HEADER PROTEIN BINDING 20-APR-22 7UQT TITLE SOLUTION NMR STRUCTURE OF HEXAHISTIDINE TAGGED QSEM (6H-QSEM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: QUORUM SENSING MASTER PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MESORHIZOBIUM JAPONICUM R7A; SOURCE 3 ORGANISM_TAXID: 935547; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS ANTIACTIVATOR, DUF2285, QUORUM SENSING, PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR D.A.HALL,P.D.SOLOMON,C.S.BOND,J.P.RAMSAY,J.P.MACKAY REVDAT 3 15-MAY-24 7UQT 1 REMARK REVDAT 2 20-SEP-23 7UQT 1 JRNL REVDAT 1 01-MAR-23 7UQT 0 JRNL AUTH W.J.JOWSEY,C.R.P.MORRIS,D.A.HALL,J.T.SULLIVAN,R.D.FAGERLUND, JRNL AUTH 2 K.Y.ETO,P.D.SOLOMON,J.P.MACKAY,C.S.BOND,J.P.RAMSAY, JRNL AUTH 3 C.W.RONSON JRNL TITL DUF2285 IS A NOVEL HELIX-TURN-HELIX DOMAIN VARIANT THAT JRNL TITL 2 ORCHESTRATES BOTH ACTIVATION AND ANTIACTIVATION OF JRNL TITL 3 CONJUGATIVE ELEMENT TRANSFER IN PROTEOBACTERIA. JRNL REF NUCLEIC ACIDS RES. V. 51 6841 2023 JRNL REFN ESSN 1362-4962 JRNL PMID 37246713 JRNL DOI 10.1093/NAR/GKAD457 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA REMARK 3 AUTHORS : GUNTERT P. MUMENTHALER C. WUTHRICH K. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: CYANA WAS PROVIDED WITH A LIST OF 680 REMARK 3 CHEMICAL SHIFT ASSIGNMENTS, 1177 DISTANCE AND 124 TORSION ANGLE REMARK 3 RESTRAINTS. INITIAL STRUCTURE CALCULATIONS WERE PERFORMED USING REMARK 3 A FAMILY OF 100 STRUCTURES EACH RUNNING FOR 10,000 STEPS OF REMARK 3 TORSION ANGLE DYNAMICS. THE 20 LOWEST ENERGY STRUCTURES WERE REMARK 3 USED FOR SUBSEQUENT WATER REFINEMENT VIA THE RECOORD METHOD REMARK 3 (NEDERVEEN ET AL., 2005) WITH 500 ANNEALING RUNS. THE LOWEST REMARK 3 ENERGY 100 STRUCTURES AFTER ANNEALING WERE REFINED IN WATER WITH REMARK 3 THE 20 LOWEST ENERGY STRUCTURES CREATING THE FINAL ENSEMBLE REMARK 4 REMARK 4 7UQT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-APR-22. REMARK 100 THE DEPOSITION ID IS D_1000264562. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 24 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 250 UM [U-13C; U-15N] 6H-QSEM, REMARK 210 20 MM SODIUM CHLORIDE, 10 MM REMARK 210 SODIUM PHOSPHATE, 2 % V/V REMARK 210 GLYCEROL, 98 % V/V D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-13C HSQC AROMATIC; 2D 1H- REMARK 210 1H TOCSY; 2D 1H-1H COSY; 2D 1H- REMARK 210 1H NOESY; 3D HBHA(CO)NH; 3D REMARK 210 HNCACB; 3D HNCO; 3D HCCH-TOCSY; REMARK 210 3D HCCH-COSY; 3D 1H-13C NOESY; REMARK 210 3D 1H-13C NOESY AROMATIC; 3D 1H- REMARK 210 15N NOESY; 2D HBCBCGCDHD; 2D REMARK 210 HBCBCGCDCEHE REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA, CCPNMR ANALYSIS REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED 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 MET A 1 REMARK 465 ARG A 2 REMARK 465 GLY A 3 REMARK 465 SER A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 