HEADER TRANSCRIPTION 01-NOV-16 5M9D TITLE SOLUTION STRUCTURE OF RTT103 CTD-INTERACTING DOMAIN BOUND TO A TITLE 2 SER2SER7 PHOSPHORYLATED CTD PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: REGULATOR OF TY1 TRANSPOSITION PROTEIN 103; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: THR-SER-PRO-SEP-TYR-SEP-PRO-THR-SER-PRO-SEP-TYR-SEP-PRO- COMPND 7 THR-SER; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: P SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 3 ORGANISM_TAXID: 559292; SOURCE 4 GENE: RTT103, YDR289C; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 10 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 11 ORGANISM_TAXID: 4932 KEYWDS TRANSCRIPTION, RNAPII C-TERMINAL DOMAIN, CTD-INTERACTING DOMAIN, KEYWDS 2 PHOSPHORYLATION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR O.JASNOVIDOVA,K.KUBICEK,R.STEFL REVDAT 4 14-JUN-23 5M9D 1 REMARK REVDAT 3 08-MAY-19 5M9D 1 REMARK REVDAT 2 08-NOV-17 5M9D 1 JRNL REVDAT 1 11-OCT-17 5M9D 0 JRNL AUTH O.JASNOVIDOVA,T.KLUMPLER,K.KUBICEK,S.KALYNYCH,P.PLEVKA, JRNL AUTH 2 R.STEFL JRNL TITL STRUCTURE AND DYNAMICS OF THE RNAPII CTDSOME WITH RTT103. JRNL REF PROC. NATL. ACAD. SCI. V. 114 11133 2017 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 29073019 JRNL DOI 10.1073/PNAS.1712450114 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 16 REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5M9D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1200002128. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.8 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : 760 MMHG REMARK 210 SAMPLE CONTENTS : 1 MM [U-13C; U-15N] CTD REMARK 210 -INTERACTING DOMAIN OF RTT103P, 1.5 MM THR-SER-PRO-SEP-TYR-SEP- REMARK 210 PRO-THR-SER-PRO-SEP-TYR-SEP-PRO-THR-SER, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D CBCA(CO)NH; 3D HCCH- REMARK 210 TOCSY; F1-13C/15N-FILTERED NOESY- REMARK 210 [13C,1H]-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ; 850 MHZ; 950 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.2, CYANA 3.97, SPARKY REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 HIS A 139 REMARK 465 HIS A 140 REMARK 465 HIS A 141 REMARK 465 HIS A 142 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 OE1 GLU A 6 HG1 THR A 9 1.45 REMARK 500 OE2 GLU A 20 HG SER A 21 1.46 REMARK 500 OE2 GLU A 16 HG SER B 140 1.51 REMARK 500 HG SER A 18 O PRO B 141 1.54 REMARK 500 O GLN A 19 HG SER A 23 1.54 REMARK 500 OE1 GLU A 20 HG1 THR B 139 1.55 REMARK 500 O SER A 23 HG SER A 26 1.56 REMARK 500 O GLN A 78 HG SER A 82 1.58 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 GLU A 6 17.79 53.07 REMARK 500 1 ASP A 17 31.36 -72.40 REMARK 500 1 GLU A 20 -76.08 -58.15 REMARK 500 1 GLN A 74 -88.05 -70.65 REMARK 500 1 LYS A 75 14.50 -167.81 REMARK 500 1 PRO B 145 -8.87 -56.73 REMARK 500 1 SEP B 149 153.99 -38.74 REMARK 500 1 TYR B 150 -30.19 -159.72 REMARK 500 1 SEP B 151 58.38 -145.98 REMARK 500 2 SER A 5 -47.93 -130.72 REMARK 500 2 GLU A 6 7.08 -155.20 REMARK 500 2 ASP A 17 16.29 -67.32 REMARK 500 2 GLN A 74 -78.91 -116.36 REMARK 500 2 LYS A 75 8.24 -168.87 REMARK 500 2 GLU A 136 -75.57 56.45 REMARK 500 2 PRO B 141 -161.25 -79.82 REMARK 500 2 SEP B 142 -152.97 -101.27 REMARK 500 2 THR B 153 -26.13 -170.24 REMARK 500 3 PHE A 3 173.40 58.87 REMARK 500 3 SER A 4 -149.90 54.07 REMARK 500 3 ASP A 17 18.52 -66.82 REMARK 500 3 GLN A 74 -87.02 -83.71 REMARK 500 3 LYS A 75 17.43 -171.90 REMARK 500 3 GLU A 136 -35.87 69.35 REMARK 500 3 SER B 140 -177.46 -69.74 