HEADER TRANSCRIPTION REGULATION 09-DEC-05 2C9C TITLE STRUCTURAL BASIS OF THE NUCLEOTIDE DRIVEN CONFORMATIONAL CHANGES IN TITLE 2 THE AAA DOMAIN OF TRANSCRIPTION ACTIVATOR PSPF COMPND MOL_ID: 1; COMPND 2 MOLECULE: PSP OPERON TRANSCRIPTIONAL ACTIVATOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: AAA DOMAIN, RESIDUES 1-265; COMPND 5 SYNONYM: PSPF, PHAGE SHOCK PROTEIN F; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: B834; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS BACTERIAL SIGMA54 ACTIVATOR, ATPASE, ATP-BINDING, DNA-BINDING, KEYWDS 2 SENSORY TRANSDUCTION, TRANSCRIPTION REGULATION, TWO-COMPONENT KEYWDS 3 REGULATORY SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR M.RAPPAS,J.SCHUMACHER,H.NIWA,M.BUCK,X.ZHANG REVDAT 6 13-DEC-23 2C9C 1 REMARK LINK REVDAT 5 27-MAR-13 2C9C 1 REMARK REVDAT 4 13-JUL-11 2C9C 1 VERSN REVDAT 3 24-FEB-09 2C9C 1 VERSN REVDAT 2 08-MAR-06 2C9C 1 JRNL REVDAT 1 01-FEB-06 2C9C 0 JRNL AUTH M.RAPPAS,J.SCHUMACHER,H.NIWA,M.BUCK,X.ZHANG JRNL TITL STRUCTURAL BASIS OF THE NUCLEOTIDE DRIVEN CONFORMATIONAL JRNL TITL 2 CHANGES IN THE AAA(+) DOMAIN OF TRANSCRIPTION ACTIVATOR JRNL TITL 3 PSPF. JRNL REF J.MOL.BIOL. V. 357 481 2006 JRNL REFN ISSN 0022-2836 JRNL PMID 16430918 JRNL DOI 10.1016/J.JMB.2005.12.052 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.0 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 95.35 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 15835 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 829 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1096 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1770 REMARK 3 BIN FREE R VALUE SET COUNT : 42 REMARK 3 BIN FREE R VALUE : 0.2370 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1920 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 144 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.56000 REMARK 3 B22 (A**2) : -0.56000 REMARK 3 B33 (A**2) : 0.84000 REMARK 3 B12 (A**2) : -0.28000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.182 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.154 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.103 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.832 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1991 ; 0.026 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1839 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2707 ; 2.033 ; 1.998 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4261 ; 0.986 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 242 ; 5.810 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 303 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2194 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 395 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 407 ; 0.224 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2126 ; 0.247 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1214 ; 0.089 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 138 ; 0.246 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 20 ; 0.130 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 72 ; 0.314 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.173 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1217 ; 1.356 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1952 ; 2.437 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 774 ; 3.852 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 755 ; 6.287 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 8 A 179 REMARK 3 ORIGIN FOR THE GROUP (A): 28.1420 10.3982 0.4478 REMARK 3 T TENSOR REMARK 3 T11: 0.0355 T22: 0.0347 REMARK 3 T33: 0.0177 T12: 0.0087 REMARK 3 T13: -0.0100 T23: 0.0196 REMARK 3 L TENSOR REMARK 3 L11: 0.9066 L22: 0.4294 REMARK 3 L33: 0.3358 L12: 0.2294 REMARK 3 L13: -0.0914 L23: 0.1525 REMARK 3 S TENSOR REMARK 3 S11: -0.0351 S12: 0.0514 S13: -0.0207 REMARK 3 S21: -0.0279 S22: 0.0185 S23: -0.0334 REMARK 3 S31: 0.0144 S32: -0.0152 S33: 0.0166 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 180 A 256 REMARK 3 ORIGIN FOR THE GROUP (A): 21.5159 41.5510 6.9205 