PDB Short entry for 1H88 HEADER TRANSCRIPTION/DNA 29-JAN-01 1H88 TITLE CRYSTAL STRUCTURE OF TERNARY PROTEIN-DNA COMPLEX1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CCAAT/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 OTHER_DETAILS: BZIP DOMAIN; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: MYB PROTO-ONCOGENE PROTEIN; COMPND 10 CHAIN: C; COMPND 11 FRAGMENT: RESIDUES 35-193; COMPND 12 SYNONYM: C-MYB; COMPND 13 ENGINEERED: YES; COMPND 14 MUTATION: YES; COMPND 15 OTHER_DETAILS: DNA BINDING DOMAIN; COMPND 16 MOL_ID: 3; COMPND 17 MOLECULE: DNA(5'-(*GP*AP*TP*GP*TP*GP*GP*CP*GP*CP*AP* COMPND 18 AP*TP*CP*CP*TP*TP*AP*AP*CP*GP*GP*AP*CP*TP*G)-3'); COMPND 19 CHAIN: D; COMPND 20 FRAGMENT: FRAGMENT FROM TOM-1A PROMOTER; COMPND 21 ENGINEERED: YES; COMPND 22 MOL_ID: 4; COMPND 23 MOLECULE: DNA(5'-(*CP*CP*AP*GP*TP*CP*CP*GP*TP*TP*AP* COMPND 24 AP*GP*GP*AP*TP*TP*GP*CP*GP*CP*CP*AP*CP*AP*T)-3'); COMPND 25 CHAIN: E; COMPND 26 FRAGMENT: FRAGMENT FROM TOM-1A PROMOTER; COMPND 27 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: HOUSE 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_TAXID: 9606; SOURCE 23 MOL_ID: 4; SOURCE 24 SYNTHETIC: YES; SOURCE 25 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 26 ORGANISM_TAXID: 9606 KEYWDS TRANSCRIPTION-DNA COMPLEX, TRANSCRIPTION REGULATION, BZIP, PROTO- KEYWDS 2 ONCOGENE, MYB, C-MYB, C/EBP EXPDTA X-RAY DIFFRACTION AUTHOR T.H.TAHIROV,K.OGATA REVDAT 5 08-MAY-24 1H88 1 REMARK REVDAT 4 08-MAY-19 1H88 1 SOURCE REMARK REVDAT 3 06-MAR-13 1H88 1 SOURCE KEYWDS JRNL REMARK REVDAT 3 2 1 VERSN FORMUL MASTER REVDAT 2 24-FEB-09 1H88 1 VERSN REVDAT 1 28-JAN-02 1H88 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 2 REMARK 2 RESOLUTION. 2.80 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1568847.920 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 16664 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) : 0.222 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 818 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.010 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.97 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2424 REMARK 3 BIN R VALUE (WORKING SET) : 0.4120 REMARK 3 BIN FREE R VALUE : 0.4520 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 105 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.044 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2490 REMARK 3 NUCLEIC ACID ATOMS : 1060 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 25 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 72.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 80.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 36.22000 REMARK 3 B22 (A**2) : -23.51000 REMARK 3 B33 (A**2) : -12.71000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 15.66000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.41 REMARK 3 ESD FROM SIGMAA (A) : 0.54 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) : 0.52 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.58 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.100 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 18.00 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) : 5.910 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 8.800 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 10.100; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 13.640; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.27 REMARK 3 BSOL : 34.54 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 100 REMARK 4 REMARK 4 1H88 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-JAN-01. REMARK 100 THE DEPOSITION ID IS D_1290005841. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-FEB-99 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 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) : 0.97934 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 : 18605 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 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 (%) : 96.0 REMARK 200 DATA REDUNDANCY : 3.151 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 25.2564 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.23300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.109 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD AND MIR 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 (%): 62.