10 20 30 40 50 60 70 80 1MDM - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSCRIPTION/DNA 07-AUG-02 1MDM
TITLE INHIBITED FRAGMENT OF ETS-1 AND PAIRED DOMAIN OF PAX5 BOUND TITLE 2 TO DNA
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PAX5/ETS BINDING SITE ON THE MB-1 PROMOTER; COMPND 3 CHAIN: C; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PAX5/ETS BINDING SITE ON THE MB-1 PROMOTER; COMPND 7 CHAIN: D; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: PAIRED BOX PROTEIN PAX-5; COMPND 11 CHAIN: A; COMPND 12 FRAGMENT: PAIRED DNA-BINDING DOMAIN, RESIDUES 1-149; COMPND 13 SYNONYM: B-CELL SPECIFIC TRANSCRIPTION FACTOR, BSAP; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 4; COMPND 16 MOLECULE: C-ETS-1 PROTEIN; COMPND 17 CHAIN: B; COMPND 18 FRAGMENT: INHIBITED ETS DNA-BINDING DOMAIN, RESIDUES 280- COMPND 19 440; COMPND 20 SYNONYM: P54; COMPND 21 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: SYNTHESISED BY THE PHOSPHORAMIDITE METHOD; SOURCE 4 MOL_ID: 2; SOURCE 5 SYNTHETIC: YES; SOURCE 6 OTHER_DETAILS: SYNTHESISED BY THE PHOSPHORAMIDITE METHOD; SOURCE 7 MOL_ID: 3; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 GENE: PAX5; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 13 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 14 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 15 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 16 EXPRESSION_SYSTEM_PLASMID: PET11A; SOURCE 17 MOL_ID: 4; SOURCE 18 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 19 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 20 ORGANISM_TAXID: 10090; SOURCE 21 GENE: ETS-1; SOURCE 22 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 23 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 24 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 25 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 26 EXPRESSION_SYSTEM_PLASMID: PET11A
KEYWDS TRANSCRIPTION FACTOR, TERNARY COMPLEX, X-RAY DIFFRACTION, KEYWDS 2 AUTOINHIBITION, ETS DOMAIN, PAIRED DOMAIN, KEYWDS 3 TRANSCRIPTION/DNA COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR C.W.GARVIE,M.A.PUFALL,B.J.GRAVES,C.WOLBERGER
REVDAT 2 24-FEB-09 1MDM 1 VERSN REVDAT 1 11-DEC-02 1MDM 0
JRNL AUTH C.W.GARVIE,M.A.PUFALL,B.J.GRAVES,C.WOLBERGER JRNL TITL STRUCTURAL ANALYSIS OF THE AUTOINHIBITION OF ETS-1 JRNL TITL 2 AND ITS ROLE IN PROTEIN PARTNERSHIPS JRNL REF J.BIOL.CHEM. V. 277 45529 2002 JRNL REFN ISSN 0021-9258 JRNL PMID 12221090 JRNL DOI 10.1074/JBC.M206327200
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.03 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 87.3 REMARK 3 NUMBER OF REFLECTIONS : 13354 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) : 0.259 REMARK 3 FREE R VALUE : 0.310 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1371 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 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) : 2.98 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 59.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1330 REMARK 3 BIN R VALUE (WORKING SET) : 0.4310 REMARK 3 BIN FREE R VALUE : 0.4330 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 11.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 164 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.034 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1994 REMARK 3 NUCLEIC ACID ATOMS : 1060 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 84.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 73.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 11.71000 REMARK 3 B22 (A**2) : -12.07000 REMARK 3 B33 (A**2) : 0.36000 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) : 0.46 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.53 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.56 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.40 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 20.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.22 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : GROUP REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.28 REMARK 3 BSOL : 21.83 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 : ION.PARAM REMARK 3 PARAMETER FILE 5 : 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 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE SIDE CHAINS FOR THE REGION 88- REMARK 3 141 OF PAX5 ARE INCLUDED IN THE MODEL DESPITE A LACK OF REMARK 3 ELECTRON DENSITY TO UNIQUELY DEFINE THEIR LOCATION. THE POOR REMARK 3 DEFINITION OF THE AMINO ACID SIDECHAINS IN THIS REGION OF PAX5 REMARK 3 REFLECTS THE LOSS OF CONTACTS TO THE SUGAR-PHOSPHATE BACKBONE, REMARK 3 DUE TO THE LESS THAN OPTIMAL LENGTH OF THE DNA SEQUENCE USED. REMARK 3 THIS MAY EXPLAIN THE HIGH B-FACTORS OBTAINED OVERALL FOR THE REMARK 3 STRUCTURE. THE ELECTRON DENSITY FOR THE SIDE CHAINS OF REMARK 3 RESIDUES IN THE REGION BETWEEN RESIDUES 309-318 IN ETS-1 WAS REMARK 3 POORLY DEFINED AND ONLY THE SIDE CHAINS FOR ARG309, ASP310 AND REMARK 3 LEU314 COULD BE BUILT.
