HEADER GENE REGULATION 24-FEB-19 6QTC TITLE TSH2 DOMAIN OF TRANSCRIPTION ELONGATION FACTOR SPT6 COMPLEXED WITH TITLE 2 TYROSINE PHOSPHORYLATED CTD COMPND MOL_ID: 1; COMPND 2 MOLECULE: TSH2 DOMAIN OF TRANSCRIPTION ELONGATION FACTOR SPT6; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: TYROSINE PHOSPHORYLATED CTD; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CANDIDA GLABRATA; SOURCE 3 ORGANISM_TAXID: 5478; SOURCE 4 VARIANT: WT; SOURCE 5 ATCC: 2001; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-28B; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: CANDIDA GLABRATA; SOURCE 13 ORGANISM_TAXID: 5478 KEYWDS CTD, ELONGATION FACTOR, RNA POLYMERASE II, TANDEM SH2 DOMAIN, GENE KEYWDS 2 REGULATION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR P.BRAZDA,M.KREJCIKOVA,E.SMIRAKOVA,K.KUBICEK,R.STEFL REVDAT 3 15-NOV-23 6QTC 1 REMARK REVDAT 2 14-JUN-23 6QTC 1 REMARK REVDAT 1 15-JUL-20 6QTC 0 JRNL AUTH P.BRAZDA,M.KREJCIKOVA,A.KASILIAUSKAITE,E.SMIRAKOVA, JRNL AUTH 2 T.KLUMPLER,R.VACHA,K.KUBICEK,R.STEFL JRNL TITL TSH2 DOMAIN OF TRANSCRIPTION ELONGATION FACTOR SPT6 JRNL TITL 2 COMPLEXED WITH TYROSINE PHOSPHORYLATED CTD JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SPARKY 3.115, AMBER 16 REMARK 3 AUTHORS : GODDARD (SPARKY), CASE, DARDEN, CHEATHAM III, REMARK 3 SIMMERLING, WANG, DUKE, LUO, ... AND KOLLMAN REMARK 3 (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NMR REFINEMENT REMARK 4 REMARK 4 6QTC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-FEB-19. REMARK 100 THE DEPOSITION ID IS D_1292100349. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 10 REMARK 210 PRESSURE : 1 PA REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-99% 15N] SPT6, 90% REMARK 210 H2O/10% D2O; 0.5 MM [U-99% 13C; REMARK 210 U-99% 15N] SPT6, 90% H2O/10% D2O; REMARK 210 0.5 MM SPT6, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCA; 3D HN(CO)CA; 3D REMARK 210 CBCA(CO)NH; 3D HNCACB; 3D HCCH- REMARK 210 TOCSY; 3D 1H-13C NOESY ALIPHATIC; REMARK 210 3D 1H-15N NOESY 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 : CYANA 3.97-3.98.5, TOPSPIN 3.5 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 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: 1880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 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 SER A 0 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 75 HG1 THR A 163 1.44 REMARK 500 OE2 GLU A 75 HH TYR A 89 1.53 REMARK 500 OE1 GLU A 99 HG1 THR A 176 1.54 REMARK 500 HG SER A 34 OD2 ASP A 56 1.54 REMARK 500 OD1 ASP A 56 HO3P PTR B 198 1.55 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 1 PRO B 196 CA - N - CD ANGL. DEV. = -10.3 DEGREES REMARK 500 2 PRO B 196 CA - N - CD