PDB Short entry for 1H8A HEADER TRANSCRIPTION/DNA 31-JAN-01 1H8A TITLE CRYSTAL STRUCTURE OF TERNARY PROTEIN-DNA COMPLEX3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAAT/ENHANCER BINDING PROTEIN BETA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 259-336; COMPND 5 SYNONYM: C/EBP BETA, NFIL-6; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: MYB TRANSFORMING PROTEIN; COMPND 9 CHAIN: C; COMPND 10 FRAGMENT: RESIDUES 1-128; COMPND 11 SYNONYM: AMV V-MYB; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA(5'-(*GP*AP*TP*GP*TP*GP*GP*CP*GP*CP*AP* COMPND 15 AP*TP*CP*CP*TP*TP*AP*AP*CP*GP*GP*AP*CP*TP*G)-3'); COMPND 16 CHAIN: D; COMPND 17 FRAGMENT: FRAGMENT FROM TOM-1A PROMOTER; COMPND 18 ENGINEERED: YES; COMPND 19 MOL_ID: 4; COMPND 20 MOLECULE: DNA(5'-(*CP*CP*AP*GP*TP*CP*CP*GP*TP*TP*AP* COMPND 21 AP*GP*GP*AP*TP*TP*GP*CP*GP*CP*CP*AP*CP*AP*T)-3'); COMPND 22 CHAIN: E; COMPND 23 FRAGMENT: FRAGMENT FROM TOM-1A 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: AVIAN MYELOBLASTOSIS VIRUS; SOURCE 12 ORGANISM_TAXID: 11866; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 15 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 16 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 17 EXPRESSION_SYSTEM_PLASMID: PAR2156; SOURCE 18 MOL_ID: 3; SOURCE 19 SYNTHETIC: YES; SOURCE 20 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 21 ORGANISM_TAXID: 9606; SOURCE 22 MOL_ID: 4; SOURCE 23 SYNTHETIC: YES; SOURCE 24 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 25 ORGANISM_TAXID: 9606 KEYWDS TRANSCRIPTION/DNA, PROTEIN-DNA COMPLEX, TRANSCRIPTION REGULATION, KEYWDS 2 BZIP, V-MYB, C-MYB, AMV, C/EBP, AVIAN MYELOBLASTOSIS VIRUS, KEYWDS 3 TRANSFORMING PROTEIN, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.H.TAHIROV,K.OGATA REVDAT 4 13-DEC-23 1H8A 1 REMARK REVDAT 3 08-MAY-19 1H8A 1 SOURCE REMARK REVDAT 2 24-FEB-09 1H8A 1 VERSN REVDAT 1 28-JAN-02 1H8A 0 JRNL AUTH T.H.TAHIROV,K.SATO,E.ICHIKAWA-IWATA,M.SASAKI,T.INOUE-BUNGO, JRNL AUTH 2 M.SHIINA,K.KIMURA,S.TAKATA,A.FUJIKAWA,H.MORII,T.KUMASAKA, JRNL AUTH 3 M.YAMAMOTO,S.ISHII,K.OGATA JRNL TITL MECHANISM OF C-MYB-C/EBPBETA COOPERATION FROM SEPARATED JRNL TITL 2 SITES ON A PROMOTER JRNL REF CELL(CAMBRIDGE,MASS.) V. 108 57 2002 JRNL REFN ISSN 0092-8674 JRNL PMID 11792321 JRNL DOI 10.1016/S0092-8674(01)00636-5 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 CRYSTALS OF TERNARY PROTEIN-DNA COMPLEXES COMPOSED OF REMARK 1 TITL 2 DNA-BINDING DOMAINS C-MYB OR V-MYB, C/EBPALPHA OR C/EBPBETA REMARK 1 TITL 3 AND TOM-1A PROMOTER FRAGMENT REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 57 1655 2001 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 11679735 REMARK 1 DOI 10.1107/S0907444901011982 REMARK 1 REFERENCE 2 REMARK 1 AUTH T.H.TAHIROV,H.MORII,H.UEDAIRA,M.SASAKI,A.SARAI,S.ADACHI, REMARK 1 AUTH 2 S.Y.PARK,N.KAMIYA,K.OGATA REMARK 1 TITL CRYSTAL STRUCTURES OF C-MYB DNA-BINDING DOMAIN IN FREE REMARK 1 TITL 2 STATE: AN EVIDENCE FOR BINDING OF NA+ AND COMPARISON WITH REMARK 1 TITL 3 SOLUTION STRUCTURE REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 1 REFERENCE 3 REMARK 1 AUTH T.H.TAHIROV,T.INOUE-BUNGO,H.MORII,A.FUJIKAWA,M.SASAKI, REMARK 1 AUTH 2 K.KIMURA,M.SHIINA,K.SATO,T.KUMASAKA,M.YAMAMOTO,S.ISHII, REMARK 1 AUTH 3 K.OGATA REMARK 1 TITL STRUCTURAL ANALYSES OF DNA RECOGNITION BY THE AML1/ RUNX-1 REMARK 1 TITL 2 RUNT DOMAIN AND ITS ALLOSTERIC CONTROL BY CBFBETA REMARK 1 REF CELL(CAMBRIDGE,MASS.) V. 104 755 2001 REMARK 1 REFN ISSN 0092-8674 REMARK 1 PMID 11257229 REMARK 1 DOI 10.1016/S0092-8674(01)00271-9 REMARK 2 REMARK 2 RESOLUTION. 