Structure of PDB 6ip6 Chain 2p
Receptor sequence
>6ip62p (length=227) Species:
9606
(Homo sapiens) [
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MAVQISKKRKFVADGIFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIII
LATRTQNVLGEKGRRIRELTAVVQKRFGFPEGSVELYAEKVATRGLCAIA
QAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVVVSGKLRGQRAKSM
KFVDGLMIHSGDPVNYYVDTAVRHVLLRQGVLGIKVKIMLPWDPTGKIGP
KKPLPDHVSIVEPKDEILPTTPISEQK
3D structure
PDB
6ip6
HCV IRES Captures an Actively Translating 80S Ribosome.
Chain
2p
Resolution
4.5 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
2p
Q4 I5 S6 K7 R9 R27 K141 R143 Q145 R146 K151 H159 S160 G161 D162 H174 G180 V181 G183 P205 D206
Q4 I5 S6 K7 R9 R27 K141 R143 Q145 R146 K151 H159 S160 G161 D162 H174 G180 V181 G183 P205 D206
Gene Ontology
Molecular Function
GO:0000977
RNA polymerase II transcription regulatory region sequence-specific DNA binding
GO:0003677
DNA binding
GO:0003684
damaged DNA binding
GO:0003723
RNA binding
GO:0003729
mRNA binding
GO:0003735
structural constituent of ribosome
GO:0003906
DNA-(apurinic or apyrimidinic site) endonuclease activity
GO:0004520
DNA endonuclease activity
GO:0005515
protein binding
GO:0008017
microtubule binding
GO:0015631
tubulin binding
GO:0016829
lyase activity
GO:0019104
DNA N-glycosylase activity
GO:0019899
enzyme binding
GO:0019900
kinase binding
GO:0019901
protein kinase binding
GO:0030544
Hsp70 protein binding
GO:0032357
oxidized purine DNA binding
GO:0032358
oxidized pyrimidine DNA binding
GO:0044390
ubiquitin-like protein conjugating enzyme binding
GO:0044877
protein-containing complex binding
GO:0051018
protein kinase A binding
GO:0051536
iron-sulfur cluster binding
GO:0051879
Hsp90 protein binding
GO:0070181
small ribosomal subunit rRNA binding
GO:0097100
supercoiled DNA binding
GO:0140078
class I DNA-(apurinic or apyrimidinic site) endonuclease activity
GO:0140297
DNA-binding transcription factor binding
Biological Process
GO:0002181
cytoplasmic translation
GO:0006281
DNA repair
GO:0006284
base-excision repair
GO:0006412
translation
GO:0006413
translational initiation
GO:0006417
regulation of translation
GO:0006915
apoptotic process
GO:0006974
DNA damage response
GO:0007059
chromosome segregation
GO:0010628
positive regulation of gene expression
GO:0017148
negative regulation of translation
GO:0031116
positive regulation of microtubule polymerization
GO:0031334
positive regulation of protein-containing complex assembly
GO:0031397
negative regulation of protein ubiquitination
GO:0032079
positive regulation of endodeoxyribonuclease activity
GO:0032743
positive regulation of interleukin-2 production
GO:0034614
cellular response to reactive oxygen species
GO:0042104
positive regulation of activated T cell proliferation
GO:0042981
regulation of apoptotic process
GO:0043507
positive regulation of JUN kinase activity
GO:0045738
negative regulation of DNA repair
GO:0045739
positive regulation of DNA repair
GO:0050862
positive regulation of T cell receptor signaling pathway
GO:0051092
positive regulation of NF-kappaB transcription factor activity
GO:0051225
spindle assembly
GO:0051301
cell division
GO:0061481
response to TNF agonist
GO:0070301
cellular response to hydrogen peroxide
GO:0071356
cellular response to tumor necrosis factor
GO:1901224
positive regulation of non-canonical NF-kappaB signal transduction
GO:1902231
positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage
GO:1905053
positive regulation of base-excision repair
GO:2001235
positive regulation of apoptotic signaling pathway
GO:2001272
positive regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis
Cellular Component
GO:0005634
nucleus
GO:0005654
nucleoplasm
GO:0005730
nucleolus
GO:0005737
cytoplasm
GO:0005739
mitochondrion
GO:0005743
mitochondrial inner membrane
GO:0005759
mitochondrial matrix
GO:0005783
endoplasmic reticulum
GO:0005819
spindle
GO:0005829
cytosol
GO:0005840
ribosome
GO:0005856
cytoskeleton
GO:0005886
plasma membrane
GO:0005925
focal adhesion
GO:0014069
postsynaptic density
GO:0015935
small ribosomal subunit
GO:0016020
membrane
GO:0022626
cytosolic ribosome
GO:0022627
cytosolic small ribosomal subunit
GO:0032587
ruffle membrane
GO:0045202
synapse
GO:0070062
extracellular exosome
GO:0071159
NF-kappaB complex
GO:0072686
mitotic spindle
GO:1990904
ribonucleoprotein complex
View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB
RCSB:6ip6
,
PDBe:6ip6
,
PDBj:6ip6
PDBsum
6ip6
PubMed
31080011
UniProt
P23396
|RS3_HUMAN Small ribosomal subunit protein uS3 (Gene Name=RPS3)
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