HEADER TRANSCRIPTION 28-JUL-05 2AHQ TITLE SOLUTION STRUCTURE OF THE C-TERMINAL RPON DOMAIN OF SIGMA-54 FROM TITLE 2 AQUIFEX AEOLICUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA POLYMERASE SIGMA FACTOR RPON; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN; COMPND 5 SYNONYM: SIGMA-54; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 3 ORGANISM_TAXID: 63363; SOURCE 4 GENE: RPON; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA (BL21 (DE3) WITH PLYSS); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS SIGMA-54, SIGMA FACTORS, SOLUTION STRUCTURE, TRANSCRIPTION, RNA KEYWDS 2 POLYMERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.DOUCLEFF,L.T.MALAK,J.G.PELTON,D.E.WEMMER REVDAT 4 09-MAR-22 2AHQ 1 REMARK REVDAT 3 24-FEB-09 2AHQ 1 VERSN REVDAT 2 02-MAY-06 2AHQ 1 JRNL REVDAT 1 11-OCT-05 2AHQ 0 JRNL AUTH M.DOUCLEFF,L.T.MALAK,J.G.PELTON,D.E.WEMMER JRNL TITL THE C-TERMINAL RPON DOMAIN OF SIGMA54 FORMS AN UNPREDICTED JRNL TITL 2 HELIX-TURN-HELIX MOTIF SIMILAR TO DOMAINS OF SIGMA70. JRNL REF J.BIOL.CHEM. V. 280 41530 2005 JRNL REFN ISSN 0021-9258 JRNL PMID 16210314 JRNL DOI 10.1074/JBC.M509010200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 2.3, DYANA 1.5 REMARK 3 AUTHORS : DELAGLIO ET AL. (1995) (NMRPIPE), GUNTERT ET AL. REMARK 3 (1997) (DYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURES ARE BASED ON A TOTAL 1064 REMARK 3 RESTRAINTS: 956 DISTANCE AND 108 DIHEDRAL ANGLE REMARK 4 REMARK 4 2AHQ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-AUG-05. REMARK 100 THE DEPOSITION ID IS D_1000033908. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.8 REMARK 210 IONIC STRENGTH : 50 MM HEPES; 250 MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.8 MM SIGMA-54 U-15N; 50 MM REMARK 210 HEPES; 250 MM NACL; 1 MM EDTA; REMARK 210 90% H20; 10% D20; 0.8 MM SIGMA- REMARK 210 54 U-15N U-13C; 50 MM HEPES; 250 REMARK 210 MM NACL; 1 MM EDTA; 90% H20; 10% REMARK 210 D20; 0.8 MM SIGMA-54 U-15; 50 MM REMARK 210 HEPES; 250 MM NACL; 1 MM EDTA; 5% REMARK 210 H20; 95% D20; 0.8 MM SIGMA-54 U- REMARK 210 15N U-10% 13C; 50 MM HEPES; 250 REMARK 210 MM NACL; 1 MM EDTA; 90% H20; 10% REMARK 210 D20 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_N15 REMARK 210 -SEPERATED_TOCSY; HNCA-J; HCCH- REMARK 210 TOCSY; 3D_13C-SEPARATED_NOESY; REMARK 210 2D_C13-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRVIEW 5.0.4, DYANA 1.5 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 150 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: REMARK 210 OTHER EXPERIMENTS PERFORMED AND USED FOR CHEMICAL SHIFT REMARK 210 ASSIGNMENTS AND OBTAINING RESTRAINTS: REMARK 210 CBCA(CO)NH, DQF-COSY, CC(CO)NH, H/D EXCHANGE VIA N15-HSQC, HNHA - REMARK 210 J COUPLINGS 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 ILE A 68 REMARK 465 PRO A 69 REMARK 