MolNFT v1 · #2418 · protein

Alpha-amylase II (tvaii) from thermoactinomyces vulgaris R-47

1BVZ · Protein (alpha-amylase II): “Alpha-amylase II (tvaii) from thermoactinomyces vulgaris R-47”. X-ray diffraction, 9 pockets (best druggability 0.90). MolNFT v1 #2418 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1BVZ
Type: protein
Length: 1,170 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein (alpha-amylase II)
EC: 3.2.1.135
UniProt: Q08751
Pockets: 9 · best druggability 0.90

Structure

x-ray diffraction · 1 distinct chain · 28% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Protein (alpha-amylase II) (EC 3.2.1.135)	protein	585	28% helix, 26% strand	Q08751

Pockets

9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1183	0.90	0.92	126	empty
2	477	0.66	0.78	68	empty
3	241	0.64	0.82	47	empty
4	203	0.58	0.81	45	empty
5	183	0.55	0.80	32	empty

Interfaces

1 interface between chains.

A–B · 2248 Å² buried · 40 hydrogen bonds · protein-protein

Compared structures

1BVZ · Alpha-amylase II (tvaii) from thermoactinomyces vulgaris R-47 · the same entry in another collection · chain A against A, TM-score 1.00
Q08751 · AlphaFold monomer V2.0 prediction for neopullulanase 2 (Q08751) · 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 Q08751
Elsewhere: RCSB PDB 1BVZ · PDBe 1BVZ · UniProt Q08751

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