HEADER NUCLEAR PROTEIN 15-DEC-25 21JG TITLE SOLUTION STRUCTURE OF THE COMPLEX BETWEEN FISSION YEAST RNA POLYMERASE TITLE 2 SUBUNIT RPB6 AND TFIIH TFB1 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 POLYMERASES I,AND III 15 KDA POLYPEPTIDE,RPC16; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: GENERAL TRANSCRIPTION AND DNA REPAIR FACTOR IIH SUBUNIT COMPND 9 TFB1; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: TFIIH SUBUNIT TFB1,RNA POLYMERASE II TRANSCRIPTION FACTOR B COMPND 12 73 KDA SUBUNIT,RNA POLYMERASE II TRANSCRIPTION FACTOR B P73 SUBUNIT, COMPND 13 RNA POLYMERASE II TRANSCRIPTION FACTOR B SUBUNIT 1; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE (STRAIN 972 / ATCC SOURCE 3 24843); SOURCE 4 ORGANISM_COMMON: FISSION YEAST; SOURCE 5 ORGANISM_TAXID: 284812; SOURCE 6 GENE: RPB6, RPO15, SPCC1020.04C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE (STRAIN 972 / ATCC SOURCE 11 24843); SOURCE 12 ORGANISM_COMMON: FISSION YEAST; SOURCE 13 ORGANISM_TAXID: 284812; SOURCE 14 GENE: TFB1, SPAC16E8.11C; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RNA POLYMERASE, GENERAL TRANSCRIPTION FACTOR, NUCLEAR PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.OKUDA,Y.NISHIMURA REVDAT 2 26-AUG-26 21JG 1 JRNL REVDAT 1 12-AUG-26 21JG 0 JRNL AUTH M.OKUDA,Y.YOSHIMURA,A.HAYASHI,J.I.NAKAYAMA,Y.NISHIMURA JRNL TITL EVOLUTIONARILY CONSERVED INTERACTIONS OF RNA POLYMERASES JRNL TITL 2 WITH TFIIH VIA A COMMON ACIDIC TAIL OF THE RPB6 SUBUNIT. JRNL REF J.MOL.BIOL. V. 438 69965 2026 JRNL REFN ESSN 1089-8638 JRNL PMID 42532406 JRNL DOI 10.1016/J.JMB.2026.169965 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 21JG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-DEC-25. REMARK 100 THE DEPOSITION ID IS D_1300067147. 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 : 25MM NACL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.4 MM [U-99% 13C; U-99% 15N] REMARK 210 RPB6, 0.8 MM TFB1, 91 % H2O, 9 % REMARK 210 [U-2H] D2O, 20 MM POTASSIUM REMARK 210 PHOSPHATE, 25 MM SODIUM CHLORIDE, REMARK 210 5 MM [U-2H] D-DTT, 91% H2O/9% REMARK 210 D2O; 0.4 MM [U-99% 13C; U-99% REMARK 210 15N] RPB6, 0.8 MM TFB1, 100 % [U- REMARK 210 2H] D2O, 20 MM POTASSIUM REMARK 210 PHOSPHATE, 25 MM SODIUM CHLORIDE, REMARK 210 5 MM [U-2H] D-DTT, 100% D2O; REMARK 210 0.4 MM [U-99% 13C; U-99% 15N] REMARK 210 TFB1, 0.8 MM RPB6, 91 % H2O, 9 % REMARK 210 [U-2H] D2O, 20 MM POTASSIUM REMARK 210 PHOSPHATE, 25 MM SODIUM CHLORIDE, REMARK 210 5 MM [U-2H] D-DTT, 91% H2O/9% REMARK 210 D2O; 0.4 MM [U-99% 13C; U-99% REMARK 210 15N] TFB1, 0.8 MM RPB6, 100 % [U- REMARK 210 2H] D2O, 20 MM POTASSIUM REMARK 210 PHOSPHATE, 25 MM SODIUM CHLORIDE, REMARK 210 5 MM [U-2H] D-DTT, 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 HNCACB; 3D CBCA(CO)NH; 3D HN(CO) REMARK 210 CA; 3D HNCO; 3D HN(CA)CO; 3D REMARK 210 HBHANH; 3D HBHA(CO)NH; 3D 1H-15N REMARK 210 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, MAGRO, NMRVIEW, TALOS