PDBsum entry 7oop

Transcription

PDB id: 7oop

Contents

Protein chains

1412 a.a.

1131 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.

810 a.a.

40 a.a.

890 a.a.

104 a.a.

217 a.a.

300 a.a.

43 a.a.

365 a.a.

534 a.a.

141 a.a.

1096 a.a.

DNA/RNA

Metals

_MG

_ZN ×8

PDB id:

7oop

Name:

Transcription

Title:

Pol ii-csb-csa-ddb1-uvssa-paf-spt6 (structure 3)

Structure:

DNA-directed RNA polymerase ii subunit rpb1. Chain: a. DNA-directed RNA polymerase subunit beta. Chain: b. DNA-directed RNA polymerase ii subunit rpb3. Chain: c. Rpol4c domain-containing protein. Chain: d. DNA-directed RNA polymerase ii subunit e.

Source:

Sus scrofa. Pig. Organism_taxid: 9823. Homo sapiens. Human. Organism_taxid: 9606. Gene: supt6h, kiaa0162, spt6h. Expressed in: trichoplusia ni. Expression_system_taxid: 7111.

Authors:

G.Kokic,P.Cramer

Key ref:

G.Kokic et al. Structural basis of human transcription-Dna repair co. Nature, . PubMed id: 34526721

Date:

28-May-21 Release date: 06-Oct-21

Protein chain

P11414  (RPB1_CRIGR) -  DNA-directed RNA polymerase II subunit RPB1 from Cricetulus griseus

Seq: 1970 a.a.

Struc: 1412 a.a.

Protein chain

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

Seq: 1300 a.a.

Struc: 1131 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

A0A287ADR4  (A0A287ADR4_PIG) -  DNA-directed RNA polymerase II subunit RPB4 from Sus scrofa

Seq: 184 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

No UniProt id for this chain

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

A0A4X1VYD0  (A0A4X1VYD0_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

Q7KZ85  (SPT6H_HUMAN) -  Transcription elongation factor SPT6 from Homo sapiens

Seq: 1726 a.a.

Struc: 810 a.a.

Protein chain

No UniProt id for this chain

Struc: 40 a.a.

Protein chain

Q6PD62  (CTR9_HUMAN) -  RNA polymerase-associated protein CTR9 homolog from Homo sapiens

Seq: 1173 a.a.

Struc: 890 a.a.

Protein chain

Q8WVC0  (LEO1_HUMAN) -  RNA polymerase-associated protein LEO1 from Homo sapiens

Seq: 666 a.a.

Struc: 104 a.a.

Protein chain

Q8N7H5  (PAF1_HUMAN) -  RNA polymerase II-associated factor 1 homolog from Homo sapiens

Seq: 531 a.a.

Struc: 217 a.a.

Protein chain

Q9GZS3  (WDR61_HUMAN) -  Superkiller complex protein 8 from Homo sapiens

Seq: 305 a.a.

Struc: 300 a.a.

Protein chain

Q6P1J9  (CDC73_HUMAN) -  Parafibromin from Homo sapiens

Seq: 531 a.a.

Struc: 43 a.a.

Protein chain

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

Seq: 396 a.a.

Struc: 365 a.a.

Protein chain

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

Seq: 1493 a.a.

Struc: 534 a.a.*

Protein chain

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

Seq: 709 a.a.

Struc: 141 a.a.

Protein chain

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

Seq: 1140 a.a.

Struc: 1096 a.a.

* PDB and UniProt seqs differ at 17 residue positions (black crosses)

DNA/RNA chains

C-T-A-G-T-T-G-A-T-C-T-C-A-T-A-T-C-A-G-G-A-G-A-A-G-G-A-G-C-A-G-A-G-C-G 35 bases

A-U-A-U-A-U-A-C-A-A-A-A-U-C-G-A-G-A-G-G-A 21 bases

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-T-A-T-G-A-G-A- 47 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 A: E.C.3.1.13.- - ?????
• Enzyme class 5: Chain b: 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