HEADER TRANSCRIPTION/DNA 14-JUL-01 1EAO TITLE THE RUNX1 RUNT DOMAIN AT 1.4A RESOLUTION: A STRUCTURAL SWITCH AND TITLE 2 SPECIFICALLY BOUND CHLORIDE IONS MODULATE DNA BINDING COMPND MOL_ID: 1; COMPND 2 MOLECULE: RUNT-RELATED TRANSCRIPTION FACTOR 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RUNT DOMAIN RESIDUES 46-185; COMPND 5 SYNONYM: ACUTE MYELOID LEUKEMIA 1 PROTEIN, ONCOGENE AML-1, CORE- COMPND 6 BINDING FACTOR, ALPHA B SUBUNIT, CBF-ALPHA B, POLYOMAVIRUS ENHANCER COMPND 7 BINDING PROTEIN 2 ALPHA B SUBUNIT, PEBP2-ALPHA B, PEA2-ALPHA B, SL3-3 COMPND 8 ENHANCER FACTOR 1 ALPHA B SUBUNIT, SL3/AKV CORE-BINDING FACTOR ALPHA COMPND 9 B SUBUNIT; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES; COMPND 12 OTHER_DETAILS: ENGINEERED MUTATION CYS 72 SER, CYS 81 SER SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET11C; SOURCE 9 OTHER_DETAILS: REFOLDED FROM INCLUSION BODIES KEYWDS TRANSCRIPTION/DNA, ACUTE MYELOID LEUKEMIA, AML, RUNX1, RUNT DOMAIN, KEYWDS 2 CHLORIDE BINDING, TRANSCRIPTION FACTOR, IG FOLD, TRANSCRIPTION-DNA KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.BACKSTROM,M.WOLF-WATZ,C.GRUNDSTROM,T.H.HARD,T.GRUNDSTROM,U.H.SAUER REVDAT 4 01-MAY-24 1EAO 1 REMARK REVDAT 3 29-MAR-17 1EAO 1 TITLE REVDAT 2 24-FEB-09 1EAO 1 VERSN REVDAT 1 12-SEP-02 1EAO 0 JRNL AUTH S.BACKSTROM,M.WOLF-WATZ,C.GRUNDSTROM,T.HARD,T.GRUNDSTROM, JRNL AUTH 2 U.SAUER JRNL TITL THE RUNX1 RUNT DOMAIN AT 1.25A RESOLUTION: A STRUCTURAL JRNL TITL 2 SWITCH AND SPECIFICALLY BOUND CHLORIDE IONS MODULATE DNA JRNL TITL 3 BINDING JRNL REF J.MOL.BIOL. V. 322 259 2002 JRNL REFN ISSN 0022-2836 JRNL PMID 12217689 JRNL DOI 10.1016/S0022-2836(02)00702-7 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.27 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 47744 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) : 0.143 REMARK 3 R VALUE (WORKING SET) : 0.141 REMARK 3 FREE R VALUE : 0.173 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2549 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3396 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1530 REMARK 3 BIN FREE R VALUE SET COUNT : 192 REMARK 3 BIN FREE R VALUE : 0.1980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1900 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 360 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.08000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.11000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.01000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.059 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.054 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.029 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.698 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1957 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1810 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2666 ; 1.712 ; 1.943 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4205 ; 1.883 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 246 ; 6.395 ; 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): 317 ; 0.208 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2158 