PDB Short entry for 1HJB HEADER TRANSCRIPTION/DNA 11-JAN-01 1HJB TITLE CRYSTAL STRUCTURE OF RUNX-1/AML1/CBFALPHA RUNT DOMAIN AND C/EBPBETA TITLE 2 BZIP HOMODIMER BOUND TO A DNA FRAGMENT FROM THE CSF-1R PROMOTER COMPND MOL_ID: 1; COMPND 2 MOLECULE: CCAAT/ENHANCER BINDING PROTEIN BETA; COMPND 3 CHAIN: A, B, D, E; COMPND 4 FRAGMENT: RESIDUES 259-345; COMPND 5 SYNONYM: C/EBP BETA, NFIL-6; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: RUNT-RELATED TRANSCRIPTION FACTOR 1; COMPND 9 CHAIN: C, F; COMPND 10 FRAGMENT: RESIDUES 60-182; COMPND 11 SYNONYM: CORE BINDING FACTOR ALPHA, RUNX-1, AML1, PEBP2ALPHAB, CBFA2; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA (5'-(*GP*AP*AP*GP*AP*TP*TP*TP*CP*CP* COMPND 15 AP*AP*AP*CP*TP*CP*TP*GP*TP*GP*GP*TP*TP*GP*CP*G)-3'); COMPND 16 CHAIN: G, I; COMPND 17 FRAGMENT: FRAGMENT FROM CSF-1R PROMOTER; COMPND 18 ENGINEERED: YES; COMPND 19 MOL_ID: 4; COMPND 20 MOLECULE: DNA (5'-(*CP*CP*GP*CP*AP*AP*CP*CP*AP*CP* COMPND 21 AP*GP*AP*GP*TP*TP*TP*GP*GP*AP*AP*AP*TP*CP*TP*T)-3'); COMPND 22 CHAIN: H, J; COMPND 23 FRAGMENT: FRAGMENT FROM CSF-1R PROMOTER; COMPND 24 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PAR2156; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 12 ORGANISM_COMMON: MOUSE; SOURCE 13 ORGANISM_TAXID: 10090; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PAR2156; SOURCE 19 MOL_ID: 3; SOURCE 20 SYNTHETIC: YES; SOURCE 21 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 22 ORGANISM_COMMON: HUMAN; SOURCE 23 ORGANISM_TAXID: 9606; SOURCE 24 MOL_ID: 4; SOURCE 25 SYNTHETIC: YES; SOURCE 26 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 27 ORGANISM_COMMON: HUMAN; SOURCE 28 ORGANISM_TAXID: 9606 KEYWDS TRANSCRIPTION/DNA, PROTEIN-DNA COMPLEX, TRANSCRIPTION FACTOR, BZIP, KEYWDS 2 RUNX, RUNT, C/EBP, CBF, CORE BINDING FACTOR, AML1, AML, KEYWDS 3 TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.H.TAHIROV,K.OGATA REVDAT 5 13-DEC-23 1HJB 1 REMARK REVDAT 4 08-MAY-19 1HJB 1 REMARK REVDAT 3 24-FEB-09 1HJB 1 VERSN REVDAT 2 21-JUN-01 1HJB 1 REMARK MASTER REVDAT 1 09-MAR-01 1HJB 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-BUNGO,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 ACTA CRYSTALLOGR.,SECT.D V. 57 850 2001 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 11375505 REMARK 1 DOI 10.1107/S0907444901003900 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 173187.840 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 89.6 REMARK 3 NUMBER OF REFLECTIONS : 26157 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) : 0.244 REMARK 3 FREE R VALUE : 0.313 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1264 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) (%) : 69.