PDB Short entry for 1P78 HEADER DNA BINDING PROTEIN/DNA 30-APR-03 1P78 TITLE ANABAENA HU-DNA COCRYSTAL STRUCTURE (AHU2) COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*TP*GP*CP*AP*TP*AP*TP*CP*AP*AP*TP*TP*TP*GP*TP*TP*GP*CP COMPND 3 *AP*CP*C)-3'; COMPND 4 CHAIN: C, D; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA-BINDING PROTEIN HU; COMPND 8 CHAIN: A, B; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: CHEMICALLY SYNTHESIZED DNA; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: ANABAENA SP.; SOURCE 6 ORGANISM_TAXID: 1167; SOURCE 7 GENE: HUP OR HANA OR ASR3935; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: RJ1878 LACKS FUNCTIONAL HU GENES; SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PET21A (PETAHU) KEYWDS PROTEIN-DNA COMPLEX, DNA BENDING, HU, DNA BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.S.SWINGER,K.M.LEMBERG,Y.ZHANG,P.A.RICE REVDAT 5 16-AUG-23 1P78 1 REMARK REVDAT 4 13-JUL-11 1P78 1 VERSN REVDAT 3 24-FEB-09 1P78 1 VERSN REVDAT 2 29-JUL-03 1P78 1 JRNL HEADER REVDAT 1 13-MAY-03 1P78 0 JRNL AUTH K.S.SWINGER,K.M.LEMBERG,Y.ZHANG,P.A.RICE JRNL TITL FLEXIBLE DNA BENDING IN HU-DNA COCRYSTAL STRUCTURES JRNL REF EMBO J. V. 22 3749 2003 JRNL REFN ISSN 0261-4189 JRNL PMID 12853489 JRNL DOI 10.1093/EMBOJ/CDG351 REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : REFMAC 5.1.24 LIBRARY REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 85.2 REMARK 3 NUMBER OF REFLECTIONS : 13935 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) : 0.241 REMARK 3 R VALUE (WORKING SET) : 0.239 REMARK 3 FREE R VALUE : 0.276 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 677 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.37 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1235 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3360 REMARK 3 BIN FREE R VALUE SET COUNT : 47 REMARK 3 BIN FREE R VALUE : 0.4110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1384 REMARK 3 NUCLEIC ACID ATOMS : 812 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 94 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) : 25.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.60000 REMARK 3 B22 (A**2) : 2.99000 REMARK 3 B33 (A**2) : -2.39000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.398 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.269 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.244 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.913 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.922 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.890 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2301 ; 0.013 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3269 ; 1.625 ; 2.415 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 182 ; 4.748 ; 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): 337 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1434 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 950 ; 0.227 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 137 ; 0.168 ; 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): 52 ; 0.253 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 2 ; 0.024 ; 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): 915 ; 0.421 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1467 ; 0.787 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1386 ; 1.688 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1802 ; 2.550 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 7 A 17 4 REMARK 3 1 B 7 B 17 4 REMARK 3 2 A 20 A 34 4 REMARK 3 2 B 20 B 34 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 183 ; 0.14 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 183 ; 0.38 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 52 REMARK 3 RESIDUE RANGE : B 1 B 52 REMARK 3 RESIDUE RANGE : A 77 A 92 REMARK 3 RESIDUE RANGE : B 77 B 92 REMARK 3 ORIGIN FOR THE GROUP (A): 19.2140 15.2371 88.7704 REMARK 3 T TENSOR REMARK 3 T11: 0.1868 T22: 0.5175 REMARK 3 T33: 0.2113 T12: 0.0803 REMARK 3 T13: 0.0128 T23: 0.0800 REMARK 3 L TENSOR REMARK 3 L11: 4.4402 L22: 3.2119 REMARK 3 L33: 4.3348 L12: 0.1257 REMARK 3 L13: 0.0837 L23: 0.2040 REMARK 3 S TENSOR REMARK 3 S11: -0.1221 S12: -1.1210 S13: -0.1711 REMARK 3 S21: 0.5365 S22: 0.0179 S23: -0.0808 REMARK 3 S31: 0.1669 S32: 0.1138 S33: 0.1042 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 53 A 76 REMARK 3 ORIGIN FOR THE GROUP (A): 32.0480 28.3045 64.8618 REMARK 3 T TENSOR REMARK 3 T11: 0.0604 T22: 0.1519 REMARK 3 T33: 0.1151 T12: -0.0311 REMARK 3 T13: -0.0647 T23: -0.0130 REMARK 3 L TENSOR REMARK 3 L11: 2.3716 L22: 7.1912 REMARK 3 L33: 6.6672 L12: -2.0081 REMARK 3 L13: -0.6650 L23: -3.7770 REMARK 3 S TENSOR REMARK 3 S11: 0.1143 S12: -0.0642 S13: 0.0890 REMARK 3 S21: -0.3651 S22: -0.2105 S23: -0.1928 REMARK 3 S31: -0.1782 S32: 0.3405 S33: 0.0963 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 53 B 76 REMARK 3 ORIGIN FOR THE GROUP (A): 6.6169 13.3915 62.2819 REMARK 3 T TENSOR REMARK 3 T11: 0.1032 T22: 0.1447 REMARK 3 T33: 0.1020 T12: -0.0119 REMARK 3 T13: 0.0138 T23: 0.0315 REMARK 3 L TENSOR REMARK 3 L11: 2.5142 L22: 4.2805 REMARK 3 L33: 10.8624 L12: -2.5451 REMARK 3 L13: -0.6479 L23: 3.9834 REMARK 3 S TENSOR REMARK 3 S11: -0.1048 S12: -0.0151 S13: -0.0653 REMARK 3 S21: -0.2007 S22: 0.1531 S23: 0.0621 REMARK 3 S31: -0.0778 S32: -0.0547 S33: -0.0483 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 5 REMARK 3 RESIDUE RANGE : D 16 D 20 REMARK 3 ORIGIN FOR THE GROUP (A): 22.0300 41.0978 70.8414 REMARK 3 T TENSOR REMARK 3 T11: 0.2810 T22: 0.2367 REMARK 3 T33: 0.2414 T12: -0.0360 REMARK 3 T13: 0.0419 T23: -0.1801 REMARK 3 L TENSOR REMARK 3 L11: 4.5763 L22: 8.7232 REMARK 3 L33: 8.6714 L12: -1.4454 REMARK 3 L13: -2.6599 L23: 0.2857 REMARK 3 S TENSOR REMARK 3 S11: -0.0145 S12: -0.3976 S13: 0.5962 REMARK 3 S21: 0.8406 S22: -0.0062 S23: 0.4825 REMARK 3 S31: 0.2479 S32: -0.8986 S33: 0.0206 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 6 C 15 REMARK 3 RESIDUE RANGE : D 5 D 15 REMARK 3 ORIGIN FOR THE GROUP (A): 20.6171 21.2507 60.8879 REMARK 3 T TENSOR REMARK 3 T11: 0.2579 T22: 0.0711 REMARK 3 T33: 0.1312 T12: -0.0450 REMARK 3 T13: 0.0009 T23: -0.0525 REMARK 3 L TENSOR REMARK 3 L11: 4.3519 L22: 5.6616 REMARK 3 L33: -0.9205 L12: 1.9439 REMARK 3 L13: 0.5927 L23: -0.3558 REMARK 3 S TENSOR REMARK 3 S11: -0.0980 S12: -0.1792 S13: -0.3681 REMARK 3 S21: -0.1545 S22: -0.2495 S23: -0.8097 REMARK 3 S31: 0.1948 S32: -0.0655 S33: 0.3475 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 16 C 20 REMARK 3 RESIDUE RANGE : D 1 D 4 REMARK 3 ORIGIN FOR THE GROUP (A): 14.5611 -1.3294 64.0045 REMARK 3 T TENSOR REMARK 3 T11: 0.6124 T22: 0.2616 REMARK 3 T33: 0.3302 T12: -0.0246 REMARK 3 T13: -0.0126 T23: 0.1875 REMARK 3 L TENSOR REMARK 3 L11: 7.2716 L22: 9.7416 REMARK 3 L33: 20.7696 L12: -4.0158 REMARK 3 L13: 6.9926 L23: -3.9630 REMARK 3 S TENSOR REMARK 3 S11: 0.2660 S12: -0.4629 S13: -1.1317 REMARK 3 S21: -0.1767 S22: -0.1019 S23: -0.0239 REMARK 3 S31: 1.4658 S32: 0.9843 S33: -0.1640 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: NULL REMARK 4 REMARK 4 1P78 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-MAY-03. REMARK 100 THE DEPOSITION ID IS D_1000019094. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-FEB-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 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 : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0078 REMARK 200 MONOCHROMATOR : SI 220 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : CUSTOM-MADE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16454 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.7 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 54.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.37600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1P71 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 5000 MONOMETHYL ETHER, GLYCEROL, REMARK 280 TRIS, JEFFAMINE, POTASSIUM CHLORIDE, CALCIUM CHLORIDE, SODIUM REMARK 280 AZIDE, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292K 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 18.71500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.37500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.90500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.37500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.71500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.90500 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 300 REMARK: THE ASSYMETRIC UNIT CONTAINS ONE FUNCTIONAL COMPLEX REMARK 300 COMPOSED OF A PROTEIN HOMODIMER AND DUPLEX DNA. 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 APPLY THE FOLLOWING TO CHAINS: C, D, 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 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 DC C 21 REMARK 465 LYS A 93 REMARK 465 ALA A 94 REMARK 465 LYS B 93 REMARK 465 ALA B 94 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 DC C 20 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DC C 20 N1 C2 O2 N3 C4 N4 C5 REMARK 470 DC C 20 C6 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 LYS B 19 CB CG CD CE NZ 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 LYS B 19 CA LYS B 19 CB -0.150 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 DT C 1 O4' - C1' - N1 ANGL. DEV. = 5.3 DEGREES REMARK 500 DG C 2 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC C 3 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DA C 4 O5' - C5' - C4' ANGL. DEV. = -5.0 DEGREES REMARK 500 DA C 6 O4' - C1' - N9 ANGL. DEV. = -4.3 DEGREES REMARK 500 DC C 8 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA C 9 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DT C 13 O4' - C1' - N1 ANGL. DEV. = -5.7 DEGREES REMARK 500 DT C 16 O4' - C1' - N1 ANGL. DEV. = -4.3 DEGREES REMARK 500 DG C 17 O4' - C1' - N9 ANGL. DEV. = 4.3 DEGREES REMARK 500 DT D 1 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG D 2 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DA D 4 O5' - C5' - C4' ANGL. DEV. = -6.3 DEGREES REMARK 500 DA D 4 O4' - C1' - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DT D 5 O4' - C1' - N1 ANGL. DEV. = -5.3 DEGREES REMARK 500 DT D 7 O4' - C1' - C2' ANGL. DEV. = 3.0 