Structure of PDB 3nh1 Chain D

Receptor sequence

>3nh1D (length=205) Species: 562 (Escherichia coli)

GLCDRFRGFYPVVIDVETAGFNAKTDALLEIAAITLKMDEQGWLMPDTTL
HFHVEPFVGANLQPEALAFNGIDPNDPDRGAVSEYEALHEIFKVVRKGIK
ASGCNRAIMVAHNANFDHSFMMAAAERASLKRNPFHPFATFDTAALAGLA
LGQTVLSKACQTAGMDFDSTQAHSALYDTERTAVLFCEIVNRWKRLGGWP
LSAAE

3D structure

• PDB: 3nh1 Structural basis for RNA trimming by RNase T in stable RNA 3'-end maturation
• Chain: D
• Resolution: 2.107 Å

Enzymatic activity

• Enzyme Commision number: 3.1.13.-

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	dna	D	R15 F146	R7 F138
BS02	dna	D	E25 T26 F29 E73 A74 F77 N78 H120 N121 F124	E17 T18 F21 E65 A66 F69 N70 H112 N113 F116
BS03	MG	D	D23 E25 D186	D15 E17 D178

Gene Ontology

Molecular Function

• GO:0000175 3'-5'-RNA exonuclease activity
• GO:0000287 magnesium ion binding
• GO:0003676 nucleic acid binding
• GO:0004527 exonuclease activity
• GO:0004540 RNA nuclease activity
• GO:0005515 protein binding
• GO:0008310 single-stranded DNA 3'-5' DNA exonuclease activity
• GO:0008408 3'-5' exonuclease activity
• GO:0016896 RNA exonuclease activity, producing 5'-phosphomonoesters
• GO:0042802 identical protein binding
• GO:0042803 protein homodimerization activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006259 DNA metabolic process
• GO:0006396 RNA processing
• GO:0006974 DNA damage response
• GO:0008033 tRNA processing
• GO:0031125 rRNA 3'-end processing
• GO:0034644 cellular response to UV
• GO:0042780 tRNA 3'-end processing
• GO:0043628 regulatory ncRNA 3'-end processing
• GO:0045004 DNA replication proofreading

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:3nh1, PDBe:3nh1, PDBj:3nh1
• PDBsum: 3nh1
• PubMed: 21317904
• UniProt: P30014|RNT_ECOLI Ribonuclease T (Gene Name=rnt)