REMARK 3 T TENSOR REMARK 3 T11: 0.0352 T22: 0.0341 REMARK 3 T33: 0.0365 T12: -0.0062 REMARK 3 T13: 0.0046 T23: -0.0127 REMARK 3 L TENSOR REMARK 3 L11: 0.4797 L22: 0.6123 REMARK 3 L33: 0.5253 L12: 0.2238 REMARK 3 L13: 0.3805 L23: -0.0939 REMARK 3 S TENSOR REMARK 3 S11: 0.0116 S12: 0.0077 S13: 0.0338 REMARK 3 S21: 0.0186 S22: -0.0141 S23: 0.0126 REMARK 3 S31: 0.0349 S32: 0.0096 S33: 0.0025 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 400 A 400 REMARK 3 ORIGIN FOR THE GROUP (A): 0.0000 0.0000 0.0000 REMARK 3 T TENSOR REMARK 3 T11: 0.0419 T22: 0.0419 REMARK 3 T33: 0.0419 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. DISORDERED REGION HAVE NOT BEEN MODELLED AND REMARK 3 DISORDERED RESIDUES HAVE BEEN MODELLED AS ALANINES REMARK 4 REMARK 4 2C9C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-DEC-05. REMARK 100 THE DEPOSITION ID IS D_1290026772. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-MAY-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9330 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16682 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 7.900 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.7000 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) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 REMARK 200 R MERGE FOR SHELL (I) : 0.25000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.700 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 2BJW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M AMMONIUM FORMATE, 0.1 M HEPES PH REMARK 280 8.0, 5% MPD, PH 8.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 26.14467 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 13.07233 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 19.60850 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 6.53617 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 32.68083 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 400 REMARK 400 COMPOUND REMARK 400 TRANSCRIPTIONAL ACTIVATOR FOR THE PHAGE SHOCK PROTEIN REMARK 400 (PSP) OPERON (PSPABCE) REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ARG 227 TO ALA 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 TYR A 4 REMARK 465 LYS A 5 REMARK 465 ASP A 6 REMARK 465 ASN A 7 REMARK 465 GLY A 83 REMARK 465 ALA A 84 REMARK 465 PHE A 85 REMARK 465 THR A 86 REMARK 465 GLY A 87 REMARK 465 ALA A 88 REMARK 465 GLN A 89 REMARK 465 PRO A 260 REMARK 465 GLU A 261 REMARK 465 ASP A 262 REMARK 465 ALA A 263 REMARK 465 ILE A 264 REMARK 465 ALA A 265 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 90 CG CD CE NZ REMARK 470 ARG A 122 CG CD NE CZ NH1 NH2 REMARK 470 SER A 135 OG REMARK 470 ARG A 221 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 257 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 258 CG CD NE CZ NH1 NH2 REMARK 470 PRO A 259 CA C O CB CG CD REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 ND2 ASN A 64 OE1 GLU A 108 1.69 REMARK 500 OD1 ASN A 64 O HOH A 2035 2.03 REMARK 500 OD2 ASP A 107 O HOH A 2053 2.15 REMARK 500 O1G ATP A 400 O HOH A 2053 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2053 O HOH A 2076 6554 2.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 108 CD GLU A 108 OE1 0.132 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 74 CB - CG - OD2 ANGL. DEV. = 10.3 DEGREES REMARK 500 ARG A 162 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP A 164 CB - CG - OD2 ANGL. DEV. = 10.7 DEGREES REMARK 500 ARG A 212 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASP A 249 CB - CG - OD1 ANGL. DEV. = 6.