PDB Short entry for 2BEO HEADER TRANSCRIPTION 26-NOV-04 2BEO TITLE PRFA, TRANSCRIPTIONAL REGULATOR IN LISTERIA MONOCYTOGENES COMPND MOL_ID: 1; COMPND 2 MOLECULE: LISTERIOLYSIN REGULATORY PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PRFA; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA MONOCYTOGENES; SOURCE 3 ORGANISM_TAXID: 169963; SOURCE 4 STRAIN: EGD-E; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: M15; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PQE-30 KEYWDS TRANSCRIPTION, BACTERIAL INFECTION, HUMAN PATHOGEN, TRANSCRIPTIONAL KEYWDS 2 REGULATOR, ACTIVATOR, VIRULENCE EXPDTA X-RAY DIFFRACTION AUTHOR M.EITING,G.HAGELUEKEN,W.-D.SCHUBERT,D.W.HEINZ REVDAT 4 13-DEC-23 2BEO 1 REMARK REVDAT 3 13-JUL-11 2BEO 1 VERSN REVDAT 2 24-FEB-09 2BEO 1 VERSN REVDAT 1 14-APR-05 2BEO 0 JRNL AUTH M.EITING,G.HAGELUEKEN,W.-D.SCHUBERT,D.W.HEINZ JRNL TITL THE MUTATION G145S IN PRFA, A KEY VIRULENCE REGULATOR OF JRNL TITL 2 LISTERIA MONOCYTOGENES, INCREASES DNA-BINDING AFFINITY BY JRNL TITL 3 STABILIZING THE HTH MOTIF JRNL REF MOL.MICROBIOL. V. 56 433 2005 JRNL REFN ISSN 0950-382X JRNL PMID 15813735 JRNL DOI 10.1111/J.1365-2958.2005.04561.X REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 56.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 3 NUMBER OF REFLECTIONS : 11790 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) : 0.246 REMARK 3 R VALUE (WORKING SET) : 0.244 REMARK 3 FREE R VALUE : 0.289 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 602 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 661 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3290 REMARK 3 BIN FREE R VALUE SET COUNT : 39 REMARK 3 BIN FREE R VALUE : 0.3320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3740 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 39 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) : 22.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.66000 REMARK 3 B22 (A**2) : -2.29000 REMARK 3 B33 (A**2) : 3.76000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 8.23000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.478 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.413 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.917 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.882 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4098 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3616 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5563 ; 1.944 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8510 ; 1.382 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 502 ; 5.433 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 190 ;36.823 ;25.579 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 755 ;17.854 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ;17.653 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 602 ; 0.145 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4580 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 830 ; 0.006 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 906 ; 0.193 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3507 ; 0.162 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1943 ; 0.176 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2150 ; 0.084 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 93 ; 0.150 ; 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): 26 ; 0.223 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 73 ; 0.183 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.148 ; 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): 2530 ; 2.288 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3960 ; 3.224 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1864 ; 2.501 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1603 ; 3.616 ; 3.000 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 4 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 4 A 99 2 REMARK 3 1 B 4 B 99 2 REMARK 3 2 A 109 A 136 1 REMARK 3 2 B 109 B 136 1 REMARK 3 3 A 137 A 171 3 REMARK 3 3 B 137 B 171 3 REMARK 3 4 A 189 A 210 3 REMARK 3 4 B 189 B 210 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 1188 ; 0.04 ; 0.05 REMARK 3 MEDIUM POSITIONAL 1 A (A): 834 ; 0.65 ; 0.50 REMARK 3 LOOSE POSITIONAL 1 A (A): 460 ; 0.88 ; 5.00 REMARK 3 TIGHT THERMAL 1 A (A**2): 1188 ; 0.03 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 834 ; 0.22 ; 2.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 460 ; 1.11 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 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 3 A 137 REMARK 3 ORIGIN FOR THE GROUP (A): 29.1190 61.8180 6.6770 REMARK 3 T TENSOR REMARK 3 T11: 0.2460 T22: 0.1053 REMARK 3 T33: 0.4370 T12: -0.0029 REMARK 3 T13: -0.2942 T23: -0.0040 REMARK 3 L TENSOR REMARK 3 L11: 2.6163 L22: 3.6756 REMARK 3 L33: 0.6222 L12: 0.3046 REMARK 3 L13: 0.4462 L23: -0.5446 REMARK 3 S TENSOR REMARK 3 S11: 0.0185 S12: -0.1480 S13: -0.0692 REMARK 3 S21: 0.2128 S22: 0.0862 S23: 0.2982 REMARK 3 S31: 0.0766 S32: -0.0182 S33: -0.1048 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 138 A 237 REMARK 3 ORIGIN FOR THE GROUP (A): 48.7990 64.8870 21.0530 REMARK 3 T TENSOR REMARK 3 T11: 0.6687 T22: 0.5240 REMARK 3 T33: 0.5770 T12: -0.0820 REMARK 3 T13: -0.4612 T23: 0.0745 REMARK 3 L TENSOR REMARK 3 L11: 4.9500 L22: 4.5293 REMARK 3 L33: 4.5833 L12: -0.5307 REMARK 3 L13: -1.7324 L23: -2.0237 REMARK 3 S TENSOR REMARK 3 S11: 0.1864 S12: -1.3684 S13: -0.4674 REMARK 3 S21: 0.9319 S22: -0.3999 S23: -0.1487 REMARK 3 S31: 0.5013 S32: 0.6866 S33: 0.2135 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 : B 3 B 137 REMARK 3 ORIGIN FOR THE GROUP (A): 42.1190 72.7770 -8.9120 REMARK 3 T TENSOR REMARK 3 T11: 0.3578 T22: 0.2235 REMARK 3 T33: 0.4666 T12: 0.0462 REMARK 3 T13: -0.2666 T23: 0.0331 REMARK 3 L TENSOR REMARK 3 L11: 2.5640 L22: 2.7919 REMARK 3 L33: 1.2400 L12: -0.2623 REMARK 3 L13: -0.3428 L23: -0.0116 REMARK 3 S TENSOR REMARK 3 S11: 0.1184 S12: 0.4035 S13: 0.2346 REMARK 3 S21: -0.6414 S22: -0.1053 S23: -0.2740 REMARK 3 S31: -0.0331 S32: 0.1839 S33: -0.0130 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 138 B 237 REMARK 3 ORIGIN FOR THE GROUP (A): 50.8180 50.0870 -13.2840 REMARK 3 T TENSOR REMARK 3 T11: 0.4958 T22: 0.2797 REMARK 3 T33: 0.4019 T12: 0.1352 REMARK 3 T13: -0.2383 T23: 0.0393 REMARK 3 L TENSOR REMARK 3 L11: 6.9760 L22: 6.8637 REMARK 3 L33: 0.6184 L12: -3.6971 REMARK 3 L13: -0.2527 L23: -0.1237 REMARK 3 S TENSOR REMARK 3 S11: 0.3385 S12: 0.5193 S13: 0.2851 REMARK 3 S21: -0.9035 S22: -0.4491 S23: -0.5121 REMARK 3 S31: -0.2018 S32: 0.2310 S33: 0.1106 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 : 1.20 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. REMARK 4 REMARK 4 2BEO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-NOV-04. REMARK 100 THE DEPOSITION ID IS D_1290021761. