HEADER GENE REGULATION 28-APR-22 7XNJ TITLE STRESS RESPONSE FACILITATOR A SRFA COMPND MOL_ID: 1; COMPND 2 MOLECULE: STRESS RESPONSE FACILITATOR A, SRFA; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA PAO1; SOURCE 3 ORGANISM_TAXID: 208964; SOURCE 4 STRAIN: PAO1; SOURCE 5 GENE: PSPA7_2674; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 KEYWDS STRESS RESPONSE FACILITATOR, BIOFILM, PSEUDOMONAS AERUGINOSA PAO1., KEYWDS 2 GENE REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR X.LOU,Q.ZHANG,M.BARTLAM REVDAT 1 03-MAY-23 7XNJ 0 JRNL AUTH X.LOU,Q.ZHANG,M.BARTLAM JRNL TITL STRESS RESPONSE FACILITATOR A SFRA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.75 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.8 REMARK 3 NUMBER OF REFLECTIONS : 17003 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.080 REMARK 3 FREE R VALUE TEST SET COUNT : 1714 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 40.7500 - 4.8100 0.98 1499 171 0.2119 0.2543 REMARK 3 2 4.8100 - 3.8200 1.00 1494 158 0.1700 0.2216 REMARK 3 3 3.8200 - 3.3400 0.99 1425 150 0.1742 0.2482 REMARK 3 4 3.3400 - 3.0300 0.96 1391 153 0.1856 0.2777 REMARK 3 5 3.0300 - 2.8200 0.90 1309 143 0.1808 0.2355 REMARK 3 6 2.8200 - 2.6500 0.84 1203 149 0.2008 0.2518 REMARK 3 7 2.6500 - 2.5200 0.81 1194 129 0.1960 0.2662 REMARK 3 8 2.5200 - 2.4100 0.81 1153 127 0.1940 0.2804 REMARK 3 9 2.4100 - 2.3200 0.82 1180 134 0.1945 0.2839 REMARK 3 10 2.3200 - 2.2400 0.82 1179 130 0.1862 0.2784 REMARK 3 11 2.2400 - 2.1700 0.84 1138 148 0.1968 0.2442 REMARK 3 12 2.1700 - 2.1000 0.76 1124 122 0.1850 0.2406 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) : 0.244 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.517 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.39 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.70 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 : 0.007 2282 REMARK 3 ANGLE : 0.840 3060 REMARK 3 CHIRALITY : 0.039 295 REMARK 3 PLANARITY : 0.009 414 REMARK 3 DIHEDRAL : 17.221 880 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: A PREDICTED MODEL FROM ALPHAFOLD WAS REMARK 3 USED AS THE STARTING MODEL. REMARK 4 REMARK 4 7XNJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-MAY-22. REMARK 100 THE DEPOSITION ID IS D_1300029242. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-NOV-19 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 : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97853 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17025 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.2 REMARK 200 DATA REDUNDANCY : 2.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.5300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.800 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG3350, 0.2 M AMMONIUM FORMATE., REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z 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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 18.41650 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 MET A 1 REMARK 465 ALA A 2 REMARK 465 GLU A 3 REMARK 465 SER A 4 REMARK 465 GLN A 5 REMARK 465 ASP A 6 REMARK 465 GLN A 74 REMARK 