Structure of PDB 5w3v Chain A

Receptor sequence
>5w3vA (length=186) Species: 9545 (Macaca nemestrina) [Search protein sequence]
AALLTAKTFSLQFNNKRRVNKPYYPRKALLCYQLTPQNGSTPTRGHLINK
KEDHAEIRFINEIKSMGLDETQCYQVTCYLTWSPCPSCAGELVDFIKAHR
HLNLRIFASRLYYHWHPNYQEGLLLLCGSQVPVEVMGLPEFTDCWENFVD
HKEPPSFNPSEKLKELDKNSQAIKRRLERIKSRSVD
3D structure
PDB5w3v APOBEC3H structure reveals an unusual mechanism of interaction with duplex RNA.
ChainA
Resolution2.243 Å
3D
structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
Enzymatic activity
Enzyme Commision number 3.5.4.38: single-stranded DNA cytosine deaminase.
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 R18 V19 Y23 Y24 P25 R26 K51 W82 Y112 Y113 W115 R18 V19 Y23 Y24 P25 R26 K51 W82 Y112 Y113 W115
BS02 rna A R17 N20 Y23 H114 W115 R175 R176 R17 N20 Y23 H114 W115 R175 R176
BS03 rna A R175 R179 R175 R179
BS04 ZN A H54 C85 C88 H54 C85 C88
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003824 catalytic activity
GO:0004126 cytidine deaminase activity
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0046872 metal ion binding
Biological Process
GO:0016554 cytidine to uridine editing
GO:0045087 innate immune response
GO:0045869 negative regulation of single stranded viral RNA replication via double stranded DNA intermediate
GO:0051607 defense response to virus
GO:0070383 DNA cytosine deamination
Cellular Component
GO:0000932 P-body
GO:0005634 nucleus
GO:0005737 cytoplasm

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5w3v, PDBe:5w3v, PDBj:5w3v
PDBsum5w3v
PubMed29044109
UniProtA0A1B2AH37

[Back to BioLiP]