PDB Short entry for 2N23 HEADER TRANSCRIPTION 27-APR-15 2N23 TITLE NMR STRUCTURE OF THE COMPLEX BETWEEN THE PH DOMAIN OF THE TFB1 SUBUNIT TITLE 2 FROM TFIIH AND THE N-TERMINAL ACTIVATION DOMAIN OF EKLF (TAD1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA POLYMERASE II TRANSCRIPTION FACTOR B SUBUNIT 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PLECKSTRIN HOMOLOGY DOMAIN, UNP RESIDUES 2-115; COMPND 5 SYNONYM: GENERAL TRANSCRIPTION AND DNA REPAIR FACTOR IIH SUBUNIT COMPND 6 TFB1, TFIIH SUBUNIT TFB1, RNA POLYMERASE II TRANSCRIPTION FACTOR B 73 COMPND 7 KDA SUBUNIT, RNA POLYMERASE II TRANSCRIPTION FACTOR B P73 SUBUNIT; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: KRUEPPEL-LIKE FACTOR 1; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: TRANSACTIVATION DOMAIN 1, UNP RESIDUES 22-40; COMPND 13 SYNONYM: ERYTHROID KRUEPPEL-LIKE TRANSCRIPTION FACTOR, EKLF; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: TFB1, YDR311W, D9740.3; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PGEX-TEV; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: KLF1, EKLF; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_VECTOR: PGEX-2T KEYWDS TRANSCRIPTION FACTOR TFIIH, TRANSACTIVATION DOMAIN, ERYTHROID KR KEYWDS 2 PPEL-LIKE FACTOR 1, TRANSCRIPTIONAL ACTIVATION, P62/TFB1 SUBUNIT, KEYWDS 3 TRANSCRIPTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR L.LECOQ,T.MORSE,L.RAIOLA,G.ARSENEAULT,J.OMICHINSKI REVDAT 1 27-APR-16 2N23 0 JRNL AUTH T.MORSE,L.LECOQ,L.RAIOLA,G.ARSENEAULT,J.OMICHINSKI JRNL TITL STRUCTURAL CHARACTERIZATION OF THE COMPLEX BETWEEN THE JRNL TITL 2 N-TERMINAL TRANSACTIVATION DOMAIN OF EKLF AND THE P62/TFB1 JRNL TITL 3 SUBUNIT OF TFIIH JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE-KUNSTLEVE, REMARK 3 JIANG,KUSZEWSKI,NILGES,PANNU,READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2N23 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-APR-15. REMARK 100 THE RCSB ID CODE IS RCSB104324. 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 : 0 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.8 MM [U-100% 13C; U-100% 15N] REMARK 210 RNA POLYMERASE II TRANSCRIPTION REMARK 210 FACTOR B SUBUNIT 1, 2 MM N- REMARK 210 TERMINAL TRANSACTIVATION DOMAIN REMARK 210 OF KRUEPPEL-LIKE FACTOR 1, 90% REMARK 210 H2O/10% D2O; 0.8 MM [U-100% 13C; REMARK 210 U-100% 15N] RNA POLYMERASE II REMARK 210 TRANSCRIPTION FACTOR B SUBUNIT 1, REMARK 210 2 MM N-TERMINAL TRANSACTIVATION REMARK 210 DOMAIN OF KRUEPPEL-LIKE FACTOR 1, REMARK 210 100% D2O; 0.8 MM [U-100% 13C; U- REMARK 210 100% 15N] N-TERMINAL