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : DOUBLE SI-111 CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : RH-COATED SILICON MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12402 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.0 REMARK 200 DATA REDUNDANCY : 1.760 REMARK 200 R MERGE (I) : 0.01000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 68.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.03000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: PDB ENTRY 1OMI 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): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 % (W/V) PEG 6000 100 MM NA-MES REMARK 280 PH6.5 1 M LICL, PH 6.50 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 40.35650 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 FUNCTION: POSITIVELY REGULATES EXPRESSION OF LISTERIOLYSIN REMARK 400 AND OTHER VIRULENCE FACTORS. 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 GLY A 175 REMARK 465 TYR A 176 REMARK 465 SER A 177 REMARK 465 SER A 178 REMARK 465 GLY A 179 REMARK 465 ILE A 180 REMARK 465 ALA A 181 REMARK 465 HIS A 182 REMARK 465 SER A 183 REMARK 465 SER A 184 REMARK 465 SER B 178 REMARK 465 GLY B 179 REMARK 465 ILE B 180 REMARK 465 ALA B 181 REMARK 465 HIS B 182 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 ALA A 66 C - N - CA ANGL. DEV. = 18.8 DEGREES REMARK 500 LYS A 202 N - CA - C ANGL. DEV. = -17.9 DEGREES REMARK 500 LYS A 202 CA - C - N ANGL. DEV. = 17.3 DEGREES REMARK 500 LYS A 202 O - C - N ANGL. DEV. = -17.2 DEGREES REMARK 500 ASN A 203 CA - C - N ANGL. DEV. = 17.8 DEGREES REMARK 500 ASN A 203 O - C - N ANGL. DEV. = -14.9 DEGREES REMARK 500 SER A 204 C - N - CA ANGL. DEV. = 29.2 DEGREES REMARK 500 SER A 204 N - CA - CB ANGL. DEV. = -9.1 DEGREES REMARK 500 ALA B 3 N - CA - C ANGL. DEV. = 16.6 DEGREES REMARK 500 THR B 158 CB - CA - C ANGL. DEV. = 16.2 DEGREES REMARK 500 PRO B 159 C - N - CA ANGL. DEV. = 9.5 DEGREES REMARK 500 PRO B 159 C - N - CD ANGL. DEV. = -16.6 DEGREES REMARK 500 GLY B 175 N - CA - C ANGL. DEV. = 17.3 DEGREES REMARK 500 LYS B 202 CB - CA - C ANGL. DEV. = -12.0 DEGREES REMARK 500 LYS B 202 CA - C - O ANGL. DEV. = -20.8 DEGREES REMARK 500 LYS B 202 CA - C - N ANGL. DEV. = 30.3 DEGREES REMARK 500 LYS B 202 O - C - N ANGL. DEV. = -28.5 DEGREES REMARK 500 SER B 204 C - N - CA ANGL. DEV. = 15.5 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 PRO A 159 -49.60 -26.09 REMARK 500 THR A 165 41.35 -90.66 REMARK 500 ASN A 168 -32.66 -25.50 REMARK 500 VAL A 186 104.19 167.30 REMARK 500 LYS B 25 -7.02 64.84 REMARK 500 ALA B 66 97.93 179.15 REMARK 500 THR B 165 44.68 -90.52 REMARK 500 ASN B 168 -19.87 -45.62 REMARK 500 LEU B 174 62.84 -153.03 REMARK 500 SER B 184 -15.04 -149.40 REMARK 500 LYS B 202 37.61 -141.58 REMARK 500 LYS B 202 37.61 -145.42 REMARK 500 ASN B 203 45.25 -160.66 REMARK 500 ALA B 218 56.86 -141.