1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Di Lello, P. Nguyen, B.D. Jones, T.N. Potempa, K. Kobor, M.S. Legault, P. Omichinski, J.G. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking US Biochemistry BICHAW 0033 0006-2960 44 7678 7686 10.1021/bi050099s 15909982 NMR Structure of the Amino-Terminal Domain from the Tfb1 Subunit of TFIIH and Characterization of Its Phosphoinositide and VP16 Binding Sites 2005 10.2210/pdb1y5o/pdb pdb_00001y5o 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 SINGLE WAVELENGTH M 1 1.0 12903.701 RNA polymerase II transcription factor B 73 kDa subunit sequence database residues 1-115 M1P 1 man polymer TFB1 no no PSHSGAAIFEKVSGIIAINEDVSPAELTWRSTDGDKVHTVVLSTIDKLQATPASSEKMMLRLIGKVDESKKRKDNEGNEV VPKPQRHMFSFNNRTVMDNIKMTLQQIISRYKDAD PSHSGAAIFEKVSGIIAINEDVSPAELTWRSTDGDKVHTVVLSTIDKLQATPASSEKMMLRLIGKVDESKKRKDNEGNEV VPKPQRHMFSFNNRTVMDNIKMTLQQIISRYKDAD A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n baker's yeast Saccharomyces Escherichia sample TFB1 4932 Saccharomyces cerevisiae 562 Escherichia coli TOPP2 Plasmid pGEX-2T database_2 pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list struct_ref_seq_dif repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2005-05-17 1 1 2008-04-30 1 2 2011-07-13 1 3 2021-10-20 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _struct_ref_seq_dif.details 1H, 15N, and 13C Resonance Assignment of the Amino-terminal Domain of Tfb1 subunit of yeast TFIIH SEQUENCE THE FRAGMENT OF TFB1 STUDIED IN THIS CASE CONTAINS TWO EXTRA RESIDUES (GLY SER) AT THE N-TERMINUS AND FOUR EXTRA RESIDUES (GLY ASN SER SER) AT THE C-TERMINUS AS A CONSEQUENCE OF CLONING ARTIFACTS. THESE EXTRA AMINO ACIDS WERE NOT INCLUDED IN THE STRUCTURE CALCULATIONS AND THEREFORE THEY ARE NOT PRESENT IN DEPOSITED STRUCTURES RCSB Y RCSB 2004-12-02 REL REL LOWEST ENERGY THE SUBMITTED MODELS ARE THE 20 STRUCTURES WITH NO UPPER BOUND VIOLATION GREATER THAN 0.2 ARMSTRONG, NO DIHEDRAL ANGLE RESTRAINT VIOLATION GREATER THAN 2 DEGREES AND WITH THE LOWEST ENERGIES. 62 20 2D NOESY 3D 15N-EDITED NOESY -HSQC 2D 1H-15N HSQC 3D 13C- EDITED HMQC-NOESY 20 mM SODIUM PHOSPHATE 6.5 AMBIENT 300 K THE THREE-DIMENSIONAL STRUCTURES OF THE AMINO-TERMINAL DOMAIN OF TFB1 WERE DETERMINED USING A SET OF 1208 NOE-DERIVED DISTANCE RESTRAINTS, 124 BACKBONE DIHEDRAL ANGLE (PHI AND PSI) RESTRAINTS AND 20 DISTANCE RESTRAINTS FROM HYDROGEN BONDS. SIMULATED ANNEALING, WITH A COMBINATION OF TORSION ANGLE DYNAMICS AND CARTESIAN DYNAMICS. 