HEADER DNA BINDING PROTEIN 20-SEP-02 1MSZ TITLE SOLUTION STRUCTURE OF THE R3H DOMAIN FROM HUMAN SMUBP-2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-BINDING PROTEIN SMUBP-2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: R3H DOMAIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SMUBP-2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: M15; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PQE60 KEYWDS R3H FOLD, DNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR E.LIEPINSH,A.LEONCHIKS,A.SHARIPO,L.GUIGNARD,G.OTTING REVDAT 4 24-FEB-09 1MSZ 1 VERSN REVDAT 3 18-OCT-05 1MSZ 1 JRNL REVDAT 2 30-OCT-02 1MSZ 1 SEQRES DBREF SEQADV REMARK REVDAT 1 09-OCT-02 1MSZ 0 JRNL AUTH E.LIEPINSH,A.LEONCHIKS,A.SHARIPO,L.GUIGNARD, JRNL AUTH 2 G.OTTING JRNL TITL SOLUTION STRUCTURE OF THE R3H DOMAIN FROM HUMAN JRNL TITL 2 SMUBP-2 JRNL REF J.MOL.BIOL. V. 326 217 2003 JRNL REFN ISSN 0022-2836 JRNL PMID 12547203 JRNL DOI 10.1016/S0022-2836(02)01381-5 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : OPAL 2.6 REMARK 3 AUTHORS : LUGINBUEHL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE BASED ON 663 NON-REDUNDANT REMARK 3 NOES, 123 COUPLING CONSTANTS, AND 170 DIHEDRAL-ANGLE REMARK 3 RESTRAINTS DERIVED FROM COUPLING CONSTANTS, NOE DATA AND REMARK 3 PRELIMINARY STRUCTURE CALCULATIONS. THE NUMBER OF MISSING REMARK 3 RESIDUES WAS SO MUCH THAT REMARK 465 FOR THE MISSING RESIDUES REMARK 3 LIST WERE REMOVED. REMARK 4 REMARK 4 1MSZ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-SEP-02. REMARK 100 THE RCSB ID CODE IS RCSB017158. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.9 REMARK 210 IONIC STRENGTH : NO BUFFER ADDED REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.4MM R3H DOMAIN REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 2D TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYANA 1.5 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: DISTANCE RESTRAINTS COLLECTED FROM A NOESY SPECTRUM REMARK 210 WITH 40 MS MIXING TIME. 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 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 4 ARG A 768 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 16 ARG A 755 NE - CZ - NH2 ANGL. DEV. = -3.5 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 1 LYS A 741 -81.69 -60.22 REMARK 500 1 MET A 742 -66.32 -162.63 REMARK 500 1 SER A 749 -8.63 -56.39 REMARK 500 1 ASN A 751 -71.72 -59.19 REMARK 500 1 SER A 752 -65.87 -146.84 REMARK 500 1 HIS A 765 -148.48 -85.25 REMARK 500 1 GLU A 774 -66.39 -91.59 REMARK 500 1 LYS A 776 23.50 -73.01 REMARK 500 2 LYS A 741 -81.89 -67.43 REMARK 500 2 MET A 742 -65.85 -158.39 REMARK 500 2 ASN A 751 -71.87 -62.56 REMARK 500 2 SER A 752 -66.14 -146.76 REMARK 500 2 HIS A 765 -148.63 -81.43 REMARK 500 2 GLU A 774 -65.33 -96.11 REMARK 500 2 LYS A 776 23.63 -73.02 REMARK 500 3 LYS A 741 -77.97 -53.96 REMARK 500 3 MET A 742 -66.14 -166.41 REMARK 500 3 ASN A 751 -70.96 -65.40 REMARK 500 3 SER A 752 -66.37 -146.11 REMARK 500 3 HIS A 765 -148.51 -91.89 REMARK 500 3 LYS A 776 23.92 -68.28 REMARK 500 4 LYS A 741 -81.86 -59.40 REMARK 500 4 MET A 742 -66.27 -156.08 REMARK 500 4 SER A 752 -66.28 -146.37 REMARK 500 4 HIS A 765 -148.81 -97.30 REMARK 500 4 GLU A 774 -65.46 -126.20 REMARK 500 4 LYS A 776 36.29 -72.80 REMARK 500 5 LYS A 741 -81.85 -67.25 REMARK 500 5 MET A 742 -58.32 -157.48 REMARK 500 5 SER A 749 -11.58 -47.11 REMARK 500 5 SER A 752 -52.97 -146.48 REMARK 500 5 HIS A 765 -154.32 -83.15 REMARK 500 6 ASP A 727 -66.06 -109.74 REMARK 500 6 LYS A 741 -81.59 -65.05 REMARK 500 6 MET A 742 -66.36 -164.41 REMARK 500 6 ASN A 751 -71.46 -79.29 REMARK 500 6 SER A 752 -65.91 -146.05 REMARK 500 6 HIS A 765 -148.60 -82.67 REMARK 500 6 GLU A 774 -66.89 -126.99 REMARK 500 7 LYS A 741 -81.30 -54.29 REMARK 500 7 MET A 742 -66.43 -166.79 REMARK 500 7 ASN A 751 -70.74 -61.76 REMARK 500 7 SER A 752 -66.19 -146.06 REMARK 500 7 HIS A 765 -148.40 -78.10 REMARK 500 7 GLU A 774 -58.29 -126.50 REMARK 500 7 LYS A 776 43.16 -107.68 REMARK 500 8 LYS A 741 -81.86 -54.15 REMARK 500 8 MET A 742 -66.27 -166.72 REMARK 500 8 ASN A 751 -71.70 -72.71 REMARK 500 8 SER A 752 -55.22 -146.72 REMARK 500 8 HIS A 765 -148.91 -90.06 REMARK 500 8 GLU A 774 -65.64 -126.35 REMARK 500 8 LYS A 776 24.50 -68.09 REMARK 500 9 LYS A 741 -81.57 -64.24 REMARK 500 9 MET A 742 -57.02 -161.19 REMARK 500 9 ASN A 751 -71.81 -60.54 REMARK 500 9 SER A 752 -66.19 -146.60 REMARK 500 9 HIS A 765 -150.73 -93.21 REMARK 500 9 LYS A 776 41.44 -75.57 REMARK 500 10 LYS A 741 -81.37 -54.00 REMARK 500 10 MET A 742 -66.13 -166.48 REMARK 500 10 SER A 749 -16.40 -48.64 REMARK 500 10 ASN A 751 -71.38 -67.37 REMARK 500 10 SER A 752 -61.35 -146.50 REMARK 500 10 HIS A 765 -149.13 -76.96 REMARK 500 10 LYS A 776 37.38 -69.08 REMARK 500 11 LYS A 741 -81.65 -54.37 REMARK 500 11 MET A 742 -66.04 -157.90 REMARK 500 11 ASN A 751 -71.04 -54.96 REMARK 500 11 SER A 752 -66.22 -145.74 REMARK 500 11 HIS A 765 -148.66 -89.42 REMARK 500 11 GLU A 774 -64.80 -95.64 REMARK 500 11 ARG A 777 44.03 -147.09 REMARK 500 12 LYS A 741 -82.22 -76.31 REMARK 500 12 MET A 742 -65.91 -155.74 REMARK 500 12 ASN A 751 -71.42 -79.34 REMARK 500 12 SER A 752 -66.65 -138.67 REMARK 500 12 HIS A 765 -156.16 -87.18 REMARK 500 12 GLU A 774 -66.75 -126.47 REMARK 500 12 LYS A 776 23.22 -74.67 REMARK 500 13 LYS A 741 -81.36 -62.81 REMARK 500 13 MET A 742 -58.73 -162.96 REMARK 500 13 SER A 749 15.67 -54.54 REMARK 500 13 SER A 752 -64.18 -146.27 REMARK 500 13 HIS A 765 -149.36 -86.54 REMARK 500 13 LYS A 776 24.22 -75.25 REMARK 500 14 LYS A 741 -81.91 -54.48 REMARK 500 14 MET A 742 -52.44 -163.21 REMARK 500 14 ASN A 751 -71.10 -88.93 REMARK 500 14 SER A 752 -66.20 -146.26 REMARK 500 14 HIS A 765 -149.52 -98.73 REMARK 500 14 GLU A 774 -66.14 -126.54 REMARK 500 14 LYS A 776 30.90 -73.15 REMARK 500 15 LYS A 741 -82.01 -64.99 REMARK 500 15 MET A 742 -59.35 -161.66 REMARK 500 15 ASN A 751 -72.13 -61.27 REMARK 500 15 SER A 752 -66.40 -146.94 REMARK 500 15 HIS A 765 -149.00 -88.34 REMARK 500 15 GLU A 774 -66.84 -126.28 REMARK 500 16 LYS A 741 -80.81 -53.44 REMARK 500 16 MET A 742 -65.87 -166.56 REMARK 500 16 ASN A 751 -71.89 -62.22 REMARK 