2.23 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) : 2.23 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2363401.120 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 35692 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) : 0.245 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1765 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 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) : 2.23 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.37 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5429 REMARK 3 BIN R VALUE (WORKING SET) : 0.3760 REMARK 3 BIN FREE R VALUE : 0.3760 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 275 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.023 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2045 REMARK 3 NUCLEIC ACID ATOMS : 1060 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 171 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 67.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.93000 REMARK 3 B22 (A**2) : -12.25000 REMARK 3 B33 (A**2) : 14.18000 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) : 0.37 REMARK 3 ESD FROM SIGMAA (A) : 0.37 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) : 0.44 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.37 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.100 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 17.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.190 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) : 6.190 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 7.980 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 8.450 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 10.510; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.28 REMARK 3 BSOL : 39.30 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: BULK SOLVENT MODEL USED. ATOMS C, O, N, REMARK 3 CA AND CB ARE HARMONICALLY RESTRAINED DURING REFINEMENT WITH REMARK 3 HARMONIC RESTRAINT CONSTANT OF 20 TWO DATA SETS WERE COLLECTED REMARK 3 FROM ONE CRYSTAL. FIRST 120 IMAGES WERE OBTAINED WITH EXPOSURE REMARK 3 TIME OF 200 SEC, OSCILLATION ANGLE OF 1 DEGREE AND CRYSTAL TO REMARK 3 DETECTOR DISTANCE OF 240 MM. ANOTHER 60 IMAGES WERE OBTAINED REMARK 3 WITH EXPOSURE TIME OF 30 SEC, OSCILLATION ANGLE OF 1.5 DEGREES REMARK 3 AND CRYSTAL TO DETECTOR DISTANCE OF 420 MM. REMARK 4 REMARK 4 1H8A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-JAN-01. REMARK 100 THE DEPOSITION ID IS D_1290005852. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-APR-99 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 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) : 1.020 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 : 42104 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 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 (%) : 97.3 REMARK 200 DATA REDUNDANCY : 3.868 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 23.9495 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.17 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.56 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.38900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.784 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: 1H88 REMARK 200 REMARK 200 REMARK: LEUCINE ZIPPER OF C/EBP BETA AND C-MYB REPEAT 1 WERE REMARK 200 EXCLUDED FROM STARTING MODEL. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.04 M MAGNESIUM CHLORIDE, 20% V/V REMARK 280 MPD, 0.05 M SODIUM CACODYLATE BUFFER PH 6.0 AT 24 DEGREES C, PH REMARK 280 6.00, 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 54.93000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 83.35000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 54.93000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 83.35000 REMARK 290 SMTRY3 4 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 300 REMARK: OF C/EBP BETA AND MONOMER OF MYB REMARK 300 TRANSFORMING PROTEINBOUND TO A DUPLEX DNA REMARK 300 FRAGMENTFOR THE HETERO-ASSEMBLY DESCRIBED BY REMARK REMARK 300 350. 