HEADER CELL CYCLE 18-JUN-03 1PQN TITLE DOMINANT NEGATIVE HUMAN HDIM1 (HDIM1 1-128) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPLICEOSOMAL U5 SNRNP-SPECIFIC 15 KDA PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DOMINANT NEGATIVE HUMAN HDIM1; COMPND 5 SYNONYM: DIM1 PROTEIN HOMOLOG, THIOREDOXIN-LIKE U5 SNRNP PROTEIN U5- COMPND 6 15KD; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DIM1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET29B KEYWDS DIM1, DOMINANT NEGATIVE, CELL CYCLE, PRE-MRNA SPLICING, SNRNP, U5-15K KEYWDS 2 SPLICEOSOMAL PROTEIN, THIOREDOXIN, TRANSCRIPTION, CLEAVAGE EXPDTA SOLUTION NMR NUMMDL 20 MDLTYP MINIMIZED AVERAGE AUTHOR Y.Z.ZHANG,H.CHENG,K.L.GOULD,E.A.GOLEMIS,H.RODER REVDAT 3 02-MAR-22 1PQN 1 REMARK REVDAT 2 24-FEB-09 1PQN 1 VERSN REVDAT 1 26-AUG-03 1PQN 0 JRNL AUTH Y.Z.ZHANG,H.CHENG,K.L.GOULD,E.A.GOLEMIS,H.RODER JRNL TITL STRUCTURE, STABILITY AND FUNCTION OF HDIM1 INVESTIGATED BY JRNL TITL 2 NMR, CIRCULAR DICHROISM AND MUTATIONAL ANALYSIS JRNL REF BIOCHEMISTRY V. 42 9609 2003 JRNL REFN ISSN 0006-2960 JRNL PMID 12911302 JRNL DOI 10.1021/BI034486I REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.Z.ZHANG,K.L.GOULD,R.L.DUNBRACK JR.,H.CHENG,H.RODER, REMARK 1 AUTH 2 E.A.GOLEMIS REMARK 1 TITL THE EVOLUTIONARILY CONSERVED DIM1 PROTEIN DEFINES A NOVEL REMARK 1 TITL 2 BRANCH OF THE THIOREDOXIN FOLD SUPERFAMILY REMARK 1 REF PHYSIOL.GENOMICS V. 1 109 1999 REMARK 1 REFN ISSN 1094-8341 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.0, CNS 1.0 REMARK 3 AUTHORS : BRUKER (XWINNMR), BRUNGER (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURES ARE BASED ON A TOTAL OF 1445 RESTRAINTS, 1294 ARE REMARK 3 NOE-DERIVED REMARK 3 DISTANCE CONSTRAINTS, 67 DIHEDRAL ANGLE RESTRAINTS,84 DISTANCE REMARK 3 RESTRAINTS REMARK 3 FROM HYDROGEN BONDS. REMARK 4 REMARK 4 1PQN COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JUN-03. REMARK 100 THE DEPOSITION ID IS D_1000019508. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 7.65 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM HDIM1 1-128,U-15N; 10MM REMARK 210 PHOSPHATE BUFFER; 95% H2O, 5% D2O, 0.2% 2,2-DIMETHYL-2- REMARK 210 SILAPENTANE-5-SULFONATE (DSS), 0.04% NAN3; 1MM HDIM1 1-128,U-15N, REMARK 210 13C; 10MM PHOSPHATE BUFFER; 95% H2O, 5% D2O, 0.2% 2,2-DIMETHYL-2- REMARK 210 SILAPENTANE-5-SULFONATE (DSS), 0.04% NAN3; 1MM HDIM1 1-128,U-13C; REMARK 210 10MM PHOSPHATE BUFFER; 100% D2O, 0.2% 2,2-DIMETHYL-2- REMARK 210 SILAPENTANE-5-SULFONATE (DSS), 0.04% NAN3 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; HNHA 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 : FELIX 98, CNS 1.0 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 120 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 : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 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: 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 TYR A 3 -175.68 60.38 REMARK 500 1 LEU A 5 105.25 -49.87 REMARK 500 1 HIS