HEADER NUCLEAR PROTEIN 05-JAN-21 7DTI TITLE SOLUTION STRUCTURE OF THE COMPLEX BETWEEN RNA POLYMERASE SUBUNIT RPB6 TITLE 2 AND TFIIH P62 PH DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RNA POLYMERASES I,II,AND III SUBUNIT ABC2,DNA-DIRECTED RNA COMPND 5 POLYMERASE II SUBUNIT F,DNA-DIRECTED RNA POLYMERASES I,AND III 14.4 COMPND 6 KDA POLYPEPTIDE,RPABC14.4,RPB14.4,RPB6 HOMOLOG,RPC15; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: GENERAL TRANSCRIPTION FACTOR IIH SUBUNIT 1; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: POLR2F, POLRF; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: GTF2H1; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RNA POLYMERASE, GENERAL TRANSCRIPTION FACTOR, NUCLEAR PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.OKUDA,Y.NISHIMURA REVDAT 1 10-AUG-22 7DTI 0 JRNL AUTH M.OKUDA,T.SUWA,H.SUZUKI,Y.YAMAGUCHI,Y.NISHIMURA JRNL TITL THREE HUMAN RNA POLYMERASES INTERACT WITH TFIIH VIA A COMMON JRNL TITL 2 RPB6 SUBUNIT. JRNL REF NUCLEIC ACIDS RES. V. 50 1 2022 JRNL REFN ESSN 1362-4962 JRNL PMID 34268577 JRNL DOI 10.1093/NAR/GKAB612 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7DTI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-JAN-21. REMARK 100 THE DEPOSITION ID IS D_1300019928. 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 : 25 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.38 MM [U-100% 13C; U-100% 15N] REMARK 210 RPB6, 0.38 MM TFIIH P62, 90% H2O/ REMARK 210 10% D2O; 0.38 MM [U-100% 13C; U- REMARK 210 100% 15N] RPB6, 0.38 MM TFIIH REMARK 210 P62, 100% D2O; 0.38 MM [U-100% REMARK 210 13C; U-100% 15N] TFIIH P62, 0.38 REMARK 210 MM RPB6, 90% H2O/10% D2O; 0.38 REMARK 210 MM [U-100% 13C; U-100% 15N] REMARK 210 TFIIH P62, 0.38 MM RPB6, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-13C HSQC AROMATIC; 3D REMARK 210 CBCA(CO)NH; 3D CBCANH; 3D HNCO; REMARK 210 3D HN(CA)CO; 3D HNCA; 3D HN(CO) REMARK 210 CA; 3D HBHA(CO)NH; 3D HBHANH; 3D REMARK 210 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 950 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III HD REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRDRAW, NMRVIEW, X-PLOR NIH REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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 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 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 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 HA LEU B 96 HD12 LEU B 99 1.16 REMARK 500 HZ3 LYS B 38 OD2 