HEADER TRANSCRIPTION 02-AUG-10 2XNF TITLE THE MEDIATOR MED25 ACTIVATOR INTERACTION DOMAIN: STRUCTURE AND TITLE 2 COOPERATIVE BINDING OF VP16 SUBDOMAINS COMPND MOL_ID: 1; COMPND 2 MOLECULE: MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 25; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MED25 ACID DOMAIN, RESIDUES 394-543; COMPND 5 SYNONYM: MEDIATOR COMPLEX SUBUNIT 25, ACTIVATOR-RECRUITED COFACTOR COMPND 6 92 KDA COMPONENT, ARC92, ACTIVATOR INTERACTION DOMAIN-CONTAINING COMPND 7 PROTEIN 1, P78, MED25; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSCRIPTION, ACTIVATED TRANSCRIPTION, MEDIATOR EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR E.VOJNIC,A.MOURAO,M.SEIZL,B.SIMON,L.WENZECK,L.LARIVIERE,S.BAUMLI, AUTHOR 2 M.MEISTERERNST,M.SATTLER,P.CRAMER REVDAT 2 20-APR-11 2XNF 1 JRNL REVDAT 1 09-MAR-11 2XNF 0 JRNL AUTH E.VOJNIC,A.MOURAO,M.SEIZL,B.SIMON,L.WENZECK,L.LARIVIERE, JRNL AUTH 2 S.BAUMLI,K.BAUMGART,M.MEISTERERNST,M.SATTLER,P.CRAMER JRNL TITL STRUCTURE AND VP16 BINDING OF THE MEDIATOR MED25 ACTIVATOR JRNL TITL 2 INTERACTION DOMAIN. JRNL REF NAT.STRUCT.MOL.BIOL. V. 18 404 2011 JRNL REFN ISSN 1545-9993 JRNL PMID 21378965 JRNL DOI 10.1038/NSMB.1997 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- REMARK 3 KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU,READ, RICE, REMARK 3 SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: WATER-REFINED REMARK 4 REMARK 4 2XNF COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-AUG-10. REMARK 100 THE PDBE ID CODE IS EBI-44928. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 295.0; 295.0 REMARK 210 PH : 6.5; 6.5 REMARK 210 IONIC STRENGTH : 100; 100 MM REMARK 210 PRESSURE : 1.0 ATM; 1.0 ATM REMARK 210 SAMPLE CONTENTS : 90%WATER/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; HSQC; HNCA; HNCACB; REMARK 210 CBCACONH; HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRVIEW REMARK 210 METHOD USED : CYANA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING MULTIDIMENSIONAL NMR REMARK 210 SPECTROSCOPY ON 13C, 15N-LABELED MED25 ACID DOMAIN 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 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 1 ASN A 434 C ASN A 434 O 0.130 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 394 -50.87 68.74 REMARK 500 1 SER A 396 -15.23 -141.62 REMARK 500 1 SER A 416 -49.58 71.16 REMARK 500 1 LYS A 422 -175.88 57.20 REMARK 500 1 HIS A 435 148.10 -38.43 REMARK 500 1 ASN A 477 78.55 -66.84 REMARK 500 1 THR A 503 -38.58 -158.49 REMARK 500 1 CYS A 506 -75.24 -104.29 REMARK 500 1 GLU A 507 26.41 -168.77 REMARK 500 1 VAL A 508 -97.66 67.35 REMARK 500 1 HIS A 548 86.81 51.83 REMARK 500 2 ASN A 397 -53.89 -130.58 REMARK 500 2 ALA A 401 -46.00 -132.55 REMARK 500 2 LYS A 411 86.67 64.43 REMARK 500 2 PRO A 412 108.23 -43.69 REMARK 500 2 HIS A 435 131.51 -27.56 REMARK 500 2 THR A 441 31.42 -74.43 REMARK 500 2 CYS A 506 -78.42 -111.79 REMARK 500 2 ARG A 509 165.47 72.69 REMARK 500 2 HIS A 547 174.73 65.63 REMARK 500 2 HIS A 550 -56.31 -146.69 REMARK 500 3 VAL A 395 -32.97 -142.01 REMARK 500 3 THR A 421 90.23 60.61 REMARK 500 3 HIS A 435 152.90 -19.53 REMARK 500 3 ASN A 477 47.90 -76.44 REMARK 500 3 THR A 503 -25.31 172.32 REMARK 500 3 HIS A 548 -74.21 -56.34 REMARK 500 3 HIS A 549 -44.73 -144.47 REMARK 500 4 ASN A 397 -52.30 68.18 REMARK 500 4 PRO A 412 -72.66 -87.94 REMARK 500 4 LYS A 413 136.90 -174.79 REMARK 500 4 ASN A 420 83.14 175.71 REMARK 500 4 HIS A 435 157.05 -25.15 REMARK 500 4 ASN A 438 94.01 178.81 REMARK 500 4 ASN A 477 20.81 -77.55 REMARK 500 4 PRO A 501 107.57 -58.30 REMARK 500 4 HIS A 547 156.78 73.25 REMARK 500 5 SER A 396 -159.37 -147.58 REMARK 500 5 ASN A 397 -156.44 68.38 REMARK 500 5 LYS A 411 82.22 44.48 REMARK 500 5 ASN A 420 -69.17 65.88 REMARK 500 5 HIS A 435 161.42 -34.35 REMARK 500 5 ASN A 438 95.66 -165.25 REMARK 500 5 THR A 503 -46.93 -134.90 REMARK 500 5 HIS A 548 77.07 58.91 REMARK 500 5 HIS A 550 166.07 63.47 REMARK 500 6 SER A 396 30.63 -98.73 REMARK 500 6 GLU A 410 -69.71 166.74 REMARK 500 6 SER A 416 -74.62 -156.04 REMARK 500 6 HIS A 435 160.17 -33.00 REMARK 500 REMARK 500 THIS ENTRY HAS 93 RAMACHANDRAN OUTLIERS. 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 1 ARG A 538 0.10 SIDE CHAIN REMARK 500 3 ARG A 425 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 7 LYS A 520 24.7 L L OUTSIDE RANGE REMARK 500 10 HIS A 435 24.6 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 7-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 8-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. DBREF 2XNF A 394 543 UNP Q71SY5 MED25_HUMAN 394 543 SEQADV 2XNF MET A 393 UNP Q71SY5 EXPRESSION TAG SEQADV 2XNF LEU A 544 UNP Q71SY5 EXPRESSION TAG SEQADV 2XNF GLU A 545 UNP Q71SY5 EXPRESSION TAG SEQADV 2XNF HIS A 546 UNP Q71SY5 EXPRESSION TAG SEQADV 2XNF HIS A 547 UNP Q71SY5 EXPRESSION TAG SEQADV 2XNF HIS A 548 UNP Q71SY5 EXPRESSION TAG SEQADV 2XNF HIS A 549 UNP Q71SY5 EXPRESSION TAG SEQADV 2XNF HIS A 550 UNP Q71SY5 EXPRESSION TAG SEQADV 2XNF HIS A 551 UNP Q71SY5 EXPRESSION TAG SEQRES 1 A 159 MET SER VAL SER ASN LYS LEU LEU ALA TRP SER GLY VAL SEQRES 2 A 159 LEU GLU TRP GLN GLU LYS PRO LYS PRO ALA SER VAL ASP SEQRES 3 A 159 ALA ASN THR LYS LEU THR ARG SER LEU PRO CYS GLN VAL SEQRES 4 A 159 TYR VAL ASN HIS GLY GLU ASN LEU LYS THR GLU GLN TRP SEQRES 5 A 159 PRO GLN LYS LEU ILE MET GLN LEU ILE PRO GLN GLN LEU SEQRES 6 A 159 LEU THR THR LEU GLY PRO LEU PHE ARG ASN SER ARG MET SEQRES 7 A 159 VAL GLN PHE HIS PHE THR ASN LYS ASP LEU GLU SER LEU SEQRES 8 A 159 LYS GLY LEU TYR ARG ILE MET GLY ASN GLY PHE ALA GLY SEQRES 9 A 159 CYS VAL HIS PHE PRO HIS THR ALA PRO CYS GLU VAL ARG SEQRES 10 A 159 VAL LEU MET LEU LEU TYR SER SER LYS LYS LYS ILE PHE SEQRES 11 A 159 MET GLY LEU ILE PRO TYR ASP GLN SER GLY PHE VAL ASN SEQRES 12 A 159 GLY ILE ARG GLN VAL ILE THR ASN LEU GLU HIS HIS HIS SEQRES 13 A 159 HIS HIS HIS HELIX 1 1 LYS A 440 TRP A 444 5 5 HELIX 2 2 GLN A 455 THR A 459 1 5 HELIX 3 3 THR A 460 ARG A 466 5 7 HELIX 4 4 ASP A 479 ASN A 492 1 14 HELIX 5 5 ASP A 529 HIS A 548 1 20 SHEET 1 AA 8 LEU A 399 GLN A 409 0 SHEET 2 AA 8 THR A 424 ASN A 434 -1 O ARG A 425 N TRP A 408 SHEET 3 AA 8 SER A 468 PHE A 475 -1 O MET A 470 N ASN A 434 SHEET 4 AA 8 ILE A 521 PRO A 527 -1 O PHE A 522 N PHE A 473 SHEET 5 AA 8 VAL A 510 SER A 516 -1 N VAL A 510 O PRO A 527 SHEET 6 AA 8 PHE A 494 HIS A 499 -1 O GLY A 496 N LEU A 513 SHEET 7 AA 8 LYS A 447 PRO A 454 -1 O ILE A 449 N HIS A 499 SHEET 8 AA 8 LEU A 399 GLN A 409 1 O VAL A 405 N LEU A 448 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