HEADER TRANSCRIPTION/DNA 10-JAN-01 1IO4 TITLE CRYSTAL STRUCTURE OF RUNX-1/AML1/CBFALPHA RUNT DOMAIN-CBFBETA CORE TITLE 2 DOMAIN HETERODIMER AND C/EBPBETA BZIP HOMODIMER BOUND TO A DNA TITLE 3 FRAGMENT FROM THE CSF-1R PROMOTER COMPND MOL_ID: 1; COMPND 2 MOLECULE: CSF-1R PROMOTER; COMPND 3 CHAIN: E; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: CSF-1R PROMOTER; COMPND 7 CHAIN: F; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: CAAT/ENHANCER BINDING PROTEIN BETA; COMPND 11 CHAIN: A, B; COMPND 12 FRAGMENT: BZIP DOMAIN; COMPND 13 SYNONYM: C/EBP BETA; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 4; COMPND 16 MOLECULE: RUNT-RELATED TRANSCRIPTION FACTOR 1; COMPND 17 CHAIN: C; COMPND 18 FRAGMENT: RUNT DOMAIN; COMPND 19 SYNONYM: CORE-BINDING FACTOR, ALPHA B SUBUNIT, PEPB2-ALPHA B; COMPND 20 ENGINEERED: YES; COMPND 21 MOL_ID: 5; COMPND 22 MOLECULE: CORE-BINDING FACTOR, BETA SUBUNIT; COMPND 23 CHAIN: D; COMPND 24 FRAGMENT: CORE DOMAIN; COMPND 25 SYNONYM: PEBP2-BETA, CBF-BETA; COMPND 26 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 11 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 12 EXPRESSION_SYSTEM_VECTOR: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PAR2156; SOURCE 14 MOL_ID: 4; SOURCE 15 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 16 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 17 ORGANISM_TAXID: 10090; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 20 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 21 EXPRESSION_SYSTEM_VECTOR: PLASMID; SOURCE 22 EXPRESSION_SYSTEM_PLASMID: PAR2156; SOURCE 23 MOL_ID: 5; SOURCE 24 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 25 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 26 ORGANISM_TAXID: 10090; SOURCE 27 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 28 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 29 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 30 EXPRESSION_SYSTEM_VECTOR: PLASMID; SOURCE 31 EXPRESSION_SYSTEM_PLASMID: PAR2156 KEYWDS PROTEIN-DNA COMPLEX, TRANSCRIPTION FACTOR, BZIP, RUNX, RUNT, C/EBP, KEYWDS 2 CBF, CORE BINDING FACTOR, AML1, AML, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.H.TAHIROV,K.OGATA REVDAT 3 27-DEC-23 1IO4 1 REMARK REVDAT 2 24-FEB-09 1IO4 1 VERSN REVDAT 1 12-MAR-01 1IO4 0 JRNL AUTH T.H.TAHIROV,T.INOUE-BUNGO,H.MORII,A.FUJIKAWA,M.SASAKI, JRNL AUTH 2 K.KIMURA,M.SHIINA,K.SATO,T.KUMASAKA,M.YAMAMOTO,S.ISHII, JRNL AUTH 3 K.OGATA JRNL TITL STRUCTURAL ANALYSES OF DNA RECOGNITION BY THE AML1/RUNX-1 JRNL TITL 2 RUNT DOMAIN AND ITS ALLOSTERIC CONTROL BY CBFBETA. JRNL REF CELL(CAMBRIDGE,MASS.) V. 104 755 2001 JRNL REFN ISSN 0092-8674 JRNL PMID 11257229 JRNL DOI 10.1016/S0092-8674(01)00271-9 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.H.TAHIROV,T.INOUE,M.SASAKI,M.SHIINA,K.KIMURA,K.SATO, REMARK 1 AUTH 2 T.KUMASAKA,M.YAMAMOTO,N.KAMIYA,K.OGATA REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSES OF REMARK 1 TITL 2 QUATERNARY, TERNARY AND BINARY PROTEIN-DNA COMPLEXES WITH REMARK 1 TITL 3 INVOLVEMENT OF AML1/RUNX-1/CBFALPHA RUNT DOMAIN, CBFBETA AND REMARK 1 TITL 4 THE C/EBPBETA BZIP REGION REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.9 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 461658.950 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 21111 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 SET) : 0.247 REMARK 3 FREE R VALUE : 0.299 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1038 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.19 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3090 REMARK 3 BIN R VALUE (WORKING SET) : 0.4470 REMARK 3 BIN FREE R VALUE : 0.4640 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 150 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.038 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3126 REMARK 3 NUCLEIC ACID ATOMS : 1060 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 8 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 45.