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05 M AMMONIUM ACETATE, 0.01 M REMARK 280 MAGNESIUM CHLORIDE, 10% V/V MPD, 6% V/V GLYCEROL, 0.05 M TRIS REMARK 280 HCL BUFFER PH 7.5 AT 24 DEGREES C, PH 7.50, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 297K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 78.48300 REMARK 290 SMTRY3 2 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 PROTO- REMARK 300 ONCOGENE PROTEINBOUND TO A DUPLEX DNA FRAGMENTFOR REMARK 300 THE HETERO-ASSEMBLY DESCRIBED BY REMARK 350 THE 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL 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 CHAIN C ENGINEERED MUTATION LYS47MET, ARG48GLY 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 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 MET C 35 REMARK 465 GLY C 36 REMARK 465 HIS C 37 REMARK 465 LEU C 38 REMARK 465 ARG C 191 REMARK 465 LYS C 192 REMARK 465 VAL C 193 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 THR B 266 OG1 CG2 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 3 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DA D 19 O4' - C1' - N9 ANGL. DEV. = 2.7 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 ARG A 328 -38.66 -37.23 REMARK 500 PRO A 335 -76.41 -47.44 REMARK 500 SER B 271 155.67 -48.39 REMARK 500 GLN B 333 34.94 -83.66 REMARK 500 PRO B 335 104.98 -54.83 REMARK 500 LYS C 40 -70.70 -58.89 REMARK 500 PRO C 71 174.08 -57.46 REMARK 500 VAL C 85 -72.39 -148.29 REMARK 500 ASN C 87 107.40 -41.33 REMARK 500 GLU C 141 -39.57 -38.56 REMARK 500 THR C 145 154.15 -39.20 REMARK 500 GLN C 157 -71.89 -55.00 REMARK 500 ARG C 161 -72.03 -77.74 REMARK 500 ASN C 164 35.29 -83.61 REMARK 500 PRO C 174 -41.24 -28.46 REMARK 500 THR C 188 -73.04 -74.74 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 0.09 SIDE CHAIN REMARK 500 DA D 19 0.05 SIDE CHAIN REMARK 500 DC E 1 0.08 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 NH4 C 1191 DBREF 1H88 A 259 336 UNP P17676 CEBB_HUMAN 259 336 DBREF 1H88 B 259 336 UNP P17676 CEBB_HUMAN 259 336 DBREF 1H88 C 35 193 UNP P06876 MYB_MOUSE 35 193 DBREF 1H88 D 1 26 PDB 1H88 1H88 1 26 DBREF 1H88 E 1 26 PDB 1H88 1H88 1 26 SEQADV 1H88 MET C 35 UNP P17676 LYS 35 ENGINEERED MUTATION SEQADV 1H88 GLY C 36 UNP P17676 ARG 36 ENGINEERED MUTATION 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 159 MET GLY HIS LEU GLY LYS THR ARG TRP THR ARG GLU GLU SEQRES 2 C 159 ASP GLU LYS LEU LYS LYS LEU VAL GLU GLN ASN GLY THR SEQRES 3 C 159 ASP ASP TRP LYS VAL ILE ALA ASN TYR LEU PRO ASN ARG SEQRES 4 C 159 THR ASP VAL GLN CYS GLN HIS ARG TRP GLN LYS VAL LEU SEQRES 5 C 159 ASN PRO GLU LEU ILE LYS GLY PRO TRP THR LYS GLU GLU SEQRES 6 C 159 ASP GLN ARG VAL ILE LYS LEU VAL GLN LYS TYR GLY PRO SEQRES 7 C 159 LYS ARG TRP SER VAL ILE ALA LYS HIS LEU LYS GLY ARG SEQRES 8 C 159 ILE GLY LYS GLN CYS ARG GLU ARG TRP HIS ASN HIS LEU SEQRES 9 C 159 ASN PRO GLU VAL LYS LYS THR SER TRP THR GLU GLU GLU SEQRES 10 C 159 ASP ARG ILE ILE TYR GLN ALA HIS LYS ARG LEU GLY ASN SEQRES 11 C 159 ARG TRP ALA GLU ILE ALA LYS LEU LEU PRO GLY ARG THR SEQRES 12 C 159 ASP ASN ALA ILE LYS ASN HIS TRP ASN SER THR MET ARG SEQRES 13 C 159 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 HET NH4 C1191 1 HETNAM NH4 AMMONIUM ION FORMUL 6 NH4 H4 N 1+ FORMUL 7 HOH *25(H2 O) HELIX 1 1 SER A 271 GLN A 333 1 63 HELIX 2 2 SER B 271 GLN B 333 1 63 HELIX 3 3 THR C 44 GLY C 59 1 16 HELIX 4 4 ASP C 62 LEU C 70 1 9 HELIX 5 5 THR C 74 LYS C 84 1 11 HELIX 6 6 THR C 96 GLY C 111 1 16 HELIX 7 7 ARG C 114 LYS C 120 1 7 HELIX 8 8 ILE C 126 HIS C 137 1 12 HELIX 9 9 THR C 148 GLY C 163 1 16 HELIX 10 10 ARG C 165 ALA C 170 1 6 HELIX 11 11 LYS C 171 LEU C 173 5 3 HELIX 12 12 THR C 177 THR C 188 1 12 SITE 1 AC1 3 ALA C 119 LEU C 122 ARG C 125 CRYST1 41.735 156.966 55.868 90.00 100.16 90.00 P 1 21 1 4 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 0.023961 0.000000 0.004294 0.00000 SCALE2 0.000000 0.006371 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018184 0.00000