HEADER TRANSFERASE 15-DEC-99 1DMZ TITLE A REFINED NMR STRUCTURE OF A NEW PHOPHOPEPTIDE-BINDING DOMAIN TITLE 2 CONTAINING THE FHA2 OF RAD53 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (PROTEIN KINASE SPK1); COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PHOSPHOTYROSINE-BINDING FHA2 DOMAIN (RESIDUES 573-730); COMPND 5 EC: 2.7.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGEX-4T KEYWDS BETA-SANDWICH, ANTIPARALLEL BETA-SHEETS, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR I.-J.L.BYEON,H.LIAO,M.-D.TSAI REVDAT 4 22-MAY-24 1DMZ 1 REMARK REVDAT 3 16-FEB-22 1DMZ 1 REMARK REVDAT 2 24-FEB-09 1DMZ 1 VERSN REVDAT 1 06-JAN-00 1DMZ 0 JRNL AUTH H.LIAO,I.J.BYEON,M.D.TSAI JRNL TITL STRUCTURE AND FUNCTION OF A NEW PHOSPHOPEPTIDE-BINDING JRNL TITL 2 DOMAIN CONTAINING THE FHA2 OF RAD53 JRNL REF J.MOL.BIOL. V. 294 1041 1999 JRNL REFN ISSN 0022-2836 JRNL PMID 10588905 JRNL DOI 10.1006/JMBI.1999.3313 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TALOS 98.040.21.02 REMARK 3 AUTHORS : GABRIEL CORNILESCU, FRANK DELAGLIO, REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON 2757 REMARK 3 DISTANCE RESTRAINTS AND 188 DIHEDRAL ANGLE RESTRAINTS. THE REMARK 3 DIHEDRAL ANGLE RESTRAINTS WERE OBTAINED USING TALOS PROGRAM. REMARK 4 REMARK 4 1DMZ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-DEC-99. REMARK 100 THE DEPOSITION ID IS D_1000010220. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293.00 REMARK 210 PH : 6.50 REMARK 210 IONIC STRENGTH : 0.01 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.2-0.5 MM FHA2 U-15N, 13C; 10 REMARK 210 MM SODIUM PHOSPHATE, 1 MM DTT, 1 REMARK 210 MM EDTA REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 4D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_ NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX; DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR X-PLOR (ONLINE) 3.851 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 35 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 20 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING MULTIDIMENSIONAL TRIPLE REMARK 210 -RESONANCE NMR SPECTROSCOPY. 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 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 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 DISTANCE REMARK 500 HD2 PRO A 582 O GLU A 590 1.41 REMARK 500 O PHE A 626 H TRP A 648 1.48 REMARK 500 O LEU A 580 H LEU A 592 1.60 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 1 PHE A 577 -40.80 -150.92 REMARK 500 1 GLN A 596 33.72 37.77 REMARK 500 1 HIS A 622 -45.94 -25.41 REMARK 500 1 TYR A 637 -145.67 62.61 REMARK 500 1 PRO A 640 -151.96 -69.64 REMARK 500 1 LEU A 644 -152.71 -141.99 REMARK 500 1 THR A 652 -29.72 -152.52 REMARK 500 1 THR A 654 -24.56 -36.87 REMARK 500 1 ASN A 655 -2.22 -59.12 REMARK 500 1 VAL A 656 146.77 63.92 REMARK 500 1 ASN A 660 -86.29 55.16 REMARK 500 1 ASN A 661 14.05 -143.32 REMARK 500 1 ILE A 665 -161.00 -120.18 REMARK 500 1 ARG A 714 70.98 46.88 REMARK 