HEADER DNA BINDING PROTEIN 09-FEB-22 7TXN TITLE REDUCED STRUCTURE OF REXT COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REGULATOR; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: REXT; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOSTOC SP. PCC 7120 = FACHB-418; SOURCE 3 ORGANISM_TAXID: 103690; SOURCE 4 STRAIN: PCC 7120 / SAG 25.82 / UTEX 2576; SOURCE 5 GENE: ALR1867; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS TRANSCRIPTION REGULATOR, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.BRIDWELL-RABB,B.LI REVDAT 3 18-OCT-23 7TXN 1 REMARK REVDAT 2 13-APR-22 7TXN 1 JRNL REVDAT 1 23-MAR-22 7TXN 0 JRNL AUTH B.LI,M.JO,J.LIU,J.TIAN,R.CANFIELD,J.BRIDWELL-RABB JRNL TITL STRUCTURAL AND MECHANISTIC BASIS FOR REDOX SENSING BY THE JRNL TITL 2 CYANOBACTERIAL TRANSCRIPTION REGULATOR REXT. JRNL REF COMMUN BIOL V. 5 275 2022 JRNL REFN ESSN 2399-3642 JRNL PMID 35347217 JRNL DOI 10.1038/S42003-022-03226-X REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.61 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 15092 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.030 REMARK 3 FREE R VALUE TEST SET COUNT : 1513 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 33.6100 - 4.3300 1.00 1325 140 0.1853 0.2053 REMARK 3 2 4.3300 - 3.4400 1.00 1277 142 0.1465 0.1817 REMARK 3 3 3.4400 - 3.0100 1.00 1261 147 0.1686 0.2072 REMARK 3 4 3.0100 - 2.7300 1.00 1276 139 0.1858 0.2470 REMARK 3 5 2.7300 - 2.5400 1.00 1242 142 0.1805 0.2294 REMARK 3 6 2.5300 - 2.3900 1.00 1266 141 0.1875 0.2479 REMARK 3 7 2.3800 - 2.2700 1.00 1232 134 0.1848 0.2118 REMARK 3 8 2.2700 - 2.1700 1.00 1266 143 0.1854 0.2532 REMARK 3 9 2.1700 - 2.0800 1.00 1256 140 0.1940 0.2446 REMARK 3 10 2.0800 - 2.0100 0.94 1163 132 0.2194 0.2914 REMARK 3 11 2.0100 - 1.9500 0.80 1015 113 0.2701 0.3432 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.241 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.062 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.44 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.33 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 1746 REMARK 3 ANGLE : 1.186 2345 REMARK 3 CHIRALITY : 0.062 262 REMARK 3 PLANARITY : 0.009 301 REMARK 3 DIHEDRAL : 13.896 674 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7TXN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-FEB-22. REMARK 100 THE DEPOSITION ID IS D_1000263085. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS 1.19.2_4158 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15092 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 33.610 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 13.70 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.4400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.04500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 7TXO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 MM MES, PH 6.3, 0.2 M AMMONIUM REMARK 280 CHLORIDE, 20% V/V PEG3350, 5% V/V GLYCEROL, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 12.15733 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 24.31467 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 12.15733 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 24.31467 REMARK 290 REMARK 290 REMARK: NULL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 KCAL/MOL 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 