HEADER TRANSCRIPTION REGULATION 22-MAR-95 1ETC OBSLTE 09-NOV-04 1ETC 1R36 TITLE SOLUTION STRUCTURE OF THE ETS DOMAIN FROM MURINE ETS-1: A TITLE 2 WINGED HELIX-TURN-HELIX DNA BINDING MOTIF COMPND MOL_ID: 1; COMPND 2 MOLECULE: MURINE ETS-1 TRANSCRIPTION FACTOR; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 GENE: ETS-1; SOURCE 5 EXPRESSION_SYSTEM_PLASMID: CLASSIFIED; SOURCE 6 EXPRESSION_SYSTEM_GENE: ETS-1 KEYWDS TRANSCRIPTION REGULATION EXPDTA NMR AUTHOR L.W.DONALDSON,J.M.PETERSEN,B.J.GRAVES,L.P.MCINTOSH REVDAT 1 29-JAN-96 1ETC 0 JRNL AUTH L.W.DONALDSON,J.M.PETERSEN,B.J.GRAVES,L.P.MCINTOSH JRNL TITL SOLUTION STRUCTURE OF THE ETS DOMAIN FROM MURINE JRNL TITL 2 ETS-1: A WINGED HELIX-TURN-HELIX DNA BINDING MOTIF. JRNL REF EMBO J. V. 15 125 1996 JRNL REFN ASTM EMJODG UK ISSN 0261-4189 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.W.DONALDSON,J.M.PETERSEN,B.J.GRAVES,L.P.MCINTOSH REMARK 1 TITL SECONDARY STRUCTURE OF THE ETS DOMAIN PLACES REMARK 1 TITL 2 MURINE ETS-1 IN THE SUPERFAMILY OF WINGED REMARK 1 TITL 3 HELIX-TURN-HELIX DNA-BINDING PROTEINS REMARK 1 REF BIOCHEMISTRY V. 33 13510 1994 REMARK 1 REFN ASTM BICHAW US ISSN 0006-2960 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1ETC COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 5 REMARK 5 NMR STRUCTURE OF A 110-RESIDUE N-TERMINAL DELETION MUTANT REMARK 5 OF MURINE ETS-1 ENCOMPASSING RESIDUES 331 - 440 IN THE REMARK 5 WILD-TYPE PROTEIN. THIS SEQUENCE INCLUDES THE 85-RESIDUE REMARK 5 ETS-DOMAIN (DNA-BINDING) AND 25 ADDITIONAL C-TERMINAL REMARK 5 RESIDUES. REMARK 6 REMARK 6 THIS FILE IS THE RESTRAINED REGULARIZED AVERAGE STRUCTURE REMARK 6 CALCULATED FROM AN ENSEMBLE OF 20 SIMULATED ANNEALING REMARK 6 STRUCTURES (ENTRY 1ETD). REMARK 7 REMARK 7 ALL CALCULATIONS WERE PERFORMED USING X-PLOR V3.1 REMARK 7 WITH SCRIPTS FROM THE X-PLOR 3.1 MANUAL REMARK 7 A.T. BRUNGER (1992), NEW HAVEN: YALE UNIVERSITY PRESS REMARK 7 ACCORDING TO THE METHOD DESCRIBED BY M. NILGES, REMARK 7 G.M. CLORE & A.M. GRONENBORN (1988) FEBS LETT. 229, REMARK 7 317-324. REMARK 8 REMARK 8 THOUGH SIMILAR STRUCTURES COULD BE CALCULATED BY DISTANCE REMARK 8 GEOMETRY OR AB INITIO METHOD, THE FOLLOWING METHOD REMARK 8 WAS USED TO EFFICIENTLY GENERATE STRUCTURES: (1) THE REMARK 8 SEQUENCE OF ETS-DOMAIN WAS ALIGNED TO THE KLUVYEROMYCES REMARK 8 LACTIS HEAT SHOCK FACTOR SEQUENCE BASED ON SECONDARY REMARK 8 STRUCTURE CUES AND SEQUENCE HOMOLOGY. (2) A FILE REMARK 8 RESEMBLING A DISTANCE GEOMETRY SUB-EMBED STRUCTURES WAS REMARK 8 PRODUCED BY PORTING THE N, C, CA, AND CB COORDINATES INTO REMARK 8 THE CORRESPONDING RESIDUE POSITIONS OF THE ETS-1 REMARK 8 SEQUENCE. LOOPS AND SEQUENCES OUTSIDE THE ETS-DOMAIN REMARK 8 (416 - 440) WERE ASSIGNED TO 9999.9 ANGSTROMS. (3) REMARK 8 SIMULATED ANNEALING AND REFINEMENT PROCEEDED ACCORDING REMARK 8 TO STANDARD X-PLOR PROTOCOLS. REMARK 9 REMARK 9 NOE RESTRAINTS WERE CLASSIFIED AS STRONG (1.8 - 2.9 A) REMARK 9 MEDIUM (1.8 - 3.5 A) AND WEAK (1.8 - 5.0 A). AN REMARK 9 ADDITIONAL 0.5 ANGSTROM WAS ADDED TO THE UPPER BOUNDS OF REMARK 9 RESTRAINTS INVOLVING METHYL GROUPS. A TOTAL OF 735 REMARK 9 RESTRAINTS INCLUDE 229 INTRARESIDUE, 283 (I,I+1), REMARK 9 38 (I,I+2), 43 (I,I+3), 19 (I,I+4) AND REMARK 9 123 LONG-RANGE (I,I>4) RESTRAINTS. 