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 392 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 322 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2077 ; 0.264 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1207 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 220 ; 0.169 ; 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): 13 ; 0.161 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 94 ; 0.315 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 32 ; 0.209 ; 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1EAO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-JUL-01. REMARK 100 THE DEPOSITION ID IS D_1290008232. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-00 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.40 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9195 REMARK 200 MONOCHROMATOR : SI(111), SI(311) REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50436 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 24.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 4.450 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.23000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: EBI-8233 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25 % PEG 3350, 16% GLYCEROL, 130 MM NA REMARK 280 CACODYLATE, PH 6.4, PH 6.40 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 45.53300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.08650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.53300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.08650 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 CHAIN A ENGINEERED MUTATION CYS 72 SER, CYS 81 SER REMARK 400 REMARK 400 CBF BINDS TO THE CORE SITE, OF A NUMBER OF ENHANCERS AND PROMOTERS, REMARK 400 INCLUDING MURINE LEUKEMIA VIRUS, POLYOMAVIRUS ENHANCER, REMARK 400 T-CELL RECEPTOR ENHANCERS, LCK, IL-3 AND GM-CSF PROMOTERS. 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 SER A 46 REMARK 465 GLY A 47 REMARK 465 ASP A 48 REMARK 465 ARG A 49 REMARK 465 ARG A 174 REMARK 465 GLU A 175 REMARK 465 PRO A 176 REMARK 465 ARG A 177 REMARK 465 ARG A 178 REMARK 465 HIS A 179 REMARK 465 ARG A 180 REMARK 465 GLN A 181 REMARK 465 LYS A 182 REMARK 465 LEU A 183 REMARK 465 ASP A 184 REMARK 465 ASP A 185 REMARK 465 SER B 46 REMARK 465 GLY B 47 REMARK 465 ASP B 48 REMARK 465 ARG B 49 REMARK 465 ARG B 174 REMARK 465 GLU B 175 REMARK 465 PRO B 176 REMARK 465 ARG B 177 REMARK 465 ARG B 178 REMARK 465 HIS B 179 REMARK 465 ARG B 180 REMARK 465 GLN B 181 REMARK 465 LYS B 182 REMARK 465 LEU B 183 REMARK 465 ASP B 184 REMARK 465 ASP B 185 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 OE1 GLN B 158 O HOH B 2185 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2126 O HOH B 2132 4556 2.00 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 MET B 51 CG MET B 51 SD -0.204 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 ASP A 96 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 THR A 161 CA - CB - CG2 ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG B 64 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 