500 2 GLN A 596 68.89 -65.10 REMARK 500 2 HIS A 622 -46.69 -27.18 REMARK 500 2 MET A 636 36.79 -97.60 REMARK 500 2 TYR A 637 -151.65 -163.24 REMARK 500 2 PRO A 640 -151.81 -70.36 REMARK 500 2 ALA A 641 -61.58 68.21 REMARK 500 2 GLN A 642 -159.76 52.05 REMARK 500 2 LEU A 644 -151.35 -142.58 REMARK 500 2 THR A 652 -29.87 -159.58 REMARK 500 2 ASN A 655 -4.27 -58.51 REMARK 500 2 VAL A 656 167.39 79.52 REMARK 500 2 ASN A 660 -73.80 63.20 REMARK 500 2 ASN A 661 23.91 -154.50 REMARK 500 2 ILE A 665 -157.30 -98.80 REMARK 500 2 LYS A 687 19.66 56.25 REMARK 500 2 MET A 709 66.84 26.59 REMARK 500 2 ARG A 714 76.10 36.06 REMARK 500 3 GLN A 589 79.89 -110.58 REMARK 500 3 GLN A 595 179.49 -53.98 REMARK 500 3 GLN A 596 69.94 -58.03 REMARK 500 3 HIS A 622 -48.27 -28.47 REMARK 500 3 TYR A 637 -145.35 64.61 REMARK 500 3 PRO A 640 -151.29 -69.72 REMARK 500 3 ALA A 641 -62.02 68.88 REMARK 500 3 GLN A 642 -155.35 51.97 REMARK 500 3 LEU A 644 -146.23 -142.77 REMARK 500 3 THR A 652 -28.79 -151.03 REMARK 500 3 VAL A 656 145.05 62.68 REMARK 500 3 ASN A 660 -79.43 59.83 REMARK 500 3 ASN A 661 23.92 -148.74 REMARK 500 3 MET A 664 -166.20 -116.30 REMARK 500 3 ILE A 665 -154.95 -139.94 REMARK 500 3 THR A 700 -133.57 -69.44 REMARK 500 3 ARG A 714 82.62 22.04 REMARK 500 4 GLN A 596 70.94 -61.58 REMARK 500 4 HIS A 622 -48.18 -28.10 REMARK 500 REMARK 500 THIS ENTRY HAS 348 RAMACHANDRAN OUTLIERS. 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 1 ARG A 576 0.32 SIDE CHAIN REMARK 500 1 ARG A 605 0.31 SIDE CHAIN REMARK 500 1 ARG A 617 0.21 SIDE CHAIN REMARK 500 1 ARG A 620 0.32 SIDE CHAIN REMARK 500 1 ARG A 629 0.26 SIDE CHAIN REMARK 500 1 ARG A 663 0.30 SIDE CHAIN REMARK 500 1 ARG A 714 0.31 SIDE CHAIN REMARK 500 2 ARG A 576 0.29 SIDE CHAIN REMARK 500 2 ARG A 605 0.31 SIDE CHAIN REMARK 500 2 ARG A 617 0.31 SIDE CHAIN REMARK 500 2 ARG A 620 0.23 SIDE CHAIN REMARK 500 2 ARG A 629 0.18 SIDE CHAIN REMARK 500 2 ARG A 663 0.24 SIDE CHAIN REMARK 500 2 ARG A 714 0.25 SIDE CHAIN REMARK 500 3 ARG A 576 0.26 SIDE CHAIN REMARK 500 3 ARG A 605 0.32 SIDE CHAIN REMARK 500 3 ARG A 617 0.29 SIDE CHAIN REMARK 500 3 ARG A 620 0.26 SIDE CHAIN REMARK 500 3 ARG A 629 0.20 SIDE CHAIN REMARK 500 3 ARG A 663 0.31 SIDE CHAIN REMARK 500 3 ARG A 714 0.22 SIDE CHAIN REMARK 500 4 ARG A 576 0.30 SIDE CHAIN REMARK 500 4 ARG A 605 0.32 SIDE CHAIN REMARK 500 4 ARG A 617 0.22 SIDE CHAIN REMARK 500 4 ARG A 620 0.24 SIDE CHAIN REMARK 500 4 ARG A 629 0.23 SIDE CHAIN REMARK 500 4 ARG A 663 0.21 SIDE CHAIN REMARK 500 4 ARG A 714 0.32 SIDE CHAIN REMARK 500 5 ARG A 576 0.26 SIDE CHAIN REMARK 500 5 ARG A 605 0.10 SIDE CHAIN REMARK 500 5 ARG A 617 0.31 SIDE CHAIN REMARK 500 5 ARG A 620 0.27 SIDE CHAIN REMARK 500 5 ARG A 629 0.26 SIDE CHAIN REMARK 500 5 ARG A 663 0.31 SIDE CHAIN REMARK 500 5 ARG A 714 0.32 SIDE CHAIN REMARK 500 6 ARG A 576 0.27 SIDE CHAIN REMARK 500 6 ARG A 605 0.31 SIDE CHAIN REMARK 500 6 ARG A 617 0.31 SIDE CHAIN REMARK 500 6 ARG A 620 0.24 SIDE CHAIN REMARK 500 6 ARG A 629 0.30 SIDE