MolNFT v1 · #77213 · protein

Structure of the mediator head subcomplex MED11/22

3R84 · Mediator of RNA polymerase II transcription subunit 11: “Structure of the mediator head subcomplex MED11/22”. X-ray diffraction, 20 pockets (best druggability 0.66). MolNFT v1 #77213 on GenesisL1: 3D structure, binding sites and…

PDB: 3R84
Type: protein
Length: 1,891 residues
Chains: 24
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Mediator of RNA polymerase II transcription subunit 11; Mediator of RNA polymerase II…
UniProt: Q99278, P32570
Pockets: 20 · best druggability 0.66

Structure

x-ray diffraction · 12 distinct chains · 85% helix, 2% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, S, U	Mediator of RNA polymerase II transcription subunit 11	protein	81	84% helix, 2% strand	Q99278
B	Mediator of RNA polymerase II transcription subunit 22	protein	80	83% helix, 3% strand	P32570
C, I, K, M, Q	Mediator of RNA polymerase II transcription subunit 11	protein	80	85% helix, 3% strand	Q99278
D, H	Mediator of RNA polymerase II transcription subunit 22	protein	79	84% helix, 3% strand	P32570
E, W	Mediator of RNA polymerase II transcription subunit 11	protein	73	93% helix, 0% strand	Q99278
F, P	Mediator of RNA polymerase II transcription subunit 22	protein	77	83% helix, 1% strand	P32570
G	Mediator of RNA polymerase II transcription subunit 11	protein	79	87% helix, 3% strand	Q99278
J, L, R, T	Mediator of RNA polymerase II transcription subunit 22	protein	79	84% helix, 3% strand	P32570
N	Mediator of RNA polymerase II transcription subunit 22	protein	80	83% helix, 3% strand	P32570
O	Mediator of RNA polymerase II transcription subunit 11	protein	76	91% helix, 0% strand	Q99278
V	Mediator of RNA polymerase II transcription subunit 22	protein	81	80% helix, 2% strand	P32570
X	Mediator of RNA polymerase II transcription subunit 22	protein	78	82% helix, 1% strand	P32570

Pockets

20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	621	0.66	0.76	74	empty
2	389	0.61	0.76	48	empty
3	372	0.60	0.76	44	empty
4	425	0.60	0.75	52	empty
5	334	0.58	0.76	52	empty

Interfaces

90 interfaces between chains.

S–T · 1978 Å² buried · 16 hydrogen bonds · protein-protein
U–V · 1954 Å² buried · 15 hydrogen bonds · protein-protein
G–H · 1916 Å² buried · 15 hydrogen bonds · protein-protein
A–B · 1906 Å² buried · 14 hydrogen bonds · protein-protein
Q–R · 1900 Å² buried · 14 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 51 modified (engineered).

Compared structures

3R84 · Structure of the Mediator head subcomplex Med11/22 · the same entry in another collection · chain J against J, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q99278
Every structure of UniProt P32570
Elsewhere: RCSB PDB 3R84 · PDBe 3R84 · UniProt Q99278 · UniProt P32570

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