REMARK 210 -N, 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA 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 -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 GLY B -3 REMARK 465 SER B -2 REMARK 465 HIS B -1 REMARK 465 MET 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 HG1 THR A 71 OE1 GLU A 134 1.54 REMARK 500 HE ARG A 125 OD1 ASP A 135 1.59 REMARK 500 HZ3 LYS A 66 OE2 GLU A 140 1.59 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 SEP A 2 -76.23 -153.27 REMARK 500 1 GLU A 5 -89.42 -136.23 REMARK 500 1 GLU A 6 -87.59 -155.05 REMARK 500 1 ALA A 9 14.11 158.91 REMARK 500 1 MET A 12 -99.06 59.00 REMARK 500 1 HIS A 39 70.10 53.41 REMARK 500 1 GLU A 50 86.66 54.30 REMARK 500 1 ASP B 21 -97.57 -122.38 REMARK 500 2 SEP A 2 -74.50 -147.87 REMARK 500 2 GLU A 5 -70.52 -134.70 REMARK 500 2 GLU A 6 -96.61 -165.65 REMARK 500 2 MET A 12 -89.26 54.46 REMARK 500 2 VAL A 21 77.02 62.30 REMARK 500 2 GLN A 32 93.09 -68.77 REMARK 500 2 HIS A 39 118.59 -166.11 REMARK 500 2 ALA A 53 -160.57 61.50 REMARK 500 2 GLN A 59 93.30 58.76 REMARK 500 2 ASP B 21 -91.35 -134.57 REMARK 500 3 TYR A 4 -86.24 57.31 REMARK 500 3 GLU A 5 29.13 -169.99 REMARK 500 3 GLU A 6 -47.46 70.77 REMARK 500 3 GLU A 8 -24.74 -142.92 REMARK 500 3 MET A 12 -86.86 65.06 REMARK 500 3 GLU A 50 -168.03 67.92 REMARK 500 3 SER A 55 96.83 -69.84 REMARK 500 3 ARG A 69 81.18 54.06 REMARK 500 3 PRO A 73 22.13 -73.21 REMARK 500 3 LYS B 13 -1.24 71.77 REMARK 500 3 ASP B 21 -92.18 -125.99 REMARK 500 3 ALA B 51 -37.37 69.91 REMARK 500 3 SER B 105 -62.42 71.34 REMARK 500 4 SEP A 2 -68.66 -143.78 REMARK 500 4 TYR A 4 -140.24 50.19 REMARK 500 4 GLU A 6 -73.23 72.07 REMARK 500 4 MET A 12 -88.86 56.47 REMARK 500 4 ILE A 27 118.22 72.23 REMARK 500 4 ASP A 28 94.65 -160.81 REMARK 500 4 GLU A 50 152.24 70.85 REMARK 500 4 ASP B 21 -89.34 -135.67 REMARK 500 4 PRO B 50 42.72 -71.66 REMARK 500 4 ALA B 51 -37.66 69.81 REMARK 500 4 SER B 52 41.14 -76.43 REMARK 500 4 THR B 78 108.95 -58.06 REMARK 500 4 SER B 105 179.93 67.85 REMARK 500 5 SEP A 2 -61.33 -127.04 REMARK 500 5 ASP A 3 112.35 -177.14 REMARK 500 5 ASP A 7 22.14 -148.14 REMARK 500 5 ALA A 9 35.69 -77.61 REMARK 500 5 MET A 12 87.14 58.26 REMARK 500 5 LEU A 24 -84.36 65.84 REMARK 500 REMARK 500 THIS ENTRY HAS 232 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36819 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF THE COMPLEX BETWEEN FISSION YEAST RNA REMARK 900 POLYMERASE SUBUNIT RPB6 AND TFIIH TFB1 PH DOMAIN DBREF 21JG A 1 142 UNP P36595 RPAB2_SCHPO 1 142 DBREF 21JG B 1 108 UNP O13745 TFB1_SCHPO 1 108 SEQADV 21JG GLY A -3 UNP P36595 EXPRESSION TAG SEQADV 21JG SER A -2 UNP P36595 EXPRESSION TAG SEQADV 21JG HIS A -1 UNP P36595 EXPRESSION TAG SEQADV 21JG MET A 0 UNP P36595 EXPRESSION TAG SEQADV 21JG GLY B -3 UNP O13745 EXPRESSION TAG SEQADV 21JG SER B -2 UNP O13745 EXPRESSION TAG SEQADV 21JG HIS B -1 UNP O13745 EXPRESSION TAG SEQADV 21JG MET B 0 UNP