465 SER A 70 REMARK 465 SER A 71 REMARK 465 ARG A 72 REMARK 465 GLU A 73 REMARK 465 ARG A 74 REMARK 465 ARG A 75 REMARK 465 ILE A 76 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 O VAL A 59 H ARG A 63 1.54 REMARK 500 O ILE A 46 H GLU A 49 1.58 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 TYR A 2 -43.08 -179.02 REMARK 500 1 ARG A 5 170.20 56.89 REMARK 500 1 PHE A 8 79.03 -175.16 REMARK 500 1 GLU A 11 96.21 -57.73 REMARK 500 1 SER A 12 155.04 59.28 REMARK 500 1 GLU A 14 49.04 -80.38 REMARK 500 1 LEU A 16 160.15 -40.73 REMARK 500 1 GLU A 32 -151.52 -62.20 REMARK 500 1 LYS A 36 63.81 -167.10 REMARK 500 1 GLU A 42 -70.65 -61.35 REMARK 500 1 VAL A 54 -150.41 -110.18 REMARK 500 1 ALA A 55 142.70 160.23 REMARK 500 1 LEU A 66 -67.67 -151.56 REMARK 500 2 TYR A 2 135.50 67.98 REMARK 500 2 LEU A 4 -165.62 -127.04 REMARK 500 2 VAL A 9 -103.63 -90.81 REMARK 500 2 ARG A 10 -58.00 -177.49 REMARK 500 2 GLU A 11 172.13 75.92 REMARK 500 2 SER A 12 150.88 63.20 REMARK 500 2 GLU A 14 71.64 -156.84 REMARK 500 2 LEU A 16 168.85 -44.79 REMARK 500 2 ASN A 31 52.29 -158.69 REMARK 500 2 GLU A 32 -156.95 -62.12 REMARK 500 2 PRO A 37 -160.12 -75.00 REMARK 500 2 TYR A 38 51.83 -153.29 REMARK 500 2 PHE A 52 -114.15 19.48 REMARK 500 2 LYS A 53 44.84 -160.81 REMARK 500 2 VAL A 54 -160.01 -108.80 REMARK 500 2 ALA A 55 146.80 161.03 REMARK 500 2 LEU A 66 -73.65 -81.98 REMARK 500 3 TYR A 2 -63.12 179.29 REMARK 500 3 PHE A 8 159.38 178.71 REMARK 500 3 VAL A 9 -107.07 -144.81 REMARK 500 3 ARG A 10 -71.29 -177.54 REMARK 500 3 GLU A 11 164.46 78.30 REMARK 500 3 SER A 12 -175.49 -54.38 REMARK 500 3 ALA A 13 161.48 -41.49 REMARK 500 3 GLU A 14 174.85 -57.89 REMARK 500 3 LEU A 16 153.97 -40.16 REMARK 500 3 GLU A 32 -157.73 -62.34 REMARK 500 3 LYS A 34 -76.54 -50.26 REMARK 500 3 PRO A 37 -160.44 -75.05 REMARK 500 3 TYR A 38 53.58 -153.41 REMARK 500 3 GLN A 41 -73.84 -65.24 REMARK 500 3 VAL A 54 -167.47 -116.56 REMARK 500 3 ALA A 55 148.37 174.15 REMARK 500 3 LEU A 66 -71.67 -83.07 REMARK 500 4 SER A 3 173.57 175.01 REMARK 500 4 PHE A 8 -177.35 -178.08 REMARK 500 4 VAL A 9 91.31 59.61 REMARK 500 REMARK 500 THIS ENTRY HAS 321 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2AHQ A 1 76 UNP O66858 O66858_AQUAE 323 398 SEQRES 1 A 76 THR TYR SER LEU ARG THR PHE PHE VAL ARG GLU SER ALA SEQRES 2 A 76 GLU GLY LEU THR GLN GLY GLU LEU MET LYS LEU ILE LYS SEQRES 3 A 76 GLU ILE VAL GLU ASN GLU ASP LYS ARG LYS PRO TYR SER SEQRES 4 A 76 ASP GLN GLU ILE ALA ASN ILE LEU LYS GLU LYS GLY PHE SEQRES 5 A 76 LYS VAL ALA ARG ARG THR VAL ALA LYS TYR ARG GLU MET SEQRES 6 A 76 LEU GLY ILE PRO SER SER ARG GLU ARG ARG ILE HELIX 1 1 THR A 17 VAL A 29 1 13 HELIX 2 2 GLU A 30 GLU A 32 5 3 HELIX 3 3 SER A 39 LYS A 48 1 10 HELIX 4 4 ALA A 55 LEU A 66 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