HEADER TRANSCRIPTION 19-OCT-17 6ES3 TITLE STRUCTURE OF CDX2-DNA(TCG) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(P*TP*TP*GP*TP*GP*TP*TP*TP*TP*AP*CP*GP*AP*CP*CP*TP*CP*C)-3'); COMPND 4 CHAIN: A, B; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: HOMEOBOX PROTEIN CDX-2; COMPND 8 CHAIN: K, M; COMPND 9 SYNONYM: CDX-3,CAUDAL-TYPE HOMEOBOX PROTEIN 2; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (5'- COMPND 13 D(P*GP*GP*AP*GP*GP*TP*CP*GP*TP*AP*AP*AP*AP*CP*AP*CP*AP*A)-3'); COMPND 14 CHAIN: F, E; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 GENE: CDX2, CDX3; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PETG20A-SBP; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_TAXID: 9606 KEYWDS HOMEODOMAIN TRANSCRIPTION FACTOR, CDX2-DNA COMPLEX, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR E.MORGUNOVA,Y.YIN,A.JOLMA,A.POPOV,J.TAIPALE REVDAT 4 17-JAN-24 6ES3 1 REMARK REVDAT 3 25-DEC-19 6ES3 1 REMARK REVDAT 2 16-MAY-18 6ES3 1 JRNL REVDAT 1 21-MAR-18 6ES3 0 JRNL AUTH E.MORGUNOVA,Y.YIN,P.K.DAS,A.JOLMA,F.ZHU,A.POPOV,Y.XU, JRNL AUTH 2 L.NILSSON,J.TAIPALE JRNL TITL TWO DISTINCT DNA SEQUENCES RECOGNIZED BY TRANSCRIPTION JRNL TITL 2 FACTORS REPRESENT ENTHALPY AND ENTROPY OPTIMA. JRNL REF ELIFE V. 7 2018 JRNL REFN ESSN 2050-084X JRNL PMID 29638214 JRNL DOI 10.7554/ELIFE.32963 REMARK 2 REMARK 2 RESOLUTION. 2.57 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.57 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 10891 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) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1210 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) : 2.57 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 808 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.4390 REMARK 3 BIN FREE R VALUE SET COUNT : 90 REMARK 3 BIN FREE R VALUE : 0.4190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1272 REMARK 3 NUCLEIC ACID ATOMS : 1476 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 93 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 65.83 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 67.06 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.15000 REMARK 3 B22 (A**2) : -8.04000 REMARK 3 B33 (A**2) : -0.66000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.10000 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): 0.378 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.319 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 31.815 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3030 ; 0.017 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 2076 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4254 ; 2.053 ; 1.487 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4848 ; 1.558 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 532 ;19.438 ; 6.323 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 74 ;31.432 ;22.432 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 273 ;21.448 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;11.958 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 464 ; 0.183 ; 0.247 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2242 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 646 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 3 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 1 18 B 1 18 3130 0.060 0.050 REMARK 3 2 K 184 255 M 184 255 4812 0.090 0.050 REMARK 3 3 F 19 36 E 19 36 3250 0.040 0.050 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 18 REMARK 3 ORIGIN FOR THE GROUP (A): 73.7954 -4.7816 72.8029 REMARK 3 T TENSOR REMARK 3 T11: 0.2250 T22: 0.4123 REMARK 3 T33: 0.3757 T12: -0.0025 REMARK 3 T13: -0.1829 T23: -0.0558 REMARK 3 L TENSOR REMARK 3 L11: 3.0779 L22: 6.2595 REMARK 3 L33: 3.6449 L12: -0.8501 REMARK 3 L13: -1.3715 L23: 1.8519 REMARK 3 S TENSOR REMARK 3 S11: -0.1191 S12: 0.3230 S13: -0.3158 