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Structure of the mediator head submodule MED8C/18/20

Analyse Structure of the mediator head submodule MED8C/18/20 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2HZS
Type: protein
Length: 1,799 residues
Chains: 12
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA polymerase II mediator complex subunit 20; RNA polymerase II mediator complex subunit…
UniProt: P34162, P32585, P38304
Pockets: 20 · best druggability 0.90

Structure

x-ray diffraction · 10 distinct chains · 25% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, E, G	RNA polymerase II mediator complex subunit 20	protein	203	24% helix, 37% strand	P34162
B	RNA polymerase II mediator complex subunit 18	protein	235	23% helix, 40% strand	P32585
C	RNA polymerase II mediator complex subunit 20	protein	202	24% helix, 36% strand	P34162
D	RNA polymerase II mediator complex subunit 18	protein	214	24% helix, 43% strand	P32585
F	RNA polymerase II mediator complex subunit 18	protein	235	20% helix, 40% strand	P32585
H	RNA polymerase II mediator complex subunit 18	protein	230	24% helix, 40% strand	P32585
I	RNA polymerase II mediator complex subunit 8	protein	22	45% helix, 0% strand	P38304
J	RNA polymerase II mediator complex subunit 8	protein	19	53% helix, 0% strand	P38304
K	RNA polymerase II mediator complex subunit 8	protein	16	63% helix, 0% strand	P38304
L	RNA polymerase II mediator complex subunit 8	protein	17	59% helix, 0% strand	P38304

Pockets

20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	880	0.90	0.92	136	empty
2	233	0.84	0.96	34	empty
3	226	0.84	0.96	34	empty
4	228	0.83	0.96	34	empty
5	1168	0.80	0.81	106	empty

Interfaces

18 interfaces between chains.

G–H · 2096 Å² buried · 31 hydrogen bonds · protein-protein
A–B · 2061 Å² buried · 32 hydrogen bonds · protein-protein
E–F · 2057 Å² buried · 33 hydrogen bonds · protein-protein
C–D · 1991 Å² buried · 30 hydrogen bonds · protein-protein
B–H · 1288 Å² buried · 14 hydrogen bonds · protein-protein

Compared structures

2HZS · Structure of the Mediator head submodule Med8C/18/20 · the same entry in another collection · chain L against L, 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 P34162
Every structure of UniProt P32585
Every structure of UniProt P38304
Elsewhere: RCSB PDB 2HZS · PDBe 2HZS · UniProt P34162 · UniProt P32585 · UniProt P38304

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