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 82.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 29.96000 REMARK 3 B22 (A**2) : -15.30000 REMARK 3 B33 (A**2) : -14.66000 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) : 0.45 REMARK 3 ESD FROM SIGMAA (A) : 0.64 REMARK 3 LOW RESOLUTION CUTOFF (A) : 20.0 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.57 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.64 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.100 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 14.090; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 18.800; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 20.260; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 23.660; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.20 REMARK 3 BSOL : 25.00 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1IO4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JAN-01. REMARK 100 THE DEPOSITION ID IS D_1000005111. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-APR-00 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL45XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21113 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 3.173 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : 6.20000 REMARK 200 FOR THE DATA SET : 15.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.25 REMARK 200 R MERGE FOR SHELL (I) : 0.37200 REMARK 200 R SYM FOR SHELL (I) : 37.2000 REMARK 200 FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: THREE WAVELENGTH FROM GOLD DERIVATIVE REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: CNS 0.9 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M POTASSIUM CHLORIDE, 0.01 M REMARK 280 MAGNESIUM CHLORIDE, 0.01 M DTT, 4.5% V/V PEG 8000, 1% V/V REMARK 280 GLYCEROL, 1% V/V MPD, 0.05 M MES BUFFER PH 5.6, PH 5.60, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 297K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 54.66300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.66300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 60.55400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 81.80000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 60.55400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 81.80000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 54.66300 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 60.55400 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 81.80000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 54.66300 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 60.55400 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 81.80000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: HEXAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F, A, B, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 VAL A 259 REMARK 465 LYS A 260 REMARK 465 SER A 261 REMARK 465 LYS A 262 REMARK 465 ALA A 263 REMARK 465 LYS A 264 REMARK 465 LYS A 265 REMARK 465 THR A 266 REMARK 465 VAL A 267 REMARK 465 ASP A 268 REMARK 465 LYS A 332 REMARK 465 GLN A 333 REMARK 465 