REMARK 4 REMARK 4 1MDM COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-AUG-02. REMARK 100 THE RCSB ID CODE IS RCSB016836.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAR-01 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13405 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.8 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 58.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : 0.11600 REMARK 200 R SYM FOR SHELL (I) : 0.11600 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: AMORE REMARK 200 STARTING MODEL: PDB ID 1K78 REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.84 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200MM AMMONIUM ACETATE, 10% REMARK 280 PEG4000, 100MM ACETATE BUFFER, PH 5.0, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K
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 38.63500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 85.61500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.63500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 85.61500 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 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, A, 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 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 MET A 1 REMARK 465 ASP A 2 REMARK 465 LEU A 3 REMARK 465 GLU A 4 REMARK 465 LYS A 5 REMARK 465 ASN A 6 REMARK 465 TYR A 7 REMARK 465 PRO A 8 REMARK 465 THR A 9 REMARK 465 PRO A 10 REMARK 465 ARG A 11 REMARK 465 THR A 12 REMARK 465 SER A 13 REMARK 465 ARG A 14 REMARK 465 THR A 15 REMARK 465 GLY A 16 REMARK 465 HIS A 17 REMARK 465 GLY A 18 REMARK 465 VAL A 143 REMARK 465 GLN A 144 REMARK 465 GLN A 145 REMARK 465 PRO A 146 REMARK 465 PRO A 147 REMARK 465 ASN A 148 REMARK 465 GLN A 149 REMARK 465 VAL B 280 REMARK 465 PRO B 281 REMARK 465 SER B 282 REMARK 465 TYR B 283 REMARK 465 ASP B 284 REMARK 465 SER B 285 REMARK 465 PHE B 286 REMARK 465 ASP B 287 REMARK 465 TYR B 288 REMARK 465 GLU B 289 REMARK 465 ASP B 290 REMARK 465 TYR B 291 REMARK 465 PRO B 292 REMARK 465 ALA B 293 REMARK 465 ALA B 294 REMARK 465 LEU B 295 REMARK 465 PRO B 296 REMARK 465 ASN B 297 REMARK 465 HIS B 298 REMARK 465 LYS B 299 REMARK 465 PRO B 300 REMARK 465 LYS B 301 REMARK 465 GLY B 302 REMARK 465 THR B 303 REMARK 465 PHE B 304 REMARK 465 LYS B 305 REMARK 465 ASP B 306 REMARK 465 TYR B 307 REMARK 465 VAL B 308 REMARK 465 ASP B 438 REMARK 465 ALA B 439 REMARK 465 ASP B 440
