HEADER SIGNALING PROTEIN 17-DEC-10 3Q1C TITLE STRUCTURE OF ESPG PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: LEE-ENCODED EFFECTOR ESPG; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 44-398; COMPND 5 SYNONYM: EPEC VIRULENCE FACTOR; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI O127:H6; SOURCE 3 ORGANISM_TAXID: 574521; SOURCE 4 STRAIN: E2348/69 / EPEC; SOURCE 5 GENE: E2348C_3970, E2348_C_3970, ESPG; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS VIRA FOLD, VIRULENCE FACTOR, PAK RECRUITMENT AND ACTIVATION, P21 KEYWDS 2 ACTIVATED KINASE, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR B.W.SPILLER,K.L.GERMANE REVDAT 2 21-FEB-24 3Q1C 1 SEQADV REVDAT 1 23-FEB-11 3Q1C 0 JRNL AUTH K.L.GERMANE,B.W.SPILLER JRNL TITL STRUCTURAL AND FUNCTIONAL STUDIES INDICATE THAT THE EPEC JRNL TITL 2 EFFECTOR, ESPG, DIRECTLY BINDS P21-ACTIVATED KINASE. JRNL REF BIOCHEMISTRY V. 50 917 2011 JRNL REFN ISSN 0006-2960 JRNL PMID 21235237 JRNL DOI 10.1021/BI1020138 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.09 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.4 REMARK 3 NUMBER OF REFLECTIONS : 58526 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.350 REMARK 3 FREE R VALUE TEST SET COUNT : 1959 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 32.0994 - 3.8438 0.97 4721 163 0.1828 0.1843 REMARK 3 2 3.8438 - 3.0517 0.99 4688 162 0.1610 0.1709 REMARK 3 3 3.0517 - 2.6661 0.99 4612 166 0.1721 0.2347 REMARK 3 4 2.6661 - 2.4225 0.99 4593 160 0.1602 0.1934 REMARK 3 5 2.4225 - 2.2489 0.99 4551 154 0.1528 0.1821 REMARK 3 6 2.2489 - 2.1163 0.98 4533 154 0.1473 0.1628 REMARK 3 7 2.1163 - 2.0104 0.98 4490 161 0.1435 0.1923 REMARK 3 8 2.0104 - 1.9229 0.97 4455 155 0.1371 0.1595 REMARK 3 9 1.9229 - 1.8488 0.96 4396 150 0.1336 0.1966 REMARK 3 10 1.8488 - 1.7850 0.94 4296 148 0.1235 0.1453 REMARK 3 11 1.7850 - 1.7292 0.85 3888 126 0.1383 0.1721 REMARK 3 12 1.7292 - 1.6798 0.65 2951 100 0.1531 0.2693 REMARK 3 13 1.6798 - 1.6356 0.53 2415 83 0.2016 0.2593 REMARK 3 14 1.6356 - 1.5957 0.43 1978 77 0.2220 0.3183 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.61 REMARK 3 K_SOL : 0.39 REMARK 3 B_SOL : 56.99 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.95060 REMARK 3 B22 (A**2) : 3.96690 REMARK 3 B33 (A**2) : -3.01640 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.006 2766 REMARK 3 ANGLE : 0.967 3755 REMARK 3 CHIRALITY : 0.070 434 REMARK 3 PLANARITY : 0.004 493 REMARK 3 DIHEDRAL : 13.762 1036 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 3Q1C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000063070. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.25-7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60098 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.595 REMARK 200 RESOLUTION RANGE LOW (A) : 32.958 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.03500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 32.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 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 : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0-11.0% PEG8000, 100 MM BIS-TRIS, PH REMARK 280 6.25-7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE RANGE 268- REMARK 280 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 35.57500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.96050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.18900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.96050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.57500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.18900 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 SER A 159 REMARK 465 GLU A 160 REMARK 465 ARG A 317 REMARK 465 SER A 318 REMARK 465 LEU A 319 REMARK 465 ASP A 320 REMARK 465 GLN A 396 REMARK 465 ASN A 397 REMARK 465 THR A 398 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 ALA A 42 144.98 -170.51 REMARK 500 LEU A 163 -21.59 -170.23 REMARK 500 CYS A 279 38.38 -85.54 