HEADER TRANSCRIPTION/DNA 28-JUN-12 4B06 OBSLTE 03-JUL-13 4B06 4BNC TITLE CRYSTAL STRUCTURE OF THE DNA-BINDING DOMAIN OF HUMAN ETV1 TITLE 2 COMPLEXED WITH DNA. COMPND MOL_ID: 1; COMPND 2 MOLECULE: ETS TRANSLOCATION VARIANT 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DNA-BINDING DOMAIN; COMPND 5 SYNONYM: ETV1, ETS-RELATED PROTEIN 81; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 5'-D(*AP*CP*CP*GP*GP*AP*AP*GP*TP*GP)-3'; COMPND 10 CHAIN: B; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: 5'-D(*CP*AP*CP*TP*TP*CP*CP*GP*GP*TP)-3'; COMPND 13 CHAIN: C 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_VARIANT: R3-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630 KEYWDS TRANSCRIPTION-DNA COMPLEX, TRANSCRIPTIONAL ACTIVATION AND KEYWDS 2 REPRESSION, DNA BINDING PROTEIN, E TWENTY-SIX, ERWING SARCOMA, KEYWDS 3 PROSTATE CANCER, MELANOMA, GASTROINTESTINAL STROMAL TUMOUR, KEYWDS 4 PROTEIN-DNA, EXPDTA X-RAY DIFFRACTION AUTHOR C.K.ALLERSTON,C.D.O.COOPER,T.KROJER,A.CHAIKUAD,M.VOLLMAR,D.S.FROESE, AUTHOR 2 C.H.ARROWSMITH,A.EDWARDS,C.BOUNTRA,F.VON DELFT,O.GILEADI REVDAT 3 03-JUL-13 4B06 1 OBSLTE REVDAT 2 31-OCT-12 4B06 1 REMARK REVDAT 1 11-JUL-12 4B06 0 JRNL AUTH C.K.ALLERSTON,C.D.O.COOPER,T.KROJER,A.CHAIKUAD,M.VOLLMAR, JRNL AUTH 2 D.S.FROESE,C.H.ARROWSMITH,A.EDWARDS,C.BOUNTRA,F.VON DELFT, JRNL AUTH 3 O.GILEADI JRNL TITL CRYSTAL STRUCTURE OF THE DNA-BINDING DOMAIN OF HUMAN ETV1 JRNL TITL 2 COMPLEXED WITH DNA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN,WOMACK, REMARK 3 : MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.0 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.64 REMARK 3 NUMBER OF REFLECTIONS : 6594 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 + TEST SET) : 0.2027 REMARK 3 R VALUE (WORKING SET) : 0.2020 REMARK 3 FREE R VALUE : 0.2148 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.70 REMARK 3 FREE R VALUE TEST SET COUNT : 310 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 5 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.24 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.64 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 1809 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2287 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1722 REMARK 3 BIN R VALUE (WORKING SET) : 0.2279 REMARK 3 BIN FREE R VALUE : 0.2440 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.81 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 87 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 734 REMARK 3 NUCLEIC ACID ATOMS : 400 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 127.18 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 123.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -8.3777 REMARK 3 B22 (A**2) : -8.3777 REMARK 3 B33 (A**2) : 16.7553 REMARK 3 B12 (A**2) : 0.0000 REMARK 3 B13 (A**2) : 0.0000 REMARK 3 B23 (A**2) : 0.0000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.898 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.495 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.264 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.431 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.256 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.9479 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.9613 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 1203 ; 2.00 ; HARMONIC REMARK 3 BOND ANGLES : 1708 ; 2.00 ; HARMONIC REMARK 3 TORSION ANGLES : 567 ; 2.00 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 14 ; 2.00 ; HARMONIC REMARK 3 GENERAL PLANES : 129 ; 5.00 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 1203 ; 20.00 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 153 ; 5.00 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 1240 ; 4.00 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.35 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.77 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 4.