PDB Short entry for 6P0U HEADER DNA BINDING PROTEIN/DNA 17-MAY-19 6P0U TITLE CRYSTAL STRUCTURE OF TERNARY DNA COMPLEX " FX(1-2)-2XIS" CONTAINING E. TITLE 2 COLI FIS AND PHAGE LAMBDA XIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-BINDING PROTEIN FIS; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: FACTOR-FOR-INVERSION STIMULATION PROTEIN,HIN RECOMBINATIONAL COMPND 5 ENHANCER-BINDING PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (27-MER), FX1-2; COMPND 9 CHAIN: C; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (27-MER), FX1-2; COMPND 13 CHAIN: D; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 4; COMPND 16 MOLECULE: EXCISIONASE; COMPND 17 CHAIN: E, F; COMPND 18 FRAGMENT: RESIDUES 1-55; COMPND 19 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: FIS, B3261, JW3229; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); 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 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 14 ORGANISM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 18 ORGANISM_TAXID: 562; SOURCE 19 MOL_ID: 4; SOURCE 20 ORGANISM_SCIENTIFIC: ESCHERICHIA PHAGE LAMBDA; SOURCE 21 ORGANISM_TAXID: 10710; SOURCE 22 GENE: XIS; SOURCE 23 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 24 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 25 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 26 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 27 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS PROTEIN-DNA TERNARY COMPLEX, DNA SHAPE, COOPERATIVE BINDING, DNA KEYWDS 2 BINDING PROTEIN, DNA BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.P.HANCOCK,D.CASCIO,R.C.JOHNSON REVDAT 4 11-OCT-23 6P0U 1 REMARK REVDAT 3 08-JAN-20 6P0U 1 JRNL REVDAT 2 01-JAN-20 6P0U 1 REMARK REVDAT 1 19-JUN-19 6P0U 0 JRNL AUTH S.P.HANCOCK,D.CASCIO,R.C.JOHNSON JRNL TITL COOPERATIVE DNA BINDING BY PROTEINS THROUGH DNA SHAPE JRNL TITL 2 COMPLEMENTARITY. JRNL REF NUCLEIC ACIDS RES. V. 47 8874 2019 JRNL REFN ESSN 1362-4962 JRNL PMID 31616952 JRNL DOI 10.1093/NAR/GKZ642 REMARK 2 REMARK 2 RESOLUTION. 3.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 75.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 20813 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.850 REMARK 3 FREE R VALUE TEST SET COUNT : 1009 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 50 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.30 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.33 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.46 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 417 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.3062 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 395 REMARK 3 BIN R VALUE (WORKING SET) : 0.3017 REMARK 3 BIN FREE R VALUE : 0.4001 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.28 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 22 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2047 REMARK 3 NUCLEIC ACID ATOMS : 1101 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 76.48 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 134.1 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 34.42310 REMARK 3 B22 (A**2) : 34.42310 REMARK 3 B33 (A**2) : -68.84630 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.560 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.407 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.284 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.393 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.282 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.928 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.892 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 3313 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4725 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 