MolNFT v1 · #33695 · protein

Crystal structure of topoisomerase V (61 kda fragment)

2CSD: “Crystal structure of topoisomerase V (61 kda fragment)”. X-ray diffraction, 16 pockets (best druggability 0.76). MolNFT v1 #33695 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2CSD
Type: protein
Length: 1,032 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Topoisomerase V
Pockets: 16 · best druggability 0.76

Structure

x-ray diffraction · 1 distinct chain · 62% helix, 3% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Topoisomerase V	protein	516	62% helix, 3% strand	—

Pockets

16 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1141	0.76	0.78	81	empty
2	148	0.75	0.93	33	empty
3	402	0.74	0.84	41	empty
4	264	0.71	0.85	43	empty
5	59	0.68	0.96	16	empty

Interfaces

1 interface between chains.

A–B · 711 Å² buried · 7 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

2CSD · Crystal structure of Topoisomerase V (61 kDa fragment) · the same entry in another collection · chain A against A, 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
Elsewhere: RCSB PDB 2CSD · PDBe 2CSD

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