MolNFT v1 · #47628 · protein

Complex of a camelid single-domain vhh antibody fragment with RNase a at 2.3A resolution: SE5B-tetra crystal form with five se-met sites (L4M, M34, M51, F68M, M83) in vhh scaffold.

2P48 · Ribonuclease pancreatic: “Complex of a camelid single-domain vhh antibody fragment with RNase a at 2.3A resolution: SE5B-tetra crystal…”. X-ray diffraction, 1 ligand (SO4), 1 pocket (best druggability 0.25). MolNFT v1 #47628 on…

PDB: 2P48
Type: protein
Length: 245 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ribonuclease pancreatic; Antibody cab-RN05
EC: 3.1.27.5
UniProt: P61823
Ligands: SO4
Pockets: 1 · best druggability 0.25

Structure

x-ray diffraction · 2 distinct chains · 14% helix, 42% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ribonuclease pancreatic (EC 3.1.27.5)	protein	124	21% helix, 35% strand	P61823
B	Antibody cab-RN05	protein	121	7% helix, 49% strand	—

Ligands and binding sites

SO4 · Sulfate ion · ion · 2 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	53	0.25	0.73	15	SO4

Interfaces

1 interface between chains.

A–B · 590 Å² buried · 9 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 5 disulfide, 5 modified (disulfide, engineered).

Compared structures

2P48 · Complex of a camelid single-domain vhh antibody fragment with RNASE A at 2.3A resolution… · 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 P61823
Elsewhere: RCSB PDB 2P48 · PDBe 2P48 · UniProt P61823

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