HEADER TRANSCRIPTION 07-FEB-12 2LPB TITLE STRUCTURE OF THE COMPLEX OF THE CENTRAL ACTIVATION DOMAIN OF GCN4 TITLE 2 BOUND TO THE MEDIATOR CO-ACTIVATOR DOMAIN 1 OF GAL11/MED15 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 15; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 158-238; COMPND 5 SYNONYM: AUTONOMOUS REPLICATION REGULATORY PROTEIN 3, BASAL COMPND 6 EXPRESSION ACTIVATOR PROTEIN 1, DEFECTIVE SILENCING SUPPRESSOR COMPND 7 PROTEIN 4, MEDIATOR COMPLEX SUBUNIT 15, TRANSCRIPTION REGULATORY COMPND 8 PROTEIN GAL11, TY INSERTION SUPPRESSOR PROTEIN 13; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: GENERAL CONTROL PROTEIN GCN4; COMPND 12 CHAIN: B; COMPND 13 FRAGMENT: TRANSCRIPTIONAL ACTIVATION REGION, RESIDUES 101-134; COMPND 14 SYNONYM: AMINO ACID BIOSYNTHESIS REGULATORY PROTEIN; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: ABE1, GAL11, MED15, RAR3, SDS4, SPT13, YOL051W; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET21A; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 12 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 13 ORGANISM_TAXID: 559292; SOURCE 14 STRAIN: ATCC 204508 / S288C; SOURCE 15 GENE: AAS3, ARG9, GCN4, YEL009C; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_VECTOR: PETSUMO KEYWDS MEDIATOR, ACTIVATOR, CO-ACTIVATOR, TRANSCRIPTION, NUCLEUS, KEYWDS 2 PHOSPHOPROTEIN, TRANSCRIPTION REGULATION, AMINO ACID BIOSYNTHESIS, KEYWDS 3 DNA-BINDING EXPDTA SOLUTION NMR NUMMDL 13 AUTHOR P.S.BRZOVIC,C.C.HEIKAUS,L.KISSELEV,R.VERNON,E.HERBIG,D.PACHECO, AUTHOR 2 L.WARFIELD,P.LITTLEFIELD,D.BAKER,R.E.KLEVIT,S.HAHN REVDAT 1 22-FEB-12 2LPB 0 SPRSDE 22-FEB-12 2LPB 2KO4 JRNL AUTH P.S.BRZOVIC,C.C.HEIKAUS,L.KISSELEV,R.VERNON,E.HERBIG, JRNL AUTH 2 D.PACHECO,L.WARFIELD,P.LITTLEFIELD,D.BAKER,R.E.KLEVIT,S.HAHN JRNL TITL THE ACIDIC TRANSCRIPTION ACTIVATOR GCN4 BINDS THE MEDIATOR JRNL TITL 2 SUBUNIT GAL11/MED15 USING A SIMPLE PROTEIN INTERFACE FORMING JRNL TITL 3 A FUZZY COMPLEX. JRNL REF MOL.CELL V. 44 942 2011 JRNL REFN ISSN 1097-2765 JRNL PMID 22195967 JRNL DOI 10.1016/J.MOLCEL.2011.11.008 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LPB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-FEB-12. REMARK 100 THE RCSB ID CODE IS RCSB102664. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 150 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1-1.2 MM [U-15N] GAL11, 2-2.4 MM REMARK 210 GCN4, 20 MM SODIUM PHOSPHATE, 150 REMARK 210 MM SODIUM CHLORIDE, 1 MM PMSF, 5 REMARK 210 MM DTT, 90% H2O/10% D2O; 2-2.4 MM REMARK 210 GAL11, 1-1.2 MM [U-15N] GCN4, 20 REMARK 210 MM SODIUM PHOSPHATE, 150 MM REMARK 210 SODIUM CHLORIDE, 1 MM PMSF, 5 MM REMARK 210 DTT, 90% H2O/10% D2O; 1-1.2 MM [U REMARK 210 -13C; U-15N] GAL11, 2-2.4 MM REMARK 210 GCN4, 20 MM SODIUM PHOSPHATE, 150 REMARK 210 MM SODIUM CHLORIDE, 1 MM PMSF, 5 REMARK 210 MM DTT, 90% H2O/10% D2O; 1-1.2 MM REMARK 210 [U-13C; U-15N] GAL11, 2-2.4 MM REMARK 210 GCN4, 20 MM SODIUM PHOSPHATE, 150 REMARK 210 MM SODIUM CHLORIDE, 1 MM PMSF, 5 REMARK 210 MM DTT, 100% D2O; 2-2.4 MM GAL11, REMARK 210 1-1.2 MM [U-13C; U-15N] GCN4, 20 REMARK 210 MM SODIUM PHOSPHATE, 150 MM REMARK 210 SODIUM CHLORIDE, 1 MM PMSF, 5 MM REMARK 210 DTT, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCA; 3D HNCO; 3D HNCACB; 3D REMARK 210 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D C(CO)NH; 3D H(CCO) REMARK 210 NH; 2D 1H-13C HSQC ALIPHATIC; 2D REMARK 210 1H-13C HSQC AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 800 MHZ; 600 MHZ; 500 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; DMX REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS 1.3, NMRPIPE, NMRVIEW, REMARK 210 HADDOCK 2.1, VNMR, TOPSPIN REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 13 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 13 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: THE AUTHORS STATE THAT THE STRUCTURES ARE ARRANGED BY REMARK 210 ENERGY, PRECEEDING FROM LOWEST TO HIGHEST, BUT THERE IS NO SINGLE REMARK 210 REPRESENTATIVE STRUCTURE. BINDING OF GCN4 RESIDUES 101-134 TO REMARK 210 GAL11 RESIDUES 158-238 IS BEST REPRESENTED BY THE ENTIRE ENSEMBLE REMARK 210 AS GCN4 BINDS IN MULTIPLE ORIENTATIONS. 