PDBsum entry 8s52

Transcription

PDB id: 8s52

Contents

Protein chains

1420 a.a.

1130 a.a.

257 a.a.

128 a.a.

209 a.a.

79 a.a.

171 a.a.

148 a.a.

114 a.a.

64 a.a.

115 a.a.

44 a.a.

289 a.a.

179 a.a.

138 a.a.

222 a.a.

113 a.a.

99 a.a.

187 a.a.

171 a.a.

DNA/RNA

Metals

_ZN ×10

_MG

PDB id:

8s52

Name:

Transcription

Title:

RNA polymerase ii core initially transcribing complex with an ordered RNA of 10 nt

Structure:

DNA-directed RNA polymerase subunit. Chain: a. DNA-directed RNA polymerase subunit beta. Chain: b. DNA-directed RNA polymerase ii subunit rpb3. Chain: c. RNA polymerase ii subunit d. Chain: d. DNA-directed RNA polymerase ii subunit e.

Source:

Sus scrofa. Pig. Organism_taxid: 9823. Homo sapiens. Human. Organism_taxid: 9606. Gene: gtf2b, tf2b, tfiib. Expressed in: escherichia coli. Expression_system_taxid: 562.

Authors:

Y.Zhan,F.Grabbe,E.Oberbeckmann,C.Dienemann,P.Cramer

Key ref:

Y.Zhan et al. Three-Step mechanism of promoter escape by RNA polyme ii.. Mol cell, . PubMed id: 38604172

Date:

22-Feb-24 Release date: 17-Apr-24

Protein chain

A0A7M4DUC2  (A0A7M4DUC2_PIG) -  DNA-directed RNA polymerase subunit from Sus scrofa

Seq: 1984 a.a.

Struc: 1420 a.a.

Protein chain

I3LGP4  (I3LGP4_PIG) -  DNA-directed RNA polymerase subunit beta from Sus scrofa

Seq: 1300 a.a.

Struc: 1130 a.a.

Protein chain

I3LCH3  (I3LCH3_PIG) -  DNA-directed RNA polymerase II subunit RPB3 from Sus scrofa

Seq: 275 a.a.

Struc: 257 a.a.

Protein chain

A0A287ADR4  (A0A287ADR4_PIG) -  RNA polymerase II subunit D from Sus scrofa

Seq: 184 a.a.

Struc: 128 a.a.

Protein chain

I3LSI7  (I3LSI7_PIG) -  DNA-directed RNA polymerase II subunit E from Sus scrofa

Seq: 210 a.a.

Struc: 209 a.a.

Protein chain

A0A4X1VEK9  (A0A4X1VEK9_PIG) -  DNA-directed RNA polymerases I, II, and III subunit RPABC2 from Sus scrofa

Seq: 127 a.a.

Struc: 79 a.a.

Protein chain

A0A4X1VKG7  (A0A4X1VKG7_PIG) -  DNA-directed RNA polymerase subunit from Sus scrofa

Seq: 172 a.a.

Struc: 171 a.a.

Protein chain

I3LCB2  (I3LCB2_PIG) -  DNA-directed RNA polymerases I, II, and III subunit RPABC3 from Sus scrofa

Seq: 150 a.a.

Struc: 148 a.a.

Protein chain

P60899  (RPB9_PIG) -  DNA-directed RNA polymerase II subunit RPB9 from Sus scrofa

Seq: 125 a.a.

Struc: 114 a.a.

Protein chain

A0A8W4F9W9  (A0A8W4F9W9_PIG) -  DNA-directed RNA polymerases I, II, and III subunit RPABC5 from Sus scrofa

Seq: 67 a.a.

Struc: 64 a.a.

Protein chain

F1RKE4  (F1RKE4_PIG) -  DNA-directed RNA polymerase II subunit RPB11-a from Sus scrofa

Seq: 117 a.a.

Struc: 115 a.a.

Protein chain

A0A4X1TRS6  (A0A4X1TRS6_PIG) -  RNA polymerase II, I and III subunit K from Sus scrofa

Seq: 58 a.a.

Struc: 44 a.a.

Protein chain

Q00403  (TF2B_HUMAN) -  Transcription initiation factor IIB from Homo sapiens

Seq: 316 a.a.

Struc: 289 a.a.

Protein chain

P20226  (TBP_HUMAN) -  TATA-box-binding protein from Homo sapiens

Seq: 339 a.a.

Struc: 179 a.a.

Protein chain

P35269  (T2FA_HUMAN) -  General transcription factor IIF subunit 1 from Homo sapiens

Seq: 517 a.a.

Struc: 138 a.a.

Protein chain

P13984  (T2FB_HUMAN) -  General transcription factor IIF subunit 2 from Homo sapiens

Seq: 249 a.a.

Struc: 222 a.a.

Protein chain

P52655  (TF2AA_HUMAN) -  Transcription initiation factor IIA subunit 1 from Homo sapiens

Seq: 376 a.a.

Struc: 113 a.a.*

Protein chain

P52657  (T2AG_HUMAN) -  Transcription initiation factor IIA subunit 2 from Homo sapiens

Seq: 109 a.a.

Struc: 99 a.a.

Protein chain

P29083  (T2EA_HUMAN) -  General transcription factor IIE subunit 1 from Homo sapiens

Seq: 439 a.a.

Struc: 187 a.a.

Protein chain

P29084  (T2EB_HUMAN) -  Transcription initiation factor IIE subunit beta from Homo sapiens

Seq: 291 a.a.

Struc: 171 a.a.

* PDB and UniProt seqs differ at 40 residue positions (black crosses)

DNA/RNA chains

G-A-A-G-G-G-G-G-G-C-T-A-T-A-A-A-A-G-G-G-G-G-T-G-G-G-G-G-C-G-G-C-A-A-T-T-T-T-G- 53 bases

A-C-A-C-C-C-A-G-C-C 10 bases

C-T-G-G-C-C-C-T-C-G-C-T-G-T-C-A-A-A-A-T-T-G-C-G-G-C-T-G-G-G-T-G-T-G-C-G-C-C-C- 64 bases

Enzyme reactions

• Enzyme class 1: Chains A, B: E.C.2.7.7.6 - DNA-directed Rna polymerase.
• Reaction: RNA(n) + a ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate
• Enzyme class 2: Chain M: E.C.2.3.1.48 - histone acetyltransferase.
• Reaction: L-lysyl-[protein] + acetyl-CoA = N₆-acetyl-L-lysyl-[protein] + CoA + H⁺
• Enzyme class 3: Chain R: E.C.3.6.4.12 - Dna helicase.
• Reaction: ATP + H2O = ADP + phosphate + H⁺

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