HEADER TRANSPORT PROTEIN 28-JAN-05 1WXP TITLE SOLUTION STRUCTURE OF THE DEATH DOMAIN OF NUCLEAR MATRIX PROTEIN P84 COMPND MOL_ID: 1; COMPND 2 MOLECULE: THO COMPLEX SUBUNIT 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DEATH DOMAIN; COMPND 5 SYNONYM: THO1, NUCLEAR MATRIX PROTEIN P84; COMPND 6 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: THOC1; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P040301-33; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS DEATH DOMAIN, STRUCTURAL GENOMICS, NUCLEAR MATRIX, RIKEN STRUCTURAL KEYWDS 2 GENOMICS/PROTEOMICS INITIATIVE, RSGI, TRANSPORT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.N.NIRAULA,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 02-MAR-22 1WXP 1 REMARK SEQADV REVDAT 2 24-FEB-09 1WXP 1 VERSN REVDAT 1 28-JUL-05 1WXP 0 JRNL AUTH T.N.NIRAULA,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE DEATH DOMAIN OF NUCLEAR MATRIX JRNL TITL 2 PROTEIN P84 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, CYANA 1.0.7 REMARK 3 AUTHORS : BRUKER (XWINNMR), GUENTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1WXP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1000024125. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.20MM DEATH DOMAIN U-13C, 15N; REMARK 210 20MM D-TRIS-HCL(PH 7.0); 100MM REMARK 210 NACL; 1MM D-DTT; 0.02% NAN3 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 200311221, NMRVIEW REMARK 210 5.0.4, KUJIRA 0.913, CYANA 1.0.7 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION,STRUCTURES WITH REMARK 210 THE LEAST RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 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 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 O LEU A 84 H LEU A 89 1.49 REMARK 500 O LEU A 63 H TRP A 67 1.51 REMARK 500 O GLN A 48 H ASP A 52 1.53 REMARK 500 O SER A 53 HE ARG A 59 1.53 REMARK 500 O ALA A 83 H SER A 87 1.53 REMARK 500 O ASN A 85 H GLY A 88 1.56 REMARK 500 O VAL A 65 H ASP A 69 1.58 REMARK 500 O GLN A 20 H PHE A 24 1.58 REMARK 500 O PHE A 24 H LEU A 28 1.59 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 SER A 2 161.26 177.85 REMARK 500 1 SER A 5 93.83 57.40 REMARK 500 1 ARG A 12 61.40 25.67 REMARK 500 1 ASP A 13 -44.02 -132.89 REMARK 500 1 ILE A 21 -70.87 -39.57 REMARK 500 1 ASN A 85 -71.11 -53.40 REMARK 500 1 ASN A 98 86.61 40.46 REMARK 500 1 ASN A 100 176.75 171.93 REMARK 500 1 THR A 102 -62.68 -130.51 REMARK 500 1 SER A 104 -57.48 -122.47 REMARK 500 1 SER A 105 -59.64 -165.43 REMARK 500 1 SER A 108 168.34 55.04 REMARK 500 2 SER A 2 161.75 57.99 REMARK 500 2 ASP A 9 112.94 59.07 REMARK 500 2 VAL A 10 91.55 41.53 REMARK 500 2 ASP A 13 -67.22 173.10 REMARK 500 2 LYS A 14 170.12 -59.43 REMARK 500 2 ILE A 21 -70.15 -39.58 REMARK 500 2 LEU A 89 38.99 -98.15 REMARK 500 2 ASN A 98 154.11 -37.85 REMARK 500 2 ASP A 99 178.54 59.84 REMARK 500 2 SER A 104 109.75 -40.37 REMARK 500 2 SER A 105 -60.00 -108.31 REMARK 500 2 SER A 108 170.58 55.13 REMARK 500 2 SER A 109 109.94 -59.38 REMARK 500 3 SER A 3 131.19 63.34 REMARK 500 3 SER A 5 -59.42 -172.65 REMARK 500 3 ASP A 13 -49.68 174.36 REMARK 500 3 VAL A 16 153.55 -41.65 REMARK 500 3 ILE A 21 -70.86 -41.23 REMARK 500 3 GLU A 40 48.17 71.84 REMARK 500 3 ALA A 75 90.21 -67.66 REMARK 500 3 LEU A 96 -73.33 -59.43 REMARK 500 3 THR A 97 -75.51 -34.43 REMARK 500 3 ASN A 98 72.33 60.68 REMARK 500 3 ASP A 99 165.44 57.44 REMARK 500 3 GLU A 101 160.60 178.71 REMARK 500 3 ASN A 103 98.09 175.73 REMARK 500 3 SER A 104 168.24 177.86 REMARK 500 4 SER A 2 109.35 178.39 REMARK 500 4 SER A 3 106.81 -176.66 REMARK 500 4 SER A 5 118.30 64.91 REMARK 500 4 ARG A 12 89.02 -67.00 REMARK 500 4 ASP A 13 -49.76 -146.33 REMARK 500 4 VAL A 16 159.25 -41.45 REMARK 500 4 ILE A 21 -70.86 -41.86 REMARK 500 4 GLU A 40 49.63 71.04 REMARK 500 4 HIS A 74 -43.68 -140.70 REMARK 500 4 ALA A 75 94.34 -46.36 REMARK 500 4 LEU A 96 -74.64 -57.03 REMARK 500 REMARK 500 THIS ENTRY HAS 267 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSS001000290.1 RELATED DB: TARGETDB DBREF 1WXP A 8 104 UNP Q96FV9 THOC1_HUMAN 561 657 SEQADV 1WXP GLY A 1 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP SER A 2 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP SER A 3 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP GLY A 4 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP SER A 5 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP SER A 6 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP GLY A 7 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP SER A 105 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP GLY A 106 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP PRO A 107 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP SER A 108 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP SER A 109 UNP Q96FV9 CLONING ARTIFACT SEQADV 1WXP GLY A 110 UNP Q96FV9 CLONING ARTIFACT SEQRES 1 A 110 GLY SER SER GLY SER SER GLY PRO ASP VAL ARG ARG ASP SEQRES 2 A 110 LYS PRO VAL THR GLY GLU GLN ILE GLU VAL PHE ALA ASN SEQRES 3 A 110 LYS LEU GLY GLU GLN TRP LYS ILE LEU ALA PRO TYR LEU SEQRES 4 A 110 GLU MET LYS ASP SER GLU ILE ARG GLN ILE GLU CYS ASP SEQRES 5 A 110 SER GLU ASP MET LYS MET ARG ALA LYS GLN LEU LEU VAL SEQRES 6 A 110 ALA TRP GLN ASP GLN GLU GLY VAL HIS ALA THR PRO GLU SEQRES 7 A 110 ASN LEU ILE ASN ALA LEU ASN LYS SER GLY LEU SER ASP SEQRES 8 A 110 LEU ALA GLU SER LEU THR ASN ASP ASN GLU THR ASN SER SEQRES 9 A 110 SER GLY PRO SER SER GLY HELIX 1 1 THR A 17 GLY A 29 1 13 HELIX 2 2 GLN A 31 ALA A 36 1 6 HELIX 3 3 LYS A 42 SER A 53 1 12 HELIX 4 4 ASP A 55 GLY A 72 1 18 HELIX 5 5 VAL A 73 ALA A 75 5 3 HELIX 6 6 THR A 76 SER A 87 1 12 HELIX 7 7 LEU A 89 ASN A 98 1 10 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