HEADER CHEMOTAXIS 14-DEC-95 1YMV TITLE SIGNAL TRANSDUCTION PROTEIN CHEY MUTANT WITH PHE 14 REPLACED BY GLY, TITLE 2 SER 15 REPLACED BY GLY, AND MET 17 REPLACED BY GLY COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHEY; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 OTHER_DETAILS: MG2+ BOUND IN THE ACTIVE SITE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_PLASMID: VECTOR DERIVED FROM PTZ18U (PHARMACIA) KEYWDS CHEMOTAXIS, SENSORY TRANSDUCTION, PHOSPHORYLATION EXPDTA X-RAY DIFFRACTION AUTHOR L.BELLSOLELL,M.COLL REVDAT 4 14-FEB-24 1YMV 1 REMARK REVDAT 3 03-NOV-21 1YMV 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1YMV 1 VERSN REVDAT 1 03-APR-96 1YMV 0 JRNL AUTH L.BELLSOLELL,P.CRONET,M.MAJOLERO,L.SERRANO,M.COLL JRNL TITL THE THREE-DIMENSIONAL STRUCTURE OF TWO MUTANTS OF THE SIGNAL JRNL TITL 2 TRANSDUCTION PROTEIN CHEY SUGGEST ITS MOLECULAR ACTIVATION JRNL TITL 3 MECHANISM. JRNL REF J.MOL.BIOL. V. 257 116 1996 JRNL REFN ISSN 0022-2836 JRNL PMID 8632450 JRNL DOI 10.1006/JMBI.1996.0151 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.CRONET,L.BELLSOLELL,C.SANDER,M.COLL,L.SERRANO REMARK 1 TITL INVESTIGATING THE STRUCTURAL DETERMINANTS OF THE P21-LIKE REMARK 1 TITL 2 TRIPHOSPHATE AND MG2+ BINDING SITE REMARK 1 REF J.MOL.BIOL. V. 249 654 1995 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 2 REMARK 1 AUTH L.BELLSOLELL,J.PRIETO,L.SERRANO,M.COLL REMARK 1 TITL MAGNESIUM BINDING TO THE BACTERIAL CHEMOTAXIS PROTEIN CHEY REMARK 1 TITL 2 RESULTS IN LARGE CONFORMATIONAL CHANGES INVOLVING ITS REMARK 1 TITL 3 FUNCTIONAL SURFACE REMARK 1 REF J.MOL.BIOL. V. 238 489 1994 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 85.2 REMARK 3 NUMBER OF REFLECTIONS : 8055 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 935 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 87 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.00 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.013 REMARK 3 BOND ANGLES (DEGREES) : 1.550 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1YMV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000177411. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-DEC-93 REMARK 200 TEMPERATURE (KELVIN) : 277 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8100 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 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 (%) : 84.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR 3.1 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.8 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 18.55000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 28.75000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.95000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 28.75000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.55000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 26.95000 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 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 ARG A 1 REMARK 465 SER A 2 REMARK 465 ASP A 3 REMARK 465 LYS A 4 REMARK 465 GLU A 5 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 19 CD REMARK 480 LYS A 26 CD CE NZ REMARK 480 GLU A 27 CG OE1 OE2 REMARK 480 GLU A 89 OE1 OE2 REMARK 480 LYS A 91 NZ REMARK 480 LYS A 92 CG CD CE NZ REMARK 480 LYS A 109 CE NZ REMARK 480 GLU A 118 CG REMARK 480 MET A 129 O OXT 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 ASP A 12 132.22 -170.88 REMARK 500 PHE A 53 138.37 -170.31 REMARK 500 ASN A 62 -51.20 72.05 REMARK 500 LYS A 91 74.68 -101.