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 GLN A 17 -75.26 -174.94 REMARK 500 1 TRP A 22 -55.61 -137.48 REMARK 500 1 SER A 25 176.07 170.02 REMARK 500 1 GLU A 90 -52.91 -141.33 REMARK 500 2 SER A 12 79.05 65.28 REMARK 500 2 LYS A 13 26.48 -148.06 REMARK 500 2 LYS A 15 -160.97 58.57 REMARK 500 2 GLN A 17 -90.53 -177.96 REMARK 500 2 ASP A 18 21.82 46.71 REMARK 500 2 PRO A 21 34.33 -69.96 REMARK 500 2 SER A 25 148.00 170.05 REMARK 500 2 GLU A 90 76.43 -153.23 REMARK 500 2 PHE A 92 119.38 69.17 REMARK 500 3 ARG A 14 -63.24 71.49 REMARK 500 3 VAL A 16 -28.41 167.09 REMARK 500 3 GLN A 17 -71.95 -104.75 REMARK 500 3 TRP A 22 -66.16 -131.16 REMARK 500 4 GLN A 17 -88.28 67.29 REMARK 500 4 PRO A 21 72.52 -69.04 REMARK 500 4 SER A 25 175.27 175.21 REMARK 500 4 THR A 85 -158.17 -132.71 REMARK 500 4 THR A 86 -75.80 71.10 REMARK 500 5 ARG A 14 -52.66 -171.73 REMARK 500 5 GLN A 17 -72.77 -100.25 REMARK 500 5 PRO A 21 92.00 -67.76 REMARK 500 5 SER A 25 170.10 173.77 REMARK 500 5 THR A 85 -79.31 49.77 REMARK 500 5 PHE A 92 103.15 66.56 REMARK 500 6 ARG A 14 -53.69 179.28 REMARK 500 6 GLN A 17 -73.82 -156.37 REMARK 500 6 TRP A 22 -51.62 -150.06 REMARK 500 6 THR A 85 -61.32 69.73 REMARK 500 6 THR A 86 94.61 -68.77 REMARK 500 6 TYR A 88 -54.99 76.65 REMARK 500 6 LYS A 89 -46.74 70.68 REMARK 500 7 GLN A 17 -73.78 63.75 REMARK 500 7 SER A 25 176.40 174.20 REMARK 500 7 THR A 85 -66.50 66.10 REMARK 500 7 GLU A 90 132.13 69.59 REMARK 500 7 PHE A 92 119.31 70.90 REMARK 500 8 GLN A 17 -74.95 -177.73 REMARK 500 8 THR A 86 -62.11 -153.85 REMARK 500 8 GLU A 90 37.03 -79.72 REMARK 500 9 GLN A 17 -79.74 177.20 REMARK 500 9 PRO A 21 -81.05 -59.81 REMARK 500 9 TRP A 22 -58.13 69.04 REMARK 500 9 LYS A 89 -70.15 -80.59 REMARK 500 10 LYS A 13 23.34 -157.37 REMARK 500 10 ARG A 14 132.76 78.94 REMARK 500 10 GLN A 17 -73.45 -69.89 REMARK 500 REMARK 500 THIS ENTRY HAS 106 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 64 0.10 SIDE CHAIN REMARK 500 4 ARG A 14 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 31011 RELATED DB: BMRB REMARK 900 SOLUTION NMR STRUCTURE OF HEXAHISTIDINE TAGGED QSEM (6H-QSEM) DBREF 7UQT A 1 94 PDB 7UQT 7UQT 1 94 SEQRES 1 A 94 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER LYS SEQRES 2 A 94 ARG LYS VAL GLN ASP GLU VAL PRO TRP SER ASP SER LEU SEQRES 3 A 94 THR ALA TYR ASP ASN GLU HIS PHE THR ILE TYR MET ARG SEQRES 4 A 94 LEU LEU ASP ALA SER ALA ASP ASP ALA SER GLU ASP GLU SEQRES 5 A 94 MET ALA GLN LEU VAL LEU GLY ILE ASP PRO MET ARG GLU SEQRES 6 A 94 PRO GLU ARG ALA ARG MET ALA VAL ARG SER HIS LEU ASP SEQRES 7 A 94 ARG ALA ASN TRP MET VAL THR THR GLY TYR LYS GLU LEU SEQRES 8 A 94 PHE ALA ARG HELIX 1 AA1 THR A 27 GLU A 32 1 6 HELIX 2 AA2 HIS A 33 ALA A 45 1 13 HELIX 3 AA3 SER A 49 VAL A 57 1 9 HELIX 4 AA4 GLU A 65 MET A 83 1 19 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