MolNFT v1 · #93862 · protein

Cid of human RPRD1B

4HFG · Regulation of nuclear pre-mRNA domain-containing protein 1B: “Cid of human RPRD1B”. X-ray diffraction, 2 ligands (UNX, SO4), 2 pockets (best druggability 0.69). MolNFT v1 #93862 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 4HFG
Type: protein
Length: 257 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Regulation of nuclear pre-mRNA domain-containing protein 1B
UniProt: Q9NQG5
Ligands: UNX, SO4
Pockets: 2 · best druggability 0.69

Structure

x-ray diffraction · 2 distinct chains · 76% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Regulation of nuclear pre-mRNA domain-containing protein 1B	protein	129	77% helix, 0% strand	Q9NQG5
B	Regulation of nuclear pre-mRNA domain-containing protein 1B	protein	128	75% helix, 0% strand	Q9NQG5

Ligands and binding sites

UNX · Unknown atom or ion · ion · 10 copies · chains A, B
SO4 · Sulfate ion · ion · 6 copies · chains A, B

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

Pockets

2 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	51	0.69	0.98	16	UNX
2	77	0.37	0.77	21	empty

Interfaces

1 interface between chains.

A–B · 2594 Å² buried · 34 hydrogen bonds · protein-protein

Compared structures

4HFG · CID of human RPRD1B · the same entry in another collection · chain B against B, TM-score 1.00
Q9NQG5 · AlphaFold monomer V2.0 prediction for regulation of nuclear pre-mRNA domain-containing… · a predicted model of the same protein · chain B against A, TM-score 0.85

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 Q9NQG5
Elsewhere: RCSB PDB 4HFG · PDBe 4HFG · UniProt Q9NQG5

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