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 GLU A 101 CG CD OE1 OE2 REMARK 470 ARG B 311 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 313 CG OD1 OD2 REMARK 470 ASN B 315 CG OD1 ND2 REMARK 470 LYS B 316 CG CD CE NZ REMARK 470 ASP B 317 CG OD1 OD2 REMARK 470 LYS B 318 CG CD CE NZ REMARK 470 LYS B 436 CG CD CE NZ REMARK 470 PRO B 437 CG CD
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 ASP B 313 N ASN B 315 2.13 REMARK 500 OG1 THR B 425 CG GLU B 428 2.16 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 PRO B 334 CD PRO B 334 N -0.253 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 LYS B 316 N - CA - C ANGL. DEV. = 22.2 DEGREES REMARK 500 ASP B 317 N - CA - C ANGL. DEV. = 18.0 DEGREES REMARK 500 PRO B 334 N - CD - CG ANGL. DEV. = 7.7 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 GLN A 57 -71.18 -77.14 REMARK 500 LEU A 58 5.39 -60.77 REMARK 500 ALA A 91 57.57 -66.98 REMARK 500 ASP A 127 -38.45 -130.13 REMARK 500 VAL A 129 122.08 -38.42 REMARK 500 THR A 141 55.18 -99.05 REMARK 500 ARG B 311 -73.89 -78.76 REMARK 500 ASP B 313 45.47 -84.83 REMARK 500 LEU B 314 93.30 -47.51 REMARK 500 ASN B 315 116.68 28.70 REMARK 500 LYS B 316 -170.07 -39.77 REMARK 500 ASP B 317 -57.54 19.03 REMARK 500 LYS B 318 -97.98 -76.02 REMARK 500 TYR B 329 -91.60 -83.90 REMARK 500 THR B 330 102.12 -48.20 REMARK 500 PRO B 334 46.97 -86.68 REMARK 500 ILE B 335 119.27 69.30 REMARK 500 THR B 346 45.09 -105.36 REMARK 500 LYS B 348 -35.85 -38.64 REMARK 500 GLN B 351 11.91 -56.31 REMARK 500 ILE B 401 -55.65 -124.96 REMARK 500 ALA B 406 150.75 -44.78 REMARK 500 LYS B 408 131.36 -176.99 REMARK 500 TYR B 410 -0.72 75.10 REMARK 500 ASP B 434 62.55 63.06 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 C 19 0.06 SIDE_CHAIN REMARK 500 DC D 14 0.07 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1MD0 RELATED DB: PDB REMARK 900 SHORTER FRAGMENT OF ETS-1 COMPRISING THE ETS DNA-BINDING REMARK 900 DOMAIN AND N- AND C-TERMINAL INHIBITORY REGIONS
DBREF 1MDM A 1 149 UNP Q02548 PAX5_HUMAN 1 149 DBREF 1MDM B 280 440 UNP P27577 ETS1_MOUSE 280 440 DBREF 1MDM C 1 26 PDB 1MDM 1MDM 1 26 DBREF 1MDM D 1 26 PDB 1MDM 1MDM 1 26