REMARK 500 4 ALA A 2 7.12 -153.31 REMARK 500 4 ASP A 17 24.10 -69.08 REMARK 500 4 GLN A 74 -89.22 -77.29 REMARK 500 4 LYS A 75 29.82 -175.25 REMARK 500 4 SEP B 142 -179.44 -61.76 REMARK 500 4 TYR B 150 142.79 -170.14 REMARK 500 4 THR B 153 135.43 -176.57 REMARK 500 5 SER A 4 45.87 -157.72 REMARK 500 5 SER A 5 32.92 -143.40 REMARK 500 5 ASP A 17 25.15 -69.11 REMARK 500 5 GLN A 74 -86.45 -81.89 REMARK 500 5 LYS A 75 16.71 -172.83 REMARK 500 5 PRO B 141 -169.54 -59.55 REMARK 500 5 PRO B 152 1.66 -68.38 REMARK 500 6 GLU A 6 15.37 54.73 REMARK 500 6 ASP A 17 23.28 -66.89 REMARK 500 6 GLN A 74 -84.67 -68.26 REMARK 500 6 LYS A 75 14.56 -169.20 REMARK 500 6 GLU A 136 3.42 56.76 REMARK 500 6 SEP B 144 100.29 46.21 REMARK 500 6 SER B 147 -18.96 86.66 REMARK 500 6 PRO B 148 155.07 -44.70 REMARK 500 6 SEP B 151 140.71 -36.50 REMARK 500 7 SER A 4 11.86 -163.38 REMARK 500 7 SER A 5 153.86 64.11 REMARK 500 REMARK 500 THIS ENTRY HAS 168 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34058 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF RTT103 CTD-INTERACTING DOMAIN BOUND TO A REMARK 900 SER2SER7 PHOSPHORYLATED CTD PEPTIDE DBREF 5M9D A 3 131 UNP Q05543 RT103_YEAST 3 131 DBREF 5M9D B 139 154 PDB 5M9D 5M9D 139 154 SEQADV 5M9D MET A 1 UNP Q05543 INITIATING METHIONINE SEQADV 5M9D ALA A 2 UNP Q05543 EXPRESSION TAG SEQADV 5M9D ALA A 132 UNP Q05543 EXPRESSION TAG SEQADV 5M9D ALA A 133 UNP Q05543 EXPRESSION TAG SEQADV 5M9D ALA A 134 UNP Q05543 EXPRESSION TAG SEQADV 5M9D LEU A 135 UNP Q05543 EXPRESSION TAG SEQADV 5M9D GLU A 136 UNP Q05543 EXPRESSION TAG SEQADV 5M9D HIS A 137 UNP Q05543 EXPRESSION TAG SEQADV 5M9D HIS A 138 UNP Q05543 EXPRESSION TAG SEQADV 5M9D HIS A 139 UNP Q05543 EXPRESSION TAG SEQADV 5M9D HIS A 140 UNP Q05543 EXPRESSION TAG SEQADV 5M9D HIS A 141 UNP Q05543 EXPRESSION TAG SEQADV 5M9D HIS A 142 UNP Q05543 EXPRESSION TAG SEQRES 1 A 142 MET ALA PHE SER SER GLU GLN PHE THR THR LYS LEU ASN SEQRES 2 A 142 THR LEU GLU ASP SER GLN GLU SER ILE SER SER ALA SER SEQRES 3 A 142 LYS TRP LEU LEU LEU GLN TYR ARG ASP ALA PRO LYS VAL SEQRES 4 A 142 ALA GLU MET TRP LYS GLU TYR MET LEU ARG PRO SER VAL SEQRES 5 A 142 ASN THR ARG ARG LYS LEU LEU GLY LEU TYR LEU MET ASN SEQRES 6 A 142 HIS VAL VAL GLN GLN ALA LYS GLY GLN LYS ILE ILE GLN SEQRES 7 A 142 PHE GLN ASP SER PHE GLY LYS VAL ALA ALA GLU VAL LEU SEQRES 8 A 142 GLY ARG ILE ASN GLN GLU PHE PRO ARG ASP LEU LYS LYS SEQRES 9 A 142 LYS LEU SER ARG VAL VAL ASN ILE LEU LYS GLU ARG ASN SEQRES 10 A 142 ILE PHE SER LYS GLN VAL VAL ASN ASP ILE GLU ARG SER SEQRES 11 A 142 LEU ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 16 THR SER PRO SEP TYR SEP PRO THR SER PRO SEP TYR SEP SEQRES 2 B 16 PRO THR SER HET SEP B 142 14 HET SEP B 144 14 HET SEP B 149 14 HET SEP B 151 14 HETNAM SEP PHOSPHOSERINE HETSYN SEP PHOSPHONOSERINE FORMUL 2 SEP 4(C3 H8 N O6 P) HELIX 1 AA1 GLU A 6 ASN A 13 1 8 HELIX 2 AA2 SER A 18 GLN A 32 1 15 HELIX 3 AA3 ASP A 35 ARG A 49 1 15 HELIX 4 AA4 ASN A 53 GLN A 74 1 22 HELIX 5 AA5 ILE A 76 ASN A 95 1 20 HELIX 6 AA6 PRO A 99 ARG A 116 1 18 HELIX 7 AA7 SER A 120 ALA A 134 1 15 LINK C PRO B 141 N SEP B 142 1555 1555 1.34 LINK C SEP B 142 N TYR B 143 1555 1555 1.34 LINK C TYR B 143 N SEP B 144 1555 1555 1.34 LINK C SEP B 144 N PRO B 145 1555 1555 1.34 LINK C PRO B 148 N SEP B 149 1555 1555 1.34 LINK C SEP B 149 N TYR B 150 1555 1555 1.34 LINK C TYR B 150 N SEP B 151 1555 1555 1.34 LINK C SEP B 151 N PRO B 152 1555 1555 1.34 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