ANGL. DEV. = -10.2 DEGREES REMARK 500 3 PRO B 196 CA - N - CD ANGL. DEV. = -10.0 DEGREES REMARK 500 4 PRO B 196 CA - N - CD ANGL. DEV. = -9.7 DEGREES REMARK 500 5 PRO B 196 CA - N - CD ANGL. DEV. = -9.8 DEGREES REMARK 500 7 TYR A 9 CB - CG - CD2 ANGL. DEV. = -3.8 DEGREES REMARK 500 7 TYR A 9 CB - CG - CD1 ANGL. DEV. = 3.7 DEGREES REMARK 500 7 PRO B 196 CA - N - CD ANGL. DEV. = -9.6 DEGREES REMARK 500 8 PRO B 196 CA - N - CD ANGL. DEV. = -9.5 DEGREES REMARK 500 9 PRO B 196 CA - N - CD ANGL. DEV. = -9.6 DEGREES REMARK 500 11 PRO B 196 CA - N - CD ANGL. DEV. = -8.9 DEGREES REMARK 500 12 PRO B 196 CA - N - CD ANGL. DEV. = -9.9 DEGREES REMARK 500 13 PRO B 196 CA - N - CD ANGL. DEV. = -9.7 DEGREES REMARK 500 14 PRO B 196 CA - N - CD ANGL. DEV. = -9.3 DEGREES REMARK 500 15 PRO B 196 CA - N - CD ANGL. DEV. = -9.7 DEGREES REMARK 500 16 PRO B 196 CA - N - CD ANGL. DEV. = -9.6 DEGREES REMARK 500 17 PRO B 196 CA - N - CD ANGL. DEV. = -9.9 DEGREES REMARK 500 18 PRO B 196 CA - N - CD ANGL. DEV. = -9.2 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 ARG A 2 15.49 -58.95 REMARK 500 1 LYS A 24 -135.31 -107.85 REMARK 500 1 ARG A 36 22.03 -142.26 REMARK 500 1 GLU A 75 27.91 48.96 REMARK 500 1 ALA A 108 -170.67 -69.56 REMARK 500 1 PRO A 126 9.45 -69.80 REMARK 500 1 ASN A 150 -173.04 -175.31 REMARK 500 1 LYS A 154 -171.72 -67.87 REMARK 500 1 VAL A 170 -60.49 58.45 REMARK 500 1 ASN A 171 1.07 -162.98 REMARK 500 1 SER B 197 -16.92 60.40 REMARK 500 1 PTR B 198 59.84 -142.83 REMARK 500 1 SER B 199 84.41 -159.15 REMARK 500 1 THR B 201 126.81 -170.06 REMARK 500 1 SER B 202 100.12 -169.14 REMARK 500 1 SER B 206 74.51 55.08 REMARK 500 1 THR B 208 26.51 44.35 REMARK 500 1 PRO B 210 11.09 -61.45 REMARK 500 2 LYS A 24 -172.60 -56.88 REMARK 500 2 SER A 35 15.99 58.19 REMARK 500 2 ASP A 39 14.24 59.22 REMARK 500 2 LYS A 49 10.45 -65.53 REMARK 500 2 ASP A 50 17.93 -148.31 REMARK 500 2 GLU A 75 29.40 48.82 REMARK 500 2 ALA A 108 -157.99 -70.53 REMARK 500 2 VAL A 170 -77.24 56.88 REMARK 500 2 ASN A 171 12.69 -152.09 REMARK 500 3 LYS A 24 -138.59 -93.82 REMARK 500 3 LEU A 66 -5.46 59.21 REMARK 500 3 ALA A 108 -73.43 -49.35 REMARK 500 3 PRO A 126 11.33 -69.49 REMARK 500 3 ASN A 139 80.08 -160.08 REMARK 500 3 ASN A 150 -171.22 -175.58 REMARK 500 3 LYS A 154 -171.59 -66.05 REMARK 500 3 VAL A 170 -69.03 60.12 REMARK 500 3 ASN A 171 9.38 -162.67 REMARK 500 3 PRO A 175 1.36 -68.31 REMARK 500 3 SER B 199 42.04 -160.75 REMARK 500 3 PRO B 203 -172.54 -69.65 REMARK 500 3 SER B 204 -95.60 -66.88 REMARK 500 3 PRO B 210 45.13 -75.94 REMARK 500 4 LYS A 24 -126.18 -88.49 REMARK 500 4 ARG A 26 16.09 -67.67 REMARK 500 4 SER A 35 19.73 56.20 REMARK 500 4 ASP A 50 28.02 -148.79 REMARK 500 4 ALA A 108 -168.47 -72.88 