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY B 65 ALA B 66 140.47 REMARK 500 LYS B 202 ASN B 203 136.85 REMARK 500 ASN B 203 SER B 204 -148.27 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS A 202 -20.91 REMARK 500 ASN A 203 13.21 REMARK 500 GLY B 65 14.32 REMARK 500 LYS B 202 51.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PG4 A 1239 REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1238 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B1238 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLN A1240 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A1239 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACM B1239 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OMI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PRFA,THE TRANSCRIPTIONAL REGULATOR INLISTERIA REMARK 900 MONOCYTOGENES DBREF 2BEO A 2 237 UNP P22262 PRFA_LISMO 2 237 DBREF 2BEO B 2 237 UNP P22262 PRFA_LISMO 2 237 SEQRES 1 A 236 ASN ALA GLN ALA GLU GLU PHE LYS LYS TYR LEU GLU THR SEQRES 2 A 236 ASN GLY ILE LYS PRO LYS GLN PHE HIS LYS LYS GLU LEU SEQRES 3 A 236 ILE PHE ASN GLN TRP ASP PRO GLN GLU TYR CYS ILE PHE SEQRES 4 A 236 LEU TYR ASP GLY ILE THR LYS LEU THR SER ILE SER GLU SEQRES 5 A 236 ASN GLY THR ILE MET ASN LEU GLN TYR TYR LYS GLY ALA SEQRES 6 A 236 PHE VAL ILE MET SER GLY PHE ILE ASP THR GLU THR SER SEQRES 7 A 236 VAL GLY TYR TYR ASN LEU GLU VAL ILE SER GLU GLN ALA SEQRES 8 A 236 THR ALA TYR VAL ILE LYS ILE ASN GLU LEU LYS GLU LEU SEQRES 9 A 236 LEU SER LYS ASN LEU THR HIS PHE PHE TYR VAL PHE GLN SEQRES 10 A 236 THR LEU GLN LYS GLN VAL SER TYR SER LEU ALA LYS PHE SEQRES 11 A 236 ASN ASP PHE SER ILE ASN GLY LYS LEU GLY SER ILE CYS SEQRES 12 A 236 GLY GLN LEU LEU ILE LEU THR TYR VAL TYR GLY LYS GLU SEQRES 13 A 236 THR PRO ASP GLY ILE LYS ILE THR LEU ASP ASN LEU THR SEQRES 14 A 236 MET GLN GLU LEU GLY TYR SER SER GLY ILE ALA HIS SER SEQRES 15 A 236 SER ALA VAL SER ARG ILE ILE SER LYS LEU LYS GLN GLU SEQRES 16 A 236 LYS VAL ILE VAL TYR LYS ASN SER CYS PHE TYR VAL GLN SEQRES 17 A 236 ASN LEU ASP TYR LEU LYS ARG TYR ALA PRO LYS LEU ASP SEQRES 18 A 236 GLU TRP PHE TYR LEU ALA CYS PRO ALA THR TRP GLY LYS SEQRES 19 A 236 LEU ASN SEQRES 1 B 236 ASN ALA GLN ALA GLU GLU PHE LYS LYS TYR LEU GLU THR SEQRES 2 B 236 ASN GLY ILE LYS PRO LYS GLN PHE HIS LYS LYS GLU LEU SEQRES 3 B 236 ILE PHE ASN GLN TRP ASP PRO GLN GLU TYR CYS ILE PHE SEQRES 4 B 236 LEU TYR ASP GLY ILE THR LYS LEU THR SER ILE SER GLU SEQRES 5 B 236 ASN GLY THR ILE MET ASN LEU GLN TYR TYR LYS GLY ALA SEQRES 6 B 236 PHE VAL ILE MET SER GLY PHE ILE ASP THR GLU THR SER SEQRES 7 B 236 VAL GLY TYR TYR ASN LEU GLU VAL ILE SER GLU GLN ALA SEQRES 8 B 236 THR ALA TYR VAL ILE LYS ILE ASN GLU LEU LYS GLU LEU SEQRES 9 B 236 LEU SER LYS ASN LEU THR HIS PHE PHE TYR VAL PHE GLN SEQRES 10 B 236 THR LEU GLN LYS GLN VAL SER TYR SER LEU ALA LYS PHE SEQRES 11 B 236 ASN ASP PHE SER ILE ASN GLY LYS LEU GLY SER ILE CYS SEQRES 12 B 236 GLY GLN LEU LEU ILE LEU THR TYR VAL TYR GLY LYS GLU SEQRES 13 B 236 THR PRO ASP GLY ILE LYS ILE THR LEU ASP ASN LEU THR SEQRES 14 B 236 MET GLN GLU LEU GLY TYR SER SER GLY ILE ALA HIS SER SEQRES 15 B 236 SER ALA VAL SER ARG ILE ILE SER LYS LEU LYS