CHAIN REMARK 500 6 ARG A 663 0.25 SIDE CHAIN REMARK 500 6 ARG A 714 0.26 SIDE CHAIN REMARK 500 7 ARG A 576 0.31 SIDE CHAIN REMARK 500 7 ARG A 605 0.31 SIDE CHAIN REMARK 500 7 ARG A 617 0.31 SIDE CHAIN REMARK 500 7 ARG A 620 0.20 SIDE CHAIN REMARK 500 7 ARG A 629 0.32 SIDE CHAIN REMARK 500 7 ARG A 663 0.27 SIDE CHAIN REMARK 500 7 ARG A 714 0.32 SIDE CHAIN REMARK 500 8 ARG A 576 0.31 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 140 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QU5 RELATED DB: PDB REMARK 900 1QU5 CONTAINS THE SAME PROTEIN STRUCTURE OBTAINED WITH LESS NMR REMARK 900 RESTRAINTS. DBREF 1DMZ A 573 730 UNP P22216 RAD53_YEAST 573 730 SEQRES 1 A 158 GLY ASN GLY ARG PHE LEU THR LEU LYS PRO LEU PRO ASP SEQRES 2 A 158 SER ILE ILE GLN GLU SER LEU GLU ILE GLN GLN GLY VAL SEQRES 3 A 158 ASN PRO PHE PHE ILE GLY ARG SER GLU ASP CYS ASN CYS SEQRES 4 A 158 LYS ILE GLU ASP ASN ARG LEU SER ARG VAL HIS CYS PHE SEQRES 5 A 158 ILE PHE LYS LYS ARG HIS ALA VAL GLY LYS SER MET TYR SEQRES 6 A 158 GLU SER PRO ALA GLN GLY LEU ASP ASP ILE TRP TYR CYS SEQRES 7 A 158 HIS THR GLY THR ASN VAL SER TYR LEU ASN ASN ASN ARG SEQRES 8 A 158 MET ILE GLN GLY THR LYS PHE LEU LEU GLN ASP GLY ASP SEQRES 9 A 158 GLU ILE LYS ILE ILE TRP ASP LYS ASN ASN LYS PHE VAL SEQRES 10 A 158 ILE GLY PHE LYS VAL GLU ILE ASN ASP THR THR GLY LEU SEQRES 11 A 158 PHE ASN GLU GLY LEU GLY MET LEU GLN GLU GLN ARG VAL SEQRES 12 A 158 VAL LEU LYS GLN THR ALA GLU GLU LYS ASP LEU VAL LYS SEQRES 13 A 158 LYS LEU HELIX 1 1 THR A 720 LYS A 729 1 10 SHEET 1 A 3 LEU A 592 ILE A 594 0 SHEET 2 A 3 LEU A 578 PRO A 582 -1 O LEU A 578 N ILE A 594 SHEET 3 A 3 PHE A 692 GLU A 695 -1 O LYS A 693 N LYS A 581 SHEET 1 B 6 CYS A 611 LYS A 612 0 SHEET 2 B 6 PHE A 601 GLY A 604 1 O PHE A 602 N CYS A 611 SHEET 3 B 6 CYS A 623 ARG A 629 -1 N CYS A 623 O ILE A 603 SHEET 4 B 6 ASP A 645 HIS A 651 -1 N ASP A 646 O LYS A 628 SHEET 5 B 6 THR A 668 LEU A 671 -1 O THR A 668 N HIS A 651 SHEET 6 B 6 VAL A 716 LYS A 718 -1 N LEU A 717 O LYS A 669 SHEET 1 C 3 ASN A 662 ARG A 663 0 SHEET 2 C 3 TYR A 658 LEU A 659 -1 O LEU A 659 N ASN A 662 SHEET 3 C 3 ILE A 678 LYS A 679 -1 N LYS A 679 O TYR A 658 CISPEP 1 ASN A 599 PRO A 600 1 0.82 CISPEP 2 ASN A 599 PRO A 600 2 -2.27 CISPEP 3 ASN A 599 PRO A 600 3 -1.24 CISPEP 4 ASN A 599 PRO A 600 4 -1.60 CISPEP 5 ASN A 599 PRO A 600 5 -1.28 CISPEP 6 ASN A 599 PRO A 600 6 -0.89 CISPEP 7 ASN A 599 PRO A 600 7 -2.03 CISPEP 8 ASN A 599 PRO A 600 8 -0.47 CISPEP 9 ASN A 599 PRO A 600 9 -1.65 CISPEP 10 ASN A 599 PRO A 600 10 -0.34 CISPEP 11 ASN A 599 PRO A 600 11 -1.09 CISPEP 12 ASN A 599 PRO A 600 12 -2.89 CISPEP 13 ASN A 599 PRO A 600 13 0.93 CISPEP 14 ASN A 599 PRO A 600 14 -1.86 CISPEP 15 ASN A 599 PRO A 600 15 -2.22 CISPEP 16 ASN A 599 PRO A 600 16 -1.29 CISPEP 17 ASN A 599 PRO A 600 17 -0.21 CISPEP 18 ASN A 599 PRO A 600 18 -1.79 CISPEP 19 ASN A 599 PRO A 600 19 -2.31 CISPEP 20 ASN A 599 PRO A 600 20 -1.92 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 MODEL 1