A 7 -169.33 -110.02 REMARK 500 1 LEU A 8 134.06 -175.84 REMARK 500 1 ASN A 10 135.83 -177.96 REMARK 500 1 SER A 20 40.59 -90.21 REMARK 500 1 ASP A 23 -74.52 -155.89 REMARK 500 1 ARG A 24 -77.67 -165.12 REMARK 500 1 VAL A 25 -166.55 -118.46 REMARK 500 1 ALA A 49 -82.21 -103.32 REMARK 500 1 VAL A 52 20.69 -148.99 REMARK 500 1 THR A 64 -44.98 -159.13 REMARK 500 1 ASP A 68 54.04 -90.06 REMARK 500 1 PHE A 69 98.11 60.63 REMARK 500 1 LYS A 71 -69.24 67.95 REMARK 500 1 MET A 72 -40.24 -176.62 REMARK 500 1 TYR A 73 30.96 -144.13 REMARK 500 1 TYR A 76 -39.84 -177.15 REMARK 500 1 ASN A 98 -51.84 -139.74 REMARK 500 1 ASN A 100 146.90 62.70 REMARK 500 1 LYS A 101 176.00 -50.00 REMARK 500 1 ALA A 105 115.42 67.06 REMARK 500 1 MET A 106 102.67 -177.73 REMARK 500 1 GLU A 107 -35.17 179.50 REMARK 500 1 ASP A 108 -157.06 62.47 REMARK 500 1 GLN A 110 -75.10 -90.16 REMARK 500 1 LYS A 125 80.10 60.98 REMARK 500 1 ARG A 127 32.68 -166.22 REMARK 500 2 TYR A 3 -66.04 -105.94 REMARK 500 2 LEU A 5 106.20 -49.95 REMARK 500 2 GLU A 22 -66.95 -103.47 REMARK 500 2 ILE A 48 33.95 -144.62 REMARK 500 2 ALA A 49 -63.70 -108.57 REMARK 500 2 TYR A 59 122.13 -175.89 REMARK 500 2 PRO A 67 83.37 -69.21 REMARK 500 2 PHE A 69 -56.40 -155.68 REMARK 500 2 ASN A 70 -79.09 64.13 REMARK 500 2 LYS A 71 -69.39 68.35 REMARK 500 2 MET A 72 -46.04 -157.12 REMARK 500 2 TYR A 73 36.39 -156.40 REMARK 500 2 TYR A 76 -66.33 -160.35 REMARK 500 2 LYS A 88 -168.33 -106.65 REMARK 500 2 MET A 91 -86.35 -110.02 REMARK 500 2 ILE A 92 136.99 62.66 REMARK 500 2 THR A 96 -62.47 -163.97 REMARK 500 2 ASN A 100 95.79 -176.20 REMARK 500 2 ALA A 105 121.60 65.51 REMARK 500 2 MET A 106 103.34 -179.40 REMARK 500 2 GLU A 107 -32.46 179.92 REMARK 500 2 ASP A 108 -154.75 61.62 REMARK 500 REMARK 500 THIS ENTRY HAS 501 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QGV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF OXIDIZED FULL LENGTH HDIM1 PROTEIN DBREF 1PQN A 2 128 UNP P83876 TXN4A_HUMAN 2 128 SEQRES 1 A 127 SER TYR MET LEU PRO HIS LEU HIS ASN GLY TRP GLN VAL SEQRES 2 A 127 ASP GLN ALA ILE LEU SER GLU GLU ASP ARG VAL VAL VAL SEQRES 3 A 127 ILE ARG PHE GLY HIS ASP TRP ASP PRO THR CYS MET LYS SEQRES 4 A 127 MET ASP GLU VAL LEU TYR SER ILE ALA GLU LYS VAL LYS SEQRES 5 A 127 ASN PHE ALA VAL ILE TYR LEU VAL ASP ILE THR GLU VAL SEQRES 6 A 127 PRO ASP PHE ASN LYS MET TYR GLU LEU TYR ASP PRO CYS SEQRES 7 A 127 THR VAL MET PHE PHE PHE ARG ASN LYS HIS ILE MET ILE SEQRES 8 A 127 ASP LEU GLY THR GLY ASN ASN ASN LYS ILE ASN TRP ALA SEQRES 9 A 127 MET GLU ASP LYS GLN GLU MET VAL ASP ILE ILE GLU THR SEQRES 10 A 127 VAL TYR ARG GLY ALA ARG LYS GLY ARG GLY HELIX 1 1 ASN A 10 SER A 20 1 11 HELIX 2 2 ASP A 35 ILE A 48 1 14 HELIX 3 3 GLU A 107 ALA A 123 1 17 SHEET 1 A 4 TYR A 59 ASP A 62 0 SHEET 2 A 4 VAL A 26 GLY A 31 1 N ARG A 29 O TYR A 59 SHEET 3 A 4 THR A 80 PHE A 85 -1 O PHE A 84 N VAL A 26 SHEET 4 A 4 LYS A 88 ILE A 90 -1 O ILE A 90 N PHE A 83 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