29 HYDROGEN-BOND REMARK 9 RESTRAINTS OF (O-N, 1.8 A -0.3/+0.5) AND REMARK 9 (O-HN, 2.8 A -0.4/+0.5) AND 77 PHI ANGLE RESTRAINTS WERE REMARK 9 ALSO INCLUDED. REMARK 10 REMARK 10 THE FIRST FOUR RESIDUES, 331 - 335, ARE DISORDERED AND REMARK 10 WERE OMITTED FROM THE CALCULATIONS. MOTIONAL AVERAGING REMARK 10 AND SIGNIFICANT DEGENERACY REDUCE THE PRECISION OF THREE REMARK 10 REGIONS 378 - 384, 397 - 400 AND 407 - 411. THE LAST FOUR REMARK 10 RESIDUES, 437 - 440, EXTENDING TO THE NATIVE C-TERMINUS, REMARK 10 ARE DISORDERED. REMARK 11 REMARK 11 CROSS REFERENCE TO SEQUENCE DATABASE REMARK 11 PIR ENTRY NAME PDB ENTRY CHAIN NAME REMARK 11 A35875 REMARK 12 REMARK 12 ORIGINAL DEPOSITION REVISED PRIOR TO RELEASE REMARK 12 TRACKING NUMBER: T6251, DATE REVISED: 26-OCT-95 REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : NULL REMARK 210 PH : NULL REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : NULL REMARK 210 SPECTROMETER MODEL : NULL REMARK 210 SPECTROMETER MANUFACTURER : NULL REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : NULL REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 GLY A 331 REMARK 465 SER A 332 REMARK 465 GLY A 333 REMARK 465 PRO A 334 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 ASP A 440 O REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI REMARK 500 O PHE A 363 O TYR A 412 2.10 REMARK 500 O TYR A 396 O ILE A 402 2.14 REMARK 500 O TYR A 395 N TYR A 397 2.18 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 M RES CSSEQI PSI PHI REMARK 500 SER A 352 -45.73 83.44 REMARK 500 ASP A 398 -72.51 78.54 REMARK 500 ALA A 406 159.62 56.73 REMARK 999 REMARK 999 FOR CHAIN " " - 4 N-TERMINAL RESIDUES NOT IN ATOMS LIST DBREF 1ETC A 331 440 UNP P27577 ETS1_MOUSE 331 440 SEQRES 1 A 110 GLY SER GLY PRO ILE GLN LEU TRP GLN PHE LEU LEU GLU SEQRES 2 A 110 LEU LEU THR ASP LYS SER CYS GLN SER PHE ILE SER TRP SEQRES 3 A 110 THR GLY ASP GLY TRP GLU PHE LYS LEU SER ASP PRO ASP SEQRES 4 A 110 GLU VAL ALA ARG ARG TRP GLY LYS ARG LYS ASN LYS PRO SEQRES 5 A 110 LYS MET ASN TYR GLU LYS LEU SER ARG GLY LEU ARG TYR SEQRES 6 A 110 TYR TYR ASP LYS ASN ILE ILE HIS LYS THR ALA GLY LYS SEQRES 7 A 110 ARG TYR VAL TYR ARG PHE VAL CYS ASP LEU GLN SER LEU SEQRES 8 A 110 LEU GLY TYR THR PRO GLU GLU LEU HIS ALA MET LEU ASP SEQRES 9 A 110 VAL LYS PRO ASP ALA ASP HELIX 1 H1 LEU A 337 LEU A 345 1 9 HELIX 2 H2 ASP A 369 LYS A 377 1 9 HELIX 3 H3 TYR A 386 TYR A 396 1 11 HELIX 4 H4 GLU A 428 ASP A 434 1 7 SHEET 1 SB 4 ILE A 354 THR A 357 0 SHEET 2 SB 4 GLU A 362 LEU A 365 -1 SHEET 3 SB 4 ILE A 402 THR A 405 1 SHEET 4 SB 4 VAL A 411 PHE A 414 -1 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000