MET B 106 CA - CB - CG ANGL. DEV. = 13.0 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 ASP A 133 52.95 -158.20 REMARK 500 PHE A 153 54.38 -90.21 REMARK 500 THR B 65 -164.24 -105.44 REMARK 500 ASP B 133 53.06 -161.92 REMARK 500 PHE B 153 49.45 -88.57 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 B2047 DISTANCE = 6.13 ANGSTROMS REMARK 525 HOH B2049 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH B2065 DISTANCE = 6.54 ANGSTROMS REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A1174 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A1175 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR B1174 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR B1175 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CMO RELATED DB: PDB REMARK 900 IMMUNOGLOBULIN MOTIF DNA-RECOGNITION AND HETERODIMERIZATION FOR THE REMARK 900 PEBP2/CBF RUNT-DOMAIN REMARK 900 RELATED ID: 1CO1 RELATED DB: PDB REMARK 900 FOLD OF THE CBFA REMARK 900 RELATED ID: 1EAN RELATED DB: PDB REMARK 900 AN "S-SWITCH" AND CHLORIDE IONS MODULATE THE DNA-BINDING ABILITY OF REMARK 900 RUNX/AML1 REMARK 900 RELATED ID: 1EAQ RELATED DB: PDB REMARK 900 AN "S-SWITCH" AND CHLORIDE IONS MODULATE THE DNA-BINDING ABILITY OF REMARK 900 RUNX/AML1 REMARK 900 RELATED ID: 1E50 RELATED DB: PDB REMARK 900 AML1/CBF COMPLEX REMARK 900 RELATED ID: 1H9D RELATED DB: PDB REMARK 900 AML1/CBF-BETA/DNA COMPLEX REMARK 900 RELATED ID: 1HJB RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RUNX-1/AML1/CBFALPHA RUNT DOMAIN AND C/EBPBETA REMARK 900 BZIP DIMERIC BOUND TO A DNA FRAGMENT FROM THE CSF-1R PROMOTER REMARK 900 RELATED ID: 1HJC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RUNX-1/AML1/CBFALPHA RUNT DOMAIN BOUND TO A REMARK 900 DNA FRAGMENT FROM THE CSF-1R PROMOTER REMARK 900 RELATED ID: 1IO4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RUNX-1/AML1/CBFALPHA RUNT DOMAIN-CBFBETA CORE REMARK 900 DOMAIN HETERODIMER AND C/EBPBETA BZIP DIMERIC BOUND TO A DNA REMARK 900 FRAGMENT FROM THE CSF-1R PROMOTER DBREF 1EAO A 46 185 UNP Q03347 RUN1_MOUSE 46 185 DBREF 1EAO B 46 185 UNP Q03347 RUN1_MOUSE 46 185 SEQADV 1EAO SER A 72 UNP Q03347 CYS 72 ENGINEERED MUTATION SEQADV 1EAO SER A 81 UNP Q03347 CYS 81 ENGINEERED MUTATION SEQADV 1EAO SER B 72 UNP Q03347 CYS 72 ENGINEERED MUTATION SEQADV 1EAO SER B 81 UNP Q03347 CYS 81 ENGINEERED MUTATION SEQRES 1 A 140 SER GLY ASP ARG SER MET VAL GLU VAL LEU ALA ASP HIS SEQRES 2 A 140 PRO GLY GLU LEU VAL ARG THR ASP SER PRO ASN PHE LEU SEQRES 3 A 140 SER SER VAL LEU PRO THR HIS TRP ARG SER ASN LYS THR SEQRES 4 A 140 LEU PRO ILE ALA PHE LYS VAL VAL ALA LEU GLY ASP VAL SEQRES 5 A 140 PRO ASP GLY THR LEU VAL THR VAL MET ALA GLY ASN ASP SEQRES 6 A 140 GLU ASN TYR SER ALA GLU LEU ARG ASN ALA THR ALA ALA SEQRES 7 A 140 MET LYS ASN GLN VAL ALA ARG PHE ASN ASP LEU ARG PHE SEQRES 8 A 140 VAL GLY ARG SER GLY ARG GLY LYS SER PHE THR LEU THR SEQRES 9 A 140 ILE THR VAL PHE THR ASN PRO PRO GLN VAL ALA THR TYR SEQRES 10 A 140 HIS ARG ALA ILE LYS ILE THR VAL ASP GLY PRO ARG GLU SEQRES 11 A 140 PRO ARG ARG HIS ARG GLN LYS LEU ASP ASP SEQRES 1 B 140 SER GLY ASP ARG SER