Structure of PDB 4d5l Chain D

Receptor sequence
>4d5lD (length=212) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence]
AVQISKKRKFVADGIFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIIL
ATRTQNVLGEKGRRIRELTAVVQKRFGFPEGSVELYAEKVATRGLCAIAQ
AESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVVVSGKLRGQRAKSMK
FVDGLMIHSGDPVNYYVDTAVRHVLLRQGVLGIKVKIMLPWDPTGKIGPK
KPLPDHVSIVEP
3D structure
PDB4d5l Cryo-Em of Ribosomal 80S Complexes with Termination Factors Reveals the Translocated Cricket Paralysis Virus Ires.
ChainD
Resolution9.0 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 4.2.99.18: DNA-(apurinic or apyrimidinic site) lyase.
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 D V3 Q4 I5 S6 K8 S139 K141 Q145 R146 A147 K151 L156 H159 S160 G161 D162 R178 Q179 G180 V181 K185 P205 D206 V2 Q3 I4 S5 K7 S138 K140 Q144 R145 A146 K150 L155 H158 S159 G160 D161 R177 Q178 G179 V180 K184 P204 D205
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0003906 DNA-(apurinic or apyrimidinic site) endonuclease activity
GO:0016829 lyase activity
GO:0140078 class I DNA-(apurinic or apyrimidinic site) endonuclease activity
Biological Process
GO:0006281 DNA repair
GO:0006412 translation
GO:0006417 regulation of translation
GO:0006915 apoptotic process
GO:0031334 positive regulation of protein-containing complex assembly
GO:0051092 positive regulation of NF-kappaB transcription factor activity
GO:0051301 cell division
GO:2001235 positive regulation of apoptotic signaling pathway
Cellular Component
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005819 spindle
GO:0005840 ribosome
GO:0005856 cytoskeleton
GO:0015935 small ribosomal subunit
GO:0022626 cytosolic ribosome
GO:0022627 cytosolic small ribosomal subunit
GO:0045202 synapse
GO:1990904 ribonucleoprotein complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:4d5l, PDBe:4d5l, PDBj:4d5l
PDBsum4d5l
PubMed25601755
UniProtG1TNM3|RS3_RABIT Small ribosomal subunit protein uS3 (Gene Name=RPS3)

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