA POLYMERASE, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR V.PAPOUSKOVA,J.NOVACEK,P.KADERAVEK,L.ZIDEK,A.RABATINOVA,H.SANDEROVA, AUTHOR 2 L.KRASNY,V.SKLENAR REVDAT 3 14-JUN-23 2M4K 1 REMARK REVDAT 2 12-OCT-16 2M4K 1 SEQRES REVDAT 1 09-OCT-13 2M4K 0 JRNL AUTH V.PAPOUSKOVA,P.KADERAVEK,O.OTRUSINOVA,A.RABATINOVA, JRNL AUTH 2 H.SANDEROVA,J.NOVACEK,L.KRASNY,V.SKLENAR,L.ZIDEK JRNL TITL STRUCTURAL STUDY OF THE PARTIALLY DISORDERED FULL-LENGTH JRNL TITL 2 DELTA SUBUNIT OF RNA POLYMERASE FROM BACILLUS SUBTILIS. JRNL REF CHEMBIOCHEM V. 14 1772 2013 JRNL REFN ISSN 1439-4227 JRNL PMID 23868186 JRNL DOI 10.1002/CBIC.201300226 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, CNS REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2M4K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1000103200. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.6 REMARK 210 IONIC STRENGTH : 10 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 10 % [U-100% 2H] D2O, 10 MM REMARK 210 SODIUM CHLORIDE, 50 UM SODIUM REMARK 210 AZIDE, 20 MM SODIUM PHOSPHATE, REMARK 210 90 % H2O, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HN(CO)CA; 3D HNCO; REMARK 210 3D HCCH-TOCSY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D 1H-15N NOESY; 2D REMARK 210 CON; 3D CBCACON; 3D CBCANCO; 5D REMARK 210 HN_CA_CONH; 5D HABCABCONH; 5D H_ REMARK 210 CCTOCSY_CONH; 2D 13C-COUPLED 1H- REMARK 210 13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; UNIFORM NMR SYSTEM REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRDRAW, SPARKY, CNS, CING REMARK 210 METHOD USED : MOLECULAR DYNAMICS, SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 300 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 PRO A 83 REMARK 465 TYR A 84 REMARK 465 ASP A 85 REMARK 465 GLN A 86 REMARK 465 LEU A 87 REMARK 465 ASP A 88 REMARK 465 GLU A 89 REMARK 465 GLU A 90 REMARK 465 THR A 91 REMARK 465 GLN A 92 REMARK 465 PRO A 93 REMARK 465 THR A 94 REMARK 465 VAL A 95 REMARK 465 LYS A 96 REMARK 465 ALA A 97 REMARK 465 LYS A 98 REMARK 465 LYS A 99 REMARK 465 LYS A 100 REMARK 465 LYS A 101 REMARK 465 ALA A 102 REMARK 465 LYS A 103 REMARK 465 LYS A 104 REMARK 465 ALA A 105 REMARK 465 VAL A 106 REMARK 465 GLU A 107 REMARK 465 GLU A 108 REMARK 465 ASP A 109 REMARK 465 LEU A 110 REMARK 465 ASP A 111 REMARK 465 LEU A 112 REMARK 465 ASP A 113 REMARK 465 GLU A 114 REMARK 465 PHE A 115 REMARK 465 GLU A 116 REMARK 465 GLU A 117 REMARK 465 ILE A 118 REMARK 465 ASP A 119 REMARK 465 GLU A 120 REMARK 465 ASP A 121 REMARK 465 ASP A 122 REMARK 465 LEU A 123 REMARK 465 ASP A 124 REMARK 465 LEU A 125 REMARK 465 ASP A 126 REMARK 465 GLU A 127 REMARK 465 VAL A 128 REMARK 465 GLU A 129 REMARK 465 GLU A 130 REMARK 465 GLU A 131 REMARK 465 LEU A 132 REMARK 465 ASP A 133 REMARK 465 LEU A 134 REMARK 465 GLU A 135 REMARK 465 ALA A 136 REMARK 465 ASP A 137 REMARK 465 ASP A 138 REMARK 465 PHE A 139 REMARK 465 ASP A 140 REMARK 465 GLU A 141 REMARK 465 GLU A 142 REMARK 465 ASP A 143 REMARK 465 LEU A 144 REMARK 465 ASP A 145 REMARK 465 GLU A 146 REMARK 465 ASP A 147 REMARK 465 ASP A 148 REMARK 465 ASP A 149 REMARK 465 ASP A 150 REMARK 465 LEU A 151 REMARK 465 GLU A 152 REMARK 465 ILE A 153 REMARK 465 GLU A 154 REMARK 465 GLU A 155 REMARK 465 ASP A 156 REMARK 465 ILE A 157 REMARK 465 ILE A 158 REMARK 465 ASP A 159 REMARK 465 GLU A 160 REMARK 465 ASP A 161 REMARK 465 ASP A 162 REMARK 465 GLU A 163 REMARK 465 ASP A 164 REMARK 465 TYR A 165 REMARK 465 ASP A 166 REMARK 465 ASP A 167 REMARK 465 GLU A 168 REMARK 465 GLU A 169 REMARK 465 GLU A 170 REMARK 465 GLU A 171 REMARK 465 ILE A 172 REMARK 465 LYS A 173 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 