1 1.2 MM TFB1 [UNLABELED], 20 MM PHOSPHATE BUFFER, 1MM EDTA, 100% D2O; 1.2 MM TFB1 [U-15N], 20 MM PHOSPHATE BUFFER, 1MM EDTA, 90% H2O, 10% D2O; 1.2 MM TFB1 [U-15N,13C], 20 MM PHOSPHATE BUFFER, 1MM EDTA, 100% D2O BRUNGER, ADAMS, CLORE, DELANO, GROS, GROSSE- KUNSTLEVE, JIANG, KUSZEWSKI, NILGES, PANNU, READ, RICE, SIMONSON, WARREN refinement CNS 1.0 structure solution VNMR 6.1.C 6.1.C structure solution NMRPipe 2.2 structure solution NMRView 5.0.4 structure solution CNS 1.0 500 Varian UNITY 600 Varian UNITY 800 Varian UNITY PRO 1 n 1 PRO 1 A SER 2 n 2 SER 2 A HIS 3 n 3 HIS 3 A SER 4 n 4 SER 4 A GLY 5 n 5 GLY 5 A ALA 6 n 6 ALA 6 A ALA 7 n 7 ALA 7 A ILE 8 n 8 ILE 8 A PHE 9 n 9 PHE 9 A GLU 10 n 10 GLU 10 A LYS 11 n 11 LYS 11 A VAL 12 n 12 VAL 12 A SER 13 n 13 SER 13 A GLY 14 n 14 GLY 14 A ILE 15 n 15 ILE 15 A ILE 16 n 16 ILE 16 A ALA 17 n 17 ALA 17 A ILE 18 n 18 ILE 18 A ASN 19 n 19 ASN 19 A GLU 20 n 20 GLU 20 A ASP 21 n 21 ASP 21 A VAL 22 n 22 VAL 22 A SER 23 n 23 SER 23 A PRO 24 n 24 PRO 24 A ALA 25 n 25 ALA 25 A GLU 26 n 26 GLU 26 A LEU 27 n 27 LEU 27 A THR 28 n 28 THR 28 A TRP 29 n 29 TRP 29 A ARG 30 n 30 ARG 30 A SER 31 n 31 SER 31 A THR 32 n 32 THR 32 A ASP 33 n 33 ASP 33 A GLY 34 n 34 GLY 34 A ASP 35 n 35 ASP 35 A LYS 36 n 36 LYS 36 A VAL 37 n 37 VAL 37 A HIS 38 n 38 HIS 38 A THR 39 n 39 THR 39 A VAL 40 n 40 VAL 40 A VAL 41 n 41 VAL 41 A LEU 42 n 42 LEU 42 A SER 43 n 43 SER 43 A THR 44 n 44 THR 44 A ILE 45 n 45 ILE 45 A ASP 46 n 46 ASP 46 A LYS 47 n 47 LYS 47 A LEU 48 n 48 LEU 48 A GLN 49 n 49 GLN 49 A ALA 50 n 50 ALA 50 A THR 51 n 51 THR 51 A PRO 52 n 52 PRO 52 A ALA 53 n 53 ALA 53 A SER 54 n 54 SER 54 A SER 55 n 55 SER 55 A GLU 56 n 56 GLU 56 A LYS 57 n 57 LYS 57 A MET 58 n 58 MET 58 A MET 59 n 59 MET 59 A LEU 60 n 60 LEU 60 A ARG 61 n 61 ARG 61 A LEU 62 n 62 LEU 62 A ILE 63 n 63 ILE 63 A GLY 64 n 64 GLY 64 A LYS 65 n 65 LYS 65 A VAL 66 n 66 VAL 66 A ASP 67 n 67 ASP 67 A GLU 68 n 68 GLU 68 A SER 69 n 69 SER 69 A LYS 70 n 70 LYS 70 A LYS 71 n 71 LYS 71 A ARG 72 n 72 ARG 72 A LYS 73 n 73 LYS 73 A ASP 74 n 74 ASP 74 A ASN 75 n 75 ASN 75 A GLU 76 n 76 GLU 76 A GLY 77 n 77 GLY 77 A ASN 78 n 78 ASN 78 A GLU 79 n 79 GLU 79 A VAL 80 n 80 VAL 80 A VAL 81 n 81 VAL 81 A PRO 82 n 82 PRO 82 A LYS 83 n 83 LYS 83 A PRO 84 n 84 PRO 84 A GLN 85 n 85 GLN 85 A ARG 86 n 86 ARG 86 A HIS 87 n 87 HIS 87 A MET 88 n 88 MET 88 A PHE 89 n 89 PHE 89 A SER 90 n 90 SER 90 A PHE 91 n 91 PHE 91 A ASN 92 n 92 ASN 92 A ASN 93 n 93 ASN 93 A ARG 94 n 94 ARG 94 A THR 95 n 95 THR 95 A VAL 96 n 96 VAL 96 A MET 97 n 97 MET 97 A ASP 98 n 98 ASP 98 A ASN 99 n 99 ASN 99 A ILE 100 n 100 ILE 100 A LYS 101 n 101 LYS 101 A MET 102 n 102 MET 102 A THR 103 n 103 THR 103 A LEU 104 n 104 LEU 104 A GLN 105 n 105 GLN 105 A GLN 106 n 106 GLN 106 A ILE 107 n 107 ILE 107 A ILE 108 n 108 ILE 108 A SER 109 n 109 SER 109 A ARG 110 n 110 ARG 110 A TYR 111 n 111 TYR 111 A LYS 112 n 112 LYS 112 A ASP 113 n 113 ASP 113 A ALA 114 n 114 ALA 114 A ASP 115 n 115 ASP 115 A author_defined_assembly 1 monomeric 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 