PDBsum entry 7o4l

Transcription

PDB id: 7o4l

Contents

Protein chains

752 a.a.

521 a.a.

445 a.a.

131 a.a.

293 a.a.

65 a.a.

374 a.a.

607 a.a.

227 a.a.

81 a.a.

162 a.a.

55 a.a.

171 a.a.

311 a.a.

135 a.a.

DNA/RNA

Ligands

SF4

BEF

ADP

Metals

_ZN ×11

_MG

PDB id:

7o4l

Name:

Transcription

Title:

Yeast tfiih in the expanded state within the pre-initiation complex

Structure:

General transcription and DNA repair factor iih helicase subunit xpd. Chain: 0. Synonym: tfiih subunit xpd,DNA repair helicase rad3,RNA polymerase ii transcription factor b subunit rad3,tfb subunit rad3. Engineered: yes. General transcription and DNA repair factor iih subunit tfb1. Chain: 1.

Source:

Saccharomyces cerevisiae (strain atcc 204508 / s288c). Baker's yeast. Organism_taxid: 559292. Strain: atcc 204508 / s288c. Gene: rad3, rem1, yer171w. Expressed in: trichoplusia ni. Expression_system_taxid: 7111. Gene: tfb1, ydr311w, d9740.3.

Authors:

S.Schilbach,S.Aibara,C.Dienemann,F.Grabbe,P.Cramer

Key ref:

S.Schilbach et al. Structure of RNA polymerase ii pre-Initiation complex angstrom defines initial DNA opening. Cell(cambridge,Mass ), . PubMed id: 34133942

Date:

06-Apr-21 Release date: 16-Jun-21

Protein chain

P06839  (RAD3_YEAST) -  General transcription and DNA repair factor IIH helicase subunit XPD/RAD3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 778 a.a.

Struc: 752 a.a.

Protein chain

P32776  (TFB1_YEAST) -  General transcription and DNA repair factor IIH subunit TFB1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 642 a.a.

Struc: 521 a.a.

Protein chain

Q02939  (TFB2_YEAST) -  General transcription and DNA repair factor IIH subunit TFB2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 513 a.a.

Struc: 445 a.a.

Protein chain

Q03290  (TFB3_YEAST) -  RNA polymerase II transcription factor B subunit 3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 321 a.a.

Struc: 131 a.a.

Protein chain

Q12004  (TFB4_YEAST) -  General transcription and DNA repair factor IIH subunit TFB4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 338 a.a.

Struc: 293 a.a.

Protein chain

Q3E7C1  (TFB5_YEAST) -  General transcription and DNA repair factor IIH subunit TFB5 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 72 a.a.

Struc: 65 a.a.

Protein chain

Q04673  (SSL1_YEAST) -  General transcription and DNA repair factor IIH subunit SSL1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 461 a.a.

Struc: 374 a.a.

Protein chain

Q00578  (RAD25_YEAST) -  General transcription and DNA repair factor IIH helicase/translocase subunit XPB/SSL2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 843 a.a.

Struc: 607 a.a.

Protein chain

P04050  (RPB1_YEAST) -  DNA-directed RNA polymerase II subunit RPB1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 1733 a.a.

Struc: 227 a.a.*

Protein chain

P08518  (RPB2_YEAST) -  DNA-directed RNA polymerase II subunit RPB2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 1224 a.a.

Struc: 81 a.a.

Protein chain

P20433  (RPB4_YEAST) -  DNA-directed RNA polymerase II subunit RPB4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 221 a.a.

Struc: 162 a.a.

Protein chain

P20435  (RPAB2_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 155 a.a.

Struc: 55 a.a.*

Protein chain

P34087  (RPB7_YEAST) -  DNA-directed RNA polymerase II subunit RPB7 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 171 a.a.

Struc: 171 a.a.

Protein chain

P36100  (T2EA_YEAST) -  Transcription initiation factor IIE subunit alpha from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 482 a.a.

Struc: 311 a.a.*

Protein chain

P36145  (T2EB_YEAST) -  Transcription initiation factor IIE subunit beta from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 328 a.a.

Struc: 135 a.a.

* PDB and UniProt seqs differ at 65 residue positions (black crosses)

DNA/RNA chains

A-A-A-A-T-A-T-C-A-T 10 bases

A-T-G-A-T-A-T-T-T-T 10 bases

Enzyme reactions

• Enzyme class 1: Chain 0: E.C.5.6.2.3 - Dna 5'-3' helicase.
• Enzyme class 2: Chain 7: E.C.5.6.2.4 - Dna 3'-5' helicase.
• Enzyme class 3: Chains A, B: E.C.2.7.7.6 - DNA-directed Rna polymerase.
• Reaction: RNA(n) + a ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site