HEADER TRANSCRIPTION 02-DEC-04 1Y5O TITLE NMR STRUCTURE OF THE AMINO-TERMINAL DOMAIN FROM THE TFB1 SUBUNIT OF TITLE 2 YEAST TFIIH COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA POLYMERASE II TRANSCRIPTION FACTOR B 73 KDA SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 1-115; COMPND 5 SYNONYM: TFB1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: 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 GENE: TFB1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: TOPP2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-2T KEYWDS TFIIH, TFB1, PH DOMAIN, PHOSPHOINOSITIDES, VP16, TRANSCRIPTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR P.DI LELLO,B.D.NGUYEN,T.N.JONES,K.POTEMPA,M.S.KOBOR,P.LEGAULT, AUTHOR 2 J.G.OMICHINSKI REVDAT 4 20-OCT-21 1Y5O 1 REMARK SEQADV REVDAT 3 24-FEB-09 1Y5O 1 VERSN REVDAT 2 31-MAY-05 1Y5O 1 JRNL REVDAT 1 17-MAY-05 1Y5O 0 JRNL AUTH P.DI LELLO,B.D.NGUYEN,T.N.JONES,K.POTEMPA,M.S.KOBOR, JRNL AUTH 2 P.LEGAULT,J.G.OMICHINSKI JRNL TITL NMR STRUCTURE OF THE AMINO-TERMINAL DOMAIN FROM THE TFB1 JRNL TITL 2 SUBUNIT OF TFIIH AND CHARACTERIZATION OF ITS JRNL TITL 3 PHOSPHOINOSITIDE AND VP16 BINDING SITES JRNL REF BIOCHEMISTRY V. 44 7678 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 15909982 JRNL DOI 10.1021/BI050099S REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, DELANO, GROS, GROSSE- REMARK 3 KUNSTLEVE, JIANG, KUSZEWSKI, NILGES, PANNU, READ, REMARK 3 RICE, SIMONSON, WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE THREE-DIMENSIONAL STRUCTURES OF THE REMARK 3 AMINO-TERMINAL DOMAIN OF TFB1 WERE DETERMINED USING A SET OF REMARK 3 1208 NOE-DERIVED DISTANCE RESTRAINTS, 124 BACKBONE DIHEDRAL REMARK 3 ANGLE (PHI AND PSI) RESTRAINTS AND 20 DISTANCE RESTRAINTS FROM REMARK 3 HYDROGEN BONDS. REMARK 4 REMARK 4 1Y5O COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-DEC-04. REMARK 100 THE DEPOSITION ID IS D_1000031147. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 20 MM SODIUM PHOSPHATE REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.2 MM TFB1 [UNLABELED], 20 MM REMARK 210 PHOSPHATE BUFFER, 1MM EDTA, 100% REMARK 210 D2O; 1.2 MM TFB1 [U-15N], 20 MM REMARK 210 PHOSPHATE BUFFER, 1MM EDTA, 90% REMARK 210 H2O, 10% D2O; 1.2 MM TFB1 [U-15N, REMARK 210 13C], 20 MM PHOSPHATE BUFFER, REMARK 210 1MM EDTA, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D 15N-EDITED NOESY REMARK 210 -HSQC; 2D 1H-15N HSQC; 3D 13C- REMARK 210 EDITED HMQC-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 6.1.C 6.1.C, NMRPIPE 2.2, REMARK 210 NMRVIEW 5.0.4, CNS 1.0 REMARK 210 METHOD USED : SIMULATED ANNEALING, WITH A REMARK 210 COMBINATION OF TORSION ANGLE REMARK 210 DYNAMICS AND CARTESIAN DYNAMICS. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 62 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : THE SUBMITTED MODELS ARE THE 20 REMARK 210 STRUCTURES WITH NO UPPER BOUND REMARK 210 VIOLATION GREATER THAN 0.2 REMARK 210 ARMSTRONG, NO DIHEDRAL ANGLE REMARK 210 RESTRAINT VIOLATION GREATER THAN REMARK 210 2 DEGREES AND WITH THE LOWEST REMARK 210 ENERGIES. REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: LOWEST ENERGY 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 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 GLU A 10 49.97 78.08 REMARK 500 1 SER A 23 113.41 -165.82 REMARK 500 1 ALA A 25 172.04 -54.32 REMARK 500 1 LYS A 65 -176.44 50.09 REMARK 500 1 VAL A 66 -67.87 -107.87 REMARK 500 1 GLU A 68 38.90 -147.82 REMARK 500 1 VAL A 81 108.83 -55.69 REMARK 500 2 SER A 2 -45.15 -159.98 REMARK 500 2 GLU A 10 49.77 78.01 REMARK 500 2 ALA A 25 172.05 -54.33 REMARK 500 2 ILE A 45 97.99 -66.43 REMARK 500 2 GLU A 68 43.87 -155.57 REMARK 500 2 LYS A 83 -61.23 179.86 REMARK 500 3 SER A 4 121.50 -179.90 REMARK 500 3 GLU A 10 