MolNFT v1 · #55809 · protein

Crystal structure of MS1043

2YVR · Transcription intermediary factor 1-beta: “Crystal structure of MS1043”. X-ray diffraction, 1 ligand (ZN), 3 pockets (best druggability 0.41). MolNFT v1 #55809 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2YVR
Type: protein
Length: 90 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Transcription intermediary factor 1-beta
UniProt: Q13263
Ligands: ZN
Pockets: 3 · best druggability 0.41

Structure

x-ray diffraction · 1 distinct chain · 11% helix, 24% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Transcription intermediary factor 1-beta	protein	45	11% helix, 24% strand	Q13263

Ligands and binding sites

ZN · Zinc ion · metal · 4 copies · chains A, B

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

Pockets

3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	91	0.41	0.78	14	empty
2	68	0.37	0.78	18	empty
3	57	0.28	0.74	13	empty

Interfaces

1 interface between chains.

A–B · 614 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

2YVR · Crystal structure of MS1043 · the same entry in another collection · chain A against A, TM-score 1.00
Q13263 · AlphaFold monomer V2.0 prediction for transcription intermediary factor 1-beta (Q13263) · a predicted model of the same protein · chain A against A, TM-score 0.89

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 Q13263
Elsewhere: RCSB PDB 2YVR · PDBe 2YVR · UniProt Q13263

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