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): 49.5333 61.1895 51.2844 REMARK 3 T TENSOR REMARK 3 T11: -0.3089 T22: 0.3464 REMARK 3 T33: -0.3020 T12: -0.0477 REMARK 3 T13: 0.2193 T23: -0.0383 REMARK 3 L TENSOR REMARK 3 L11: 8.8600 L22: 1.8089 REMARK 3 L33: 9.2008 L12: 2.3948 REMARK 3 L13: -1.0853 L23: -2.8884 REMARK 3 S TENSOR REMARK 3 S11: -0.3813 S12: 0.3142 S13: -0.2282 REMARK 3 S21: -0.8856 S22: 0.4365 S23: 0.0045 REMARK 3 S31: -0.1878 S32: -0.6952 S33: -0.0552 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAINS B OR C REMARK 3 ORIGIN FOR THE GROUP (A): 48.5565 55.3925 66.6336 REMARK 3 T TENSOR REMARK 3 T11: -0.6079 T22: 0.6079 REMARK 3 T33: 0.0325 T12: -0.0393 REMARK 3 T13: 0.1747 T23: 0.1323 REMARK 3 L TENSOR REMARK 3 L11: 14.3945 L22: 6.9108 REMARK 3 L33: 13.7204 L12: -3.6410 REMARK 3 L13: -0.5853 L23: -2.1720 REMARK 3 S TENSOR REMARK 3 S11: -0.3870 S12: -1.0205 S13: -0.7035 REMARK 3 S21: 0.1206 S22: 0.0604 S23: -0.4944 REMARK 3 S31: 0.3164 S32: -0.4914 S33: 0.3266 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4B06 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-JUN-12. REMARK 100 THE PDBE ID CODE IS EBI-53124. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAY-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04; I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9643; 0.9763 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD; PIXEL (PILATUS 6M) REMARK 200 DETECTOR MANUFACTURER : ADSC; DECTRIS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : AP_SCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6594 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.90 REMARK 200 RESOLUTION RANGE LOW (A) : 129.80 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 8.9 REMARK 200 R MERGE (I) : 0.08 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.60 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.3 REMARK 200 R MERGE FOR SHELL (I) : 1.27 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.90 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: SEMET DERIVATIVE USED FOR ANOMALOUS DATA. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SEMET PROTEIN/DNA WAS REMARK 280 CRYSTALLISED IN 20%(W/V) PEG 3350 0.2M POTASSIUM CITRATE. REMARK 280 NATIVE PROTEIN/DNA WAS CRYSTALLISED IN 28% LMW PEG SMEAR, REMARK 280 100MM TRIS, PH 8.5, 200MM NACL, 5% GLYCEROL. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 2 2 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 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+1/4 REMARK 290 8555 -Y,-X,-Z+3/4 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 64.79350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 97.19025 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 32.39675 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 64.79350 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 32.39675 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 97.19025 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.3 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 BIOMT1 2 0.000000 -1.000000 0.000000 129.76600 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 129.76600 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 97.19025 REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, TYR 329 TO SER REMARK 400 ENGINEERED RESIDUE IN CHAIN A, PRO 427 TO SER 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 SER A 324 REMARK 465 MET A 325 REMARK 465 GLY A 326 REMARK 465 PRO A 327 REMARK 465 THR A 328 REMARK 465 SER A 329 REMARK 465 GLN A 330 REMARK 465 ARG A 331 REMARK 465 ARG A 332 REMARK 465 GLY A 333 REMARK 465 ASN A 429 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 VAL A 342 CG1 CG2 REMARK 470 ARG A 359 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 364 CG CD CE NZ REMARK 470 ILE A 366 CG1 CG2 CD1 REMARK 470 GLU A 367 CG CD OE1 OE2 REMARK 470 ARG A 373 CZ NH1 NH2 REMARK 470 ILE A 377 CG1 CG2 CD1 REMARK 470 ARG A 381 NH1 NH2 REMARK 470 GLU A 398 CD OE1 OE2 REMARK 470 LYS A 399 CD CE NZ REMARK 470 VAL A 405 CG1 CG2 REMARK 470 GLU A 408 CG CD OE1 OE2 REMARK 