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 81 -153.16 -113.51 REMARK 500 ARG A 91 139.07 152.98 REMARK 500 ASN A 225 -132.65 51.19 REMARK 500 ARG A 258 -83.72 -17.18 REMARK 500 REMARK 500 REMARK: NULL 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 300 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ATP A 400 O2G REMARK 620 2 ATP A 400 O2A 89.2 REMARK 620 3 HOH A2022 O 89.8 81.8 REMARK 620 4 HOH A2060 O 100.1 84.7 163.1 REMARK 620 5 HOH A2061 O 167.0 78.0 85.7 81.6 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP A 400 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BJV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PSPF(1-275) R168A MUTANT REMARK 900 RELATED ID: 2BJW RELATED DB: PDB REMARK 900 PSPF AAA DOMAIN REMARK 900 RELATED ID: 2C96 RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF THE NUCLEOTIDE DRIVEN CONFORMATIONAL CHANGES IN REMARK 900 THE AAA DOMAIN OF TRANSCRIPTION ACTIVATOR PSPF REMARK 900 RELATED ID: 2C98 RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF THE NUCLEOTIDE DRIVEN CONFORMATIONAL CHANGES IN REMARK 900 THE AAA DOMAIN OF TRANSCRIPTION ACTIVATOR PSPF REMARK 900 RELATED ID: 2C99 RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF THE NUCLEOTIDE DRIVEN CONFORMATIONAL CHANGES IN REMARK 900 THE AAA DOMAIN OF TRANSCRIPTION ACTIVATOR PSPF REMARK 999 REMARK 999 SEQUENCE REMARK 999 MUTATION OF RESIDUE R227 INTO AN ALANINE AND DISORDERED REMARK 999 RESIDUES HAVE BEEN MODELLED AS ALANINES DBREF 2C9C A 1 265 UNP P37344 PSPF_ECOLI 1 265 SEQADV 2C9C ALA A 227 UNP P37344 ARG 227 ENGINEERED MUTATION SEQRES 1 A 265 MET ALA GLU TYR LYS ASP ASN LEU LEU GLY GLU ALA ASN SEQRES 2 A 265 SER PHE LEU GLU VAL LEU GLU GLN VAL SER HIS LEU ALA SEQRES 3 A 265 PRO LEU ASP LYS PRO VAL LEU ILE ILE GLY GLU ARG GLY SEQRES 4 A 265 THR GLY LYS GLU LEU ILE ALA SER ARG LEU HIS TYR LEU SEQRES 5 A 265 SER SER ARG TRP GLN GLY PRO PHE ILE SER LEU ASN CYS SEQRES 6 A 265 ALA ALA LEU ASN GLU ASN LEU LEU ASP SER GLU LEU PHE SEQRES 7 A 265 GLY HIS GLU ALA GLY ALA PHE THR GLY ALA GLN LYS ARG SEQRES 8 A 265 HIS PRO GLY ARG PHE GLU ARG ALA ASP GLY GLY THR LEU SEQRES 9 A 265 PHE LEU ASP GLU LEU ALA THR ALA PRO MET MET VAL GLN SEQRES 10 A 265 GLU LYS LEU LEU ARG VAL ILE GLU TYR GLY GLU LEU GLU SEQRES 11 A 265 ARG VAL GLY GLY SER GLN PRO LEU GLN VAL ASN VAL ARG SEQRES 12 A 265 LEU VAL CYS ALA THR ASN ALA ASP LEU PRO ALA MET VAL SEQRES 13 A 265 ASN GLU GLY THR PHE ARG ALA ASP LEU LEU ASP ARG LEU SEQRES 14 A 265 ALA PHE ASP VAL VAL GLN LEU PRO PRO LEU ARG GLU ARG SEQRES 15 A 265 GLU SER ASP ILE MET LEU MET ALA GLU TYR PHE ALA ILE SEQRES 16 A 265 GLN MET CYS ARG GLU ILE LYS LEU PRO LEU PHE PRO GLY SEQRES 17 A 265 PHE THR GLU ARG ALA ARG GLU THR LEU LEU ASN TYR ARG SEQRES 18 A 265 TRP PRO GLY ASN ILE ALA GLU LEU LYS ASN VAL VAL GLU SEQRES 19 A 265 ARG SER VAL TYR ARG HIS GLY THR SER ASP TYR PRO LEU SEQRES 20 A 265 ASP ASP ILE ILE ILE ASP PRO PHE LYS ARG ARG PRO PRO SEQRES 21 A 265 GLU ASP ALA ILE ALA HET MG A 300 1 HET ATP A 400 31 HETNAM MG MAGNESIUM ION HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE FORMUL 2 MG MG 2+ FORMUL 3 ATP C10 H16 N5 O13 P3 FORMUL 4 HOH *144(H2 O) HELIX 1 1 ALA A 12 ALA A 26 1 15 HELIX 2 2 GLY A 41 LEU A 52 1 12 HELIX 3 3 ALA A 66 LEU A 68 5 3 HELIX 4 4 ASN A 69 GLY A 79 1 11 HELIX 5 5 GLY A 94 ALA A 99 1 6 HELIX 6 6 LEU A 109 ALA A 112 5 4 HELIX 7 7 PRO A 113 GLY A 127 1 15 HELIX 8 8 ASP A 151 GLY A 159 1 9 HELIX 9 9 ARG A 162 ALA A 170 1 9 HELIX 10 10 PRO A 178 GLU A 181 5 4 HELIX 11 11 ARG A 182 ILE A 201 1 20 HELIX 12 12 THR A 210 TYR A 220 1 11 HELIX 13 13 GLY A 224 GLY A 241 1 18 SHEET 1 AA 5 PHE A 60 ASN A 64 0 SHEET 2 AA 5 GLY A 102 ASP A 107 1 O THR A 103 N ILE A 61 SHEET 3 AA 5 VAL A 142 THR A 148 1 O ARG A 143 N LEU A 104 SHEET 4 AA 5 VAL A 32 ILE A 35 1 O VAL A 32 N CYS A 146 SHEET 5 AA 5 ASP A 172 GLN A 175 1 O ASP A 172 N LEU A 33 SHEET 1 AB 2 GLU A 128 LEU A 129 0 SHEET 2 AB 2 LEU A 138 GLN A 139 -1 O LEU A 138 N LEU A 129 LINK MG MG A 300 O2G ATP A 400 1555 1555 2.06 LINK MG MG A 300 O2A ATP A 400 1555 1555 2.17 LINK MG MG A 300 O HOH A2022 1555 1555 2.23 LINK MG MG A 300 O HOH A2060 1555 6554 2.22 LINK MG MG A 300 O HOH A2061 1555 6554 2.43 SITE 1 AC1 4 ATP A 400 HOH A2022 HOH A2060 HOH A2061 SITE 1 AC2 8 LEU A 8 LEU A 9 PHE A 15 GLU A 37 SITE 2 AC2 8 ARG A 38 GLY A 39 THR A 40 GLY A 41 CRYST1 112.243 112.243 39.217 90.00 90.00 120.00 P 65 6 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 0.008909 0.005144 0.000000 0.00000 SCALE2 0.000000 0.010288 0.000000 0.00000 SCALE3 0.000000 0.000000 0.025499 0.00000