HEADER TRANSCRIPTION 11-APR-07 2PHG TITLE MODEL FOR VP16 BINDING TO TFIIB COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTION INITIATION FACTOR IIB; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL CORE DOMAIN; COMPND 5 SYNONYM: GENERAL TRANSCRIPTION FACTOR TFIIB, S300-II; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: ALPHA TRANS-INDUCING PROTEIN; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: PART OF ACTIVATION DOMAIN; COMPND 12 SYNONYM: VMW65, ICP25, VP16 PROTEIN, ALPHA- TIF; COMPND 13 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: GTF2B, TF2B, TFIIB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HERPES SIMPLEX VIRUS (TYPE 1 / STRAIN 17); SOURCE 13 ORGANISM_TAXID: 10299; SOURCE 14 STRAIN: 17; SOURCE 15 GENE: UL48; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS TF2B, VP16, TRANSCRIPTION, ACTIVATOR EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR H.R.A.JONKER,R.W.WECHSELBERGER,R.BOELENS,G.E.FOLKERS,R.KAPTEIN REVDAT 3 16-MAR-22 2PHG 1 REMARK REVDAT 2 24-FEB-09 2PHG 1 VERSN REVDAT 1 24-APR-07 2PHG 0 JRNL AUTH H.R.A.JONKER,R.W.WECHSELBERGER,R.BOELENS,G.E.FOLKERS, JRNL AUTH 2 R.KAPTEIN JRNL TITL STRUCTURAL PROPERTIES OF THE PROMISCUOUS VP16 ACTIVATION JRNL TITL 2 DOMAIN JRNL REF BIOCHEMISTRY V. 44 827 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 15654739 JRNL DOI 10.1021/BI0482912 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.X, HADDOCK 1.2 REMARK 3 AUTHORS : BRUKER BIOSPIN (XWINNMR), DOMINGUEZ ET AL. REMARK 3 (HADDOCK) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE REPRESENTS A DOCKING REMARK 3 MODEL. THE STARTING STRUCTURE FOR TFIIB WAS TAKEN FROM THE PDB REMARK 3 ENTRY 1TFB. REMARK 4 REMARK 4 2PHG COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-APR-07. REMARK 100 THE DEPOSITION ID IS D_1000042382. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.6 REMARK 210 IONIC STRENGTH : 100 MM REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.2 MM VP16AD U-15N, 0-0.2 MM REMARK 210 TFIIBC, 50 MM KCL, 50 MM REMARK 210 PHOSPHATE BUFFER PH 5.6, 95% H2O, REMARK 210 5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 15N-HSQCS REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 1, NMRPIPE 2.4, SPARKY REMARK 210 3.110, CNS 1.1 REMARK 210 METHOD USED : THE MODEL WAS CALCULATED USING REMARK 210 HADDOCK REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : TOP-RANKED ENSEMBLE, ACCORDING REMARK 210 TO THE AVERAGE INTERACTION REMARK 210 ENERGY AND BURIED SURFACE AREA 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: 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 ARG A 112 -50.29 -131.04 REMARK 500 1 ARG A 175 -38.90 73.99 REMARK 500 1 CYS A 181 37.05 -83.27 REMARK 500 1 SER A 184 47.90 -76.07 REMARK 500 1 ILE A 209 -85.48 -120.38 REMARK 500 1 THR A 211 -15.58 -143.18 REMARK 500 1 SER A 216 -34.79 66.90 REMARK 500 1 PRO A 246 30.15 -93.74 REMARK 500 1 ARG A 248 -101.71 -145.09 REMARK 500 1 ASP A 276 -62.67 -95.04 REMARK 500 1 VAL A 280 -82.63 -89.83 REMARK 500 1 ALA A 281 112.72 -179.25 REMARK 500 1 TYR A 289 48.59 -82.18 REMARK 500 1 ARG A 290 -79.24 -114.10 REMARK 500 1 ARG A 295 -32.12 -158.39 REMARK 500 1 PRO A 297 64.98 -69.73 REMARK 500 1 ASP A 298 46.67 -78.32 REMARK 500 1 PRO A 301 -70.06 -71.17 REMARK 500 1 THR A 302 -38.13 -162.32 REMARK 500 1 PHE A 306 95.28 70.03 REMARK 500 1 ASP A 311 -74.32 68.48 REMARK 500 1 GLN A 315 70.83 75.91 REMARK 500 1 MET B 470 -50.05 -140.30 REMARK 500 2 ARG A 