LEU A 334 REMARK 465 PRO A 335 REMARK 465 GLU A 336 REMARK 465 VAL B 259 REMARK 465 LYS B 260 REMARK 465 SER B 261 REMARK 465 LYS B 262 REMARK 465 ALA B 263 REMARK 465 LYS B 264 REMARK 465 PRO B 335 REMARK 465 GLU B 336 REMARK 465 ARG C 180 REMARK 465 GLN C 181 REMARK 465 LYS C 182 REMARK 465 MET D 1 REMARK 465 ALA D 71 REMARK 465 SER D 72 REMARK 465 TRP D 73 REMARK 465 GLN D 74 REMARK 465 GLY D 75 REMARK 465 GLU D 76 REMARK 465 GLN D 77 REMARK 465 ARG D 78 REMARK 465 GLN D 79 REMARK 465 THR D 80 REMARK 465 PRO D 81 REMARK 465 GLN D 141 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 O GLY C 95 NE2 GLN C 127 2.12 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 271 155.25 -40.51 REMARK 500 ILE A 276 -62.17 -96.66 REMARK 500 LYS B 269 1.95 -66.84 REMARK 500 SER B 271 -176.99 -50.14 REMARK 500 PRO C 68 2.20 -63.77 REMARK 500 ASN C 82 9.80 53.72 REMARK 500 ASN C 109 137.95 171.42 REMARK 500 ASN C 119 61.17 62.75 REMARK 500 ASP C 133 60.32 66.54 REMARK 500 ARG C 164 67.80 28.26 REMARK 500 ARG D 9 -84.67 -32.89 REMARK 500 GLU D 15 106.83 -46.62 REMARK 500 GLU D 24 139.99 -27.28 REMARK 500 HIS D 37 -49.80 -23.30 REMARK 500 GLU D 38 -75.39 -41.99 REMARK 500 PHE D 57 98.68 -68.41 REMARK 500 ALA D 59 -77.28 -57.16 REMARK 500 GLU D 89 -22.46 104.10 REMARK 500 LEU D 116 2.43 -62.31 REMARK 500 PHE D 127 100.14 -59.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DA F 6 0.06 SIDE CHAIN REMARK 500 DC F 7 0.07 SIDE CHAIN REMARK 500 DG F 18 0.05 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AU C 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AU D 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AU D 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CL3 RELATED DB: PDB REMARK 900 MOLECULAR INSIGHTS INTO PEBP2/CBF-SMMHC ASSOCIATED ACUTE LEUKEMIA REMARK 900 REVEALED FROM THE THREE-DIMENSIONAL STRUCTURE OF PEBP2/CBF BETA REMARK 900 RELATED ID: 2JHB RELATED DB: PDB REMARK 900 CORE BINDING FACTOR BETA REMARK 900 RELATED ID: 1CMO RELATED DB: PDB REMARK 900 IMMUNOGLOBULIN MOTIF DEOXYRIBONUCLEIC ACID- RECOGNITION AND REMARK 900 HETERODIMERIZATION FOR THE PEBP2/CBF RUNT-DOMAIN REMARK 900 RELATED ID: 1CO1 RELATED DB: PDB REMARK 900 FOLD OF THE CBFA REMARK 900 RELATED ID: 1E50 RELATED DB: PDB REMARK 900 AML1/CBFBETA 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 HOMODIMER 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 DBREF 1IO4 A 259 336 UNP P17676 CEBPB_HUMAN 259 336 DBREF 1IO4 B 259 336 UNP P17676 CEBPB_HUMAN 259 336 DBREF 1IO4 C 60 182 UNP Q03347 RUNX1_MOUSE 60 182 DBREF 1IO4 D 1 141 UNP Q08024 PEBB_MOUSE 1 141 DBREF 1IO4 E 1 26 PDB 1IO4 1IO4 1 26 DBREF 1IO4 F 1 26 PDB 1IO4 1IO4 1 26 SEQRES 1 E 26 DG DA DA DG DA DT DT DT DC DC DA DA DA SEQRES 2 E 26 DC DT DC DT DG DT DG DG DT DT DG DC DG SEQRES 1 F 26 DC DC DG DC DA DA DC DC DA DC DA DG DA SEQRES 2 F 26 DG DT DT DT DG DG DA DA DA DT DC DT DT SEQRES 1 A 78 VAL LYS SER LYS ALA LYS LYS THR VAL ASP LYS HIS SER SEQRES 2 A 78 ASP GLU TYR LYS ILE ARG ARG GLU ARG ASN ASN ILE ALA SEQRES 3 A 78 VAL ARG LYS SER ARG ASP LYS ALA LYS MET ARG ASN LEU SEQRES 4 A 78 GLU THR GLN HIS LYS VAL LEU GLU LEU THR ALA GLU ASN SEQRES 5 A 78 GLU ARG LEU GLN LYS LYS VAL GLU GLN LEU SER ARG GLU SEQRES 6 A 78 LEU SER THR LEU ARG ASN LEU PHE LYS GLN LEU PRO GLU SEQRES 1 B 78 VAL LYS SER LYS ALA LYS LYS THR VAL ASP LYS HIS SER SEQRES 2 B 78 ASP GLU TYR LYS ILE ARG ARG GLU ARG ASN ASN ILE ALA SEQRES 3 B 78 VAL ARG LYS SER ARG ASP LYS ALA LYS MET ARG ASN LEU SEQRES 4 B 78 GLU THR GLN HIS LYS VAL LEU GLU LEU THR ALA GLU