MolNFT v1 · #173932 · protein

X-ray structure of ss-RNase-2 DES116-120

7BFL · Angiogenin-1: “X-ray structure of ss-RNase-2 DES116-120”. X-ray diffraction, 5 pockets (best druggability 0.77). MolNFT v1 #173932 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7BFL
Type: protein
Length: 442 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Angiogenin-1
UniProt: B5XAZ0
Pockets: 5 · best druggability 0.77

Structure

x-ray diffraction · 4 distinct chains · 26% helix, 44% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Angiogenin-1	protein	114	25% helix, 44% strand	B5XAZ0
B	Angiogenin-1	protein	109	26% helix, 44% strand	B5XAZ0
C	Angiogenin-1	protein	108	26% helix, 45% strand	B5XAZ0
D	Angiogenin-1	protein	111	26% helix, 41% strand	B5XAZ0

Pockets

5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	733	0.77	0.81	84	empty
2	284	0.62	0.80	50	empty
3	65	0.29	0.74	19	empty
4	56	0.29	0.75	18	empty
5	55	0.27	0.73	16	empty

Interfaces

3 interfaces between chains.

C–D · 785 Å² buried · 11 hydrogen bonds · protein-protein
A–B · 780 Å² buried · 6 hydrogen bonds · protein-protein
B–D · 712 Å² buried · 4 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 12 disulfide (disulfide).

Compared structures

7BFL · X-ray structure of SS-RNase-2 des116-120 · the same entry in another collection · chain D against D, 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 B5XAZ0
Elsewhere: RCSB PDB 7BFL · PDBe 7BFL · UniProt B5XAZ0

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