HEADER DNA BINDING PROTEIN/DNA 31-AUG-09 3IV5 TITLE CRYSTAL STRUCTURE OF FIS BOUND TO 27 BP OPTIMAL BINDING SEQUENCE F1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-BINDING PROTEIN FIS; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (27-MER); COMPND 7 CHAIN: C; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA (27-MER); COMPND 11 CHAIN: D; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K-12; SOURCE 5 GENE: FIS, B3261, JW3229; 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: PET11A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES KEYWDS HTH DOMAIN, PROTEIN-DNA COMPLEX, MINOR GROOVE COMPRESSION, DNA KEYWDS 2 BENDING, INDIRECT RECOGNITION, ACTIVATOR, DNA-BINDING, KEYWDS 3 TRANSCRIPTION, TRANSCRIPTION REGULATION, DNA BINDING PROTEIN-DNA KEYWDS 4 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.STELLA,D.CASCIO,R.C.JOHNSON REVDAT 4 06-SEP-23 3IV5 1 REMARK REVDAT 3 01-NOV-17 3IV5 1 REMARK REVDAT 2 13-JUL-11 3IV5 1 VERSN REVDAT 1 28-APR-10 3IV5 0 JRNL AUTH S.STELLA,D.CASCIO,R.C.JOHNSON JRNL TITL THE SHAPE OF THE DNA MINOR GROOVE DIRECTS BINDING BY THE JRNL TITL 2 DNA-BENDING PROTEIN FIS. JRNL REF GENES DEV. V. 24 814 2010 JRNL REFN ISSN 0890-9369 JRNL PMID 20395367 JRNL DOI 10.1101/GAD.1900610 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 77.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 3 NUMBER OF REFLECTIONS : 13160 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 656 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) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 178 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 18.63 REMARK 3 BIN R VALUE (WORKING SET) : 0.3040 REMARK 3 BIN FREE R VALUE SET COUNT : 12 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1505 REMARK 3 NUCLEIC ACID ATOMS : 1101 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 12 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) : 41.73 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.695 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.334 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.222 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 : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2752 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1523 ; 0.005 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3942 ; 1.804 ; 2.470 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3785 ; 1.137 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 187 ; 4.538 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 75 ;38.558 ;25.600 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 303 ;17.687 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;13.252 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2210 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 274 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 577 ; 0.221 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1725 ; 0.225 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1273 ; 0.214 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1149 ; 0.095 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 51 ; 0.129 ; 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): 21 ; 0.203 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 48 ; 0.257 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.174 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 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 8 A 98 REMARK 3 ORIGIN FOR THE GROUP (A): 12.6907 10.7137 8.9165 REMARK 3 T TENSOR REMARK 3 T11: 0.0051 T22: 0.0890 REMARK 3 T33: -0.0810 T12: 0.0382 REMARK 3 T13: 0.0134 T23: -0.0083 REMARK 3 L TENSOR REMARK 3 L11: 0.2369 L22: 1.2196 REMARK 3 L33: 0.9316 L12: -0.1291 REMARK 3 L13: 0.3498 L23: 0.5001 REMARK 3 S TENSOR REMARK 3 S11: -0.0003 S12: -0.0233 S13: 0.0538 REMARK 3 S21: 0.1500 S22: 0.0993 S23: 0.0670 REMARK 3 S31: 0.2171 S32: 0.1489 S33: -0.0990 