REMARK 3 S21: -0.1371 S22: -0.2709 S23: 0.4194 REMARK 3 S31: 0.4460 S32: -0.2852 S33: 0.3900 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 18 REMARK 3 ORIGIN FOR THE GROUP (A): 112.0127 -1.8967 87.1855 REMARK 3 T TENSOR REMARK 3 T11: 0.1121 T22: 0.5512 REMARK 3 T33: 0.5289 T12: -0.0321 REMARK 3 T13: -0.0359 T23: 0.0963 REMARK 3 L TENSOR REMARK 3 L11: 1.5216 L22: 5.5696 REMARK 3 L33: 6.5244 L12: 1.4213 REMARK 3 L13: -0.5339 L23: -2.1684 REMARK 3 S TENSOR REMARK 3 S11: 0.2403 S12: 0.1745 S13: 0.1113 REMARK 3 S21: 0.3719 S22: -0.2159 S23: -0.1383 REMARK 3 S31: -0.7187 S32: 0.8957 S33: -0.0244 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 : K 184 K 255 REMARK 3 ORIGIN FOR THE GROUP (A): 84.1228 0.7808 77.7448 REMARK 3 T TENSOR REMARK 3 T11: 0.0972 T22: 0.5962 REMARK 3 T33: 0.4185 T12: 0.0445 REMARK 3 T13: -0.1958 T23: -0.0414 REMARK 3 L TENSOR REMARK 3 L11: 2.0391 L22: 4.3039 REMARK 3 L33: 2.8951 L12: -0.2953 REMARK 3 L13: -0.5959 L23: -0.5637 REMARK 3 S TENSOR REMARK 3 S11: 0.0307 S12: 0.0550 S13: 0.0233 REMARK 3 S21: 0.0549 S22: -0.1685 S23: -0.0816 REMARK 3 S31: -0.1680 S32: 0.1615 S33: 0.1378 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 : M 184 M 255 REMARK 3 ORIGIN FOR THE GROUP (A): 100.8530 -7.2144 84.2767 REMARK 3 T TENSOR REMARK 3 T11: 0.0503 T22: 0.6163 REMARK 3 T33: 0.4763 T12: 0.0197 REMARK 3 T13: -0.1157 T23: 0.0956 REMARK 3 L TENSOR REMARK 3 L11: 1.4844 L22: 3.7177 REMARK 3 L33: 2.1440 L12: -1.2368 REMARK 3 L13: 0.3133 L23: -0.1189 REMARK 3 S TENSOR REMARK 3 S11: 0.1153 S12: 0.1191 S13: -0.0274 REMARK 3 S21: -0.0573 S22: -0.2750 S23: -0.2431 REMARK 3 S31: 0.1413 S32: 0.0962 S33: 0.1597 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 19 F 36 REMARK 3 ORIGIN FOR THE GROUP (A): 75.7866 -3.8442 72.9801 REMARK 3 T TENSOR REMARK 3 T11: 0.1563 T22: 0.3775 REMARK 3 T33: 0.3859 T12: 0.0253 REMARK 3 T13: -0.1949 T23: -0.0539 REMARK 3 L TENSOR REMARK 3 L11: 0.9475 L22: 6.5082 REMARK 3 L33: 3.4680 L12: -0.6800 REMARK 3 L13: -1.1419 L23: 3.2693 REMARK 3 S TENSOR REMARK 3 S11: 0.1789 S12: 0.1122 S13: -0.0245 REMARK 3 S21: 0.0194 S22: -0.1933 S23: -0.0239 REMARK 3 S31: 0.0097 S32: -0.4364 S33: 0.0144 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : E 19 E 36 REMARK 3 ORIGIN FOR THE GROUP (A): 110.3897 -2.7883 86.0577 REMARK 3 T TENSOR REMARK 3 T11: 0.1948 T22: 0.4626 REMARK 3 T33: 0.5676 T12: -0.0138 REMARK 3 T13: -0.0702 T23: 0.0413 REMARK 3 L TENSOR REMARK 3 L11: 1.9891 L22: 6.7929 REMARK 3 L33: 5.9669 L12: 2.1669 REMARK 3 L13: -1.0504 L23: -4.8341 REMARK 3 S TENSOR REMARK 3 S11: 0.1788 S12: 0.0332 S13: 0.4042 REMARK 3 S21: 0.1307 S22: -0.1170 S23: 0.2082 REMARK 3 S31: -0.2980 S32: 0.3026 S33: -0.0618 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6ES3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-OCT-17. REMARK 100 THE DEPOSITION ID IS D_1200007171. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-APR-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9724 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 : 19575 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.180 REMARK 200 RESOLUTION RANGE LOW (A) : 43.230 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 16.09 REMARK 200 R MERGE (I) : 0.18500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.4700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.24 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.02 REMARK 200 R MERGE FOR SHELL (I) : 2.99100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.430 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: 5LTY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19% PME 5000, 0.15 M POTASSIUM REMARK 280 CHLORIDE, 0.1 M MAGNESIUM CHLORIDE, 8% PEG 400, 0.05M TRIS- REMARK 280 BUFFER PH 8.