470 VAL A 411 CG1 CG2 REMARK 470 LYS A 413 CD CE NZ REMARK 470 VAL A 415 CG1 CG2 REMARK 470 GLU A 419 CG CD OE1 OE2 REMARK 470 PHE A 426 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASP A 428 CG OD1 OD2 REMARK 470 DT B 9 C7 REMARK 470 DT C 14 C7 REMARK 470 DT C 15 C7 REMARK 470 DT C 20 C7 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 DA B 1 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DC B 2 C1' - O4' - C4' ANGL. DEV. = -6.3 DEGREES REMARK 500 DC B 2 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC B 3 O4' - C1' - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DC B 3 O4' - C4' - C3' ANGL. DEV. = -6.2 DEGREES REMARK 500 DC B 3 C3' - O3' - P ANGL. DEV. = 8.9 DEGREES REMARK 500 DG B 4 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DA B 6 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DA B 7 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 DG B 8 C3' - O3' - P ANGL. DEV. = 8.7 DEGREES REMARK 500 DT B 9 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG B 10 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC C 11 C1' - O4' - C4' ANGL. DEV. = -11.9 DEGREES REMARK 500 DC C 11 C5' - C4' - O4' ANGL. DEV. = 7.5 DEGREES REMARK 500 DC C 11 O4' - C1' - N1 ANGL. DEV. = 7.3 DEGREES REMARK 500 DC C 13 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DT C 14 N3 - C2 - O2 ANGL. DEV. = -3.6 DEGREES REMARK 500 DT C 15 C3' - O3' - P ANGL. DEV. = 8.0 DEGREES REMARK 500 DC C 16 O4' - C1' - N1 ANGL. DEV. = 7.9 DEGREES REMARK 500 DC C 17 O4' - C1' - N1 ANGL. DEV. = 5.0 DEGREES REMARK 500 DC C 17 C3' - O3' - P ANGL. DEV. = 9.8 DEGREES REMARK 500 DG C 18 C3' - O3' - P ANGL. DEV. = 8.0 DEGREES REMARK 500 DG C 19 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT C 20 C4' - C3' - C2' ANGL. DEV. = -5.8 DEGREES REMARK 500 DT C 20 O4' - C1' - N1 ANGL. DEV. = 6.6 DEGREES REMARK 500 DT C 20 O4' - C4' - C3' ANGL. DEV. = -3.7 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 CYS A 416 76.23 -104.28 REMARK 500 ALA A 425 49.08 -106.17 REMARK 500 PHE A 426 158.46 178.36 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 DT B 9 0.12 SIDE CHAIN REMARK 500 DT C 14 0.14 SIDE CHAIN REMARK 500 DT C 15 0.09 SIDE CHAIN REMARK 500 DT C 20 0.16 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4AVP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE DNA-BINDING DOMAIN OF HUMAN REMARK 900 ETV1. DBREF 4B06 A 326 429 UNP P50549 ETV1_HUMAN 326 429 DBREF 4B06 B 1 10 PDB 4B06 4B06 1 10 DBREF 4B06 C 11 20 PDB 4B06 4B06 11 20 SEQADV 4B06 SER A 324 UNP P50549 EXPRESSION TAG SEQADV 4B06 MET A 325 UNP P50549 EXPRESSION TAG SEQADV 4B06 SER A 329 UNP P50549 TYR 329 ENGINEERED MUTATION SEQADV 4B06 SER A 427 UNP P50549 PRO 427 ENGINEERED MUTATION SEQRES 1 A 106 SER MET GLY PRO THR SER GLN ARG ARG GLY SER LEU GLN SEQRES 2 A 106 LEU TRP GLN PHE LEU VAL ALA LEU LEU ASP ASP PRO SER SEQRES 3 A 106 ASN SER HIS PHE ILE ALA TRP THR GLY ARG GLY MET GLU SEQRES 4 A 106 PHE LYS LEU ILE GLU PRO GLU GLU VAL ALA ARG ARG TRP SEQRES 5 A 106 GLY ILE GLN LYS ASN ARG PRO ALA MET ASN TYR ASP LYS SEQRES 6 A 106 LEU SER ARG SER LEU ARG TYR TYR TYR GLU LYS GLY ILE SEQRES 7 A 106 MET GLN LYS VAL ALA GLY GLU ARG TYR VAL TYR LYS PHE SEQRES 8 A 106 VAL CYS ASP PRO GLU ALA LEU PHE SER MET ALA PHE SER SEQRES 9 A 106 ASP ASN SEQRES 1 B 10 DA DC DC DG DG DA DA DG DT DG SEQRES 1 C 10 DC DA DC DT DT DC DC DG DG DT HELIX 1 1 GLN A 336 ASP A 347 1 12 HELIX 2 2 PRO A 348 SER A 351 5 4 HELIX 3 3 GLU A 367 ASN A 380 1 14 HELIX 4 4 ASN A 385 GLY A 400 1 16 HELIX 5 5 ASP A 417 ALA A 425 1 9 SHEET 1 AA 4 ALA A 355 TRP A 356 0 SHEET 2 AA 4 GLU A 362 LYS A 364 -1 O LYS A 364 N ALA A 355 SHEET 3 AA 4 VAL A 411 PHE A 414 -1 O TYR A 412 N PHE A 363 SHEET 4 AA 4 MET A 402 LYS A 404 -1 O GLN A 403 N LYS A 413 CRYST1 64.883 64.883 129.587 90.00 90.00 90.00 P 43 2 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 0.015412 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015412 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007717 0.00000