112 -57.17 -150.77 REMARK 500 2 ASN A 156 -70.98 -112.38 REMARK 500 2 GLN A 170 -93.92 -123.15 REMARK 500 2 PRO A 174 49.51 -77.55 REMARK 500 2 ARG A 175 -43.74 73.93 REMARK 500 2 SER A 187 71.43 55.31 REMARK 500 2 THR A 204 -38.12 -139.07 REMARK 500 2 ILE A 209 -97.26 -86.75 REMARK 500 2 THR A 211 -37.37 -137.59 REMARK 500 2 SER A 216 -34.75 67.29 REMARK 500 2 SER A 220 31.80 -92.04 REMARK 500 2 ARG A 248 -102.05 -137.54 REMARK 500 2 ILE A 274 -72.61 -136.32 REMARK 500 2 VAL A 280 -100.78 -98.37 REMARK 500 2 ARG A 290 -60.90 -135.15 REMARK 500 2 ARG A 295 -47.57 -159.56 REMARK 500 2 ASP A 298 25.74 -78.61 REMARK 500 2 PRO A 301 -80.60 -67.25 REMARK 500 2 THR A 302 -40.66 -160.26 REMARK 500 2 PHE A 306 83.58 66.24 REMARK 500 2 ASP A 311 -100.19 59.71 REMARK 500 2 GLN A 315 61.76 63.45 REMARK 500 2 ASP B 469 42.26 -77.64 REMARK 500 3 ARG A 112 -48.29 -151.09 REMARK 500 3 ASN A 129 30.32 75.98 REMARK 500 3 ARG A 154 -84.34 -167.29 REMARK 500 3 ARG A 175 -78.46 72.99 REMARK 500 REMARK 500 THIS ENTRY HAS 245 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6099 RELATED DB: BMRB REMARK 900 BACKBONE CHEMICAL SHIFT ASSIGNMENTS FOR THE ACTIVATION DOMAIN OF REMARK 900 THE TRANSCRIPTIONAL ACTIVATOR VP16 REMARK 900 RELATED ID: 1TFB RELATED DB: PDB REMARK 900 NMR SOLUTION STRUCTURE OF THE GENERAL TRANSCRIPTION FACTOR TFIIB C- REMARK 900 TERMINAL CORE DOMAIN REMARK 900 RELATED ID: 2PHE RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES 4-111 CHAIN A ARE DELETED AND S3 IS REMARK 999 RENUMBERED TO S111. DBREF 2PHG A 112 316 UNP Q00403 TF2B_HUMAN 112 316 DBREF 2PHG B 465 490 UNP P06492 ATIN_HHV11 465 490 SEQADV 2PHG SER A 111 UNP Q00403 SEE REMARK 999 SEQRES 1 A 206 SER ARG ALA MET MET ASN ALA PHE LYS GLU ILE THR THR SEQRES 2 A 206 MET ALA ASP ARG ILE ASN LEU PRO ARG ASN ILE VAL ASP SEQRES 3 A 206 ARG THR ASN ASN LEU PHE LYS GLN VAL TYR GLU GLN LYS SEQRES 4 A 206 SER LEU LYS GLY ARG ALA ASN ASP ALA ILE ALA SER ALA SEQRES 5 A 206 CYS LEU TYR ILE ALA CYS ARG GLN GLU GLY VAL PRO ARG SEQRES 6 A 206 THR PHE LYS GLU ILE CYS ALA VAL SER ARG ILE SER LYS SEQRES 7 A 206 LYS GLU ILE GLY ARG CYS PHE LYS LEU ILE LEU LYS ALA SEQRES 8 A 206 LEU GLU THR SER VAL ASP LEU ILE THR THR GLY ASP PHE SEQRES 9 A 206 MET SER ARG PHE CYS SER ASN LEU CYS LEU PRO LYS GLN SEQRES 10 A 206 VAL GLN MET ALA ALA THR HIS ILE ALA ARG LYS ALA VAL SEQRES 11 A 206 GLU LEU ASP LEU VAL PRO GLY ARG SER PRO ILE SER VAL SEQRES 12 A 206 ALA ALA ALA ALA ILE TYR MET ALA SER GLN ALA SER ALA SEQRES 13 A 206 GLU LYS ARG THR GLN LYS GLU ILE GLY ASP ILE ALA GLY SEQRES 14 A 206 VAL ALA ASP VAL THR ILE ARG GLN SER TYR ARG LEU ILE SEQRES 15 A 206 TYR PRO ARG ALA PRO ASP LEU PHE PRO THR ASP PHE LYS SEQRES 16 A 206 PHE ASP THR PRO VAL ASP LYS LEU PRO GLN LEU SEQRES 1 B 26 TYR GLY ALA LEU ASP MET ALA ASP PHE GLU PHE GLU GLN SEQRES 2 B 26 MET PHE THR ASP ALA LEU GLY ILE ASP GLU TYR GLY GLY HELIX 1 1 ARG A 112 ASN A 129 1 18 HELIX 2 2 PRO A 131 TYR A 146 1 16 HELIX 3 3 ALA A 155 CYS A 168 1 14 HELIX 4 4 PHE A 177 CYS A 181 5 5 HELIX 5 5 SER A 187 LYS A 200 1 14 HELIX 6 6 SER A 216 ASN A 221 5 6 HELIX 7 7 PRO A 225 ASP A 243 1 19 HELIX 8 8 SER A 249 ALA A 264 1 16 HELIX 9 9 THR A 270 ASP A 276 1 7 HELIX 10 10 ALA A 281 TYR A 289 1 9 HELIX 11 11 TYR B 465 ASP B 469 5 5 HELIX 12 12 PHE B 473 GLN B 477 5 5 HELIX 13 13 MET B 478 ILE B 485 1 8 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 MODEL 2 MODEL 3 MODEL 4 MODEL 5 MODEL 6 MODEL 7 MODEL 8 MODEL 9 MODEL 10