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RB69 single-stranded DNA binding protein core domain

Analyse RB69 single-stranded DNA binding protein core domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2A1K
Type: protein
Length: 427 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: GP32 single stranded DNA binding protein
UniProt: Q7Y265
Ligands: ZN
Pockets: 3 · best druggability 0.73

Structure

x-ray diffraction · 2 distinct chains · 32% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	GP32 single stranded DNA binding protein	protein	215	31% helix, 28% strand	Q7Y265
B	GP32 single stranded DNA binding protein	protein	212	32% helix, 29% strand	Q7Y265

Ligands and binding sites

ZN · Zinc ion · metal · 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, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	590	0.73	0.80	73	empty
2	57	0.30	0.75	16	empty
3	61	0.25	0.72	14	empty

Interfaces

1 interface between chains.

A–B · 766 Å² buried · 10 hydrogen bonds · protein-protein

Compared structures

2A1K · RB69 single-stranded DNA binding protein core domain · 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 Q7Y265
Elsewhere: RCSB PDB 2A1K · PDBe 2A1K · UniProt Q7Y265

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