DEGREES REMARK 500 DC D 8 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DA D 9 C3' - C2' - C1' ANGL. DEV. = -4.9 DEGREES REMARK 500 DA D 9 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DT D 11 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 DT D 13 C5 - C4 - O4 ANGL. DEV. = -4.6 DEGREES REMARK 500 DT D 15 O4' - C4' - C3' ANGL. DEV. = -2.6 DEGREES REMARK 500 DG D 17 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DC D 21 C3' - C2' - C1' ANGL. DEV. = -7.2 DEGREES REMARK 500 DC D 21 O4' - C1' - N1 ANGL. DEV. = 5.1 DEGREES REMARK 500 ASP A 40 CB - CG - OD2 ANGL. DEV. = 5.7 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 SER A 15 80.33 82.81 REMARK 500 SER B 15 70.77 72.01 REMARK 500 GLN B 20 -71.62 -66.78 REMARK 500 PHE B 47 -63.46 -151.77 REMARK 500 ASN B 66 17.05 58.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1P51 RELATED DB: PDB REMARK 900 ANABAENA HU BOUND TO AHU6 DNA REMARK 900 RELATED ID: 1P71 RELATED DB: PDB REMARK 900 ANABAENA HU BOUND TO TR3 DNA REMARK 900 RELATED ID: 1B8Z RELATED DB: PDB REMARK 900 THERMOTOGA MARITIMA PROTEIN ALONE REMARK 900 RELATED ID: 1IHF RELATED DB: PDB REMARK 900 E. COLI IHF BOUND TO DNA DBREF 1P78 A 1 94 UNP P05514 DBH_ANASP 1 94 DBREF 1P78 B 1 94 UNP P05514 DBH_ANASP 1 94 DBREF 1P78 C 1 21 PDB 1P78 1P78 1 21 DBREF 1P78 D 1 21 PDB 1P78 1P78 1 21 SEQRES 1 C 21 DT DG DC DA DT DA DT DC DA DA DT DT DT SEQRES 2 C 21 DG DT DT DG DC DA DC DC SEQRES 1 D 21 DT DG DC DA DT DA DT DC DA DA DT DT DT SEQRES 2 D 21 DG DT DT DG DC DA DC DC SEQRES 1 A 94 MET ASN LYS GLY GLU LEU VAL ASP ALA VAL ALA GLU LYS SEQRES 2 A 94 ALA SER VAL THR LYS LYS GLN ALA ASP ALA VAL LEU THR SEQRES 3 A 94 ALA ALA LEU GLU THR ILE ILE GLU ALA VAL SER SER GLY SEQRES 4 A 94 ASP LYS VAL THR LEU VAL GLY PHE GLY SER PHE GLU SER SEQRES 5 A 94 ARG GLU ARG LYS ALA ARG GLU GLY ARG ASN PRO LYS THR SEQRES 6 A 94 ASN GLU LYS MET GLU ILE PRO ALA THR ARG VAL PRO ALA SEQRES 7 A 94 PHE SER ALA GLY LYS LEU PHE ARG GLU LYS VAL ALA PRO SEQRES 8 A 94 PRO LYS ALA SEQRES 1 B 94 MET ASN LYS GLY GLU LEU VAL ASP ALA VAL ALA GLU LYS SEQRES 2 B 94 ALA SER VAL THR LYS LYS GLN ALA ASP ALA VAL LEU THR SEQRES 3 B 94 ALA ALA LEU GLU THR ILE ILE GLU ALA VAL SER SER GLY SEQRES 4 B 94 ASP LYS VAL THR LEU VAL GLY PHE GLY SER PHE GLU SER SEQRES 5 B 94 ARG GLU ARG LYS ALA ARG GLU GLY ARG ASN PRO LYS THR SEQRES 6 B 94 ASN GLU LYS MET GLU ILE PRO ALA THR ARG VAL PRO ALA SEQRES 7 B 94 PHE SER ALA GLY LYS LEU PHE ARG GLU LYS VAL ALA PRO SEQRES 8 B 94 PRO LYS ALA FORMUL 5 HOH *94(H2 O) HELIX 1 1 ASN A 2 SER A 15 1 14 HELIX 2 2 THR A 17 SER A 38 1 22 HELIX 3 3 GLY A 82 ALA A 90 1 9 HELIX 4 4 ASN B 2 SER B 15 1 14 HELIX 5 5 THR B 17 SER B 38 1 22 HELIX 6 6 GLY B 82 ALA B 90 1 9 SHEET 1 A 3 VAL A 42 LEU A 44 0 SHEET 2 A 3 GLY A 48 ARG A 55 -1 O PHE A 50 N VAL A 42 SHEET 3 A 3 THR A 74 ALA A 81 -1 O ALA A 78 N GLU A 51 SHEET 1 B 2 ARG A 58 ARG A 61 0 SHEET 2 B 2 LYS A 68 ILE A 71 -1 O ILE A 71 N ARG A 58 SHEET 1 C 3 VAL B 42 LEU B 44 0 SHEET 2 C 3 GLY B 48 ARG B 55 -1 O PHE B 50 N VAL B 42 SHEET 3 C 3 THR B 74 ALA B 81 -1 O ALA B 78 N GLU B 51 SHEET 1 D 2 ARG B 58 ARG B 61 0 SHEET 2 D 2 LYS B 68 ILE B 71 -1 O ILE B 71 N ARG B 58 CRYST1 37.430 91.810 100.750 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 0.026717 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010892 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009926 0.00000