SEQRES 1 C 26 DT DT DG DC DC DG DG DA DG DA DT DG DG SEQRES 2 C 26 DG DC DT DC DC DA DG DT DG DG DC DC DT SEQRES 1 D 26 DA DA DG DG DC DC DA DC DT DG DG DA DG SEQRES 2 D 26 DC DC DC DA DT DC DT DC DC DG DG DC DA SEQRES 1 A 149 MET ASP LEU GLU LYS ASN TYR PRO THR PRO ARG THR SER SEQRES 2 A 149 ARG THR GLY HIS GLY GLY VAL ASN GLN LEU GLY GLY VAL SEQRES 3 A 149 PHE VAL ASN GLY ARG PRO LEU PRO ASP VAL VAL ARG GLN SEQRES 4 A 149 ARG ILE VAL GLU LEU ALA HIS GLN GLY VAL ARG PRO CYS SEQRES 5 A 149 ASP ILE SER ARG GLN LEU ARG VAL SER HIS GLY CYS VAL SEQRES 6 A 149 SER LYS ILE LEU GLY ARG TYR TYR GLU THR GLY SER ILE SEQRES 7 A 149 LYS PRO GLY VAL ILE GLY GLY SER LYS PRO LYS VAL ALA SEQRES 8 A 149 THR PRO LYS VAL VAL GLU LYS ILE ALA GLU TYR LYS ARG SEQRES 9 A 149 GLN ASN PRO THR MET PHE ALA TRP GLU ILE ARG ASP ARG SEQRES 10 A 149 LEU LEU ALA GLU ARG VAL CYS ASP ASN ASP THR VAL PRO SEQRES 11 A 149 SER VAL SER SER ILE ASN ARG ILE ILE ARG THR LYS VAL SEQRES 12 A 149 GLN GLN PRO PRO ASN GLN SEQRES 1 B 161 VAL PRO SER TYR ASP SER PHE ASP TYR GLU ASP TYR PRO SEQRES 2 B 161 ALA ALA LEU PRO ASN HIS LYS PRO LYS GLY THR PHE LYS SEQRES 3 B 161 ASP TYR VAL ARG ASP ARG ALA ASP LEU ASN LYS ASP LYS SEQRES 4 B 161 PRO VAL ILE PRO ALA ALA ALA LEU ALA GLY TYR THR GLY SEQRES 5 B 161 SER GLY PRO ILE GLN LEU TRP GLN PHE LEU LEU GLU LEU SEQRES 6 B 161 LEU THR ASP LYS SER CYS GLN SER PHE ILE SER TRP THR SEQRES 7 B 161 GLY ASP GLY TRP GLU PHE LYS LEU SER ASP PRO ASP GLU SEQRES 8 B 161 VAL ALA ARG ARG TRP GLY LYS ARG LYS ASN LYS PRO LYS SEQRES 9 B 161 MET ASN TYR GLU LYS LEU SER ARG GLY LEU ARG TYR TYR SEQRES 10 B 161 TYR ASP LYS ASN ILE ILE HIS LYS THR ALA GLY LYS ARG SEQRES 11 B 161 TYR VAL TYR ARG PHE VAL CYS ASP LEU GLN SER LEU LEU SEQRES 12 B 161 GLY TYR THR PRO GLU GLU LEU HIS ALA MET LEU ASP VAL SEQRES 13 B 161 LYS PRO ASP ALA ASP
HELIX 1 1 PRO A 34 GLN A 47 1 14 HELIX 2 2 ARG A 50 LEU A 58 1 9 HELIX 3 3 SER A 61 GLY A 76 1 16 HELIX 4 4 THR A 92 ASN A 106 1 15 HELIX 5 5 PHE A 110 GLU A 121 1 12 HELIX 6 6 SER A 131 THR A 141 1 11 HELIX 7 7 PRO B 322 THR B 330 1 9 HELIX 8 8 GLN B 336 THR B 346 1 11 HELIX 9 9 ASP B 347 GLN B 351 5 5 HELIX 10 10 ASP B 367 LYS B 379 1 13 HELIX 11 11 ASN B 385 TYR B 397 1 13 HELIX 12 12 ASP B 398 ASN B 400 5 3 HELIX 13 13 ASP B 417 GLY B 423 1 7 HELIX 14 14 THR B 425 LEU B 433 1 9
SHEET 1 A 4 SER B 355 TRP B 356 0 SHEET 2 A 4 GLU B 362 LYS B 364 -1 O LYS B 364 N SER B 355 SHEET 3 A 4 VAL B 411 PHE B 414 -1 O TYR B 412 N PHE B 363 SHEET 4 A 4 ILE B 402 LYS B 404 -1 N HIS B 403 O ARG B 413
CRYST1 77.270 171.230 44.710 90.00 90.00 90.00 P 21 21 2 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 0.012942 0.000000 0.000000 0.00000
SCALE2 0.000000 0.005840 0.000000 0.00000
SCALE3 0.000000 0.000000 0.022366 0.00000