ASP B 39 1.53 REMARK 500 OE1 GLU A 5 HZ3 LYS B 62 1.56 REMARK 500 OD2 ASP A 11 HG SER B 56 1.56 REMARK 500 OD2 ASP A 6 HZ1 LYS B 18 1.57 REMARK 500 HZ1 LYS B 93 OD1 ASP B 94 1.58 REMARK 500 OE1 GLU B 29 HZ3 LYS B 102 1.59 REMARK 500 O MET B 27 HH TYR B 47 1.59 REMARK 500 HH12 ARG B 105 OXT ASN B 108 1.60 REMARK 500 OD1 ASP A 3 HZ2 LYS B 19 1.60 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 ASP A 9 91.77 -165.17 REMARK 500 1 ASP A 11 125.66 -39.55 REMARK 500 1 ASP A 12 38.32 -64.65 REMARK 500 1 ASP A 19 75.91 -161.60 REMARK 500 1 LEU A 25 87.42 61.29 REMARK 500 1 ALA A 28 44.68 -90.64 REMARK 500 1 ARG A 44 83.33 30.37 REMARK 500 1 CYS A 76 36.64 81.45 REMARK 500 1 SER B 5 -32.81 -156.85 REMARK 500 1 LYS B 19 1.25 81.04 REMARK 500 1 GLU B 58 155.70 -41.41 REMARK 500 2 ASP A 9 90.65 -167.52 REMARK 500 2 ASP A 11 133.24 -39.65 REMARK 500 2 ASP A 12 38.00 -68.13 REMARK 500 2 ASP A 19 73.94 -174.16 REMARK 500 2 ARG A 44 84.71 34.19 REMARK 500 2 ASN A 48 39.23 -144.42 REMARK 500 2 THR A 58 -159.31 -86.54 REMARK 500 2 CYS A 76 35.06 81.66 REMARK 500 2 LYS A 101 34.96 -96.91 REMARK 500 2 LYS B 106 -120.55 -119.08 REMARK 500 3 ASP A 3 25.41 -79.47 REMARK 500 3 ASP A 9 98.06 -166.76 REMARK 500 3 ASP A 11 129.98 -39.78 REMARK 500 3 ASP A 12 38.03 -71.36 REMARK 500 3 ASP A 19 75.53 -165.88 REMARK 500 3 GLU A 26 -87.14 -101.89 REMARK 500 3 ALA A 28 81.72 66.40 REMARK 500 3 GLU A 30 -164.19 -104.97 REMARK 500 3 GLN A 33 87.98 -67.90 REMARK 500 3 ARG A 44 84.12 39.80 REMARK 500 3 THR A 58 -151.78 -89.06 REMARK 500 3 CYS A 76 28.93 82.05 REMARK 500 3 ALA B 2 -148.25 59.31 REMARK 500 3 LYS B 106 -164.43 -161.25 REMARK 500 4 ASP A 9 92.06 -164.83 REMARK 500 4 ASP A 12 37.99 -69.55 REMARK 500 4 ASP A 19 77.32 -173.28 REMARK 500 4 LEU A 22 73.02 -107.90 REMARK 500 4 ALA A 28 84.03 66.65 REMARK 500 4 ARG A 44 84.34 32.08 REMARK 500 4 ASN A 48 36.04 -142.09 REMARK 500 4 THR A 53 -165.18 -107.05 REMARK 500 4 CYS A 76 36.70 80.77 REMARK 500 4 LYS B 106 41.85 -104.45 REMARK 500 5 ASP A 9 94.63 -170.57 REMARK 500 5 ASP A 12 39.69 -74.12 REMARK 500 5 ASP A 19 74.51 -175.15 REMARK 500 5 ALA A 28 91.75 -163.88 REMARK 500 5 ARG A 44 83.84 41.57 REMARK 500 REMARK 500 THIS ENTRY HAS 250 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36406 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF THE COMPLEX BETWEEN RNA POLYMERASE SUBUNIT REMARK 900 RPB6 AND TFIIH P62 PH DOMAIN DBREF 7DTI A 1 127 UNP P61218 RPAB2_HUMAN 1 127 DBREF1 7DTI B 1 108 UNP A0A2K6V299_SAIBB