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 HG1 THR A 209 OD2 ASP A 212 1.59 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 ARG A 160 101.72 -164.94 REMARK 500 1 GLN A 233 115.05 69.52 REMARK 500 1 ASN B 116 47.12 -88.74 REMARK 500 1 ASP B 125 -50.76 -120.45 REMARK 500 1 ASP B 127 -78.76 -102.85 REMARK 500 1 ASP B 133 45.28 -95.73 REMARK 500 2 LEU A 162 92.23 64.20 REMARK 500 2 ASN A 188 -22.16 70.90 REMARK 500 2 ASN A 194 -40.31 -134.29 REMARK 500 2 SER B 117 37.18 -74.47 REMARK 500 2 PHE B 124 33.03 -87.48 REMARK 500 2 ASP B 125 -48.12 -162.15 REMARK 500 2 ASP B 127 -160.77 -127.72 REMARK 500 3 LYS A 174 -75.40 -99.64 REMARK 500 3 ASN A 188 -22.44 72.50 REMARK 500 3 ASN A 194 -46.13 -133.39 REMARK 500 3 SER B 104 105.40 67.32 REMARK 500 3 PHE B 124 -70.36 -74.81 REMARK 500 3 ASN B 126 89.35 -169.85 REMARK 500 3 VAL B 130 84.57 54.75 REMARK 500 3 ASP B 133 -74.58 -135.35 REMARK 500 4 LYS A 174 -77.02 -93.47 REMARK 500 4 ASN A 188 -25.29 69.07 REMARK 500 4 ASN A 194 -42.97 -136.73 REMARK 500 4 GLN A 235 -72.53 -82.61 REMARK 500 4 SER B 104 77.05 61.19 REMARK 500 4 PHE B 108 -66.39 -145.99 REMARK 500 4 ASP B 115 57.55 -114.21 REMARK 500 4 ASN B 116 36.24 -74.82 REMARK 500 4 SER B 122 -82.66 -100.54 REMARK 500 4 VAL B 130 85.54 58.39 REMARK 500 4 ASP B 133 56.49 -91.36 REMARK 500 5 LEU A 162 79.41 67.27 REMARK 500 5 LYS A 174 -66.05 -96.62 REMARK 500 5 GLN A 233 93.16 65.57 REMARK 500 5 THR B 105 94.57 65.90 REMARK 500 5 GLU B 111 -14.65 -146.90 REMARK 500 5 LEU B 113 84.55 59.03 REMARK 500 5 ASN B 116 23.77 -77.13 REMARK 500 5 ASN B 126 65.48 -163.46 REMARK 500 6 LEU A 162 110.59 67.46 REMARK 500 6 ASN A 188 -20.94 70.93 REMARK 500 6 ASN B 126 81.37 -166.39 REMARK 500 7 ASN A 188 -22.14 76.01 REMARK 500 7 GLU B 114 83.26 58.78 REMARK 500 7 SER B 117 31.96 -93.25 REMARK 500 7 ASP B 127 -65.47 -92.63 REMARK 500 8 ARG A 159 -62.98 -91.09 REMARK 500 8 LYS A 174 -69.76 -103.36 REMARK 500 8 PRO A 187 -159.61 -97.52 REMARK 500 REMARK 500 THIS ENTRY HAS 101 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18244 RELATED DB: BMRB DBREF 2LPB A 158 238 UNP P19659 MED15_YEAST 158 238 DBREF 2LPB B 101 134 UNP P03069 GCN4_YEAST 101 134 SEQRES 1 A 81 GLN ARG ARG GLN LEU THR PRO GLN GLN GLN GLN LEU VAL SEQRES 2 A 81 ASN GLN MET LYS VAL ALA PRO ILE PRO LYS GLN LEU LEU SEQRES 3 A 81 GLN ARG ILE PRO ASN ILE PRO PRO ASN ILE ASN THR TRP SEQRES 4 A 81 GLN GLN VAL THR ALA LEU ALA GLN GLN LYS LEU LEU THR SEQRES 5 A 81 PRO GLN ASP MET GLU ALA ALA LYS GLU VAL TYR LYS ILE SEQRES 6 A 81 HIS GLN GLN LEU LEU PHE LYS ALA ARG LEU GLN GLN GLN SEQRES 7 A 81 GLN ALA GLN SEQRES 1 B 34 SER THR ASP SER THR PRO MET PHE GLU TYR GLU ASN LEU SEQRES 2 B 34 GLU ASP ASN SER LYS GLU TRP THR SER LEU PHE ASP ASN SEQRES 3 B 34 ASP ILE PRO VAL THR THR ASP ASP HELIX 1 1 THR A 163 ASN A 171 1 9 HELIX 2 2 GLN A 172 VAL A 175 5 4 HELIX 3 3 PRO A 179 GLN A 184 1 6 HELIX 4 4 THR A 195 THR A 200 1 6 HELIX 5 5 THR A 200 GLN A 205 1 6 HELIX 6 6 THR A 209 GLN A 233 1 25 HELIX 7 7 SER B 117 SER B 122 1 6 HELIX 8 8 LEU B 123 ASP B 125 5 3 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 MODEL 11 MODEL 12 MODEL 13