Structure of PDB 2nug Chain A

Receptor sequence

>2nugA (length=216) Species: 63363 (Aquifex aeolicus)

MLEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETLEFLGDALVNFFIV
DLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRGKINE
TIIGDVFEALWAAVYIDSGRDANFTRELFYKLFKEDILSAIKEGRVKKDY
KTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEGKSK
KEAEQRAAEELIKLLE

3D structure

• PDB: 2nug A stepwise model for double-stranded RNA processing by ribonuclease III.
• Chain: A
• Resolution: 1.7 Å

Enzymatic activity

• Enzyme Commision number: 3.1.26.3: ribonuclease III.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	A	H27 K99 T103 H179 H180 F184 K200 S201 K202	H25 K97 T101 H177 H178 F182 K198 S199 K200
BS02	rna	A	D44 E110 H179 H180	D42 E108 H177 H178
BS03	rna	A	D44 A72 I75 S76 D151 K153 T154 Q157 R167 K203 Q207	D42 A70 I73 S74 D149 K151 T152 Q155 R165 K201 Q205
BS04	rna	A	E64 S68 E158 Q161 K165	E62 S66 E156 Q159 K163
BS05	MG	A	D44 E110	D42 E108
BS06	MG	A	E40 E110	E38 E108
BS07	MG	A	E37 E40	E35 E38

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003725 double-stranded RNA binding
• GO:0004519 endonuclease activity
• GO:0004525 ribonuclease III activity
• GO:0042802 identical protein binding
• GO:0046872 metal ion binding

Biological Process

• GO:0006364 rRNA processing
• GO:0006396 RNA processing
• GO:0006397 mRNA processing
• GO:0008033 tRNA processing
• GO:0010468 regulation of gene expression

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:2nug, PDBe:2nug, PDBj:2nug
• PDBsum: 2nug
• PubMed: 18047582
• UniProt: O67082|RNC_AQUAE Ribonuclease 3 (Gene Name=rnc)