500 16 SER A 752 -66.12 -146.54 REMARK 500 16 HIS A 765 -149.17 -92.19 REMARK 500 16 GLU A 774 -65.90 -126.34 REMARK 500 17 VAL A 726 29.67 -144.27 REMARK 500 17 LYS A 741 -81.79 -59.87 REMARK 500 17 MET A 742 -64.17 -166.33 REMARK 500 17 ASN A 751 -71.71 -68.86 REMARK 500 17 SER A 752 -64.42 -146.33 REMARK 500 17 HIS A 765 -148.22 -77.69 REMARK 500 17 GLU A 774 -66.28 -126.49 REMARK 500 17 LYS A 776 39.36 -73.02 REMARK 500 18 ASP A 727 -53.29 -125.37 REMARK 500 18 LYS A 741 -81.53 -63.83 REMARK 500 18 MET A 742 -66.23 -161.29 REMARK 500 18 ASN A 751 -71.88 -65.31 REMARK 500 18 SER A 752 -59.74 -146.46 REMARK 500 18 HIS A 765 -153.04 -86.35 REMARK 500 18 GLU A 774 -66.89 -123.95 REMARK 500 18 LYS A 776 22.82 -78.14 REMARK 500 19 LYS A 741 -81.48 -59.15 REMARK 500 19 MET A 742 -66.18 -160.83 REMARK 500 19 ASN A 751 -71.80 -80.60 REMARK 500 19 SER A 752 -65.96 -146.47 REMARK 500 19 HIS A 765 -148.20 -82.36 REMARK 500 19 LYS A 776 30.41 -74.90 REMARK 500 20 LYS A 741 -81.97 -71.04 REMARK 500 20 MET A 742 -65.92 -158.78 REMARK 500 20 SER A 749 -15.21 -38.94 REMARK 500 20 ASN A 751 -70.66 -64.94 REMARK 500 20 SER A 752 -66.17 -146.72 REMARK 500 20 HIS A 765 -148.71 -75.23 REMARK 500 20 LYS A 776 23.24 -68.31 REMARK 500 20 ARG A 777 56.66 -144.21 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 2 ARG A 757 0.09 SIDE_CHAIN REMARK 500 8 ARG A 730 0.08 SIDE_CHAIN REMARK 500 11 ARG A 785 0.08 SIDE_CHAIN REMARK 500 12 ARG A 730 0.08 SIDE_CHAIN REMARK 500 13 ARG A 730 0.08 SIDE_CHAIN REMARK 500 14 ARG A 730 0.09 SIDE_CHAIN REMARK 500 15 ARG A 768 0.12 SIDE_CHAIN REMARK 500 16 ARG A 755 0.08 SIDE_CHAIN REMARK 500 16 ARG A 777 0.09 SIDE_CHAIN REMARK 500 16 ARG A 785 0.13 SIDE_CHAIN REMARK 500 17 ARG A 757 0.10 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1MSZ A 711 786 UNP P38935 SMBP2_HUMAN 711 786 SEQADV 1MSZ MET A 709 UNP P38935 CLONING ARTIFACT SEQADV 1MSZ GLY A 710 UNP P38935 CLONING ARTIFACT SEQADV 1MSZ GLY A 787 UNP P38935 EXPRESSION TAG SEQADV 1MSZ SER A 788 UNP P38935 EXPRESSION TAG SEQADV 1MSZ HIS A 789 UNP P38935 EXPRESSION TAG SEQADV 1MSZ HIS A 790 UNP P38935 EXPRESSION TAG SEQADV 1MSZ HIS A 791 UNP P38935 EXPRESSION TAG SEQADV 1MSZ HIS A 792 UNP P38935 EXPRESSION TAG SEQADV 1MSZ HIS A 793 UNP P38935 EXPRESSION TAG SEQADV 1MSZ HIS A 794 UNP P38935 EXPRESSION TAG SEQRES 1 A 86 MET GLY SER LEU ASN GLY GLY SER PRO GLU GLY VAL GLU SEQRES 2 A 86 SER GLN ASP GLY VAL ASP HIS PHE ARG ALA MET ILE VAL SEQRES 3 A 86 GLU PHE MET ALA SER LYS LYS MET GLN LEU GLU PHE PRO SEQRES 4 A 86 PRO SER LEU ASN SER HIS ASP ARG LEU ARG VAL HIS GLN SEQRES 5 A 86 ILE ALA GLU GLU HIS GLY LEU ARG HIS ASP SER SER GLY SEQRES 6 A 86 GLU GLY LYS ARG ARG PHE ILE THR VAL SER LYS ARG ALA SEQRES 7 A 86 GLY SER HIS HIS HIS HIS HIS HIS HELIX 1 1 VAL A 726 LYS A 740 1 15 HELIX 2 2 SER A 752 HIS A 765 1 14 SHEET 1 A 3 GLN A 743 PHE A 746 0 SHEET 2 A 3 PHE A 779 LYS A 784 -1 O ILE A 780 N PHE A 746 SHEET 3 A 3 LEU A 767 SER A 772 -1 N ASP A 770 O THR A 781 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 250 0 0 2 3 0 0 6 0 0 0 7 END