MolNFT v1 · #78324 · protein

Crystal structure of ribose-5-phosphate isomerase B rpib from giardia lamblia

3S5P · Ribose 5-phosphate isomerase: “Crystal structure of ribose-5-phosphate isomerase B rpib from giardia lamblia”. X-ray diffraction, 1 ligand (SO4), 3 pockets (best druggability 0.47). MolNFT v1 #78324 on GenesisL1: 3D structure…

PDB: 3S5P
Type: protein
Length: 259 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ribose 5-phosphate isomerase
EC: 5.3.1.6
UniProt: A8B2K2
Ligands: SO4
Pockets: 3 · best druggability 0.47

Structure

x-ray diffraction · 2 distinct chains · 45% helix, 20% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ribose 5-phosphate isomerase (EC 5.3.1.6)	protein	134	46% helix, 19% strand	A8B2K2
B	Ribose 5-phosphate isomerase (EC 5.3.1.6)	protein	125	43% helix, 22% strand	A8B2K2

Ligands and binding sites

SO4 · Sulfate ion · ion · 5 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	50	0.47	0.86	18	empty
2	105	0.37	0.74	22	SO4
3	53	0.27	0.74	16	SO4

Interfaces

1 interface between chains.

A–B · 841 Å² buried · 6 hydrogen bonds · protein-protein

Compared structures

3S5P · Crystal structure of ribose-5-phosphate isomerase B RpiB from Giardia lamblia · the same entry in another collection · chain A against A, TM-score 1.00

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 A8B2K2
Elsewhere: RCSB PDB 3S5P · PDBe 3S5P · UniProt A8B2K2

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