HEADER SIGNALING PROTEIN 11-APR-22 7ZJR TITLE X-RAY STRUCTURE OF THE PERIPLASMIC REGION OF PILJ FROM P. AERUGINOSA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN PILJ; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA PAO1; SOURCE 3 ORGANISM_TAXID: 208964; SOURCE 4 GENE: PILJ, PA0411; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PET28A; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PXP209 - 6XHIS_THROMBIN_PILJ_PERIPLASMIC KEYWDS PILJ, SIGNAL MECHANOTRANSDUCTION, CHEMORECEPTOR-LIKE, TWITCHING KEYWDS 2 MOTILITY PROTEIN, TWO-COMPONENTS SYSTEM, METHYL-ACCEPTING- KEYWDS 3 CHEMOTAXIS-PROTEIN MCP HOMOLOG, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR X.PIERRAT,F.POJER,A.PERSAT REVDAT 2 31-JAN-24 7ZJR 1 REMARK REVDAT 1 27-APR-22 7ZJR 0 JRNL AUTH X.PIERRAT,F.POJER,A.PERSAT JRNL TITL X-RAY STRUCTURE OF THE PERIPLASMIC REGION OF PILJ FROM P. JRNL TITL 2 AERUGINOSA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1_2155 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.44 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 23600 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.903 REMARK 3 FREE R VALUE TEST SET COUNT : 1157 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 49.4400 - 5.0047 1.00 2997 175 0.1767 0.1829 REMARK 3 2 5.0047 - 3.9729 1.00 2856 143 0.1775 0.2387 REMARK 3 3 3.9729 - 3.4709 1.00 2800 148 0.2198 0.2275 REMARK 3 4 3.4709 - 3.1536 1.00 2793 134 0.2634 0.3130 REMARK 3 5 3.1536 - 2.9276 1.00 2795 135 0.2848 0.3262 REMARK 3 6 2.9276 - 2.7550 1.00 2711 147 0.2726 0.3384 REMARK 3 7 2.7550 - 2.6170 1.00 2764 148 0.2996 0.3354 REMARK 3 8 2.6170 - 2.5031 1.00 2727 127 0.3128 0.3700 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) : 0.364 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.449 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 64.63 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 67.18 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 : 0.009 2076 REMARK 3 ANGLE : 0.904 2812 REMARK 3 CHIRALITY : 0.053 323 REMARK 3 PLANARITY : 0.005 380 REMARK 3 DIHEDRAL : 19.669 1275 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 7ZJR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-APR-22. REMARK 100 THE DEPOSITION ID IS D_1292121782. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-SEP-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 : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54408 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.320 REMARK 200 RESOLUTION RANGE LOW (A) : 49.440 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.3600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.46 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.070 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: 2YFA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% V/V JEFFAMINE M-600 PH 7.0, 0.1 M REMARK 280 TRIS PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 101.49700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 40.02950 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 40.02950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 152.24550 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 40.02950 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 40.02950 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 50.74850 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 40.02950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 40.02950 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 152.24550 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 40.02950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 40.02950 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 50.74850 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 101.49700 