966 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 403 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 3313 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 442 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3605 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.05 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.41 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 22.33 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): -3.4655 -29.6780 24.5797 REMARK 3 T TENSOR REMARK 3 T11: -0.4038 T22: 0.1178 REMARK 3 T33: 0.1493 T12: 0.1637 REMARK 3 T13: -0.1931 T23: -0.3040 REMARK 3 L TENSOR REMARK 3 L11: 9.0321 L22: 5.7239 REMARK 3 L33: 3.6770 L12: 4.7434 REMARK 3 L13: -0.4535 L23: 2.3255 REMARK 3 S TENSOR REMARK 3 S11: 0.0493 S12: -1.0885 S13: 1.0885 REMARK 3 S21: 0.5764 S22: 0.2200 S23: -0.3923 REMARK 3 S31: -0.5027 S32: 0.0542 S33: -0.2692 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 2.1550 -24.7903 18.4989 REMARK 3 T TENSOR REMARK 3 T11: -0.4210 T22: -0.0508 REMARK 3 T33: 0.5759 T12: 0.0116 REMARK 3 T13: -0.2200 T23: -0.3037 REMARK 3 L TENSOR REMARK 3 L11: 5.8291 L22: 3.9363 REMARK 3 L33: 1.5773 L12: -1.4694 REMARK 3 L13: -0.2589 L23: -0.7072 REMARK 3 S TENSOR REMARK 3 S11: -0.0472 S12: -0.3683 S13: 1.0885 REMARK 3 S21: 0.3577 S22: -0.2060 S23: -0.2518 REMARK 3 S31: -0.6835 S32: -0.0424 S33: 0.2532 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { C|* } REMARK 3 ORIGIN FOR THE GROUP (A): 1.6981 -43.6208 11.4343 REMARK 3 T TENSOR REMARK 3 T11: -0.2654 T22: -0.0199 REMARK 3 T33: -0.1149 T12: 0.0474 REMARK 3 T13: -0.1127 T23: 0.0386 REMARK 3 L TENSOR REMARK 3 L11: 6.4244 L22: 0.4789 REMARK 3 L33: 0.0000 L12: -1.4178 REMARK 3 L13: 2.4159 L23: 0.4453 REMARK 3 S TENSOR REMARK 3 S11: -0.2970 S12: 0.1114 S13: -0.0309 REMARK 3 S21: -0.1917 S22: 0.1952 S23: 0.1398 REMARK 3 S31: 0.1676 S32: 0.2397 S33: 0.1018 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { D|* } REMARK 3 ORIGIN FOR THE GROUP (A): 1.4375 -43.2882 10.7796 REMARK 3 T TENSOR REMARK 3 T11: -0.3494 T22: -0.0682 REMARK 3 T33: 0.0305 T12: 0.0834 REMARK 3 T13: -0.0399 T23: 0.0904 REMARK 3 L TENSOR REMARK 3 L11: 5.4416 L22: 0.4147 REMARK 3 L33: 0.0000 L12: -0.7436 REMARK 3 L13: 2.6640 L23: 0.4752 REMARK 3 S TENSOR REMARK 3 S11: -0.2343 S12: 0.3545 S13: -0.2098 REMARK 3 S21: -0.3466 S22: 0.1020 S23: -0.0774 REMARK 3 S31: 0.0448 S32: 0.2848 S33: 0.1323 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: { E|* } REMARK 3 ORIGIN FOR THE GROUP (A): -23.7833 -46.9026 5.8774 REMARK 3 T TENSOR REMARK 3 T11: -0.1423 T22: -0.0605 REMARK 3 T33: 0.1247 T12: -0.0251 REMARK 3 T13: -0.1678 T23: 0.1830 REMARK 3 L TENSOR REMARK 3 L11: 11.1507 L22: 7.9724 REMARK 3 L33: 6.3237 L12: -2.0273 REMARK 3 L13: 0.0198 L23: 0.7278 REMARK 3 S TENSOR REMARK 3 S11: 0.1620 S12: -0.4049 S13: -0.5287 REMARK 3 S21: -0.1670 S22: 0.0571 S23: 0.2787 REMARK 3 S31: 0.6033 S32: 0.4088 S33: -0.2191 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: { F|* } REMARK 3 ORIGIN FOR THE GROUP (A): 31.2640 -43.2050 14.7214 REMARK 3 T TENSOR REMARK 3 T11: -0.2683 T22: 0.1184 REMARK 3 T33: 0.0259 T12: -0.0298 REMARK 3 T13: -0.0117 T23: 0.1767 REMARK 3 L TENSOR REMARK 3 L11: 0.9000 L22: 14.5042 REMARK 3 L33: 11.9668 L12: 5.8208 REMARK 3 L13: -1.2237 L23: -0.4850 REMARK 3 S TENSOR REMARK 3 S11: 0.0910 S12: 0.6507 S13: -0.0104 REMARK 3 S21: -0.5565 S22: -0.0244 S23: 0.3549 REMARK 3 S31: 0.7998 S32: -0.2000 S33: -0.0666 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6P0U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-MAY-19. REMARK 100 THE DEPOSITION ID IS D_1000241709. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-13 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 : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20814 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.300 REMARK 200 RESOLUTION RANGE LOW (A) : 75.