MolNFT v1 · #75062 · protein + RNA

Crystal structure of bs-cspb in complex with RU6

3PF5 · Cold shock protein cspb: “Crystal structure of bs-cspb in complex with RU6”. X-ray diffraction, 1 ligand (MG). MolNFT v1 #75062 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3PF5
Type: protein + RNA
Length: 139 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cold shock protein cspb; Hexaribouracil (RU6)
UniProt: P32081
Ligands: MG

Structure

x-ray diffraction · 4 distinct chains · 5% helix, 59% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Cold shock protein cspb	protein	66	5% helix, 56% strand	P32081
B	Cold shock protein cspb	protein	67	4% helix, 61% strand	P32081
R	Hexaribouracil (RU6)	rna	5	—	—
S	Hexaribouracil (RU6)	rna	1	—	—

Ligands and binding sites

MG · Magnesium ion · metal · chains A

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

Interfaces

3 interfaces between chains.

B–R · 459 Å² buried · 4 hydrogen bonds · protein-nucleic
A–B · 397 Å² buried · 6 hydrogen bonds · protein-protein
A–S · 130 Å² buried · 3 hydrogen bonds · protein-nucleic

Compared structures

3PF5 · Crystal structure of Bs-CspB in complex with rU6 · the same entry in another collection · chain B against B, TM-score 1.00
P32081 · AlphaFold monomer V2.0 prediction for cold shock protein cspb (P32081) · a predicted model of the same protein · chain B against A, TM-score 0.94

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 P32081
Elsewhere: RCSB PDB 3PF5 · PDBe 3PF5 · UniProt P32081

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