REMARK 500 4 ASN A 139 66.49 -150.91 REMARK 500 4 PRO A 140 -8.56 -58.51 REMARK 500 4 LYS A 154 -177.31 -63.51 REMARK 500 4 THR A 163 5.23 -154.91 REMARK 500 REMARK 500 THIS ENTRY HAS 279 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 7 TYR A 9 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34362 RELATED DB: BMRB REMARK 900 TSH2 DOMAIN OF TRANSCRIPTION ELONGATION FACTOR SPT6 COMPLEXED WITH REMARK 900 TYROSINE PHOSPHORYLATED CTD DBREF 6QTC A 0 195 UNP Q6FLB1 SPT6_CANGA 1249 1444 DBREF 6QTC B 196 211 PDB 6QTC 6QTC 196 211 SEQADV 6QTC SER A 0 UNP Q6FLB1 THR 1249 CONFLICT SEQRES 1 A 196 SER HIS ARG VAL ILE ASN HIS PRO TYR TYR PHE PRO PHE SEQRES 2 A 196 ASN GLY LYS GLN ALA GLU ASP TYR LEU ARG SER LYS GLU SEQRES 3 A 196 ARG GLY ASP PHE VAL ILE ARG GLN SER SER ARG GLY ASP SEQRES 4 A 196 ASP HIS LEU ALA ILE THR TRP LYS LEU ASP LYS ASP LEU SEQRES 5 A 196 PHE GLN HIS VAL ASP ILE GLN GLU LEU GLU LYS GLU ASN SEQRES 6 A 196 PRO LEU ALA LEU GLY LYS VAL LEU VAL VAL GLU GLY GLN SEQRES 7 A 196 ARG TYR HIS ASP LEU ASP GLN ILE ILE VAL GLU TYR LEU SEQRES 8 A 196 GLN ASN LYS ILE ARG LEU LEU ASN GLU LEU THR SER ASN SEQRES 9 A 196 GLU LYS PHE LYS ALA GLY THR LYS LYS GLU VAL VAL LYS SEQRES 10 A 196 PHE ILE GLU ASP TYR SER LYS VAL ASN PRO LYS LYS SER SEQRES 11 A 196 VAL TYR TYR PHE SER LEU ASN TYR GLU ASN PRO GLY TRP SEQRES 12 A 196 PHE TYR LEU ILE PHE LYS LEU ASN ALA GLU SER LYS LEU SEQRES 13 A 196 TYR ILE TRP ASN VAL LYS LEU THR HIS THR GLY PHE PHE SEQRES 14 A 196 LEU VAL ASN TYR ASN TYR PRO THR VAL ILE GLN LEU CYS SEQRES 15 A 196 ASN GLY PHE LYS THR LEU LEU LYS SER SER ASN THR ARG SEQRES 16 A 196 ASN SEQRES 1 B 16 PRO SER PTR SER PRO THR SER PRO SER PTR SER PRO THR SEQRES 2 B 16 SER PRO SER HET PTR B 198 25 HET PTR B 205 25 HETNAM PTR O-PHOSPHOTYROSINE HETSYN PTR PHOSPHONOTYROSINE FORMUL 2 PTR 2(C9 H12 N O6 P) HELIX 1 AA1 ASN A 13 ARG A 22 1 10 HELIX 2 AA2 ASP A 81 SER A 102 1 22 HELIX 3 AA3 THR A 110 VAL A 124 1 15 HELIX 4 AA4 THR A 176 THR A 193 1 18 SHEET 1 AA1 3 ASP A 28 GLN A 33 0 SHEET 2 AA1 3 HIS A 40 ASP A 48 -1 O ALA A 42 N ARG A 32 SHEET 3 AA1 3 LEU A 51 GLN A 58 -1 O ILE A 57 N LEU A 41 SHEET 1 AA2 2 LEU A 72 VAL A 74 0 SHEET 2 AA2 2 GLN A 77 TYR A 79 -1 O TYR A 79 N LEU A 72 SHEET 1 AA3 5 VAL A 130 LEU A 135 0 SHEET 2 AA3 5 TRP A 142 LYS A 148 -1 O LYS A 148 N VAL A 130 SHEET 3 AA3 5 TYR A 156 THR A 163 -1 O TYR A 156 N PHE A 147 SHEET 4 AA3 5 GLY A 166 LEU A 169 -1 O PHE A 168 N LYS A 161 SHEET 5 AA3 5 TYR A 172 TYR A 174 -1 O TYR A 174 N PHE A 167 LINK C SER B 197 N PTR B 198 1555 1555 1.34 LINK C PTR B 198 N SER B 199 1555 1555 1.34 LINK C SER B 204 N PTR B 205 1555 1555 1.34 LINK C PTR B 205 N SER B 206 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