HEADER TRANSCRIPTION 14-SEP-16 5LVF TITLE SOLUTION STRUCTURE OF RTT103 CTD-INTERACTING DOMAIN BOUND TO A THR4 TITLE 2 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: PRO-SER-TYR-SER-PRO-PTH-SER-PRO-SER-TYR-SER-PRO-THR-SER- COMPND 7 PRO-SER; COMPND 8 CHAIN: B; COMPND 9 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: RTT103, YDR289C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 12 ORGANISM_TAXID: 4932 KEYWDS TRANSCRIPTION, CTD-INTERACTING DOMAIN, RNAPII CTD EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR O.JASNOVIDOVA,K.KUBICEK,M.KREJCIKOVA,R.STEFL REVDAT 5 30-OCT-19 5LVF 1 REMARK REVDAT 4 08-MAY-19 5LVF 1 REMARK REVDAT 3 14-JUN-17 5LVF 1 JRNL REVDAT 2 17-MAY-17 5LVF 1 JRNL REVDAT 1 10-MAY-17 5LVF 0 JRNL AUTH O.JASNOVIDOVA,M.KREJCIKOVA,K.KUBICEK,R.STEFL JRNL TITL STRUCTURAL INSIGHT INTO RECOGNITION OF PHOSPHORYLATED JRNL TITL 2 THREONINE-4 OF RNA POLYMERASE II C-TERMINAL DOMAIN BY JRNL TITL 3 RTT103P. JRNL REF EMBO REP. V. 18 906 2017 JRNL REFN ESSN 1469-3178 JRNL PMID 28468956 JRNL DOI 10.15252/EMBR.201643723 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 5LVF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1200001370. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 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] RTT103 CID, REMARK 210 1.2 MM PTHR4-CTD, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 3D 1H-13C NOESY AROMATIC; REMARK 210 4D HCCH TOCSY; 3D HNCA; F1-13C/ REMARK 210 15N-FILTERED NOESY-[13C,1H]-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 950 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, CYANA 3.97, TOPSPIN 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 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 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 HG SER B 156 O SER B 158 1.45 REMARK 500 HG SER A 4 OE2 GLU A 6 1.46 REMARK 500 OE1 GLU A 16 HG SER A 18 1.50 REMARK 500 OE1 GLU A 20 HG SER A 24 1.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 3 PRO B 143 CA - N - CD ANGL. DEV. = -9.5 DEGREES REMARK 500 4 PRO B 143 CA - N - CD ANGL. DEV. = -9.5 DEGREES REMARK 500 7 PRO B 143 CA - N - CD ANGL. DEV. = -9.5 DEGREES REMARK 500 8 PRO B 143 CA - N - CD ANGL. DEV. = -9.1 DEGREES REMARK 500 9 PRO B 143 CA - N - CD ANGL. DEV. = -9.4 DEGREES REMARK 500 10 PRO B 143 CA - N - CD ANGL. DEV. = -9.9 DEGREES REMARK 500 11 PRO B 143 CA - N - CD ANGL. DEV. = -9.5 DEGREES REMARK 500 12 PRO B 143 CA - N - CD ANGL. DEV. = -10.0 DEGREES REMARK 500 13 PRO B 143 CA - N - CD ANGL. DEV. = -9.7 DEGREES REMARK 500 14 PRO B 143 CA - N - CD ANGL. DEV. = -9.8 DEGREES REMARK 500 19 PRO B 143 CA - N - CD ANGL. DEV. = -10.0 DEGREES REMARK 500 20 PRO B 143 CA - N - CD ANGL. DEV. = -9.9 DEGREES 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 PHE A 3 18.49 50.18 REMARK 500 1 SER A 5 42.24 -79.15 REMARK 500 1 GLU A 6 -24.47 -157.88 REMARK 500 1 ASP A 17 34.13 -76.63 REMARK 500 1 GLN A 32 57.70 -100.63 REMARK 500 1 GLU A 89 -73.01 -60.64 REMARK 500 1 SER B 144 5.43 -169.72 REMARK 500 1 SER B 149 142.35 60.56 REMARK 500 2 ALA A 2 11.09 57.91 REMARK 500 2 SER A 4 9.02 -68.16 REMARK 500 2 GLU A 6 -34.07 -162.21 REMARK 500 2 GLN A 7 -72.38 -50.39 REMARK 500 2 GLN A 32 57.99 -96.17 REMARK 500 2 ILE A 76 77.93 -104.95 REMARK 500 2 GLU A 89 -72.64 -59.19 REMARK 500 2 HIS A 141 26.83 -144.89 REMARK 500 2 PRO B 147 -176.88 -67.77 REMARK 500 3 PHE A 3 23.14 45.04 REMARK 500 3 GLU A 6 -29.94 -163.18 REMARK 500 3 GLN A 32 56.28 -98.87 REMARK 500 3 GLU A 89 -70.62 -60.66 REMARK 500 3 HIS A 140 41.70 -145.66 REMARK 500 3 PRO B 150 2.25 -69.20 REMARK 500 4 PHE A 3 14.56 -156.20 REMARK 500 4 SER A 5 49.39 -73.96 REMARK 500 4 GLU A 6 -29.88 -157.73 REMARK 500 4 ASP A 17 27.74 -74.64 REMARK 500 4 GLN A 32 54.06 -96.43 REMARK 500 4 GLU A 89 -70.39 -61.21 REMARK 500 4 GLU A 136 145.98 60.60 REMARK 500 4 HIS A 137 -40.84 -159.31 REMARK 500 4 TPO B 148 -71.92 -107.96 REMARK 500 4 SER B 149 149.93 62.06 REMARK 500 5 PHE A 3 25.47 49.25 REMARK 500 5 GLU A 6 -30.97 -160.36 REMARK 500 5 ASP A 17 40.04 -75.92 REMARK 500 5 GLN A 32 54.10 -99.73 REMARK 500 5 ASP A 81 -75.06 -65.40 REMARK 500 5 GLU A 89 -71.70 -60.53 REMARK 500 5 HIS A 139 24.06 -77.22 REMARK 500 5 HIS A 141 25.25 -150.40 REMARK 500 5 SER B 146 134.39 65.01 REMARK 500 5 THR B 155 12.97 -142.05 REMARK 500 5 SER B 156 -163.40 -164.12 REMARK 500 5 PRO B 157 -3.87 -57.25 REMARK 500 6 PHE A 3 16.91 53.83 REMARK 500 6 SER A 4 -23.05 -158.79 REMARK 500 6 SER A 5 39.24 -163.24 REMARK 500 6 GLU A 6 -29.12 -169.37 REMARK 500 6 THR A 14 15.83 -140.49 REMARK 500 REMARK 500 THIS ENTRY HAS 181 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34041 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF RTT103 CTD-INTERACTING DOMAIN BOUND TO A THR4 REMARK 900 PHOSPHORYLATED CTD PEPTIDE DBREF 5LVF A 3 131 UNP Q05543 RT103_YEAST 3 131 DBREF 5LVF B 143 158 PDB 5LVF 5LVF 143 158 SEQADV 5LVF MET A 1 UNP Q05543 INITIATING METHIONINE SEQADV 5LVF ALA A 2 UNP Q05543 EXPRESSION TAG SEQADV 5LVF ALA A 132 UNP Q05543 EXPRESSION TAG SEQADV 5LVF ALA A 133 UNP Q05543 EXPRESSION TAG SEQADV 5LVF ALA A 134 UNP Q05543 EXPRESSION TAG SEQADV 5LVF LEU A 135 UNP Q05543 EXPRESSION TAG SEQADV 5LVF GLU A 136 UNP Q05543 EXPRESSION TAG SEQADV 5LVF HIS A 137 UNP Q05543 EXPRESSION TAG SEQADV 5LVF HIS A 138 UNP Q05543 EXPRESSION TAG SEQADV 5LVF HIS A 139 UNP Q05543 EXPRESSION TAG SEQADV 5LVF HIS A 140 UNP Q05543 EXPRESSION TAG SEQADV 5LVF HIS A 141 UNP Q05543 EXPRESSION TAG SEQADV 5LVF 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 PRO SER TYR SER PRO TPO SER PRO SER TYR SER PRO THR SEQRES 2 B 16 SER PRO SER HET TPO B 148 17 HETNAM TPO PHOSPHOTHREONINE HETSYN TPO PHOSPHONOTHREONINE FORMUL 2 TPO C4 H10 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 ASN A 117 1 19 HELIX 7 AA7 SER A 120 ALA A 134 1 15 LINK C PRO B 147 N TPO B 148 1555 1555 1.34 LINK C TPO B 148 N SER B 149 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