identity operation 0.0000000000 0.0000000000 0.0000000000 A N GLY 5 A N GLY 5 A O ILE 16 A O ILE 16 A N ASN 19 A N ASN 19 A O GLU 26 A O GLU 26 A N TRP 29 A N TRP 29 A O HIS 38 A O HIS 38 A N GLN 49 A N GLN 49 A O ARG 61 A O ARG 61 A N MET 58 A N MET 58 A O PHE 91 A O PHE 91 14 A A H O TRP HIS 29 38 1.59 1 A GLU 10 78.08 49.97 1 A SER 23 -165.82 113.41 1 A ALA 25 -54.32 172.04 1 A LYS 65 50.09 -176.44 1 A VAL 66 -107.87 -67.87 1 A GLU 68 -147.82 38.90 1 A VAL 81 -55.69 108.83 2 A SER 2 -159.98 -45.15 2 A GLU 10 78.01 49.77 2 A ALA 25 -54.33 172.05 2 A ILE 45 -66.43 97.99 2 A GLU 68 -155.57 43.87 2 A LYS 83 179.86 -61.23 3 A SER 4 -179.90 121.50 3 A GLU 10 77.89 49.91 3 A SER 23 -166.50 113.38 3 A PRO 84 -68.44 93.24 4 A SER 4 58.14 170.31 4 A GLU 10 78.18 49.91 4 A SER 23 -165.48 112.86 4 A ALA 25 -54.26 170.15 4 A ILE 45 -64.81 94.56 4 A LYS 65 55.30 166.44 4 A LYS 71 57.98 104.86 4 A ARG 72 62.81 129.04 4 A LYS 83 179.38 -54.57 5 A SER 2 59.01 167.04 5 A HIS 3 62.90 128.81 5 A SER 4 62.98 127.37 5 A GLU 10 78.04 49.85 5 A SER 23 -166.77 113.11 5 A ILE 45 -62.39 94.03 5 A VAL 66 -127.15 -67.47 5 A GLU 76 -96.16 39.08 5 A VAL 80 -178.26 44.77 6 A SER 2 -160.93 -45.05 6 A SER 4 57.65 172.12 6 A GLU 10 77.87 49.66 6 A ALA 25 -54.46 172.18 6 A ILE 45 -59.84 93.61 6 A LYS 71 59.56 102.99 6 A GLU 76 -98.93 32.50 6 A ASN 78 45.99 -171.46 7 A SER 4 -179.14 118.29 7 A GLU 10 77.96 49.70 7 A SER 23 -166.20 113.14 7 A ALA 25 -54.39 170.48 7 A ILE 45 -58.76 92.09 7 A GLU 68 -141.45 38.92 7 A GLU 76 -95.69 38.22 7 A PRO 82 -59.62 -70.93 7 A LYS 83 -178.54 95.88 8 A SER 2 -166.89 -43.32 8 A SER 4 61.08 118.75 8 A GLU 10 78.09 49.83 8 A LYS 65 49.84 -175.07 8 A GLU 68 -148.71 38.81 8 A ASN 78 -56.53 89.12 8 A GLU 79 -156.02 47.35 8 A PRO 82 -57.04 -162.98 8 A LYS 83 61.41 165.31 9 A GLU 10 77.99 49.74 9 A ALA 25 -54.38 172.21 9 A ILE 45 -62.63 91.56 9 A ASP 67 61.60 69.27 9 A GLU 79 60.08 -172.22 9 A LYS 83 -119.85 73.36 10 A GLU 10 78.02 49.79 10 A ALA 25 -54.36 172.13 10 A ILE 45 -63.48 93.70 10 A LYS 65 51.59 -179.42 10 A VAL 66 -124.89 -67.10 10 A GLU 76 -96.55 38.09 10 A VAL 80 -151.46 -56.95 11 A HIS 3 178.06 -36.09 11 A GLU 10 78.14 49.83 11 A SER 23 -165.52 113.13 11 A ALA 25 -54.37 172.00 11 A ARG 72 63.63 136.60 11 A LYS 73 -60.26 -165.33 12 A GLU 10 78.24 49.51 12 A SER 23 -166.01 113.06 12 A LYS 65 54.62 169.38 12 A VAL 66 -97.69 49.15 12 A VAL 80 60.17 159.20 12 A PRO 82 -69.85 63.30 13 A GLU 10 77.97 49.94 13 A ILE 45 -68.49 93.75 13 A GLU 76 -97.26 39.03 13 A VAL 81 -178.26 65.44 14 A SER 2 68.24 -68.85 14 A GLU 10 77.57 49.80 14 A SER 23 -165.98 113.31 14 A ALA 25 -54.35 171.13 14 A LYS 47 -172.18 149.26 14 A LYS 65 -64.77 -179.06 14 A SER 69 -145.73 26.19 14 A LYS 70 -143.30 -51.82 14 A GLU 76 -91.42 43.68 15 A GLU 10 