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3154 REMARK 3 BIN R VALUE (WORKING SET) : 0.3600 REMARK 3 BIN FREE R VALUE : 0.4250 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 170 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.033 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4150 REMARK 3 NUCLEIC ACID ATOMS : 2120 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 46.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 72.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 23.49000 REMARK 3 B22 (A**2) : -38.31000 REMARK 3 B33 (A**2) : 14.82000 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) : 0.44 REMARK 3 ESD FROM SIGMAA (A) : 0.49 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) : 0.60 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.63 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) : 20.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.130 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) : 21.580; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 26.380; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 32.320; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 35.120; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.20 REMARK 3 BSOL : 19.00 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 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED, BSOL IS REMARK 3 DETERMINED MANUALLY AND FIXED. ATOMS C, O, N, AND CA ARE REMARK 3 HARMONICALLY RESTRAINED DURING REFINEMENT WITH HARMONIC REMARK 3 RESTRAINT CONSTANT OF 20 REMARK 4 REMARK 4 1HJB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-JAN-01. REMARK 100 THE DEPOSITION ID IS D_1290005785. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-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 : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.7085 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26407 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.3 REMARK 200 DATA REDUNDANCY : 4.456 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.1000 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 (%) : 71.9 REMARK 200 DATA REDUNDANCY IN SHELL : 1.91 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.30200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS 0.9 REMARK 200 STARTING MODEL: 1IO4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5 MM MGSO4, 3% W/V PEG 4000, 1% V/V REMARK 280 DIOXANE, 50 MM MES BUFFER, PH 5.6 AT 24 DEGREES C, PH 5.60, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 297K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 51.08250 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 54.63650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 51.08250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 54.63650 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, G, H 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F, I, J 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 C/EBP BETA IS IMPORTANT TRANSCRIPTIONAL ACTIVATOR IN THE REGULATION REMARK 400 OF GENES INVOLVED IN IMMUNE AND INFLAMMATORY RESPONSES. SPECIFICALL REMARK 400 THE CORE BINDING FACTOR ALPHA SUBUNIT BINDS DNA AND APPEARS TO HAVE REMARK 400 A ROLE IN THE DEVELOPMENT OF NORMAL HEMATOPOIESIS. 