O13745 EXPRESSION TAG SEQRES 1 A 146 GLY SER HIS MET MET SEP ASP TYR GLU GLU ASP GLU ALA SEQRES 2 A 146 PHE GLY MET ASP GLY ALA VAL MET GLU GLU GLU VAL ASP SEQRES 3 A 146 GLU LEU GLU MET ILE ASP GLU ASN GLY GLN SER GLN GLN SEQRES 4 A 146 GLY VAL SER HIS PRO GLY GLU PRO SER THR THR VAL ILE SEQRES 5 A 146 THR GLU ASP VAL ALA SER SER LYS THR ALA GLN SER GLY SEQRES 6 A 146 LYS ALA VAL ALA LYS GLU ASP ARG THR THR THR PRO TYR SEQRES 7 A 146 MET THR LYS TYR GLU ARG ALA ARG ILE LEU GLY THR ARG SEQRES 8 A 146 ALA LEU GLN ILE SER MET ASN ALA PRO VAL LEU VAL ASP SEQRES 9 A 146 LEU GLU GLY GLU THR ASP PRO LEU GLN ILE ALA MET LYS SEQRES 10 A 146 GLU LEU ALA GLN LYS LYS ILE PRO LEU LEU VAL ARG ARG SEQRES 11 A 146 TYR LEU PRO ASP GLY SER TYR GLU ASP TRP SER VAL ALA SEQRES 12 A 146 GLU LEU ILE SEQRES 1 B 112 GLY SER HIS MET MET GLY ASP ARG VAL GLU ALA LEU ALA SEQRES 2 B 112 ILE PHE ARG LYS LYS GLN GLY VAL LEU SER ILE ASP SER SEQRES 3 B 112 ARG LEU LYS TRP THR GLY GLU GLY LYS THR THR PRO SER SEQRES 4 B 112 VAL ASP ILE ALA PHE ASP ALA ILE SER ASN LEU GLN THR SEQRES 5 B 112 THR PRO ALA SER ASN PRO LYS VAL MET ILE ARG VAL PHE SEQRES 6 B 112 ILE VAL VAL LYS GLU GLY GLU ASP PRO THR SER LEU VAL SEQRES 7 B 112 PHE HIS PHE THR GLY THR PRO ASN ALA ARG GLU ASN CYS SEQRES 8 B 112 ASP MET ILE THR ASN GLU LEU ARG ASN ALA ILE GLN ARG SEQRES 9 B 112 GLN ARG GLU GLY SER GLN SER LYS MODRES 21JG SEP A 2 SER MODIFIED RESIDUE HET SEP A 2 14 HETNAM SEP PHOSPHOSERINE HETSYN SEP PHOSPHONOSERINE FORMUL 1 SEP C3 H8 N O6 P HELIX 1 AA1 ALA A 65 ARG A 69 5 5 HELIX 2 AA2 THR A 76 MET A 93 1 18 HELIX 3 AA3 ASP A 106 GLN A 117 1 12 HELIX 4 AA4 ASN B 82 GLY B 104 1 23 SHEET 1 AA1 4 SER A 44 ILE A 48 0 SHEET 2 AA1 4 LEU A 123 LEU A 128 -1 O LEU A 123 N ILE A 48 SHEET 3 AA1 4 SER A 132 SER A 137 -1 O SER A 132 N LEU A 128 SHEET 4 AA1 4 LYS A 62 ALA A 63 1 N LYS A 62 O TYR A 133 SHEET 1 AA2 4 VAL B 5 ILE B 10 0 SHEET 2 AA2 4 GLN B 15 ILE B 20 -1 O LEU B 18 N ALA B 7 SHEET 3 AA2 4 ARG B 23 GLY B 28 -1 O LYS B 25 N SER B 19 SHEET 4 AA2 4 VAL B 36 ALA B 39 -1 O ILE B 38 N LEU B 24 SHEET 1 AA3 3 ILE B 43 THR B 48 0 SHEET 2 AA3 3 MET B 57 ILE B 62 -1 O PHE B 61 N ASN B 45 SHEET 3 AA3 3 THR B 71 HIS B 76 -1 O PHE B 75 N ILE B 58 LINK C MET A 1 N SEP A 2 1555 1555 1.31 LINK C SEP A 2 N ASP A 3 1555 1555 1.32 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 ENDMDL MODEL 2 ENDMDL MODEL 3 ENDMDL MODEL 4 ENDMDL MODEL 5 ENDMDL MODEL 6 ENDMDL MODEL 7 ENDMDL MODEL 8 ENDMDL MODEL 9 ENDMDL MODEL 10 ENDMDL MODEL 11 ENDMDL MODEL 12 ENDMDL MODEL 13 ENDMDL MODEL 14 ENDMDL MODEL 15 ENDMDL MODEL 16 ENDMDL MODEL 17 ENDMDL MODEL 18 ENDMDL MODEL 19 ENDMDL MODEL 20 ENDMDL CONECT 3 18 CONECT 18 3 19 28 CONECT 19 18 20 22 29 CONECT 20 19 21 30 31 CONECT 21 20 24 CONECT 22 19 23 32 CONECT 23 22 CONECT 24 21 25 26 27 CONECT 25 24 CONECT 26 24 CONECT 27 24 CONECT 28 18 CONECT 29 19 CONECT 30 20 CONECT 31 20 CONECT 32 22 MASTER 192 0 1 4 11 0 0 6 1945 2 16 21 END