78.23 49.54 15 A SER 23 -166.18 113.22 15 A ALA 25 -54.35 171.13 15 A LYS 70 -96.20 -69.18 15 A ASP 74 -177.78 -40.60 15 A ASN 75 61.85 -77.58 15 A VAL 80 65.02 100.31 16 A SER 2 -158.72 -45.68 16 A GLU 10 78.55 49.26 16 A SER 23 -165.53 112.96 16 A LYS 71 61.45 87.26 16 A ARG 72 -60.72 -157.58 16 A VAL 80 -169.80 59.30 16 A LYS 83 58.58 163.37 17 A SER 2 -117.12 -75.35 17 A GLU 10 77.61 50.20 17 A SER 23 -167.42 113.92 17 A ALA 25 -54.18 172.05 17 A VAL 66 -133.40 -45.17 17 A ASN 75 76.48 -0.10 17 A PRO 82 -72.01 -169.73 18 A GLU 10 77.50 49.91 18 A ALA 25 -54.43 172.23 18 A ILE 45 -62.34 94.19 18 A ASP 67 -176.50 40.99 18 A ASP 74 -179.34 -36.43 18 A GLU 76 -97.18 38.56 19 A SER 4 -177.93 121.29 19 A GLU 10 78.26 49.40 19 A SER 23 -166.46 113.38 19 A ALA 25 -54.32 172.14 19 A LYS 65 49.70 -175.27 19 A ASP 67 -96.44 39.23 19 A GLU 76 -93.08 39.52 19 A LYS 83 -171.59 54.39 20 A SER 2 68.64 -67.70 20 A SER 4 -176.01 118.93 20 A GLU 10 78.21 49.59 20 A SER 23 -166.87 113.68 20 A ALA 25 -54.27 172.08 20 A ILE 45 -62.03 93.22 20 A VAL 66 -97.14 45.96 20 A ASP 74 -63.45 -80.90 20 A ASN 75 174.83 -33.97 20 A LYS 83 -166.48 59.99 NMR structure of the amino-terminal domain from the Tfb1 subunit of yeast TFIIH 1 N N A ASN 93 A ASN 93 HELX_P A ASP 115 A ASP 115 1 1 23 TRANSCRIPTION TFIIH, Tfb1, PH domain, phosphoinositides, VP16, TRANSCRIPTION A SER 23 A SER 23 1 A PRO 24 A PRO 24 0.08 A SER 23 A SER 23 2 A PRO 24 A PRO 24 0.23 A SER 23 A SER 23 3 A PRO 24 A PRO 24 0.07 A SER 23 A SER 23 4 A PRO 24 A PRO 24 0.02 A SER 23 A SER 23 5 A PRO 24 A PRO 24 -0.01 A SER 23 A SER 23 6 A PRO 24 A PRO 24 0.18 A SER 23 A SER 23 7 A PRO 24 A PRO 24 0.05 A SER 23 A SER 23 8 A PRO 24 A PRO 24 0.11 A SER 23 A SER 23 9 A PRO 24 A PRO 24 0.08 A SER 23 A SER 23 10 A PRO 24 A PRO 24 0.13 A SER 23 A SER 23 11 A PRO 24 A PRO 24 -0.01 A SER 23 A SER 23 12 A PRO 24 A PRO 24 -0.04 A SER 23 A SER 23 13 A PRO 24 A PRO 24 0.09 A SER 23 A SER 23 14 A PRO 24 A PRO 24 -0.04 A SER 23 A SER 23 15 A PRO 24 A PRO 24 -0.01 A SER 23 A SER 23 16 A PRO 24 A PRO 24 0.11 A SER 23 A SER 23 17 A PRO 24 A PRO 24 0.09 A SER 23 A SER 23 18 A PRO 24 A PRO 24 0.09 A SER 23 A SER 23 19 A PRO 24 A PRO 24 0.18 A SER 23 A SER 23 20 A PRO 24 A PRO 24 0.04 TFB1_YEAST UNP 1 1 P32776 MSHSGAAIFEKVSGIIAINEDVSPAELTWRSTDGDKVHTVVLSTIDKLQATPASSEKMMLRLIGKVDESKKRKDNEGNEV VPKPQRHMFSFNNRTVMDNIKMTLQQIISRYKDAD 1 115 1Y5O 1 115 P32776 A 1 1 115 1 MET engineered mutation PRO 1 1Y5O A P32776 UNP 1 1 4 3 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A SER 4 A SER 4 A ILE 8 A ILE 8 A SER 13 A SER 13 A ASN 19 A ASN 19 A GLU 26 A GLU 26 A SER 31 A SER 31 A VAL 37 A VAL 37 A VAL 41 A VAL 41 A GLN 49 A GLN 49 A ALA 50 A ALA 50 A MET 58 A MET 58 A GLY 64 A GLY 64 A GLN 85 A GLN 85 A PHE 91 A PHE 91 1 P 1