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 THE OCTAHEDRAL COORDINATION SHELL OF THE MG2+ ION REMARK 600 INCLUDES CARBOXYL OXYGEN FROM ASP 13 AND ASP 57, REMARK 600 CARBONYL OXYGEN FROM ASN 59 AND THREE WATER MOLECULES. REMARK 600 THE THREE WATER MOLECULES COORDINATED TO MG2+ ARE REMARK 600 NUMBERED 300, 301, 302. REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 200 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 13 OD1 REMARK 620 2 ASP A 57 OD2 84.3 REMARK 620 3 ASN A 59 O 85.7 83.5 REMARK 620 4 HOH A 301 O 89.2 169.8 88.3 REMARK 620 5 HOH A 302 O 88.4 92.7 173.3 94.9 REMARK 620 6 HOH A 303 O 178.8 96.3 93.4 90.1 92.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: MGB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: MG2+ BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 200 DBREF 1YMV A 3 129 UNP P06143 CHEY_ECOLI 2 128 SEQADV 1YMV GLY A 14 UNP P06143 PHE 13 ENGINEERED MUTATION SEQADV 1YMV GLY A 15 UNP P06143 SER 14 ENGINEERED MUTATION SEQADV 1YMV GLY A 17 UNP P06143 MET 16 ENGINEERED MUTATION SEQRES 1 A 129 ARG SER ASP LYS GLU LEU LYS PHE LEU VAL VAL ASP ASP SEQRES 2 A 129 GLY GLY THR GLY ARG ARG ILE VAL ARG ASN LEU LEU LYS SEQRES 3 A 129 GLU LEU GLY PHE ASN ASN VAL GLU GLU ALA GLU ASP GLY SEQRES 4 A 129 VAL ASP ALA LEU ASN LYS LEU GLN ALA GLY GLY TYR GLY SEQRES 5 A 129 PHE VAL ILE SER ASP TRP ASN MET PRO ASN MET ASP GLY SEQRES 6 A 129 LEU GLU LEU LEU LYS THR ILE ARG ALA ASP GLY ALA MET SEQRES 7 A 129 SER ALA LEU PRO VAL LEU MET VAL THR ALA GLU ALA LYS SEQRES 8 A 129 LYS GLU ASN ILE ILE ALA ALA ALA GLN ALA GLY ALA SER SEQRES 9 A 129 GLY TYR VAL VAL LYS PRO PHE THR ALA ALA THR LEU GLU SEQRES 10 A 129 GLU LYS LEU ASN LYS ILE PHE GLU LYS LEU GLY MET HET MG A 200 1 HETNAM MG MAGNESIUM ION FORMUL 2 MG MG 2+ FORMUL 3 HOH *87(H2 O) HELIX 1 1 GLY A 15 LEU A 28 1 14 HELIX 2 2 GLY A 39 ALA A 48 1 10 HELIX 3 3 GLY A 65 ALA A 74 1 10 HELIX 4 4 LYS A 92 ALA A 101 1 10 HELIX 5 5 ALA A 113 LYS A 126 1 14 SHEET 1 A 5 VAL A 33 ALA A 36 0 SHEET 2 A 5 PHE A 8 VAL A 11 1 N PHE A 8 O GLU A 34 SHEET 3 A 5 PHE A 53 SER A 56 1 N PHE A 53 O LEU A 9 SHEET 4 A 5 VAL A 83 ALA A 88 1 N LEU A 84 O VAL A 54 SHEET 5 A 5 GLY A 105 LYS A 109 1 N GLY A 105 O MET A 85 LINK OD1 ASP A 13 MG MG A 200 1555 1555 2.13 LINK OD2 ASP A 57 MG MG A 200 1555 1555 1.99 LINK O ASN A 59 MG MG A 200 1555 1555 2.15 LINK MG MG A 200 O HOH A 301 1555 1555 2.03 LINK MG MG A 200 O HOH A 302 1555 1555 2.12 LINK MG MG A 200 O HOH A 303 1555 1555 2.10 CISPEP 1 LYS A 109 PRO A 110 0 0.72 SITE 1 MGB 4 ASP A 13 ASP A 57 ASN A 59 MG A 200 SITE 1 AC1 6 ASP A 13 ASP A 57 ASN A 59 HOH A 301 SITE 2 AC1 6 HOH A 302 HOH A 303 CRYST1 37.100 53.900 57.500 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 0.026954 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018553 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017391 0.00000