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 63.97500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.24500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 63.97500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.24500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, K, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, M, E 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OP2 DC A 11 NH2 ARG K 228 2.02 REMARK 500 OP1 DT B 8 O HOH B 101 2.17 REMARK 500 NH1 ARG M 209 OE1 GLU M 241 2.19 REMARK 500 OP2 DC B 11 NH2 ARG M 228 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DT A 9 O3' DA A 10 P -0.104 REMARK 500 DT B 9 O3' DA B 10 P -0.092 REMARK 500 DG F 23 O3' DT F 24 P -0.078 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 B 9 O5' - P - OP1 ANGL. DEV. = -5.4 DEGREES REMARK 500 DA B 10 C5' - C4' - O4' ANGL. DEV. = 7.2 DEGREES REMARK 500 DC B 15 O5' - P - OP1 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG K 190 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG K 190 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ARG K 209 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG K 238 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG M 190 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG M 190 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG M 238 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 LYS M 247 CD - CE - NZ ANGL. DEV. = 14.5 DEGREES REMARK 500 DG F 22 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA F 31 O5' - P - OP2 ANGL. DEV. = -10.0 DEGREES REMARK 500 DG E 22 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA E 31 O5' - P - OP2 ANGL. DEV. = -5.5 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 LYS K 186 46.66 -164.85 REMARK 500 LYS M 186 54.37 172.61 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 LYS M 186 ASP M 187 147.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 109 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH K 326 DISTANCE = 7.54 ANGSTROMS REMARK 525 HOH M 329 DISTANCE = 7.01 ANGSTROMS REMARK 525 HOH E 109 DISTANCE = 6.72 ANGSTROMS DBREF 6ES3 A 1 18 PDB 6ES3 6ES3 1 18 DBREF 6ES3 B 1 18 PDB 6ES3 6ES3 1 18 DBREF 6ES3 K 184 255 UNP Q99626 CDX2_HUMAN 184 255 DBREF 6ES3 M 184 255 UNP Q99626 CDX2_HUMAN 184 255 DBREF 6ES3 F 19 36 PDB 6ES3 6ES3 19 36 DBREF 6ES3 E 19 36 PDB 6ES3 6ES3 19 36 SEQRES 1 A 18 DT DT DG DT DG DT DT DT DT DA DC DG DA SEQRES 2 A 18 DC DC DT DC DC SEQRES 1 B 18 DT DT DG DT DG DT DT DT DT DA DC DG DA SEQRES 2 B 18 DC DC DT DC DC SEQRES 1 K 72 ARG THR LYS ASP LYS TYR ARG VAL VAL TYR THR ASP HIS SEQRES 2 K 72 GLN ARG LEU GLU LEU GLU LYS GLU PHE HIS TYR SER ARG SEQRES 3 K 72 TYR ILE THR ILE ARG ARG LYS ALA GLU LEU ALA ALA THR SEQRES 4 K 72 LEU GLY LEU SER GLU ARG GLN VAL LYS ILE TRP PHE GLN SEQRES 5 K 72 ASN ARG ARG ALA LYS GLU ARG LYS ILE ASN LYS LYS LYS SEQRES 6 K 72 LEU GLN GLN GLN GLN GLN GLN SEQRES 1 M 72 ARG THR LYS ASP LYS TYR ARG VAL VAL TYR THR ASP HIS SEQRES 2 M 72 GLN ARG LEU GLU LEU GLU LYS GLU PHE HIS TYR SER ARG SEQRES 3 M 72 TYR ILE THR ILE ARG ARG LYS ALA GLU LEU ALA ALA THR SEQRES 4 M 72 LEU GLY LEU SER GLU ARG GLN VAL LYS ILE TRP PHE GLN SEQRES 5 M 72 ASN ARG ARG ALA LYS GLU ARG LYS ILE ASN LYS LYS LYS SEQRES 6 M 72 LEU GLN GLN GLN GLN GLN GLN SEQRES 1 F 18 DG DG DA DG DG DT DC DG DT DA DA DA DA SEQRES 2 F 18 DC DA DC DA DA SEQRES 1 E 18 DG DG DA DG DG DT DC DG DT DA DA DA DA SEQRES 2 E 18 DC DA DC DA DA FORMUL 7 HOH *93(H2 O) HELIX 1 AA1 THR K 194 SER K 208 1 15 HELIX 2 AA2 THR K 212 GLY K 224 1 13 HELIX 3 AA3 SER K 226 GLN K 255 1 30 HELIX 4 AA4 THR M 194 SER M 208 1 15 HELIX 5 AA5 THR M 212 GLY M 224 1 13 HELIX 6 AA6 SER M 226 GLN M 255 1 30 CISPEP 1 ARG K 184 THR K 185 0 -6.90 CRYST1 127.950 46.490 68.890 90.00 113.27 90.00 C 1 2 1 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 0.007816 0.000000 0.003361 0.00000 SCALE2 0.000000 0.021510 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015801 0.00000