HEADER TRANSCRIPTION REGULATOR 13-OCT-16 5TMX TITLE SOLUTION STRUCTURE OF SINI, ANTAGONIST TO THE MASTER BIOFILM-REGULATOR TITLE 2 SINR IN BACILLUS SUBTILIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN SINI; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 1-57; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS (STRAIN 168); SOURCE 3 ORGANISM_TAXID: 224308; SOURCE 4 STRAIN: 168; SOURCE 5 GENE: SINI, BSU24600; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS SPORULATION, REPRESSOR, BIOFILM, TRANSCRIPTION REGULATOR EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR G.L.DRAUGHN,B.G.BOBAY,S.D.STOWE,R.J.THOMPSON,J.CAVANAGH REVDAT 4 14-JUN-23 5TMX 1 REMARK REVDAT 3 25-DEC-19 5TMX 1 REMARK REVDAT 2 09-OCT-19 5TMX 1 JRNL REMARK REVDAT 1 25-OCT-17 5TMX 0 JRNL AUTH M.E.MILTON,G.L.DRAUGHN,B.G.BOBAY,S.D.STOWE,A.L.OLSON, JRNL AUTH 2 E.A.FELDMANN,R.J.THOMPSON,K.H.MYERS,M.T.SANTORO,D.B.KEARNS, JRNL AUTH 3 J.CAVANAGH JRNL TITL THE SOLUTION STRUCTURES AND INTERACTION OF SINR AND SINI: JRNL TITL 2 ELUCIDATING THE MECHANISM OF ACTION OF THE MASTER REGULATOR JRNL TITL 3 SWITCH FOR BIOFILM FORMATION IN BACILLUS SUBTILIS. JRNL REF J.MOL.BIOL. 2019 JRNL REFN ESSN 1089-8638 JRNL PMID 31493408 JRNL DOI 10.1016/J.JMB.2019.08.019 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 14 REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5TMX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-OCT-16. REMARK 100 THE DEPOSITION ID IS D_1000224514. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 6 REMARK 210 IONIC STRENGTH : 200 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1 MM [U-15N] SINI, 20 MM MES, REMARK 210 200 MM SODIUM CHLORIDE, 90% H2O/ REMARK 210 10% D2O; 1 MM [U-13C; U-15N] REMARK 210 SINI, 20 MM MES, 200 MM NACL, 90% REMARK 210 H2O/10% D2O; 1 MM [U-13C; U-15N] REMARK 210 SINI, 20 MM MES, 200 MM NACL, REMARK 210 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCA; 3D HN(CO)CA; 3D HNCACB; REMARK 210 3D CBCA(CO)NH; 3D HNCO; 3D REMARK 210 HNCACO; 3D 1H-15N TOCSY; 3D C(CO) REMARK 210 NH; 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRVIEW, CYANA 3.0, NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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 300 REMARK: DIMER AS DETERMINED BY GEL FILTRATION 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: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 1 ARG A 39 NE - CZ - NH2 ANGL. DEV. = 3.9 DEGREES REMARK 500 1 ARG B 39 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 3 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 4 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 4 TYR A 41 CB - CG - CD1 ANGL. DEV. = -3.6 DEGREES REMARK 500 4 ARG B 39 NE - CZ - NH2 ANGL. DEV. = 4.1 DEGREES REMARK 500 4 TYR B 41 CB - CG - CD1 ANGL. DEV. = -3.9 DEGREES REMARK 500 5 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 5 ARG B 39 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 6 ARG A 39 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 6 TYR A 41 CB - CG - CD1 ANGL. DEV. = -3.9 DEGREES REMARK 500 6 ARG B 39 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 7 ARG B 39 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 8 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 8 ARG B 39 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 9 ARG A 39 NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 9 ARG B 39 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 10 ARG B 39 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 10 TYR B 41 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES 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 