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 : B 1 B 98 REMARK 3 ORIGIN FOR THE GROUP (A): 9.6665 11.0171 2.1336 REMARK 3 T TENSOR REMARK 3 T11: -0.0244 T22: 0.0162 REMARK 3 T33: -0.0098 T12: 0.0110 REMARK 3 T13: -0.0066 T23: -0.0083 REMARK 3 L TENSOR REMARK 3 L11: 0.6854 L22: 0.5893 REMARK 3 L33: 0.8330 L12: 0.4134 REMARK 3 L13: -0.2620 L23: -0.2116 REMARK 3 S TENSOR REMARK 3 S11: -0.0273 S12: -0.0634 S13: 0.0565 REMARK 3 S21: 0.0057 S22: 0.0710 S23: 0.0363 REMARK 3 S31: 0.1404 S32: -0.0093 S33: -0.0437 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 : C 1 C 27 REMARK 3 ORIGIN FOR THE GROUP (A): 11.6482 -10.0389 5.3804 REMARK 3 T TENSOR REMARK 3 T11: 0.2276 T22: -0.1432 REMARK 3 T33: -0.0855 T12: 0.0124 REMARK 3 T13: -0.0958 T23: -0.0224 REMARK 3 L TENSOR REMARK 3 L11: 0.3249 L22: 0.0906 REMARK 3 L33: 0.2322 L12: -0.1480 REMARK 3 L13: 0.0028 L23: -0.0747 REMARK 3 S TENSOR REMARK 3 S11: 0.1102 S12: 0.0378 S13: -0.3161 REMARK 3 S21: 0.0237 S22: 0.2390 S23: 0.1225 REMARK 3 S31: 0.3536 S32: 0.0278 S33: -0.3491 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 : D 1 D 27 REMARK 3 ORIGIN FOR THE GROUP (A): 10.7345 -10.0423 6.0586 REMARK 3 T TENSOR REMARK 3 T11: 0.2234 T22: -0.2129 REMARK 3 T33: -0.1055 T12: 0.0156 REMARK 3 T13: -0.1055 T23: -0.0220 REMARK 3 L TENSOR REMARK 3 L11: 0.3771 L22: 0.0622 REMARK 3 L33: 1.0237 L12: 0.0756 REMARK 3 L13: -0.0811 L23: 0.2013 REMARK 3 S TENSOR REMARK 3 S11: 0.0840 S12: 0.0352 S13: -0.2882 REMARK 3 S21: 0.0859 S22: 0.1984 S23: 0.1438 REMARK 3 S31: 0.3953 S32: 0.0000 S33: -0.2824 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 REMARK 4 REMARK 4 3IV5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000054903. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14386 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 90.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.65700 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1ETO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM CITRATE, 0.1 M TRIS-HCL REMARK 280 PH 8.5, 36% PEG 400, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277K 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 21.54000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 77.25500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.49000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 77.25500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.54000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.49000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 1 REMARK 465 PHE A 2 REMARK 465 GLU A 3 REMARK 465 GLN A 4 REMARK 465 ARG A 5 REMARK 465 VAL A 6 REMARK 465 ASN A 7 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 DA C 1 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DA C 1 C3' - O3' - P ANGL. DEV. = 10.0 DEGREES REMARK 500 DT C 6 OP1 - P - OP2 ANGL. DEV. = 9.4 DEGREES REMARK 500 DT C 8 O4' - C4' - C3' ANGL. DEV. = -4.9 DEGREES REMARK 500 DT C 8 C1' - O4' - C4' ANGL. DEV. = -6.7 DEGREES REMARK 500 DT C 8 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT C 9 C5 - C4 - O4 ANGL. DEV. = -4.8 DEGREES REMARK 500 DT C 10 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT C 14 N3 - C2 - O2 ANGL. DEV. = -5.2 DEGREES REMARK 500 DT C 15 C4 - C5 - C7 ANGL. DEV. = 3.7 DEGREES REMARK 500 DT C 15 C6 - C5 - C7 ANGL. DEV. = -4.6 DEGREES REMARK 500 DT C 16 C5 - C4 - O4 ANGL. DEV. = -5.7 DEGREES REMARK 500 DT C 17 N3 - C4 - O4 ANGL. DEV. = 5.0 DEGREES REMARK 500 DT C 17 C5 - C4 - O4 ANGL. DEV. = -7.2 DEGREES REMARK 500 DG C 18 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DA C 19 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DA C 19 C3' - O3' - P ANGL. DEV. = 7.7 DEGREES REMARK 500 DG C 20 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DC C 21 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DA C 24 O4' - C1' - N9 ANGL. DEV. = -4.5 DEGREES REMARK 500 DA D 1 C3' - C2' - C1' ANGL. DEV. = -6.8 DEGREES REMARK 500 