LEU A 103 REMARK 465 THR A 104 REMARK 465 CYS A 105 REMARK 465 GLN A 106 REMARK 465 GLN A 107 REMARK 465 SER A 108 REMARK 465 ALA A 109 REMARK 465 ILE A 110 REMARK 465 VAL A 111 REMARK 465 LYS A 112 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 GLN B 106 REMARK 465 GLN B 107 REMARK 465 SER B 108 REMARK 465 ALA B 109 REMARK 465 ILE B 110 REMARK 465 VAL B 111 REMARK 465 LYS B 112 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 PHE A 44 77.55 -112.11 REMARK 500 LEU B 102 -60.86 -123.66 REMARK 500 REMARK 500 REMARK: NULL DBREF 7TXN A 1 112 UNP Q8YVV6 Q8YVV6_NOSS1 1 112 DBREF 7TXN B 1 112 UNP Q8YVV6 Q8YVV6_NOSS1 1 112 SEQADV 7TXN GLY A -1 UNP Q8YVV6 EXPRESSION TAG SEQADV 7TXN SER A 0 UNP Q8YVV6 EXPRESSION TAG SEQADV 7TXN GLY B -1 UNP Q8YVV6 EXPRESSION TAG SEQADV 7TXN SER B 0 UNP Q8YVV6 EXPRESSION TAG SEQRES 1 A 114 GLY SER MET ARG PHE LEU TYR HIS PRO ASP ARG LYS ASP SEQRES 2 A 114 ILE SER LEU PRO GLY VAL LEU TYR ALA LEU GLY ASP PRO SEQRES 3 A 114 ALA ARG LEU GLU ILE VAL ARG LEU LEU ALA SER LYS GLY SEQRES 4 A 114 GLU GLN CYS CYS ALA GLU PHE ASP PHE ALA ILE ALA LYS SEQRES 5 A 114 SER THR MET SER ASN HIS PHE LYS ILE LEU ARG GLU SER SEQRES 6 A 114 GLY VAL VAL LEU THR ARG LYS GLU GLY THR GLN HIS ILE SEQRES 7 A 114 ASN ARG LEU ARG ARG GLU ASP LEU GLU THR LEU PHE PRO SEQRES 8 A 114 GLY LEU LEU ASP ALA VAL LEU ARG SER ALA GLN PRO LEU SEQRES 9 A 114 LEU THR CYS GLN GLN SER ALA ILE VAL LYS SEQRES 1 B 114 GLY SER MET ARG PHE LEU TYR HIS PRO ASP ARG LYS ASP SEQRES 2 B 114 ILE SER LEU PRO GLY VAL LEU TYR ALA LEU GLY ASP PRO SEQRES 3 B 114 ALA ARG LEU GLU ILE VAL ARG LEU LEU ALA SER LYS GLY SEQRES 4 B 114 GLU GLN CYS CYS ALA GLU PHE ASP PHE ALA ILE ALA LYS SEQRES 5 B 114 SER THR MET SER ASN HIS PHE LYS ILE LEU ARG GLU SER SEQRES 6 B 114 GLY VAL VAL LEU THR ARG LYS GLU GLY THR GLN HIS ILE SEQRES 7 B 114 ASN ARG LEU ARG ARG GLU ASP LEU GLU THR LEU PHE PRO SEQRES 8 B 114 GLY LEU LEU ASP ALA VAL LEU ARG SER ALA GLN PRO LEU SEQRES 9 B 114 LEU THR CYS GLN GLN SER ALA ILE VAL LYS HET CL A 201 1 HET CL A 202 1 HET GOL A 203 6 HET GOL A 204 6 HET CL B 201 1 HET GOL B 202 6 HET GOL B 203 6 HET GOL B 204 6 HET GOL B 205 6 HET GOL B 206 6 HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 CL 3(CL 1-) FORMUL 5 GOL 7(C3 H8 O3) FORMUL 13 HOH *173(H2 O) HELIX 1 AA1 ASP A 8 ILE A 12 5 5 HELIX 2 AA2 SER A 13 GLY A 22 1 10 HELIX 3 AA3 ASP A 23 GLY A 37 1 15 HELIX 4 AA4 ALA A 42 PHE A 44 5 3 HELIX 5 AA5 ALA A 49 SER A 63 1 15 HELIX 6 AA6 ARG A 80 PHE A 88 1 9 HELIX 7 AA7 GLY A 90 ALA A 99 1 10 HELIX 8 AA8 ASP B 8 ILE B 12 5 5 HELIX 9 AA9 SER B 13 GLY B 22 1 10 HELIX 10 AB1 ASP B 23 GLY B 37 1 15 HELIX 11 AB2 ALA B 42 PHE B 44 5 3 HELIX 12 AB3 ALA B 49 SER B 63 1 15 HELIX 13 AB4 ARG B 80 PHE B 88 1 9 HELIX 14 AB5 GLY B 90 ALA B 99 1 10 SHEET 1 AA1 3 GLN A 39 CYS A 40 0 SHEET 2 AA1 3 GLN A 74 LEU A 79 -1 O ASN A 77 N GLN A 39 SHEET 3 AA1 3 VAL A 66 GLU A 71 -1 N ARG A 69 O ILE A 76 SHEET 1 AA2 4 ARG B 2 PHE B 3 0 SHEET 2 AA2 4 VAL B 66 GLU B 71 -1 O LYS B 70 N ARG B 2 SHEET 3 AA2 4 GLN B 74 LEU B 79 -1 O ILE B 76 N ARG B 69 SHEET 4 AA2 4 GLN B 39 CYS B 40 -1 N GLN B 39 O ASN B 77 CRYST1 99.891 99.891 36.472 90.00 90.00 120.00 P 64 12 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 0.010011 0.005780 0.000000 0.00000 SCALE2 0.000000 0.011560 0.000000 0.00000 SCALE3 0.000000 0.000000 0.027418 0.00000