GLN GLU SEQRES 16 B 236 LYS VAL ILE VAL TYR LYS ASN SER CYS PHE TYR VAL GLN SEQRES 17 B 236 ASN LEU ASP TYR LEU LYS ARG TYR ALA PRO LYS LEU ASP SEQRES 18 B 236 GLU TRP PHE TYR LEU ALA CYS PRO ALA THR TRP GLY LYS SEQRES 19 B 236 LEU ASN HET GLN A1240 10 HET CL A1238 1 HET PG4 A1239 11 HET CL B1238 1 HET ACM B1239 4 HETNAM GLN GLUTAMINE HETNAM CL CHLORIDE ION HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM ACM ACETAMIDE FORMUL 3 GLN C5 H10 N2 O3 FORMUL 4 CL 2(CL 1-) FORMUL 5 PG4 C8 H18 O5 FORMUL 7 ACM C2 H5 N O FORMUL 8 HOH *39(H2 O) HELIX 1 1 GLN A 4 ASN A 15 1 12 HELIX 2 2 ILE A 99 SER A 107 1 9 HELIX 3 3 LEU A 110 SER A 135 1 26 HELIX 4 4 GLY A 138 TYR A 154 1 17 HELIX 5 5 LEU A 169 LEU A 174 1 6 HELIX 6 6 ALA A 185 GLN A 195 1 11 HELIX 7 7 LEU A 211 TYR A 217 1 7 HELIX 8 8 PRO A 219 ALA A 228 1 10 HELIX 9 9 PRO A 230 LYS A 235 1 6 HELIX 10 10 GLN B 4 ASN B 15 1 12 HELIX 11 11 ILE B 99 SER B 107 1 9 HELIX 12 12 LEU B 110 SER B 135 1 26 HELIX 13 13 GLY B 138 TYR B 154 1 17 HELIX 14 14 LEU B 169 LEU B 174 1 6 HELIX 15 15 SER B 184 GLN B 195 1 12 HELIX 16 16 LEU B 211 TYR B 217 1 7 HELIX 17 17 PRO B 219 ALA B 228 1 10 HELIX 18 18 PRO B 230 LYS B 235 1 6 SHEET 1 AA 4 LYS A 20 HIS A 23 0 SHEET 2 AA 4 GLN A 91 LYS A 98 -1 O ALA A 92 N PHE A 22 SHEET 3 AA 4 TYR A 37 ASP A 43 -1 O CYS A 38 N ILE A 97 SHEET 4 AA 4 PHE A 67 MET A 70 -1 O PHE A 67 N LEU A 41 SHEET 1 AB 4 LEU A 27 PHE A 29 0 SHEET 2 AB 4 ASN A 84 VAL A 87 -1 O LEU A 85 N ILE A 28 SHEET 3 AB 4 ILE A 45 ILE A 51 -1 O LYS A 47 N GLU A 86 SHEET 4 AB 4 ILE A 57 LYS A 64 -1 O MET A 58 N SER A 50 SHEET 1 AC 4 GLY A 155 GLU A 157 0 SHEET 2 AC 4 ILE A 162 ILE A 164 -1 O LYS A 163 N LYS A 156 SHEET 3 AC 4 PHE A 206 VAL A 208 -1 O PHE A 206 N ILE A 164 SHEET 4 AC 4 ILE A 199 TYR A 201 -1 O VAL A 200 N TYR A 207 SHEET 1 BA 4 LYS B 20 HIS B 23 0 SHEET 2 BA 4 GLN B 91 LYS B 98 -1 O ALA B 92 N PHE B 22 SHEET 3 BA 4 TYR B 37 ASP B 43 -1 O CYS B 38 N ILE B 97 SHEET 4 BA 4 PHE B 67 MET B 70 -1 O PHE B 67 N LEU B 41 SHEET 1 BB 4 LEU B 27 PHE B 29 0 SHEET 2 BB 4 ASN B 84 VAL B 87 -1 O LEU B 85 N ILE B 28 SHEET 3 BB 4 ILE B 45 ILE B 51 -1 O LYS B 47 N GLU B 86 SHEET 4 BB 4 ILE B 57 LYS B 64 -1 O MET B 58 N SER B 50 SHEET 1 BC 4 GLY B 155 GLU B 157 0 SHEET 2 BC 4 ILE B 162 ILE B 164 -1 O LYS B 163 N LYS B 156 SHEET 3 BC 4 PHE B 206 VAL B 208 -1 O PHE B 206 N ILE B 164 SHEET 4 BC 4 ILE B 199 TYR B 201 -1 O VAL B 200 N TYR B 207 CISPEP 1 GLY A 65 ALA A 66 0 26.50 CISPEP 2 LYS A 202 ASN A 203 0 3.07 CISPEP 3 ASN A 203 SER A 204 0 -19.26 SITE 1 AC1 3 GLN A 61 TYR A 62 TYR A 126 SITE 1 AC2 3 GLN B 61 TYR B 62 TYR B 126 SITE 1 AC3 8 GLN A 61 TYR A 62 LYS A 64 ALA A 66 SITE 2 AC3 8 PHE A 67 GLN A 123 TYR A 126 PG4 A1239 SITE 1 AC4 5 TYR A 62 TYR A 126 GLN A 146 LEU A 150 SITE 2 AC4 5 GLN A1240 SITE 1 AC5 4 GLN B 61 TYR B 62 GLN B 123 TYR B 126 CRYST1 55.951 80.713 60.965 90.00 111.91 90.00 P 1 21 1 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 0.017873 0.000000 0.007188 0.00000 SCALE2 0.000000 0.012390 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017680 0.00000 MTRIX1 1 0.244120 -0.865440 0.437520 85.71336 1 MTRIX2 1 -0.852310 -0.406690 -0.328910 124.25512 1 MTRIX3 1 0.462580 -0.292610 -0.836900 1.14282 1