ASN SEQRES 5 B 78 GLU ARG LEU GLN LYS LYS VAL GLU GLN LEU SER ARG GLU SEQRES 6 B 78 LEU SER THR LEU ARG ASN LEU PHE LYS GLN LEU PRO GLU SEQRES 1 C 123 GLY GLU LEU VAL ARG THR ASP SER PRO ASN PHE LEU CYS SEQRES 2 C 123 SER VAL LEU PRO THR HIS TRP ARG CYS ASN LYS THR LEU SEQRES 3 C 123 PRO ILE ALA PHE LYS VAL VAL ALA LEU GLY ASP VAL PRO SEQRES 4 C 123 ASP GLY THR LEU VAL THR VAL MET ALA GLY ASN ASP GLU SEQRES 5 C 123 ASN TYR SER ALA GLU LEU ARG ASN ALA THR ALA ALA MET SEQRES 6 C 123 LYS ASN GLN VAL ALA ARG PHE ASN ASP LEU ARG PHE VAL SEQRES 7 C 123 GLY ARG SER GLY ARG GLY LYS SER PHE THR LEU THR ILE SEQRES 8 C 123 THR VAL PHE THR ASN PRO PRO GLN VAL ALA THR TYR HIS SEQRES 9 C 123 ARG ALA ILE LYS ILE THR VAL ASP GLY PRO ARG GLU PRO SEQRES 10 C 123 ARG ARG HIS ARG GLN LYS SEQRES 1 D 141 MET PRO ARG VAL VAL PRO ASP GLN ARG SER LYS PHE GLU SEQRES 2 D 141 ASN GLU GLU PHE PHE ARG LYS LEU SER ARG GLU CYS GLU SEQRES 3 D 141 ILE LYS TYR THR GLY PHE ARG ASP ARG PRO HIS GLU GLU SEQRES 4 D 141 ARG GLN THR ARG PHE GLN ASN ALA CYS ARG ASP GLY ARG SEQRES 5 D 141 SER GLU ILE ALA PHE VAL ALA THR GLY THR ASN LEU SER SEQRES 6 D 141 LEU GLN PHE PHE PRO ALA SER TRP GLN GLY GLU GLN ARG SEQRES 7 D 141 GLN THR PRO SER ARG GLU TYR VAL ASP LEU GLU ARG GLU SEQRES 8 D 141 ALA GLY LYS VAL TYR LEU LYS ALA PRO MET ILE LEU ASN SEQRES 9 D 141 GLY VAL CYS VAL ILE TRP LYS GLY TRP ILE ASP LEU HIS SEQRES 10 D 141 ARG LEU ASP GLY MET GLY CYS LEU GLU PHE ASP GLU GLU SEQRES 11 D 141 ARG ALA GLN GLN GLU ASP ALA LEU ALA GLN GLN HET AU C 200 1 HET AU D 200 1 HET AU D 201 1 HETNAM AU GOLD ION FORMUL 7 AU 3(AU 1+) FORMUL 10 HOH *8(H2 O) HELIX 1 1 SER A 271 LEU A 330 1 60 HELIX 2 2 ASP B 272 LEU B 334 1 63 HELIX 3 3 ASP D 7 GLU D 15 1 9 HELIX 4 4 GLU D 15 ARG D 23 1 9 HELIX 5 5 PRO D 36 GLY D 51 1 16 HELIX 6 6 ASP D 128 ALA D 139 1 12 SHEET 1 A14 ASN D 63 GLN D 67 0 SHEET 2 A14 ARG D 52 PHE D 57 -1 O SER D 53 N LEU D 66 SHEET 3 A14 CYS D 25 TYR D 29 -1 N LYS D 28 O ALA D 56 SHEET 4 A14 ASP D 120 GLU D 126 -1 N GLY D 121 O ILE D 27 SHEET 5 A14 CYS D 107 ASP D 115 -1 O ILE D 109 N GLU D 126 SHEET 6 A14 VAL D 95 LEU D 103 -1 N VAL D 95 O ILE D 114 SHEET 7 A14 GLN C 158 TYR C 162 1 N VAL C 159 O ILE D 102 SHEET 8 A14 THR C 147 VAL C 152 -1 N LEU C 148 O TYR C 162 SHEET 9 A14 LEU C 102 GLY C 108 -1 O THR C 104 N THR C 151 SHEET 10 A14 THR C 121 LYS C 125 -1 N ALA C 122 O VAL C 103 SHEET 11 A14 VAL C 128 ARG C 130 -1 O VAL C 128 N LYS C 125 SHEET 12 A14 LYS C 90 ALA C 93 -1 O VAL C 91 N ALA C 129 SHEET 13 A14 PHE C 70 SER C 73 -1 O LEU C 71 N VAL C 92 SHEET 14 A14 LEU C 62 ARG C 64 -1 N VAL C 63 O CYS C 72 SHEET 1 B 7 ASN D 63 GLN D 67 0 SHEET 2 B 7 ARG D 52 PHE D 57 -1 O SER D 53 N LEU D 66 SHEET 3 B 7 CYS D 25 TYR D 29 -1 N LYS D 28 O ALA D 56 SHEET 4 B 7 ASP D 120 GLU D 126 -1 N GLY D 121 O ILE D 27 SHEET 5 B 7 CYS D 107 ASP D 115 -1 O ILE D 109 N GLU D 126 SHEET 6 B 7 VAL D 95 LEU D 103 -1 N VAL D 95 O ILE D 114 SHEET 7 B 7 VAL D 86 ASP D 87 -1 N ASP D 87 O TYR D 96 SHEET 1 C 2 HIS C 78 ARG C 80 0 SHEET 2 C 2 LYS C 167 THR C 169 1 O LYS C 167 N TRP C 79 SHEET 1 D 2 LEU C 117 ARG C 118 0 SHEET 2 D 2 ARG C 135 PHE C 136 -1 O ARG C 135 N ARG C 118 CISPEP 1 ASN C 155 PRO C 156 0 0.01 SITE 1 AC1 1 CYS C 81 SITE 1 AC2 2 GLU D 24 CYS D 124 SITE 1 AC3 2 GLN D 45 CYS D 48 CRYST1 121.108 163.600 109.326 90.00 90.00 90.00 C 2 2 21 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 0.008257 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006112 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009147 0.00000