REMARK 500 ASN A 323 -171.36 84.15 REMARK 500 REMARK 500 REMARK: NULL DBREF 3Q1C A 44 398 UNP B7UMC8 B7UMC8_ECO27 44 398 SEQADV 3Q1C SER A 39 UNP B7UMC8 EXPRESSION TAG SEQADV 3Q1C HIS A 40 UNP B7UMC8 EXPRESSION TAG SEQADV 3Q1C MET A 41 UNP B7UMC8 EXPRESSION TAG SEQADV 3Q1C ALA A 42 UNP B7UMC8 EXPRESSION TAG SEQADV 3Q1C SER A 43 UNP B7UMC8 EXPRESSION TAG SEQRES 1 A 360 SER HIS MET ALA SER SER TRP ASP GLU MET SER CYS ALA SEQRES 2 A 360 GLU LYS LEU LEU LYS VAL LEU SER PHE GLY LEU TRP ASN SEQRES 3 A 360 PRO THR TYR SER ARG SER GLU ARG GLN SER PHE GLN GLU SEQRES 4 A 360 LEU LEU THR VAL LEU GLU PRO VAL TYR PRO LEU PRO ASN SEQRES 5 A 360 GLU LEU GLY ARG VAL SER ALA ARG PHE SER ASP GLY SER SEQRES 6 A 360 SER LEU ARG ILE SER VAL THR ASN SER GLU SER ILE GLU SEQRES 7 A 360 ALA GLU ILE ARG THR PRO ASP ASN GLU LYS ILE THR VAL SEQRES 8 A 360 LEU LEU GLU SER ASN GLU GLN ASN ARG LEU LEU GLN SER SEQRES 9 A 360 LEU PRO ILE ASP ARG HIS MET PRO TYR ILE GLN VAL HIS SEQRES 10 A 360 ARG ALA LEU SER GLU MET ASP LEU THR ASP THR THR SER SEQRES 11 A 360 MET ARG ASN LEU LEU GLY PHE THR SER LYS LEU SER THR SEQRES 12 A 360 THR LEU ILE PRO HIS ASN ALA GLN THR ASP PRO LEU SER SEQRES 13 A 360 GLY PRO THR PRO PHE SER SER ILE PHE MET ASP THR CYS SEQRES 14 A 360 ARG GLY LEU GLY ASN ALA LYS LEU SER LEU ASN GLY VAL SEQRES 15 A 360 ASP ILE PRO ALA ASN ALA GLN MET LEU LEU ARG ASP ALA SEQRES 16 A 360 LEU GLY LEU LYS ASP THR HIS SER SER PRO SER ARG ASN SEQRES 17 A 360 VAL ILE ASP HIS GLY ILE SER ARG HIS ASP ALA GLU GLN SEQRES 18 A 360 ILE ALA ARG GLU SER SER GLY SER ASP ASN GLN LYS ALA SEQRES 19 A 360 GLU VAL VAL GLU PHE LEU CYS HIS PRO GLU ALA ALA THR SEQRES 20 A 360 ALA ILE CYS SER ALA PHE TYR GLN SER PHE ASN VAL PRO SEQRES 21 A 360 ALA LEU THR LEU THR HIS GLU ARG ILE SER LYS ALA SER SEQRES 22 A 360 GLU TYR ASN ALA GLU ARG SER LEU ASP THR PRO ASN ALA SEQRES 23 A 360 CYS ILE ASN ILE SER ILE SER GLN SER SER ASP GLY ASN SEQRES 24 A 360 ILE TYR VAL THR SER HIS THR GLY VAL LEU ILE MET ALA SEQRES 25 A 360 PRO GLU ASP ARG PRO ASN GLU MET GLY MET LEU THR ASN SEQRES 26 A 360 ARG THR SER TYR GLU VAL PRO GLN GLY VAL LYS CYS THR SEQRES 27 A 360 ILE ASP GLU MET VAL ARG ALA LEU GLN PRO ARG TYR ALA SEQRES 28 A 360 ALA SER GLU THR TYR LEU GLN ASN THR FORMUL 2 HOH *446(H2 O) HELIX 1 1 SER A 44 MET A 48 5 5 HELIX 2 2 SER A 49 GLY A 61 1 13 HELIX 3 3 SER A 68 THR A 80 1 13 HELIX 4 4 LEU A 139 LEU A 143 5 5 HELIX 5 5 ASP A 165 SER A 177 1 13 HELIX 6 6 SER A 201 LEU A 210 1 10 HELIX 7 7 PRO A 223 LEU A 234 1 12 HELIX 8 8 SER A 244 GLY A 251 1 8 HELIX 9 9 SER A 253 GLU A 263 1 11 HELIX 10 10 SER A 267 CYS A 279 1 13 HELIX 11 11 HIS A 280 ALA A 290 1 11 HELIX 12 12 PHE A 291 PHE A 295 5 5 HELIX 13 13 ASN A 296 ALA A 315 1 20 HELIX 14 14 THR A 376 LEU A 384 1 9 SHEET 1 A 5 GLU A 83 VAL A 85 0 SHEET 2 A 5 GLU A 91 ARG A 98 -1 O SER A 96 N GLU A 83 SHEET 3 A 5 SER A 104 THR A 110 -1 O ILE A 107 N VAL A 95 SHEET 4 A 5 ILE A 115 ARG A 120 -1 O GLU A 118 N ARG A 106 SHEET 5 A 5 LYS A 126 LEU A 131 -1 O VAL A 129 N ALA A 117 SHEET 1 B 4 ASP A 146 ARG A 147 0 SHEET 2 B 4 THR A 181 LEU A 183 1 O THR A 181 N ARG A 147 SHEET 3 B 4 ARG A 387 TYR A 394 -1 O ALA A 390 N THR A 182 SHEET 4 B 4 GLN A 153 ARG A 156 1 N HIS A 155 O GLU A 392 SHEET 1 C 8 ASP A 146 ARG A 147 0 SHEET 2 C 8 THR A 181 LEU A 183 1 O THR A 181 N ARG A 147 SHEET 3 C 8 ARG A 387 TYR A 394 -1 O ALA A 390 N THR A 182 SHEET 4 C 8 MET A 358 VAL A 369 -1 N ARG A 364 O ALA A 389 SHEET 5 C 8 ILE A 338 MET A 349 -1 N VAL A 340 O TYR A 367 SHEET 6 C 8 CYS A 325 GLN A 332 -1 N SER A 331 O TYR A 339 SHEET 7 C 8 LYS A 214 LEU A 217 1 N LYS A 214 O ILE A 328 SHEET 8 C 8 VAL A 220 ASP A 221 -1 O VAL A 220 N LEU A 217 CISPEP 1 ASP A 162 LEU A 163 0 -13.00 CRYST1 71.150 74.378 93.921 90.00 90.00 90.00 P 21 21 21 4 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 0.014055 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013445 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010647 0.00000