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 LEU A 334 REMARK 465 PRO A 335 REMARK 465 GLU A 336 REMARK 465 PRO A 337 REMARK 465 LEU A 338 REMARK 465 LEU A 339 REMARK 465 ALA A 340 REMARK 465 SER A 341 REMARK 465 SER A 342 REMARK 465 GLY A 343 REMARK 465 HIS A 344 REMARK 465 CYS A 345 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 LYS B 265 REMARK 465 THR B 266 REMARK 465 VAL B 267 REMARK 465 PRO B 335 REMARK 465 GLU B 336 REMARK 465 PRO B 337 REMARK 465 LEU B 338 REMARK 465 LEU B 339 REMARK 465 ALA B 340 REMARK 465 SER B 341 REMARK 465 SER B 342 REMARK 465 GLY B 343 REMARK 465 HIS B 344 REMARK 465 CYS B 345 REMARK 465 ARG C 180 REMARK 465 GLN C 181 REMARK 465 LYS C 182 REMARK 465 VAL D 259 REMARK 465 LYS D 260 REMARK 465 SER D 261 REMARK 465 LYS D 262 REMARK 465 ALA D 263 REMARK 465 LYS D 264 REMARK 465 LYS D 265 REMARK 465 THR D 266 REMARK 465 VAL D 267 REMARK 465 GLU D 336 REMARK 465 PRO D 337 REMARK 465 LEU D 338 REMARK 465 LEU D 339 REMARK 465 ALA D 340 REMARK 465 SER D 341 REMARK 465 SER D 342 REMARK 465 GLY D 343 REMARK 465 HIS D 344 REMARK 465 CYS D 345 REMARK 465 VAL E 259 REMARK 465 LYS E 260 REMARK 465 SER E 261 REMARK 465 LYS E 262 REMARK 465 ALA E 263 REMARK 465 LYS E 264 REMARK 465 LYS E 265 REMARK 465 THR E 266 REMARK 465 VAL E 267 REMARK 465 GLU E 336 REMARK 465 PRO E 337 REMARK 465 LEU E 338 REMARK 465 LEU E 339 REMARK 465 ALA E 340 REMARK 465 SER E 341 REMARK 465 SER E 342 REMARK 465 GLY E 343 REMARK 465 HIS E 344 REMARK 465 CYS E 345 REMARK 465 ARG F 180 REMARK 465 GLN F 181 REMARK 465 LYS F 182 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 GLN A 333 CG CD OE1 NE2 REMARK 470 GLU B 273 CG CD OE1 OE2 REMARK 470 GLU E 273 CG CD OE1 OE2 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 CB GLU F 111 CB GLU F 111 2575 2.13 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 PRO C 98 C - N - CA ANGL. DEV. = 9.4 DEGREES REMARK 500 DC H 10 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 DC J 10 O4' - C1' - N1 ANGL. DEV. = 2.9 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 A 269 8.07 -63.68 REMARK 500 HIS A 270 46.25 -140.62 REMARK 500 ASP A 272 -59.91 -2.37 REMARK 500 THR A 299 -72.47 -51.46 REMARK 500 VAL A 303 -72.41 -48.36 REMARK 500 THR A 307 -39.10 -36.88 REMARK 500 TYR B 274 -70.83 -28.25 REMARK 500 GLU B 305 -62.87 -29.70 REMARK 500 GLU C 61 140.91 -27.86 REMARK 500 ASN C 109 145.38 -178.10 REMARK 500 GLU C 111 -78.25 -51.64 REMARK 500 ASN C 119 42.49 80.58 REMARK 500 ALA C 129 77.34 -119.83 REMARK 500 ASP C 133 66.67 34.37 REMARK 500 ASN D 282 -70.85 -56.34 REMARK 500 LYS D 287 -71.25 -39.00 REMARK 500 SER D 321 -74.05 -53.00 REMARK 500 LYS E 275 -77.10 -42.88 REMARK 500 THR