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 8.139 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.1400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.39 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.1 REMARK 200 DATA REDUNDANCY IN SHELL : 8.31 REMARK 200 R MERGE FOR SHELL (I) : 0.81900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.240 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.6.1 REMARK 200 STARTING MODEL: 3IV5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 81.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 7.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 4000, PH 7.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.08500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 75.92500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 75.92500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 90.12750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 75.92500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 75.92500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 30.04250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 75.92500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 75.92500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 90.12750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 75.92500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 75.92500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 30.04250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 60.08500 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -74.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 465 VAL A 16 REMARK 465 ASN A 17 REMARK 465 SER A 18 REMARK 465 GLN A 19 REMARK 465 ASP A 20 REMARK 465 GLN A 21 REMARK 465 MET B 1 REMARK 465 PHE B 2 REMARK 465 GLU B 3 REMARK 465 GLN B 4 REMARK 465 ARG B 5 REMARK 465 VAL B 6 REMARK 465 ASN B 7 REMARK 465 SER B 8 REMARK 465 VAL B 16 REMARK 465 ASN B 17 REMARK 465 SER B 18 REMARK 465 GLN B 19 REMARK 465 ASP B 20 REMARK 465 GLN B 21 REMARK 465 ASN E 53 REMARK 465 ARG E 54 REMARK 465 PRO E 55 REMARK 465 LEU F 52 REMARK 465 ASN F 53 REMARK 465 ARG F 54 REMARK 465 PRO F 55 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 ASP A 9 CG OD1 OD2 REMARK 470 VAL A 10 CG1 CG2 REMARK 470 GLN A 24 CG CD OE1 NE2 REMARK 470 LYS A 25 CG CD CE NZ REMARK 470 GLN A 33 CG CD OE1 NE2 REMARK 470 LYS A 36 CG CD CE NZ REMARK 470 PHE A 39 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN A 41 CG CD OE1 NE2 REMARK 470 LEU A 42 CG CD1 CD2 REMARK 470 ASN A 43 CG OD1 ND2 REMARK 470 GLN A 45 CG CD OE1 NE2 REMARK 470 ASN A 48 CG OD1 ND2 REMARK 470 ASP A 49 CG OD1 OD2 REMARK 470 LEU A 53 CG CD1 CD2 REMARK 470 GLN A 60 CG CD OE1 NE2 REMARK 470 ARG A 71 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 93 CG CD CE NZ REMARK 470 VAL B 10 CG1 CG2 REMARK 470 LYS B 25 CG CD CE NZ REMARK 470 ARG B 28 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 32 CG CD CE NZ REMARK 470 GLN B 33 CG CD OE1 NE2 REMARK 470 LYS B 36 CG CD CE NZ REMARK 470 GLN B 41 CG CD OE1 NE2 REMARK 470 LEU B 42 CG CD1 CD2 REMARK 470 GLN B 45 CG CD OE1 NE2 REMARK 470 ASP B 46 CG OD1 OD2 REMARK 470 ASN B 48 CG OD1 ND2 REMARK 470 ASP B 49 CG OD1 OD2 REMARK 470 LEU B 53 CG CD1 CD2 REMARK 470 GLN B 60 CG CD OE1 NE2 REMARK 470 ARG B 71 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 76 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 79 CG CD1 CD2 REMARK 470 MET B 81 CG SD CE REMARK 470 LYS B 90 CG CD CE NZ REMARK 470 ARG E 13 CG CD NE CZ NH1 NH2 REMARK 470 ASP E 51 CG OD1 OD2 REMARK 470 LEU E 52 CG CD1 CD2 REMARK 470 GLN F 6 CG CD OE1 NE2 REMARK 470 ARG F 13 CG CD NE CZ NH1 NH2 REMARK 470 ARG F 14 CG CD NE CZ NH1 NH2 REMARK 470 ARG F 16 CG CD NE CZ NH1 