MolNFT v1 · #177843 · protein

Cryo-EM structure of the GP168-beta-clamp complex

7EVP · Beta sliding clamp: “Cryo-EM structure of the GP168-beta-clamp complex”. Electron microscopy, 5 pockets (best druggability 0.72). MolNFT v1 #177843 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7EVP
Type: protein
Length: 840 residues
Chains: 4
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Beta sliding clamp; Sliding clamp inhibitor
UniProt: P0A024, A0A6H0X5G8
Pockets: 5 · best druggability 0.72

Structure

electron microscopy · 2 distinct chains · 22% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Beta sliding clamp	protein	377	16% helix, 36% strand	P0A024
C, D	Sliding clamp inhibitor	protein	43	77% helix, 0% strand	A0A6H0X5G8

Pockets

5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1138	0.72	0.76	87	empty
2	1109	0.72	0.76	91	empty
3	61	0.33	0.76	17	empty
4	54	0.32	0.77	14	empty
5	56	0.29	0.76	15	empty

Interfaces

6 interfaces between chains.

A–B · 1256 Å² buried · 14 hydrogen bonds · protein-protein
C–D · 843 Å² buried · 10 hydrogen bonds · protein-protein
B–D · 527 Å² buried · 5 hydrogen bonds · protein-protein
A–C · 524 Å² buried · 5 hydrogen bonds · protein-protein
C–B · 249 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

7EVP · Cryo-EM structure of the Gp168-beta-clamp complex · the same entry in another collection · chain A against A, TM-score 1.00
P0A024 · AlphaFold monomer V2.0 prediction for beta sliding clamp (P0A024) · a predicted model of the same protein · chain A against A, TM-score 0.97

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 P0A024
Every structure of UniProt A0A6H0X5G8
Elsewhere: RCSB PDB 7EVP · PDBe 7EVP · UniProt P0A024 · UniProt A0A6H0X5G8

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