49.91 77.89 REMARK 500 3 SER A 23 113.38 -166.50 REMARK 500 3 PRO A 84 93.24 -68.44 REMARK 500 4 SER A 4 170.31 58.14 REMARK 500 4 GLU A 10 49.91 78.18 REMARK 500 4 SER A 23 112.86 -165.48 REMARK 500 4 ALA A 25 170.15 -54.26 REMARK 500 4 ILE A 45 94.56 -64.81 REMARK 500 4 LYS A 65 166.44 55.30 REMARK 500 4 LYS A 71 104.86 57.98 REMARK 500 4 ARG A 72 129.04 62.81 REMARK 500 4 LYS A 83 -54.57 179.38 REMARK 500 5 SER A 2 167.04 59.01 REMARK 500 5 HIS A 3 128.81 62.90 REMARK 500 5 SER A 4 127.37 62.98 REMARK 500 5 GLU A 10 49.85 78.04 REMARK 500 5 SER A 23 113.11 -166.77 REMARK 500 5 ILE A 45 94.03 -62.39 REMARK 500 5 VAL A 66 -67.47 -127.15 REMARK 500 5 GLU A 76 39.08 -96.16 REMARK 500 5 VAL A 80 44.77 -178.26 REMARK 500 6 SER A 2 -45.05 -160.93 REMARK 500 6 SER A 4 172.12 57.65 REMARK 500 6 GLU A 10 49.66 77.87 REMARK 500 6 ALA A 25 172.18 -54.46 REMARK 500 6 ILE A 45 93.61 -59.84 REMARK 500 6 LYS A 71 102.99 59.56 REMARK 500 6 GLU A 76 32.50 -98.93 REMARK 500 6 ASN A 78 -171.46 45.99 REMARK 500 7 SER A 4 118.29 -179.14 REMARK 500 7 GLU A 10 49.70 77.96 REMARK 500 7 SER A 23 113.14 -166.20 REMARK 500 7 ALA A 25 170.48 -54.39 REMARK 500 7 ILE A 45 92.09 -58.76 REMARK 500 7 GLU A 68 38.92 -141.45 REMARK 500 7 GLU A 76 38.22 -95.69 REMARK 500 REMARK 500 THIS ENTRY HAS 144 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6225 RELATED DB: BMRB REMARK 900 1H, 15N, AND 13C RESONANCE ASSIGNMENT OF THE AMINO-TERMINAL DOMAIN REMARK 900 OF TFB1 SUBUNIT OF YEAST TFIIH REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE FRAGMENT OF TFB1 STUDIED IN THIS CASE CONTAINS TWO REMARK 999 EXTRA RESIDUES (GLY SER) AT THE N-TERMINUS AND FOUR REMARK 999 EXTRA RESIDUES (GLY ASN SER SER) AT THE C-TERMINUS REMARK 999 AS A CONSEQUENCE OF CLONING ARTIFACTS. THESE EXTRA REMARK 999 AMINO ACIDS WERE NOT INCLUDED IN THE STRUCTURE REMARK 999 CALCULATIONS AND THEREFORE THEY ARE NOT PRESENT IN REMARK 999 DEPOSITED STRUCTURES DBREF 1Y5O A 1 115 UNP P32776 TFB1_YEAST 1 115 SEQADV 1Y5O PRO A 1 UNP P32776 MET 1 ENGINEERED MUTATION SEQRES 1 A 115 PRO SER HIS SER GLY ALA ALA ILE PHE GLU LYS VAL SER SEQRES 2 A 115 GLY ILE ILE ALA ILE ASN GLU ASP VAL SER PRO ALA GLU SEQRES 3 A 115 LEU THR TRP ARG SER THR ASP GLY ASP LYS VAL HIS THR SEQRES 4 A 115 VAL VAL LEU SER THR ILE ASP LYS LEU GLN ALA THR PRO SEQRES 5 A 115 ALA SER SER GLU LYS MET MET LEU ARG LEU ILE GLY LYS SEQRES 6 A 115 VAL ASP GLU SER LYS LYS ARG LYS ASP ASN GLU GLY ASN SEQRES 7 A 115 GLU VAL VAL PRO LYS PRO GLN ARG HIS MET PHE SER PHE SEQRES 8 A 115 ASN ASN ARG THR VAL MET ASP ASN ILE LYS MET THR LEU SEQRES 9 A 115 GLN GLN ILE ILE SER ARG TYR LYS ASP ALA ASP HELIX 1 1 ASN A 93 ASP A 115 1 23 SHEET 1 A 4 SER A 4 ILE A 8 0 SHEET 2 A 4 SER A 13 ASN A 19 -1 O ILE A 16 N GLY A 5 SHEET 3 A 4 GLU A 26 SER A 31 -1 O GLU A 26 N ASN A 19 SHEET 4 A 4 VAL A 37 VAL A 41 -1 O HIS A 38 N TRP A 29 SHEET 1 B 3 GLN A 49 ALA A 50 0 SHEET 2 B 3 MET A 58 GLY A 64 -1 O ARG A 61 N GLN A 49 SHEET 3 B 3 GLN A 85 PHE A 91 -1 O PHE A 91 N MET A 58 CISPEP 1 SER A 23 PRO A 24 1 0.08 CISPEP 2 SER A 23 PRO A 24 2 0.23 CISPEP 3 SER A 23 PRO A 24 3 0.07 CISPEP 4 SER A 23 PRO A 24 4 0.02 CISPEP 5 SER A 23 PRO A 24 5 -0.01 CISPEP 6 SER A 23 PRO A 24 6 0.18 CISPEP 7 SER A 23 PRO A 24 7 0.05 CISPEP 8 SER A 23 PRO A 24 8 0.11 CISPEP 9 SER A 23 PRO A 24 9 0.08 CISPEP 10 SER A 23 PRO A 24 10 0.13 CISPEP 11 SER A 23 PRO A 24 11 -0.01 CISPEP 12 SER A 23 PRO A 24 12 -0.04 CISPEP 13 SER A 23 PRO A 24 13 0.09 CISPEP 14 SER A 23 PRO A 24 14 -0.04 CISPEP 15 SER A 23 PRO A 24 15 -0.01 CISPEP 16 SER A 23 PRO A 24 16 0.11 CISPEP 17 SER A 23 PRO A 24 17 0.09 CISPEP 18 SER A 23 PRO A 24 18 0.09 CISPEP 19 SER A 23 PRO A 24 19 0.18 CISPEP 20 SER A 23 PRO A 24 20 0.04 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