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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. (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 17 REMARK 465 GLY A 18 REMARK 465 SER A 19 REMARK 465 SER A 20 REMARK 465 HIS A 21 REMARK 465 HIS A 22 REMARK 465 HIS A 23 REMARK 465 HIS A 24 REMARK 465 HIS A 25 REMARK 465 HIS A 26 REMARK 465 SER A 27 REMARK 465 SER A 28 REMARK 465 GLY A 29 REMARK 465 LEU A 30 REMARK 465 VAL A 31 REMARK 465 PRO A 32 REMARK 465 ARG A 33 REMARK 465 GLY A 34 REMARK 465 SER A 35 REMARK 465 ASN A 36 REMARK 465 PHE A 37 REMARK 465 ALA A 38 REMARK 465 SER A 307 REMARK 465 ILE A 308 REMARK 465 ASN A 309 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 ASN A 41 -157.02 -151.55 REMARK 500 PRO A 107 154.90 -49.68 REMARK 500 REMARK 500 REMARK: NULL DBREF 7ZJR A 36 309 UNP P42257 PILJ_PSEAE 36 309 SEQADV 7ZJR MET A 17 UNP P42257 INITIATING METHIONINE SEQADV 7ZJR GLY A 18 UNP P42257 EXPRESSION TAG SEQADV 7ZJR SER A 19 UNP P42257 EXPRESSION TAG SEQADV 7ZJR SER A 20 UNP P42257 EXPRESSION TAG SEQADV 7ZJR HIS A 21 UNP P42257 EXPRESSION TAG SEQADV 7ZJR HIS A 22 UNP P42257 EXPRESSION TAG SEQADV 7ZJR HIS A 23 UNP P42257 EXPRESSION TAG SEQADV 7ZJR HIS A 24 UNP P42257 EXPRESSION TAG SEQADV 7ZJR HIS A 25 UNP P42257 EXPRESSION TAG SEQADV 7ZJR HIS A 26 UNP P42257 EXPRESSION TAG SEQADV 7ZJR SER A 27 UNP P42257 EXPRESSION TAG SEQADV 7ZJR SER A 28 UNP P42257 EXPRESSION TAG SEQADV 7ZJR GLY A 29 UNP P42257 EXPRESSION TAG SEQADV 7ZJR LEU A 30 UNP P42257 EXPRESSION TAG SEQADV 7ZJR VAL A 31 UNP P42257 EXPRESSION TAG SEQADV 7ZJR PRO A 32 UNP P42257 EXPRESSION TAG SEQADV 7ZJR ARG A 33 UNP P42257 EXPRESSION TAG SEQADV 7ZJR GLY A 34 UNP P42257 EXPRESSION TAG SEQADV 7ZJR SER A 35 UNP P42257 EXPRESSION TAG SEQRES 1 A 293 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 293 LEU VAL PRO ARG GLY SER ASN PHE ALA TYR LEU ASN THR SEQRES 3 A 293 GLN SER ASN HIS ASP LYS GLN TYR ILE GLY HIS ALA GLY SEQRES 4 A 293 GLU LEU ARG VAL LEU SER GLN ARG ILE ALA LYS ASN ALA SEQRES 5 A 293 THR GLU ALA ALA ALA GLY LYS GLY GLU ALA PHE LYS LEU SEQRES 6 A 293 LEU LYS ASP ALA ARG ASN ASP PHE GLU LYS ARG TRP ASN SEQRES 7 A 293 ILE LEU VAL ASN GLY ASP GLU SER THR SER LEU PRO PRO SEQRES 8 A 293 SER PRO GLU ALA VAL LYS PRO GLN MET ASP VAL VAL GLN SEQRES 9 A 293 GLN ASP TRP ASP GLY LEU ARG LYS ASN ALA ASP SER ILE SEQRES 10 A 293 LEU ALA SER GLU GLN THR VAL LEU SER LEU HIS GLN VAL SEQRES 11 A 293 ALA SER THR LEU ALA GLU THR ILE PRO GLN LEU GLN VAL SEQRES 12 A 293 GLU TYR GLU GLU VAL VAL ASP ILE LEU LEU GLU ASN GLY SEQRES 13 A 293 ALA PRO ALA ASP GLN VAL ALA VAL ALA GLN ARG GLN SER SEQRES 14 A 293 LEU LEU ALA GLU ARG ILE LEU GLY SER VAL ASN LYS VAL SEQRES 15 A 293 LEU ALA GLY ASP GLU ASN SER VAL GLN ALA ALA ASP SER SEQRES 16 A 293 PHE GLY ARG ASP ALA SER LEU PHE GLY ARG VAL LEU LYS SEQRES 17 A 293 GLY MET GLN GLU GLY ASN ALA ALA MET SER ILE SER LYS SEQRES 18 A 293 VAL THR ASN ALA GLU ALA VAL ASP ARG LEU ASN GLU ILE SEQRES 19 A 293 ALA GLU LEU PHE GLU PHE VAL SER GLY SER VAL ASP GLU SEQRES 20 A 293 ILE LEU GLU THR SER PRO ASP LEU PHE GLN VAL ARG GLU SEQRES 21 A 293 ALA ALA ASN ASN ILE PHE SER VAL SER GLN THR LEU LEU SEQRES 22 A 293 ASP LYS ALA SER GLN LEU ALA ASP GLY PHE GLU ASN LEU SEQRES 23 A 293 ALA GLY GLY ARG SER ILE ASN FORMUL 2 HOH *14(H2 O) HELIX 1 AA1 ASN A 45 ALA A 73 1 29 HELIX 2 AA2 GLY A 76 GLY A 99 1 24 HELIX 3 AA3 ASP A 100 SER A 104 5 5 HELIX 4 AA4 PRO A 109 ALA A 111 5 3 HELIX 5 AA5 VAL A 112 ALA A 135 1 24 HELIX 6 AA6 SER A 136 ASN A 171 1 36 HELIX 7 AA7 PRO A 174 ALA A 200 1 27 HELIX 8 AA8 ASN A 204 GLY A 229 1 26 HELIX 9 AA9 ASN A 240 ALA A 303 1 64 CRYST1 80.059 80.059 202.994 90.00 90.00 90.00 P 43 21 2 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 0.012491 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012491 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004926 0.00000