F 65 -165.88 -106.45 REMARK 500 ASN F 82 26.22 30.43 REMARK 500 SER F 114 85.36 -158.37 REMARK 500 ALA F 120 13.91 -59.09 REMARK 500 ASP F 133 75.88 51.64 REMARK 500 ARG F 142 131.34 -36.53 REMARK 500 ARG F 164 64.44 34.02 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 DG G 18 0.05 SIDE CHAIN REMARK 500 DC J 1 0.06 SIDE CHAIN REMARK 500 DC J 2 0.06 SIDE CHAIN REMARK 500 DA J 6 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES 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: 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: 1JHB RELATED DB: PDB REMARK 900 CORE BINDING FACTOR BETA 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 DIMERIC AND C/EBPBETA BZIP DIMERIC BOUND TO A DNA FRAGMENT REMARK 900 FROM THE CSF-1R PROMOTER DBREF 1HJB A 259 345 UNP P17676 CEBB_HUMAN 259 345 DBREF 1HJB B 259 345 UNP P17676 CEBB_HUMAN 259 345 DBREF 1HJB C 60 182 UNP Q03347 AML1_MOUSE 60 182 DBREF 1HJB D 259 345 UNP P17676 CEBB_HUMAN 259 345 DBREF 1HJB E 259 345 UNP P17676 CEBB_HUMAN 259 345 DBREF 1HJB F 60 182 UNP Q03347 AML1_MOUSE 60 182 DBREF 1HJB G 1 26 PDB 1HJB 1HJB 1 26 DBREF 1HJB H 1 26 PDB 1HJB 1HJB 1 26 DBREF 1HJB I 1 26 PDB 1HJB 1HJB 1 26 DBREF 1HJB J 1 26 PDB 1HJB 1HJB 1 26 SEQRES 1 A 87 VAL LYS SER LYS ALA LYS LYS THR VAL ASP LYS HIS SER SEQRES 2 A 87 ASP GLU TYR LYS ILE ARG ARG GLU ARG ASN ASN ILE ALA SEQRES 3 A 87 VAL ARG LYS SER ARG ASP LYS ALA LYS MET ARG ASN LEU SEQRES 4 A 87 GLU THR GLN HIS LYS VAL LEU GLU LEU THR ALA GLU ASN SEQRES 5 A 87 GLU ARG LEU GLN LYS LYS VAL GLU GLN LEU SER ARG GLU SEQRES 6 A 87 LEU SER THR LEU ARG ASN LEU PHE LYS GLN LEU PRO GLU SEQRES 7 A 87 PRO LEU LEU ALA SER SER GLY HIS CYS SEQRES 1 B 87 VAL LYS SER LYS ALA LYS LYS THR VAL ASP LYS HIS SER SEQRES 2 B 87 ASP GLU TYR LYS ILE ARG ARG GLU ARG ASN ASN ILE ALA SEQRES 3 B 87 VAL ARG LYS SER ARG ASP LYS ALA LYS MET ARG ASN LEU SEQRES 4 B 87 GLU THR GLN HIS LYS VAL LEU GLU LEU THR ALA GLU ASN SEQRES 5 B 87 GLU ARG LEU GLN LYS LYS VAL GLU GLN LEU SER ARG GLU SEQRES 6 B 87 LEU SER THR LEU ARG ASN LEU PHE LYS GLN LEU PRO GLU SEQRES 7 B 87 PRO LEU LEU ALA SER SER GLY HIS CYS 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 87 VAL LYS SER LYS ALA LYS LYS THR VAL ASP LYS HIS SER SEQRES 2 D 87 ASP GLU TYR LYS ILE ARG ARG GLU ARG ASN ASN ILE ALA SEQRES 3 D 87 VAL ARG LYS SER ARG ASP LYS ALA LYS MET ARG ASN LEU SEQRES 4 D 87 GLU THR GLN HIS LYS VAL LEU GLU LEU THR ALA GLU ASN SEQRES 5 D 87 GLU ARG LEU GLN LYS LYS VAL GLU GLN LEU SER ARG GLU SEQRES 6 D 87 LEU SER THR LEU ARG ASN LEU PHE LYS GLN LEU PRO GLU SEQRES 7 D 87 PRO LEU LEU ALA SER SER GLY HIS CYS SEQRES 1 E 87 VAL LYS SER LYS ALA LYS LYS THR VAL ASP LYS HIS SER SEQRES 2 E 87 ASP GLU TYR LYS ILE ARG ARG GLU ARG ASN ASN ILE ALA SEQRES 3 E 87 VAL ARG LYS SER ARG ASP LYS ALA LYS MET ARG ASN LEU SEQRES 4 E 87 GLU THR GLN HIS LYS VAL LEU GLU LEU THR ALA GLU ASN SEQRES 5 E 87 