NH2 REMARK 470 GLU F 19 CG CD OE1 OE2 REMARK 470 ARG F 22 CG CD NE CZ NH1 NH2 REMARK 470 LYS F 36 CG CD CE NZ REMARK 470 ARG F 39 CZ NH1 NH2 REMARK 470 PHE F 43 CE1 CE2 CZ REMARK 470 LYS F 49 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 DA C 20 O3' DA C 20 C3' -0.039 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 DA C 1 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT C 3 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DT C 8 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DG C 19 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC C 21 C1' - O4' - C4' ANGL. DEV. = -6.9 DEGREES REMARK 500 DC C 21 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DT D 3 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 DT D 8 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DC D 19 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DC D 24 O4' - C1' - N1 ANGL. DEV. = 2.2 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 SER A 14 84.36 -59.84 REMARK 500 GLN A 24 78.07 -115.36 REMARK 500 ASN A 43 56.99 -96.59 REMARK 500 SER B 14 84.15 -59.38 REMARK 500 GLN B 24 78.17 -115.77 REMARK 500 ASN B 43 54.38 -95.54 REMARK 500 REMARK 500 REMARK: NULL DBREF 6P0U A 1 98 UNP P0A6R3 FIS_ECOLI 1 98 DBREF 6P0U B 1 98 UNP P0A6R3 FIS_ECOLI 1 98 DBREF 6P0U C 1 27 PDB 6P0U 6P0U 1 27 DBREF 6P0U D 1 27 PDB 6P0U 6P0U 1 27 DBREF 6P0U E 1 55 UNP P03699 VXIS_LAMBD 1 55 DBREF 6P0U F 1 55 UNP P03699 VXIS_LAMBD 1 55 SEQADV 6P0U SER E 28 UNP P03699 CYS 28 CONFLICT SEQADV 6P0U SER F 28 UNP P03699 CYS 28 CONFLICT 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 DT DG DT DT DG DT DG DT DT DT DT SEQRES 2 C 27 DT DA DA DC DA DG DA DC DT DA DC DA DT SEQRES 3 C 27 DT SEQRES 1 D 27 DA DA DT DG DT DA DG DT DC DT DG DT DT SEQRES 2 D 27 DA DA DA DA DA DC DA DC DA DA DC DA DT SEQRES 3 D 27 DT SEQRES 1 E 55 MET TYR LEU THR LEU GLN GLU TRP ASN ALA ARG GLN ARG SEQRES 2 E 55 ARG PRO ARG SER LEU GLU THR VAL ARG ARG TRP VAL ARG SEQRES 3 E 55 GLU SER ARG ILE PHE PRO PRO PRO VAL LYS ASP GLY ARG SEQRES 4 E 55 GLU TYR LEU PHE HIS GLU SER ALA VAL LYS VAL ASP LEU SEQRES 5 E 55 ASN ARG PRO SEQRES 1 F 55 MET TYR LEU THR LEU GLN GLU TRP ASN ALA ARG GLN ARG SEQRES 2 F 55 ARG PRO ARG SER LEU GLU THR VAL ARG ARG TRP VAL ARG SEQRES 3 F 55 GLU SER ARG ILE PHE PRO PRO PRO VAL LYS ASP GLY ARG SEQRES 4 F 55 GLU TYR LEU PHE HIS GLU SER ALA VAL LYS VAL ASP LEU SEQRES 5 F 55 ASN ARG PRO HELIX 1 AA1 LEU A 27 LEU A 42 1 16 HELIX 2 AA2 LEU A 50 THR A 70 1 21 HELIX 3 AA3 ASN A 73 GLY A 82 1 10 HELIX 4 AA4 ASN A 84 TYR A 95 1 12 HELIX 5 AA5 LEU B 27 LEU B 42 1 16 HELIX 6 AA6 LEU B 50 THR B 70 1 21 HELIX 7 AA7 ASN B 73 GLY B 82 1 10 HELIX 8 AA8 ASN B 84 TYR B 95 1 12 HELIX 9 AA9 LEU E 5 GLN E 12 1 8 HELIX 10 AB1 SER E 17 GLU E 27 1 11 HELIX 11 AB2 LEU F 5 GLN F 12 1 8 HELIX 12 AB3 SER F 17 GLU F 27 1 11 SHEET 1 AA1 2 THR A 12 SER A 14 0 SHEET 2 AA1 2 GLN A 24 PRO A 26 -1 O LYS A 25 N VAL A 13 SHEET 1 AA2 2 THR B 12 SER B 14 0 SHEET 2 AA2 2 GLN B 24 PRO B 26 -1 O LYS B 25 N VAL B 13 SHEET 1 AA3 3 TYR E 2 THR E 4 0 SHEET 2 AA3 3 GLU E 40 HIS E 44 -1 O PHE E 43 N LEU E 3 SHEET 3 AA3 3 VAL E 35 ASP E 37 -1 N ASP E 37 O GLU E 40 SHEET 1 AA4 2 ILE E 30 PHE E 31 0 SHEET 2 AA4 2 VAL E 48 LYS E 49 -1 O VAL E 48 N PHE E 31 SHEET 1 AA5 3 TYR F 2 THR F 4 0 SHEET 2 AA5 3 GLU F 40 HIS F 44 -1 O PHE F 43 N LEU F 3 SHEET 3 AA5 3 VAL F 35 ASP F 37 -1 N ASP F 37 O GLU F 40 SHEET 1 AA6 2 ILE F 30 PHE F 31 0 SHEET 2 AA6 2 VAL F 48 LYS F 49 -1 O VAL F 48 N PHE F 31 CISPEP 1 PHE E 31 PRO E 32 0 -6.28 CISPEP 2 PHE F 31 PRO F 32 0 -5.26 CRYST1 151.850 151.850 120.170 90.00 90.00 90.00 P 43 21 2 16 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 0.006585 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006585 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008322 0.00000