DA D 1 O4' - C1' - N9 ANGL. DEV. = 5.7 DEGREES REMARK 500 DA D 1 C3' - O3' - P ANGL. DEV. = 7.4 DEGREES REMARK 500 DA D 2 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DC D 8 O4' - C4' - C3' ANGL. DEV. = -4.2 DEGREES REMARK 500 DC D 8 C1' - O4' - C4' ANGL. DEV. = -7.1 DEGREES REMARK 500 DT D 9 O5' - C5' - C4' ANGL. DEV. = -4.9 DEGREES REMARK 500 DT D 9 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DT D 9 N3 - C2 - O2 ANGL. DEV. = -4.1 DEGREES REMARK 500 DC D 10 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA D 11 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA D 12 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DA D 18 O5' - C5' - C4' ANGL. DEV. = -6.8 DEGREES REMARK 500 DA D 19 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DC D 21 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DC D 21 C3' - O3' - P ANGL. DEV. = 7.6 DEGREES REMARK 500 DT D 25 O4' - C1' - N1 ANGL. DEV. = 5.1 DEGREES REMARK 500 DT D 26 O4' - C1' - N1 ANGL. DEV. = -6.2 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 ASN A 48 -68.46 -120.36 REMARK 500 ASP A 49 60.22 -111.45 REMARK 500 MET A 97 77.82 -106.70 REMARK 500 ASN B 43 72.90 -118.37 REMARK 500 ASP B 49 36.80 -144.55 REMARK 500 MET B 97 71.49 -107.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3JR9 RELATED DB: PDB REMARK 900 RELATED ID: 3JRA RELATED DB: PDB REMARK 900 RELATED ID: 3JRB RELATED DB: PDB REMARK 900 RELATED ID: 3JRC RELATED DB: PDB REMARK 900 RELATED ID: 3JRD RELATED DB: PDB REMARK 900 RELATED ID: 3JRE RELATED DB: PDB REMARK 900 RELATED ID: 3JRF RELATED DB: PDB REMARK 900 RELATED ID: 3JRG RELATED DB: PDB REMARK 900 RELATED ID: 3JRH RELATED DB: PDB REMARK 900 RELATED ID: 3JRI RELATED DB: PDB DBREF 3IV5 A 1 98 UNP P0A6R3 FIS_ECOLI 1 98 DBREF 3IV5 B 1 98 UNP P0A6R3 FIS_ECOLI 1 98 DBREF 3IV5 C 1 27 PDB 3IV5 3IV5 1 27 DBREF 3IV5 D 1 27 PDB 3IV5 3IV5 1 27 SEQRES 1 A 98 MET PHE GLU GLN ARG VAL ASN SER ASP VAL LEU THR VAL SEQRES 2 A 98 SER THR VAL ASN SER GLN ASP GLN VAL THR GLN LYS PRO SEQRES 3 A 98 LEU ARG ASP SER VAL LYS GLN ALA LEU LYS ASN TYR PHE SEQRES 4 A 98 ALA GLN LEU ASN GLY GLN ASP VAL ASN ASP LEU TYR GLU SEQRES 5 A 98 LEU VAL LEU ALA GLU VAL GLU GLN PRO LEU LEU ASP MET SEQRES 6 A 98 VAL MET GLN TYR THR ARG GLY ASN GLN THR ARG ALA ALA SEQRES 7 A 98 LEU MET MET GLY ILE ASN ARG GLY THR LEU ARG LYS LYS SEQRES 8 A 98 LEU LYS LYS TYR GLY MET ASN SEQRES 1 B 98 MET PHE GLU GLN ARG VAL ASN SER ASP VAL LEU THR VAL SEQRES 2 B 98 SER THR VAL ASN SER GLN ASP GLN VAL THR GLN LYS PRO SEQRES 3 B 98 LEU ARG ASP SER VAL LYS GLN ALA LEU LYS ASN TYR PHE SEQRES 4 B 98 ALA GLN LEU ASN GLY GLN ASP VAL ASN ASP LEU TYR GLU SEQRES 5 B 98 LEU VAL LEU ALA GLU VAL GLU GLN PRO LEU LEU ASP MET SEQRES 6 B 98 VAL MET GLN TYR THR ARG GLY ASN GLN THR ARG ALA ALA SEQRES 7 B 98 LEU MET MET GLY ILE ASN ARG GLY THR LEU ARG LYS LYS SEQRES 8 B 98 LEU LYS LYS TYR GLY MET ASN SEQRES 1 C 27 DA DA DA DT DT DT DG DT DT DT DG DA DA SEQRES 2 C 27 DT DT DT DT DG DA DG DC DA DA DA DT DT SEQRES 3 C 27 DT SEQRES 1 D 27 DA DA DA DT DT DT DG DC DT DC DA DA DA SEQRES 2 D 27 DA DT DT DC DA DA DA DC DA DA DA DT DT SEQRES 3 D 27 DT FORMUL 5 HOH *12(H2 O) HELIX 1 1 LEU A 27 LEU A 42 1 16 HELIX 2 2 ASP A 49 THR A 70 1 22 HELIX 3 3 ASN A 73 GLY A 82 1 10 HELIX 4 4 ASN A 84 TYR A 95 1 12 HELIX 5 5 VAL B 6 VAL B 10 5 5 HELIX 6 6 LEU B 27 GLN B 41 1 15 HELIX 7 7 ASP B 49 THR B 70 1 22 HELIX 8 8 ASN B 73 GLY B 82 1 10 HELIX 9 9 ASN B 84 TYR B 95 1 12 SHEET 1 A 2 THR A 12 VAL A 16 0 SHEET 2 A 2 VAL A 22 PRO A 26 -1 O LYS A 25 N VAL A 13 SHEET 1 B 2 THR B 12 VAL B 16 0 SHEET 2 B 2 VAL B 22 PRO B 26 -1 O THR B 23 N THR B 15 CISPEP 1 ASN B 43 GLY B 44 0 -4.02 CRYST1 43.080 92.980 154.510 90.00 90.00 90.00 P 21 21 21 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 0.023213 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010755 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006472 0.00000