MET VAL GLU VAL LEU ALA ASP HIS SEQRES 2 B 140 PRO GLY GLU LEU VAL ARG THR ASP SER PRO ASN PHE LEU SEQRES 3 B 140 SER SER VAL LEU PRO THR HIS TRP ARG SER ASN LYS THR SEQRES 4 B 140 LEU PRO ILE ALA PHE LYS VAL VAL ALA LEU GLY ASP VAL SEQRES 5 B 140 PRO ASP GLY THR LEU VAL THR VAL MET ALA GLY ASN ASP SEQRES 6 B 140 GLU ASN TYR SER ALA GLU LEU ARG ASN ALA THR ALA ALA SEQRES 7 B 140 MET LYS ASN GLN VAL ALA ARG PHE ASN ASP LEU ARG PHE SEQRES 8 B 140 VAL GLY ARG SER GLY ARG GLY LYS SER PHE THR LEU THR SEQRES 9 B 140 ILE THR VAL PHE THR ASN PRO PRO GLN VAL ALA THR TYR SEQRES 10 B 140 HIS ARG ALA ILE LYS ILE THR VAL ASP GLY PRO ARG GLU SEQRES 11 B 140 PRO ARG ARG HIS ARG GLN LYS LEU ASP ASP HET BR A1174 1 HET BR A1175 1 HET BR B1174 1 HET BR B1175 1 HETNAM BR BROMIDE ION FORMUL 3 BR 4(BR 1-) FORMUL 7 HOH *360(H2 O) HELIX 1 1 SER A 50 HIS A 58 1 9 HELIX 2 2 SER B 50 HIS B 58 1 9 SHEET 1 AA 8 VAL A 63 ARG A 64 0 SHEET 2 AA 8 PHE A 70 SER A 72 -1 O SER A 72 N VAL A 63 SHEET 3 AA 8 LYS A 90 ALA A 93 -1 O VAL A 92 N LEU A 71 SHEET 4 AA 8 VAL A 128 ARG A 130 -1 O ALA A 129 N VAL A 91 SHEET 5 AA 8 THR A 121 LYS A 125 -1 O ALA A 123 N ARG A 130 SHEET 6 AA 8 LEU A 102 ASN A 109 -1 O VAL A 103 N ALA A 122 SHEET 7 AA 8 THR A 147 VAL A 152 -1 O THR A 147 N GLY A 108 SHEET 8 AA 8 GLN A 158 THR A 161 -1 O GLN A 158 N VAL A 152 SHEET 1 AB 7 VAL A 63 ARG A 64 0 SHEET 2 AB 7 PHE A 70 SER A 72 -1 O SER A 72 N VAL A 63 SHEET 3 AB 7 LYS A 90 ALA A 93 -1 O VAL A 92 N LEU A 71 SHEET 4 AB 7 VAL A 128 ARG A 130 -1 O ALA A 129 N VAL A 91 SHEET 5 AB 7 THR A 121 LYS A 125 -1 O ALA A 123 N ARG A 130 SHEET 6 AB 7 LEU A 102 ASN A 109 -1 O VAL A 103 N ALA A 122 SHEET 7 AB 7 ASN A 112 ALA A 115 -1 O ASN A 112 N ASN A 109 SHEET 1 AC 2 HIS A 78 ARG A 80 0 SHEET 2 AC 2 LYS A 167 THR A 169 1 O LYS A 167 N TRP A 79 SHEET 1 AD 2 LEU A 117 ARG A 118 0 SHEET 2 AD 2 ARG A 135 PHE A 136 -1 O ARG A 135 N ARG A 118 SHEET 1 BA 8 VAL B 63 ARG B 64 0 SHEET 2 BA 8 PHE B 70 SER B 72 -1 O SER B 72 N VAL B 63 SHEET 3 BA 8 LYS B 90 ALA B 93 -1 O VAL B 92 N LEU B 71 SHEET 4 BA 8 VAL B 128 ARG B 130 -1 O ALA B 129 N VAL B 91 SHEET 5 BA 8 THR B 121 LYS B 125 -1 O ALA B 123 N ARG B 130 SHEET 6 BA 8 LEU B 102 GLY B 108 -1 O VAL B 103 N ALA B 122 SHEET 7 BA 8 THR B 147 VAL B 152 -1 O THR B 147 N GLY B 108 SHEET 8 BA 8 GLN B 158 THR B 161 -1 O GLN B 158 N VAL B 152 SHEET 1 BB 2 HIS B 78 ARG B 80 0 SHEET 2 BB 2 LYS B 167 THR B 169 1 O LYS B 167 N TRP B 79 SHEET 1 BC 2 LEU B 117 ARG B 118 0 SHEET 2 BC 2 ARG B 135 PHE B 136 -1 O ARG B 135 N ARG B 118 CISPEP 1 ASN A 155 PRO A 156 0 -1.22 CISPEP 2 ASN B 155 PRO B 156 0 2.80 SITE 1 AC1 3 ARG A 139 THR A 169 VAL A 170 SITE 1 AC2 1 GLU A 116 SITE 1 AC3 3 ARG B 139 THR B 169 VAL B 170 SITE 1 AC4 2 ASN B 112 GLU B 116 CRYST1 91.066 46.173 62.904 90.00 91.94 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 0.010981 0.000000 0.000373 0.00000 SCALE2 0.000000 0.021658 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015906 0.00000 MTRIX1 1 -0.756729 -0.297093 -0.582320 55.90745 1 MTRIX2 1 0.311672 -0.946973 0.078115 43.01644 1 MTRIX3 1 -0.574649 -0.122381 0.809198 14.48550 1