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Crystal Structure of Human SAR1a in Complex With GDP

Analyse Crystal Structure of Human SAR1a in Complex With GDP in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2GAO
Type: protein
Length: 336 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 2
Source: Homo sapiens
Molecule: GTP-binding protein SAR1a
UniProt: Q9NR31
Ligands: GDP, UNX
Pockets: 3 · best druggability 0.42

Structure

x-ray diffraction · resolution 2 · 2 distinct chains · 32% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	GTP-binding protein SAR1a	protein	165	34% helix, 22% strand	Q9NR31
B	GTP-binding protein SAR1a	protein	171	31% helix, 21% strand	Q9NR31

Ligands and binding sites

GDP · Guanosine-5'-diphosphate · ligand · 2 copies · chains A, B
UNX · Unknown atom or ion · ion · 2 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	90	0.42	0.78	18	empty
2	99	0.39	0.76	21	GDP
3	57	0.33	0.77	22	empty

Interfaces

1 interface between chains.

A–B · 423 Å² buried · 7 hydrogen bonds · protein-protein

Compared structures

2GAO · Crystal structure of human SAR1A in complex with GDP · the same entry in another collection · chain A against A, TM-score 1.00
Q9NR31 · AlphaFold monomer V2.0 prediction for GTP-binding protein SAR1A (Q9NR31) · a predicted model of the same protein · chain A 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 Q9NR31
Elsewhere: RCSB PDB 2GAO · PDBe 2GAO · UniProt Q9NR31

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