GLU ARG LEU GLN LYS LYS VAL GLU GLN LEU SER ARG GLU SEQRES 6 E 87 LEU SER THR LEU ARG ASN LEU PHE LYS GLN LEU PRO GLU SEQRES 7 E 87 PRO LEU LEU ALA SER SER GLY HIS CYS SEQRES 1 F 123 GLY GLU LEU VAL ARG THR ASP SER PRO ASN PHE LEU CYS SEQRES 2 F 123 SER VAL LEU PRO THR HIS TRP ARG CYS ASN LYS THR LEU SEQRES 3 F 123 PRO ILE ALA PHE LYS VAL VAL ALA LEU GLY ASP VAL PRO SEQRES 4 F 123 ASP GLY THR LEU VAL THR VAL MET ALA GLY ASN ASP GLU SEQRES 5 F 123 ASN TYR SER ALA GLU LEU ARG ASN ALA THR ALA ALA MET SEQRES 6 F 123 LYS ASN GLN VAL ALA ARG PHE ASN ASP LEU ARG PHE VAL SEQRES 7 F 123 GLY ARG SER GLY ARG GLY LYS SER PHE THR LEU THR ILE SEQRES 8 F 123 THR VAL PHE THR ASN PRO PRO GLN VAL ALA THR TYR HIS SEQRES 9 F 123 ARG ALA ILE LYS ILE THR VAL ASP GLY PRO ARG GLU PRO SEQRES 10 F 123 ARG ARG HIS ARG GLN LYS SEQRES 1 G 26 DG DA DA DG DA DT DT DT DC DC DA DA DA SEQRES 2 G 26 DC DT DC DT DG DT DG DG DT DT DG DC DG SEQRES 1 H 26 DC DC DG DC DA DA DC DC DA DC DA DG DA SEQRES 2 H 26 DG DT DT DT DG DG DA DA DA DT DC DT DT SEQRES 1 I 26 DG DA DA DG DA DT DT DT DC DC DA DA DA SEQRES 2 I 26 DC DT DC DT DG DT DG DG DT DT DG DC DG SEQRES 1 J 26 DC DC DG DC DA DA DC DC DA DC DA DG DA SEQRES 2 J 26 DG DT DT DT DG DG DA DA DA DT DC DT DT HELIX 1 1 SER A 271 GLN A 333 1 63 HELIX 2 2 SER B 271 LEU B 334 1 64 HELIX 3 3 SER D 271 LEU D 334 1 64 HELIX 4 4 SER E 271 LEU E 334 1 64 SHEET 1 CA 4 LEU C 62 ARG C 64 0 SHEET 2 CA 4 PHE C 70 SER C 73 -1 O CYS C 72 N VAL C 63 SHEET 3 CA 4 LYS C 90 ALA C 93 -1 O LYS C 90 N SER C 73 SHEET 4 CA 4 VAL C 128 ARG C 130 -1 O ALA C 129 N VAL C 91 SHEET 1 CB 5 HIS C 78 ARG C 80 0 SHEET 2 CB 5 GLN C 158 THR C 169 1 O LYS C 167 N TRP C 79 SHEET 3 CB 5 PHE C 146 VAL C 152 -1 O PHE C 146 N ALA C 165 SHEET 4 CB 5 LEU C 102 GLY C 108 -1 O THR C 104 N THR C 151 SHEET 5 CB 5 THR C 121 ALA C 123 -1 O ALA C 122 N VAL C 103 SHEET 1 CC 2 LEU C 117 ARG C 118 0 SHEET 2 CC 2 ARG C 135 PHE C 136 -1 O ARG C 135 N ARG C 118 SHEET 1 FA 4 LEU F 62 ARG F 64 0 SHEET 2 FA 4 PHE F 70 SER F 73 -1 O CYS F 72 N VAL F 63 SHEET 3 FA 4 PHE F 89 ALA F 93 -1 O LYS F 90 N SER F 73 SHEET 4 FA 4 VAL F 128 PHE F 131 -1 O ALA F 129 N VAL F 91 SHEET 1 FB 2 HIS F 78 ARG F 80 0 SHEET 2 FB 2 LYS F 167 THR F 169 1 O LYS F 167 N TRP F 79 SHEET 1 FC 4 THR F 121 ALA F 123 0 SHEET 2 FC 4 LEU F 102 GLY F 108 -1 O VAL F 103 N ALA F 122 SHEET 3 FC 4 THR F 147 VAL F 152 -1 O THR F 147 N GLY F 108 SHEET 4 FC 4 GLN F 158 TYR F 162 -1 O GLN F 158 N VAL F 152 SHEET 1 FD 2 LEU F 117 ARG F 118 0 SHEET 2 FD 2 ARG F 135 PHE F 136 -1 O ARG F 135 N ARG F 118 CISPEP 1 ASN C 155 PRO C 156 0 0.03 CISPEP 2 ASN F 155 PRO F 156 0 -0.12 CRYST1 102.165 109.273 127.405 90.00 90.00 90.00 P 21 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 0.009788 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009151 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007849 0.00000