HZ2 LYS A 4 OE2 GLU A 26 1.60 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 LEU A 71 -82.02 -71.87 REMARK 500 1 SER A 72 -63.34 -100.28 REMARK 500 1 GLN A 74 23.58 168.48 REMARK 500 2 ILE A 3 -37.68 68.94 REMARK 500 2 LYS A 4 18.29 -64.25 REMARK 500 2 GLN A 5 -4.14 -144.18 REMARK 500 2 LEU A 44 21.84 -75.85 REMARK 500 2 LEU A 71 -107.06 -75.61 REMARK 500 2 SER A 72 -61.24 -102.56 REMARK 500 2 GLN A 74 -60.00 -154.15 REMARK 500 3 LEU A 71 -87.37 -52.39 REMARK 500 3 SER A 72 -63.36 -102.10 REMARK 500 3 GLN A 74 -19.39 -168.17 REMARK 500 4 ILE A 3 -49.84 62.80 REMARK 500 4 LYS A 4 29.67 -79.84 REMARK 500 4 GLN A 5 14.17 -150.00 REMARK 500 4 LEU A 71 -171.24 -69.54 REMARK 500 5 LEU A 71 -168.30 -73.11 REMARK 500 6 LEU A 71 -86.19 -64.73 REMARK 500 6 SER A 72 -63.65 -101.64 REMARK 500 6 GLN A 74 2.09 176.19 REMARK 500 6 SER A 80 20.93 -68.91 REMARK 500 7 ILE A 3 -39.72 73.31 REMARK 500 7 LYS A 4 23.38 -77.82 REMARK 500 7 SER A 72 11.26 -55.01 REMARK 500 8 LYS A 4 31.15 -76.78 REMARK 500 9 GLN A 74 -2.50 71.71 REMARK 500 10 LEU A 71 -96.13 -71.77 REMARK 500 10 SER A 72 -60.40 -102.31 REMARK 500 12 ILE A 3 -56.62 46.35 REMARK 500 12 SER A 72 -14.89 -48.15 REMARK 500 13 SER A 80 21.01 -73.81 REMARK 500 14 ILE A 3 -44.61 63.71 REMARK 500 14 ASP A 65 163.79 57.41 REMARK 500 14 LEU A 71 -90.14 -75.78 REMARK 500 14 SER A 72 -63.12 -102.48 REMARK 500 14 GLN A 74 -50.21 -164.22 REMARK 500 15 ILE A 3 -44.99 78.52 REMARK 500 15 GLN A 74 -27.45 -176.15 REMARK 500 17 ILE A 3 -56.55 -135.02 REMARK 500 17 SER A 72 -5.88 -45.90 REMARK 500 18 ILE A 3 -34.46 58.17 REMARK 500 19 ILE A 3 -26.73 68.11 REMARK 500 19 ASP A 65 78.80 34.92 REMARK 500 19 LEU A 71 -153.50 -84.87 REMARK 500 19 GLN A 74 -5.89 -173.43 REMARK 500 20 ILE A 3 -44.83 56.91 REMARK 500 20 VAL A 46 -169.57 -119.24 REMARK 500 20 LEU A 71 -90.20 -39.44 REMARK 500 20 SER A 72 -62.08 -102.87 REMARK 500 REMARK 500 THIS ENTRY HAS 52 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 1 ARG A 67 0.09 SIDE CHAIN REMARK 500 1 ARG A 79 0.09 SIDE CHAIN REMARK 500 2 ARG A 67 0.08 SIDE CHAIN REMARK 500 8 ARG A 79 0.08 SIDE CHAIN REMARK 500 10 ARG A 67 0.10 SIDE CHAIN REMARK 500 10 ARG A 79 0.08 SIDE CHAIN REMARK 500 12 ARG A 67 0.08 SIDE CHAIN REMARK 500 15 ARG A 67 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16912 RELATED DB: BMRB DBREF 2M4K A 2 173 UNP P12464 RPOE_BACSU 2 173 SEQRES 1 A 172 GLY ILE LYS GLN TYR SER GLN GLU GLU LEU LYS GLU MET SEQRES 2 A 172 ALA LEU VAL GLU ILE ALA HIS GLU LEU PHE GLU GLU HIS SEQRES 3 A 172 LYS LYS PRO VAL PRO PHE GLN GLU LEU LEU ASN GLU ILE SEQRES 4 A 172 ALA SER LEU LEU GLY VAL LYS LYS GLU GLU LEU GLY ASP SEQRES 5 A 172 ARG ILE ALA GLN PHE TYR THR ASP LEU ASN ILE ASP GLY SEQRES 6 A 172 ARG PHE LEU ALA LEU SER ASP GLN THR TRP GLY LEU ARG SEQRES 7 A 172 SER TRP TYR PRO TYR ASP GLN LEU ASP GLU GLU THR GLN SEQRES 8 A 172 PRO THR VAL LYS ALA LYS LYS LYS LYS ALA LYS LYS ALA SEQRES 9 A 172 VAL GLU GLU ASP LEU ASP LEU ASP GLU PHE GLU GLU ILE SEQRES 10 A 172 ASP GLU ASP ASP LEU ASP LEU ASP GLU VAL GLU GLU GLU SEQRES 11 A 172 LEU ASP LEU GLU ALA ASP ASP PHE ASP GLU GLU ASP LEU SEQRES 12 A 172 ASP GLU ASP ASP ASP ASP LEU GLU ILE GLU GLU ASP ILE SEQRES 13 A 172 ILE ASP GLU ASP ASP GLU ASP TYR ASP ASP GLU GLU GLU SEQRES 14 A 172 GLU ILE LYS HELIX 1 1 SER A 7 GLU A 13 1 7 HELIX 2 2 ALA A 15 LYS A 28 1 14 HELIX 3 3 PHE A 33 LEU A 44 1 12 HELIX 4 4 GLU A 49 ASN A 63 1 15 HELIX 5 5 SER A 80 TYR A 82 5 3 SHEET 1 A 3 VAL A 31 PRO A 32 0 SHEET 2 A 3 THR A 75 LEU A 78 -1 O TRP A 76 N VAL A 31 SHEET 3 A 3 PHE A 68 ALA A 70 -1 N LEU A 69 O GLY A 77 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