465 GLU A 75 REMARK 465 ASP A 76 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 GLU B 3 REMARK 465 SER B 4 REMARK 465 GLN B 5 REMARK 465 GLU B 75 REMARK 465 ASP B 76 REMARK 465 MET C 1 REMARK 465 ALA C 2 REMARK 465 GLU C 3 REMARK 465 SER C 4 REMARK 465 GLN C 5 REMARK 465 ASP C 6 REMARK 465 LYS C 7 REMARK 465 TYR C 8 REMARK 465 SER C 40 REMARK 465 GLY C 41 REMARK 465 ARG C 73 REMARK 465 GLN C 74 REMARK 465 GLU C 75 REMARK 465 ASP C 76 REMARK 465 MET D 1 REMARK 465 ALA D 2 REMARK 465 GLU D 3 REMARK 465 SER D 4 REMARK 465 GLN D 5 REMARK 465 ASP D 6 REMARK 465 GLU D 75 REMARK 465 ASP D 76 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 ARG B 73 -67.40 68.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH D 167 DISTANCE = 6.14 ANGSTROMS DBREF 7XNJ A 1 76 UNP A6V4P9 A6V4P9_PSEA7 1 76 DBREF 7XNJ B 1 76 UNP A6V4P9 A6V4P9_PSEA7 1 76 DBREF 7XNJ C 1 76 UNP A6V4P9 A6V4P9_PSEA7 1 76 DBREF 7XNJ D 1 76 UNP A6V4P9 A6V4P9_PSEA7 1 76 SEQRES 1 A 76 MET ALA GLU SER GLN ASP LYS TYR THR ARG ARG THR GLY SEQRES 2 A 76 ARG THR TRP ALA ASP ASP GLN ALA THR TYR ASN ARG LEU SEQRES 3 A 76 ARG GLU GLU ALA ASP ALA ALA ARG GLN LYS LEU ARG GLU SEQRES 4 A 76 SER GLY TYR SER GLY ALA GLU TYR ASP GLN LEU ARG GLN SEQRES 5 A 76 ALA ALA PHE ASP LEU ASN ARG LYS ALA ASN GLN TYR TRP SEQRES 6 A 76 GLU GLN MET LEU SER ASP LEU ARG GLN GLU ASP SEQRES 1 B 76 MET ALA GLU SER GLN ASP LYS TYR THR ARG ARG THR GLY SEQRES 2 B 76 ARG THR TRP ALA ASP ASP GLN ALA THR TYR ASN ARG LEU SEQRES 3 B 76 ARG GLU GLU ALA ASP ALA ALA ARG GLN LYS LEU ARG GLU SEQRES 4 B 76 SER GLY TYR SER GLY ALA GLU TYR ASP GLN LEU ARG GLN SEQRES 5 B 76 ALA ALA PHE ASP LEU ASN ARG LYS ALA ASN GLN TYR TRP SEQRES 6 B 76 GLU GLN MET LEU SER ASP LEU ARG GLN GLU ASP SEQRES 1 C 76 MET ALA GLU SER GLN ASP LYS TYR THR ARG ARG THR GLY SEQRES 2 C 76 ARG THR TRP ALA ASP ASP GLN ALA THR TYR ASN ARG LEU SEQRES 3 C 76 ARG GLU GLU ALA ASP ALA ALA ARG GLN LYS LEU ARG GLU SEQRES 4 C 76 SER GLY TYR SER GLY ALA GLU TYR ASP GLN LEU ARG GLN SEQRES 5 C 76 ALA ALA PHE ASP LEU ASN ARG LYS ALA ASN GLN TYR TRP SEQRES 6 C 76 GLU GLN MET LEU SER ASP LEU ARG GLN GLU ASP SEQRES 1 D 76 MET ALA GLU SER GLN ASP LYS TYR THR ARG ARG THR GLY SEQRES 2 D 76 ARG THR TRP ALA ASP ASP GLN ALA THR TYR ASN ARG LEU SEQRES 3 D 76 ARG GLU GLU ALA ASP ALA ALA ARG GLN LYS LEU ARG GLU SEQRES 4 D 76 SER GLY TYR SER GLY ALA GLU TYR ASP GLN LEU ARG GLN SEQRES 5 D 76 ALA ALA PHE ASP LEU ASN ARG LYS ALA ASN GLN TYR TRP SEQRES 6 D 76 GLU GLN MET LEU SER ASP LEU ARG GLN GLU ASP FORMUL 5 HOH *247(H2 O) HELIX 1 AA1 LYS A 7 ARG A 11 5 5 HELIX 2 AA2 THR A 15 LEU A 37 1 23 HELIX 3 AA3 SER A 43 ASP A 71 1 29 HELIX 4 AA4 LYS B 7 GLY B 13 1 7 HELIX 5 AA5 THR B 15 GLU B 39 1 25 HELIX 6 AA6 SER B 43 ASP B 71 1 29 HELIX 7 AA7 THR C 15 LEU C 37 1 23 HELIX 8 AA8 SER C 43 ASP C 71 1 29 HELIX 9 AA9 TYR D 8 GLY D 13 1 6 HELIX 10 AB1 THR D 15 SER D 40 1 26 HELIX 11 AB2 SER D 43 ASP D 71 1 29 CRYST1 36.643 36.833 122.462 90.00 93.29 90.00 P 1 21 1 8 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 0.027290 0.000000 0.001568 0.00000 SCALE2 0.000000 0.027150 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008179 0.00000