DBREF2 7DTI B A0A2K6V299 8 115 SEQADV 7DTI GLY A -2 UNP P61218 EXPRESSION TAG SEQADV 7DTI SER A -1 UNP P61218 EXPRESSION TAG SEQADV 7DTI HIS A 0 UNP P61218 EXPRESSION TAG SEQADV 7DTI GLY B -2 UNP A0A2K6V29 EXPRESSION TAG SEQADV 7DTI SER B -1 UNP A0A2K6V29 EXPRESSION TAG SEQADV 7DTI HIS B 0 UNP A0A2K6V29 EXPRESSION TAG SEQRES 1 A 130 GLY SER HIS MET SER ASP ASN GLU ASP ASN PHE ASP GLY SEQRES 2 A 130 ASP ASP PHE ASP ASP VAL GLU GLU ASP GLU GLY LEU ASP SEQRES 3 A 130 ASP LEU GLU ASN ALA GLU GLU GLU GLY GLN GLU ASN VAL SEQRES 4 A 130 GLU ILE LEU PRO SER GLY GLU ARG PRO GLN ALA ASN GLN SEQRES 5 A 130 LYS ARG ILE THR THR PRO TYR MET THR LYS TYR GLU ARG SEQRES 6 A 130 ALA ARG VAL LEU GLY THR ARG ALA LEU GLN ILE ALA MET SEQRES 7 A 130 CYS ALA PRO VAL MET VAL GLU LEU GLU GLY GLU THR ASP SEQRES 8 A 130 PRO LEU LEU ILE ALA MET LYS GLU LEU LYS ALA ARG LYS SEQRES 9 A 130 ILE PRO ILE ILE ILE ARG ARG TYR LEU PRO ASP GLY SER SEQRES 10 A 130 TYR GLU ASP TRP GLY VAL ASP GLU LEU ILE ILE THR ASP SEQRES 1 B 111 GLY SER HIS MET ALA THR SER SER GLU GLU VAL LEU LEU SEQRES 2 B 111 ILE VAL LYS LYS VAL ARG GLN LYS LYS GLN ASP GLY ALA SEQRES 3 B 111 LEU TYR LEU MET ALA GLU ARG ILE ALA TRP ALA PRO GLU SEQRES 4 B 111 GLY LYS ASP ARG PHE THR ILE SER HIS MET TYR ALA ASP SEQRES 5 B 111 ILE LYS CYS GLN LYS ILE SER PRO GLU GLY LYS ALA LYS SEQRES 6 B 111 ILE GLN LEU GLN LEU VAL LEU HIS ALA GLY ASP THR THR SEQRES 7 B 111 ASN PHE HIS PHE SER ASN GLU SER THR ALA VAL LYS GLU SEQRES 8 B 111 ARG ASP ALA VAL LYS ASP LEU LEU GLN GLN LEU LEU PRO SEQRES 9 B 111 LYS PHE LYS ARG LYS ALA ASN HELIX 1 AA1 SER A 2 ASN A 7 5 6 HELIX 2 AA2 THR A 58 ALA A 74 1 17 HELIX 3 AA3 ASP A 88 ALA A 99 1 12 HELIX 4 AA4 ASP A 121 LEU A 123 5 3 HELIX 5 AA5 THR B 84 PHE B 103 1 20 SHEET 1 AA1 8 ASP A 14 VAL A 16 0 SHEET 2 AA1 8 ILE B 50 SER B 56 -1 O ILE B 55 N ASP A 14 SHEET 3 AA1 8 ILE B 63 LEU B 69 -1 O GLN B 66 N LYS B 54 SHEET 4 AA1 8 ASN B 76 PHE B 79 -1 O PHE B 77 N LEU B 65 SHEET 5 AA1 8 VAL B 8 GLN B 17 -1 N ARG B 16 O HIS B 78 SHEET 6 AA1 8 GLN B 20 MET B 27 -1 O LEU B 24 N VAL B 12 SHEET 7 AA1 8 ARG B 30 PRO B 35 -1 O ALA B 34 N ALA B 23 SHEET 8 AA1 8 ILE B 43 MET B 46 -1 O HIS B 45 N ILE B 31 SHEET 1 AA2 3 GLU A 37 LEU A 39 0 SHEET 2 AA2 3 ILE A 105 TYR A 109 -1 O ILE A 105 N LEU A 39 SHEET 3 AA2 3 TYR A 115 GLY A 119 -1 O TRP A 118 N ILE A 106 SHEET 1 AA3 2 TYR A 56 MET A 57 0 SHEET 2 AA3 2 ILE A 124 ILE A 125 1 O ILE A 124 N MET A 57 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