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, D, 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 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 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 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 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 MET C 66 REMARK 465 GLU C 67 REMARK 465 ALA C 68 REMARK 465 VAL C 69 REMARK 465 ILE C 70 REMARK 465 LYS C 71 REMARK 465 ASN C 72 REMARK 465 ARG C 73 REMARK 465 THR C 74 REMARK 465 ASP C 75 REMARK 465 VAL C 76 REMARK 465 GLN C 77 REMARK 465 CYS C 78 REMARK 465 GLN C 79 REMARK 465 HIS C 80 REMARK 465 ARG C 81 REMARK 465 TRP C 82 REMARK 465 GLN C 83 REMARK 465 LYS C 84 REMARK 465 VAL C 85 REMARK 465 LEU C 86 REMARK 465 LYS C 192 REMARK 465 VAL C 193 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 D 13 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG E 13 O4' - C1' - N9 ANGL. DEV. = 1.9 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 SER B 271 -175.89 -62.69 REMARK 500 LYS C 160 41.34 -83.81 REMARK 500 ARG C 161 -36.00 -157.24 REMARK 500 ASN C 164 40.85 -67.91 REMARK 500 SER C 187 -81.64 -103.26 REMARK 500 THR C 188 -77.39 -58.11 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 D 1 0.07 SIDE CHAIN REMARK 500 DA D 2 0.07 SIDE CHAIN REMARK 500 DC E 1 0.06 SIDE CHAIN 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 A2008 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH B2016 DISTANCE = 5.90 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1H88 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TERNARY PROTEIN-DNA COMPLEX1 REMARK 900 RELATED ID: 1H89 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TERNARY PROTEIN-DNA COMPLEX2 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 999 REMARK 999 SEQUENCE REMARK 999 NUMBERING OF AMV V-MYB AMINO ACID REMARK 999 SEQUENCE WAS CHANGED IN ORDER TO MAKE THE REMARK 999 COMPARISON WITH STRUCTURES OF MOUSE REMARK 999 C-MYB MORE CONVENIENT DBREF 1H8A A 259 336 UNP P17676 CEBB_HUMAN 259 336 DBREF 1H8A B 259 336 UNP P17676 CEBB_HUMAN 259 336 DBREF 1H8A C 66 71 PDB 1H8A 1H8A 66 71 DBREF 1H8A C 72 193 UNP P01104 MYB_AVIMB 1 122 DBREF 1H8A D 1 26 PDB 1H8A 1H8A 1 26 DBREF 1H8A E 1 26 PDB 1H8A 1H8A 1 26 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 128 MET GLU ALA VAL ILE LYS ASN ARG THR ASP VAL GLN CYS SEQRES 2 C 128 GLN HIS ARG TRP GLN LYS VAL LEU ASN PRO GLU LEU ASN SEQRES 3 C 128 LYS GLY PRO TRP THR LYS GLU GLU ASP GLN ARG VAL ILE SEQRES 4 C 128 GLU HIS VAL GLN LYS TYR GLY PRO LYS ARG TRP SER ASP SEQRES 5 C 128 ILE ALA LYS HIS LEU LYS GLY ARG ILE GLY LYS GLN CYS SEQRES 6 C 128 ARG GLU ARG TRP HIS ASN HIS LEU ASN PRO GLU VAL LYS SEQRES 7 C 128 LYS THR SER TRP THR GLU GLU GLU ASP ARG ILE ILE TYR SEQRES 8 C 128 GLN ALA HIS LYS ARG LEU GLY ASN ARG TRP ALA GLU ILE SEQRES 9 C 128 ALA LYS LEU LEU PRO GLY ARG THR ASP ASN ALA VAL LYS SEQRES 10 C 128 ASN HIS TRP ASN SER THR MET ARG ARG LYS VAL SEQRES 1 D 26 DG DA DT DG DT DG DG DC DG DC DA DA DT SEQRES 2 D 26 DC DC DT DT DA DA DC DG DG DA DC DT DG SEQRES 1 E 26 DC DC DA DG DT DC DC DG DT DT DA DA DG SEQRES 2 E 26 DG DA DT DT DG DC DG DC DC DA DC DA DT FORMUL 6 HOH *171(H2 O) HELIX 1 1 SER A 271 ASN A 329 1 59 HELIX 2 2 LEU A 330 LYS A 332 5 3 HELIX 3 3 SER B 271 GLN B 333 1 63 HELIX 4 4 THR C 96 TYR C 110 1 15 HELIX 5 5 ARG C 114 LEU C 122 1 9 HELIX 6 6 ILE C 126 HIS C 137 1 12 HELIX 7 7 THR C 148 GLY C 163 1 16 HELIX 8 8 ARG C 165 ALA C 170 1 6 HELIX 9 9 LYS C 171 LEU C 173 5 3 HELIX 10 10 THR C 177 SER C 187 1 11 CRYST1 109.860 166.700 39.600 90.00 90.00 90.00 P 21 21 2 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 0.009102 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005999 0.000000 0.00000 SCALE3 0.000000 0.000000 0.025253 0.00000