PDBsum entry 9fd2

Transcription

PDB id: 9fd2

Contents

Protein chains

1409 a.a.

1130 a.a.

260 a.a.

128 a.a.

209 a.a.

82 a.a.

171 a.a.

148 a.a.

117 a.a.

67 a.a.

115 a.a.

46 a.a.

64 a.a.

377 a.a.

814 a.a.

36 a.a.

220 a.a.

590 a.a.

249 a.a.

DNA/RNA

Metals

_MG

_ZN ×10

PDB id:

9fd2

Name:

Transcription

Title:

Structure of pol ii-tc-ner-stk19 complex

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. Synonym: RNA polymerase ii subunit c. RNA polymerase ii subunit d. Chain: d.

Source:

Sus scrofa domesticus. Domestic pig. Organism_taxid: 9825. Organ: thymus. Homo sapiens. Human. Organism_taxid: 9606. Gene: elof1. Expressed in: escherichia coli.

Authors:

S.-H.Lee,T.K.Sixma

Key ref:

A.R.Ramadhin et al. Stk19 drives transcription-Coupled repair by stimulat repair complex stability, Rna pol ii ubiquitylation, Tfiih recruitment.. Mol cell, . PubMed id: 39547223

Date:

16-May-24 Release date: 13-Nov-24

Protein chain

A0A8D1DPV6  (A0A8D1DPV6_PIG) -  DNA-directed RNA polymerase subunit from Sus scrofa

Seq: 1970 a.a.

Struc: 1409 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: 260 a.a.

Protein chain

A0A4X1VM56  (A0A4X1VM56_PIG) -  DNA-directed RNA polymerase II subunit RPB4 from Sus scrofa

Seq: 142 a.a.

Struc: 128 a.a.

Protein chain

I3LSI7  (I3LSI7_PIG) -  DNA-directed RNA polymerases I, II, and III subunit RPABC1 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: 82 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: 117 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: 67 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) -  DNA-directed RNA polymerases I, II, and III subunit RPABC4 from Sus scrofa

Seq: 58 a.a.

Struc: 46 a.a.

Protein chain

P60002  (ELOF1_HUMAN) -  Transcription elongation factor 1 homolog from Homo sapiens

Seq: 83 a.a.

Struc: 64 a.a.

Protein chain

Q13216  (ERCC8_HUMAN) -  DNA excision repair protein ERCC-8 from Homo sapiens

Seq: 396 a.a.

Struc: 377 a.a.

Protein chain

Q16531  (DDB1_HUMAN) -  DNA damage-binding protein 1 from Homo sapiens

Seq: 1140 a.a.

Struc: 814 a.a.

Protein chain

Q9BW61  (DDA1_HUMAN) -  DET1- and DDB1-associated protein 1 from Homo sapiens

Seq: 102 a.a.

Struc: 36 a.a.

Protein chain

P49842  (STK19_HUMAN) -  Winged helix repair factor 1 from Homo sapiens

Seq: 254 a.a.

Struc: 220 a.a.

Protein chain

Q03468  (ERCC6_HUMAN) -  DNA excision repair protein ERCC-6 from Homo sapiens

Seq: 1493 a.a.

Struc: 590 a.a.*

Protein chain

Q2YD98  (UVSSA_HUMAN) -  UV-stimulated scaffold protein A from Homo sapiens

Seq: 709 a.a.

Struc: 249 a.a.*

* PDB and UniProt seqs differ at 149 residue positions (black crosses)

DNA/RNA chains

C-T-A-G-T-T-G-A-T-C-T-C-A-T-A-A-G-G-A-G-A-A-G-G-A-G-C-A-G-A-G-C-G-C-T-T-G-A-G- 40 bases

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

G-C-T-C-A-A-G-C-G-C-T-C-T-G-C-T-C-C-T-T-C-T-C-C-C-A-T-C-C-T-C-T-C-G-A-T-G-G-C- 54 bases

Enzyme reactions

• Enzyme class 2: Chains A, B: E.C.2.7.7.48 - RNA-directed Rna polymerase.
• Reaction: RNA(n) + a ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate
• 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
• Enzyme class 4: Chain e: E.C.3.6.4.- - ?????

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