MolNFT v1 · #44857 · protein

Cooperative structure of the heterotrimeric pre-mRNA retention and splicing complex

2MKC · U2 snrnp component IST3: “Cooperative structure of the heterotrimeric pre-mRNA retention and splicing complex”. Solution nmr, 1 pocket (best druggability 0.50). MolNFT v1 #44857 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 2MKC
Type: protein
Length: 174 residues
Chains: 3
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: U2 snrnp component IST3; Pre-mRNA leakage protein 1; Pre-mRNA-splicing factor CWC26
UniProt: P40565, Q07930, P46947
Pockets: 1 · best druggability 0.50

Structure

solution nmr · 3 distinct chains · 23% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	U2 snrnp component IST3	protein	118	31% helix, 25% strand	P40565
B	Pre-mRNA leakage protein 1	protein	23	17% helix, 0% strand	Q07930
C	Pre-mRNA-splicing factor CWC26	protein	33	0% helix, 0% strand	P46947

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	127	0.50	0.80	19	empty

Interfaces

3 interfaces between chains.

A–C · 944 Å² buried · 22 hydrogen bonds · protein-protein
A–B · 857 Å² buried · 8 hydrogen bonds · protein-protein
B–C · 107 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

2MKC · Cooperative Structure of the Heterotrimeric pre-mRNA Retention and Splicing Complex · the same entry in another collection · chain A against A, TM-score 1.00
P40565 · AlphaFold monomer V2.0 prediction for U2 snrnp component IST3 (P40565) · a predicted model of the same protein · chain A against A, TM-score 0.83
P46947 · AlphaFold monomer V2.0 prediction for pre-mRNA-splicing factor CWC26 (P46947) · a predicted model of the same protein · chain C against A, TM-score 0.48
Q07930 · AlphaFold monomer V2.0 prediction for pre-mRNA leakage protein 1 (Q07930) · a predicted model of the same protein · chain B against A, TM-score 0.26

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 P40565
Every structure of UniProt Q07930
Every structure of UniProt P46947
Elsewhere: RCSB PDB 2MKC · PDBe 2MKC · UniProt P40565 · UniProt Q07930 · UniProt P46947

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