ASP A 18 -73.02 -154.15 REMARK 500 1 ASN A 45 41.45 -84.85 REMARK 500 1 LYS B 46 45.11 -77.18 REMARK 500 2 MET A 4 18.91 55.80 REMARK 500 2 GLN A 12 39.56 -140.58 REMARK 500 2 GLN A 19 -5.19 58.58 REMARK 500 2 LYS A 46 38.95 -77.86 REMARK 500 2 HIS A 58 -20.12 66.22 REMARK 500 2 ASP B 18 35.13 -76.89 REMARK 500 2 GLN B 19 8.36 57.60 REMARK 500 3 LYS A 47 -38.79 56.66 REMARK 500 3 GLN B 19 -39.60 60.85 REMARK 500 3 LYS B 46 40.71 -77.84 REMARK 500 4 HIS A 3 18.99 58.39 REMARK 500 4 GLN A 19 -17.40 62.45 REMARK 500 4 ASN A 32 71.24 57.34 REMARK 500 4 ILE A 33 69.75 -105.25 REMARK 500 4 ASN B 9 -14.25 -145.96 REMARK 500 4 ASN B 45 31.97 -143.80 REMARK 500 4 LYS B 47 -146.63 45.96 REMARK 500 5 GLN A 12 36.22 -146.76 REMARK 500 5 GLN A 19 -1.22 61.93 REMARK 500 5 ALA A 54 166.74 59.22 REMARK 500 5 SER A 57 48.52 -74.59 REMARK 500 5 LEU B 17 -50.99 58.97 REMARK 500 5 GLN B 19 -27.39 59.05 REMARK 500 6 ASP A 18 -58.63 -162.61 REMARK 500 6 SER B 48 -179.42 59.99 REMARK 500 7 ALA A 10 173.59 59.21 REMARK 500 7 ASP A 18 -76.09 -146.22 REMARK 500 7 MET B 4 19.20 54.03 REMARK 500 7 SER B 48 173.13 -55.06 REMARK 500 7 SER B 57 169.52 62.03 REMARK 500 8 ALA A 5 -177.21 56.59 REMARK 500 8 GLU A 13 31.86 -84.54 REMARK 500 8 ASP A 18 47.42 -85.94 REMARK 500 8 GLN A 19 18.02 59.15 REMARK 500 8 LYS A 46 19.85 52.83 REMARK 500 8 SER B 2 144.36 65.24 REMARK 500 8 HIS B 3 166.01 59.69 REMARK 500 8 HIS B 14 18.08 -152.33 REMARK 500 8 ASP B 18 -51.34 -150.77 REMARK 500 8 ARG B 56 49.69 -79.11 REMARK 500 9 GLU A 16 40.88 -80.14 REMARK 500 9 ASP A 18 -58.13 -126.02 REMARK 500 9 SER A 48 7.55 59.98 REMARK 500 9 ASN A 61 -42.22 -152.06 REMARK 500 9 HIS B 14 48.57 -74.49 REMARK 500 9 ASP B 18 88.36 -69.32 REMARK 500 9 LYS B 47 -172.42 60.84 REMARK 500 REMARK 500 THIS ENTRY HAS 54 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30192 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF SINI, ANTAGONIST TO THE MASTER BIOFILM- REMARK 900 REGULATOR SINR IN BACILLUS SUBTILIS REMARK 900 RELATED ID: 5TN0 RELATED DB: PDB REMARK 900 RELATED ID: 5TN2 RELATED DB: PDB DBREF 5TMX A 7 63 UNP P23308 SINI_BACSU 1 57 DBREF 5TMX B 7 63 UNP P23308 SINI_BACSU 1 57 SEQADV 5TMX GLY A 1 UNP P23308 EXPRESSION TAG SEQADV 5TMX SER A 2 UNP P23308 EXPRESSION TAG SEQADV 5TMX HIS A 3 UNP P23308 EXPRESSION TAG SEQADV 5TMX MET A 4 UNP P23308 EXPRESSION TAG SEQADV 5TMX ALA A 5 UNP P23308 EXPRESSION TAG SEQADV 5TMX SER A 6 UNP P23308 EXPRESSION TAG SEQADV 5TMX GLY B 1 UNP P23308 EXPRESSION TAG SEQADV 5TMX SER B 2 UNP P23308 EXPRESSION TAG SEQADV 5TMX HIS B 3 UNP P23308 EXPRESSION TAG SEQADV 5TMX MET B 4 UNP P23308 EXPRESSION TAG SEQADV 5TMX ALA B 5 UNP P23308 EXPRESSION TAG SEQADV 5TMX SER B 6 UNP P23308 EXPRESSION TAG SEQRES 1 A 63 GLY SER HIS MET ALA SER MET LYS ASN ALA LYS GLN GLU SEQRES 2 A 63 HIS PHE GLU LEU ASP GLN GLU TRP VAL GLU LEU MET VAL SEQRES 3 A 63 GLU ALA LYS GLU ALA ASN ILE SER PRO GLU GLU ILE ARG SEQRES 4 A 63 LYS TYR LEU LEU LEU ASN LYS LYS SER ALA HIS PRO GLY SEQRES 5 A 63 PRO ALA ALA ARG SER HIS THR VAL ASN PRO PHE SEQRES 1 B 63 GLY SER HIS MET ALA SER MET LYS ASN ALA LYS GLN GLU SEQRES 2 B 63 HIS PHE GLU LEU ASP GLN GLU TRP VAL GLU LEU MET VAL SEQRES 3 B 63 GLU ALA LYS GLU ALA ASN ILE SER PRO GLU GLU ILE ARG SEQRES 4 B 63 LYS TYR LEU LEU LEU ASN LYS LYS SER ALA HIS PRO GLY SEQRES 5 B 63 PRO ALA ALA ARG SER HIS THR VAL ASN PRO PHE HELIX 1 AA1 ASP A 18 ASN A 32 1 15 HELIX 2 AA2 PRO A 35 ASN A 45 1 11 HELIX 3 AA3 LEU B 17 ASN B 32 1 16 HELIX 4 AA4 PRO B 35 ASN B 45 1 11 CISPEP 1 MET B 7 LYS B 8 1 -8.50 CISPEP 2 LEU A 17 ASP A 18 5 2.36 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