REMARK 210 TRANSACTIVATION DOMAIN OF REMARK 210 KRUEPPEL-LIKE FACTOR 1, 2 MM RNA REMARK 210 POLYMERASE II TRANSCRIPTION REMARK 210 FACTOR B SUBUNIT 1, 90% H2O/10% REMARK 210 D2O; 0.8 MM [U-100% 13C; U-100% REMARK 210 15N] N-TERMINAL TRANSACTIVATION REMARK 210 DOMAIN OF KRUEPPEL-LIKE FACTOR 1, REMARK 210 2 MM RNA POLYMERASE II REMARK 210 TRANSCRIPTION FACTOR B SUBUNIT 1, REMARK 210 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HCCH-TOCSY; REMARK 210 3D CBCA(CO)NH; 3D HNCO; 3D REMARK 210 HNCACB; 3D 1H-15N NOESY; 2D 1H- REMARK 210 13C HSQC; 3D 1H-13C NOESY; 3D REMARK 210 INTERMOLECULAR NOESY; 2D 1H-13C REMARK 210 HSQC ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 260 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST ENERGY 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 GLY A 77 H GLU A 79 1.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 2 TYR A 111 CE1 TYR A 111 CZ 0.166 REMARK 500 2 TYR A 111 CZ TYR A 111 CE2 -0.149 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 44.85 -82.11 REMARK 500 1 HIS A 3 -7.41 -152.51 REMARK 500 1 LYS A 11 -0.15 69.11 REMARK 500 1 VAL A 22 -169.04 -107.31 REMARK 500 1 PRO A 24 125.58 -34.08 REMARK 500 1 ALA A 25 130.44 -36.79 REMARK 500 1 GLU A 68 2.35 -57.80 REMARK 500 1 SER A 69 4.80 -57.15 REMARK 500 1 ASN A 78 -56.88 45.13 REMARK 500 1 GLU A 79 81.95 60.09 REMARK 500 1 ASN A 92 36.65 -142.66 REMARK 500 2 SER A 2 176.30 58.83 REMARK 500 2 HIS A 3 -44.57 70.65 REMARK 500 2 VAL A 22 -169.52 -107.16 REMARK 500 2 PRO A 24 125.64 -33.29 REMARK 500 2 ALA A 25 130.01 -34.28 REMARK 500 2 GLU A 79 76.72 61.95 REMARK 500 3 HIS A 3 -8.09 65.47 REMARK 500 3 VAL A 22 -168.41 -107.46 REMARK 500 3 PRO A 24 126.67 -34.61 REMARK 500 3 ALA A 25 132.76 -39.18 REMARK 500 3 ASP A 74 -162.99 -104.03 REMARK 500 3 ASN A 78 -38.87 54.90 REMARK 500 4 SER A 2 -165.84 55.00 REMARK 500 4 HIS A 3 -32.72 76.03 REMARK 500 4 VAL A 22 -169.89 -107.66 REMARK 500 4 PRO A 24 126.27 -31.88 REMARK 500 4 ASP A 35 66.79 71.90 REMARK 500 4 ASP A 74 -158.05 -94.72 REMARK 500 4 GLU A 79 72.35 55.73 REMARK 500 4 MET B 39 82.57 62.17 REMARK 500 5 HIS A 3 -23.57 70.92 REMARK 500 5 LYS A 11 -7.87 65.79 REMARK 500 5 PRO A 24 126.49 -33.73 REMARK 500 6 GLU A 20 71.61 -118.96 REMARK 500 6 VAL A 22 -168.80 -107.49 REMARK 500 6 PRO A 24 126.76 -34.31 REMARK 500 6 ALA A 25 134.89 -39.06 REMARK 500 6 ASN A 78 -45.07 54.35 REMARK 500 6 MET B 39 87.97 60.17 REMARK 500 7 HIS A 3 -13.37 -150.82 REMARK 500 7 GLU A 20 71.34 -116.74 REMARK 500 7 VAL A 22 -169.90 -110.14 REMARK 500 7 PRO A 24 126.55 -33.22 REMARK 500 7 ALA A 25 129.27 -34.21 REMARK 500 8 HIS A 3 -15.84 -150.37 REMARK 500 8 LYS A 11 -0.40 69.00 REMARK 500 8 VAL A 22 -169.64 -108.23 REMARK 500 8 PRO A 24 125.58 -33.70 REMARK 500 8 ALA A 25 132.03 -38.88 REMARK 500 REMARK 500 THIS ENTRY HAS 136 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 23 PRO A 24 2 -146.56 REMARK 500 SER A 23 PRO A 24 3 -148.70 REMARK 500 SER A 23 PRO A 24 4 -147.34 REMARK 500 SER A 23 PRO A 24 5 -145.45 REMARK 500 SER A 23 PRO A 24 6 -148.52 REMARK 500 SER A 23 PRO A 24 7 -147.40 REMARK 500 SER A 23 PRO A 24 8 -145.32 REMARK 500 SER A 23 PRO A 24 9 -144.46 REMARK 500 SER A 23 PRO A 24 10 -146.71 REMARK 500 SER A 23 PRO A 24 11 -143.27 REMARK 500 SER A 23 PRO A 24 12 -143.15 REMARK 500 SER A 23 PRO A 24 13 -145.31 REMARK 500 SER A 23 PRO A 24 14 -147.21 REMARK 500 GLU A 20 ASP A 21 15 -143.35 REMARK 500 SER A 23 PRO A 24 15 -144.30 REMARK 500 SER A 23 PRO A 24 16 -144.54 REMARK 500 SER A 23 PRO A 24 17 -144.30 REMARK 500 SER A 23 PRO A 24 18 -145.96 REMARK 500 GLU A 20 ASP A 21 19 -141.02 REMARK 500 SER A 23 PRO A 24 19 -149.15 REMARK 500 GLU A 20 ASP A 21 20 -142.57 REMARK 500 SER A 23 PRO A 24 20 -142.19 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 TYR A 111 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6225 RELATED DB: BMRB REMARK 900 CHEMICAL SHIFTS OF FREE TFB1 REMARK 900 RELATED ID: 1Y5O RELATED DB: PDB REMARK 900 NMR STRUCTURE OF FREE TFB1 REMARK 900 RELATED ID: 2L2I RELATED DB: PDB REMARK 900 NMR STRUCTURE OF TFB1 IN COMPLEX WITH ACTIVATION DOMAIN OF REMARK 900 EKLF (TAD2) REMARK 900 RELATED ID: 25584 RELATED DB: BMRB REMARK 900 RELATED ID: 2N22 RELATED DB: PDB DBREF 2N23 A 2 115 UNP P32776 TFB1_YEAST 2 115 DBREF 2N23 B 22 40 UNP Q13351 KLF1_HUMAN 22 40 SEQADV 2N23 PRO A 1 UNP P32776 EXPRESSION TAG 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 SEQRES 1 B 19 ASP THR GLN ASP ASP PHE LEU LYS TRP TRP ARG SER GLU SEQRES 2 B 19 GLU ALA GLN ASP MET GLY HELIX 1 1 ASN A 93 ALA A 114 1 22 HELIX 2 2 THR B 23 MET B 39 1 17 SHEET 1 A 3 SER A 4 GLY A 5 0 SHEET 2 A 3 VAL A 12 ASN A 19 -1 O ILE A 16 N GLY A 5 SHEET 3 A 3 ILE A 8 PHE A 9 -1 N PHE A 9 O VAL A 12 SHEET 1 B 4 SER A 4 GLY A 5 0 SHEET 2 B 4 VAL A 12 ASN A 19 -1 O ILE A 16 N GLY A 5 SHEET 3 B 4 GLU A 26 SER A 31 -1 O ARG A 30 N ILE A 15 SHEET 4 B 4 VAL A 37 VAL A 41 -1 O VAL A 40 N LEU A 27 SHEET 1 C 3 ILE A 45 ALA A 50 0 SHEET 2 C 3 MET A 58 GLY A 64 -1 O ILE A 63 N ASP A 46 SHEET 3 C 3 GLN A 85 PHE A 91 -1 O PHE A 89 N LEU A 60 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