MolNFT v1 · #47967 · protein

Crystal structure of rbcx, crystal form I

2PEN · ORF134: “Crystal structure of rbcx, crystal form I”. X-ray diffraction, 3 pockets (best druggability 0.48). MolNFT v1 #47967 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2PEN
Type: protein
Length: 657 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: ORF134
UniProt: Q44177
Pockets: 3 · best druggability 0.48

Structure

x-ray diffraction · 5 distinct chains · 86% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	ORF134	protein	110	88% helix, 0% strand	Q44177
B, C	ORF134	protein	109	89% helix, 0% strand	Q44177
D	ORF134	protein	107	90% helix, 0% strand	Q44177
E	ORF134	protein	110	84% helix, 0% strand	Q44177
F	ORF134	protein	112	82% helix, 0% strand	Q44177

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	145	0.48	0.78	24	empty
2	105	0.38	0.75	17	empty
3	76	0.32	0.74	13	empty

Interfaces

7 interfaces between chains.

A–B · 2660 Å² buried · 24 hydrogen bonds · protein-protein
C–D · 2487 Å² buried · 22 hydrogen bonds · protein-protein
E–F · 2398 Å² buried · 20 hydrogen bonds · protein-protein
C–F · 419 Å² buried · 12 hydrogen bonds · protein-protein
B–D · 321 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

2PEN · Crystal structure of RbcX, crystal form I · the same entry in another collection · chain A against A, TM-score 1.00
Q44177 · AlphaFold monomer V2.0 prediction for rubisco chaperone rbcx (Q44177) · a predicted model of the same protein · chain B against A, TM-score 0.99

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 Q44177
Elsewhere: RCSB PDB 2PEN · PDBe 2PEN · UniProt Q44177

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