MolNFT v1 · #56125 · protein

Crystal structure of the head-to-tail junction of tropomyosin

2Z5I · General control protein GCN4 and tropomyosin alpha-1 chain: “Crystal structure of the head-to-tail junction of tropomyosin”. X-ray diffraction, 1 ligand (MG), 5 pockets (best druggability 0.67). MolNFT v1 #56125 on GenesisL1: 3D…

PDB: 2Z5I
Type: protein
Length: 466 residues
Chains: 10
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: General control protein GCN4 and tropomyosin alpha-1 chain; Tropomyosin alpha-1 chain and…
UniProt: P03069, P58772
Ligands: MG
Pockets: 5 · best druggability 0.67

Structure

x-ray diffraction · 3 distinct chains · 91% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, D, E, F, H	General control protein GCN4 and tropomyosin alpha-1 chain	protein	49	88% helix, 0% strand	P03069, P58772
C, G	General control protein GCN4 and tropomyosin alpha-1 chain	protein	50	96% helix, 0% strand	P03069, P58772
I, J	Tropomyosin alpha-1 chain and general control protein GCN4	protein	36	89% helix, 0% strand	P03069, P58772

Ligands and binding sites

MG · Magnesium ion · metal · 2 copies · chains A, E

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	591	0.67	0.76	35	empty
2	260	0.50	0.74	27	empty
3	237	0.49	0.74	21	empty
4	52	0.29	0.76	13	empty
5	59	0.28	0.73	13	empty

Interfaces

21 interfaces between chains.

E–F · 1433 Å² buried · 5 hydrogen bonds · protein-protein
A–B · 1426 Å² buried · 5 hydrogen bonds · protein-protein
C–D · 1379 Å² buried · 2 hydrogen bonds · protein-protein
G–H · 1369 Å² buried · 2 hydrogen bonds · protein-protein
I–J · 738 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

2Z5I · Crystal structure of the head-to-tail junction of tropomyosin · the same entry in another collection · chain D against D, TM-score 1.00
P03069 · AlphaFold monomer V2.0 prediction for general control transcription factor GCN4 (P03069) · a predicted model of the same protein · chain H against A, TM-score 0.94

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 P03069
Every structure of UniProt P58772
Elsewhere: RCSB PDB 2Z5I · PDBe 2Z5I · UniProt P03069 · UniProt P58772

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