Structure of PDB 6d90 Chain jj Binding Site BS02

Receptor Information

>6d90 Chain jj (length=416) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

SAADRNVEIWKIKKLIKSLEAARGNGTSMISLIIPPKDQISRVAKMLADE
FGTASNIKSRVNRLSVLGAITSVQQRLKLYNKVPPNGLVVYCGTIVTEEG
KEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLSDDSKFGFIVIDGSG
ALFGTLQGNTREVLHKFTVDLPKKHGRAAQSALRFARLRMEKRHNYVRKV
AETAVQLFISGDKVNVAGLVLAGSADFKTELSQSDMFDQRLQSKVLKLVD
ISYGGENGFNQAIELSTEVLSNVKFIQEKKLIGRYFDEISQDTGKYCFGV
EDTLKALEMGAVEILIVYENLDIMRYVLHCQGTEEEKILYLTPEQEKDKS
HFTDKETGQEHELIESMPLLEWFANNYKKFGATLEIVTDKSQEGSQFVKG
FGGIGGILRYRVDFQG

Ligand information

>6d90 Chain 2 (length=1697) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgacuuggauaacugugguaau
ucuagagcuaauacaugccgacgggcgcugacccccuucgcgggggggau
gcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacgc
ccggcggcgacgacccauucgaacgucugcccuaucaacuuucgauggua
gucgccgugccuaccauggugaccacgggugacggggaaucaggguucga
uuccggagagggagccugagaaacggcuaccacauccaaggaaggcagca
ggcgcgcaaauuacccacucccgacccggggagguagugacgaaaaauaa
caauacaggacucuuucgaggcccuguaauuggaaugaguccacuuuaaa
uccuuuaacgaggauccauuggagggcaagucuggugccagcagccgcgg
uaauuccagcuccaauagcguauauuaaaguugcugcaguuaaaaagcuc
guaguuggaucuugggagcggccguccccugcucggcgccggcccgaagc
guuuacuuugaaaaaauuagaguguucaaagcaggccgccuggauaccgc
agcuaggaauaauggaauaggaccgcgguucuauuuuguugguuuucgga
acugaggccaugauuaagagggacggccgggggcauucguauugcgccgc
uagaggugaaauucuuggaccggcgcaagacggaccagagcgaaagcauu
ugccaagaauguuuucauuaaucaagaacgaaagucggagguucgaagac
gaucagauaccgucguaguuccgaccauaaacgaugccgaccggcgaugc
ggcggcguuauucccaugacccgccgggcagcuuccgggaaaccaaaguc
uuuggguuccggggggaguaugguugcaaagcugaaacuuaaaggaauug
acggaagggcaccaccaggaguggagccugcggcuuaauuugacucaaca
cgggaaaccucacccggcccggacacggacaggauugacagauugauagc
ucuuucucgauuccgugggugguggugcauggccguucuuaguuggugga
gcgauuugucugguuaauuccgauaacgaacgagacucuggcaugcuaac
uaguuacgcgaccccggucggcguaacuucuuagagggacaaguggcguu
cagccacccgagauugagcaauaacaggucugugaugcccuuagaugucc
ggggcugcacgcgcgcuacacugacuggcucagcgugugccuacccuacg
ccggcaggcgcggguaacccguugaaccccauucgugauggggaucgggg
auugcaauuauuccccaugaacgaggaauucccaguaagugcgggucaua
agcuugcguugauuaagucccugcccuuuguacacaccgcccgucgcuac
uaccgauuggaugguuuagugaggcccucggaucggccccgccggggugc
ccuggcggagcgcugagaagacggucgaacuugacuaucuagaggaagua
aaagucguaacaagguuuccguaggugaaccugcggaaggaucauua

...<<<<<.[.((((>>>>><<<.<<<<<<...<.<<..<......<<<.
<<<..<<....<<....<<..........>>...>>.>>......<<...
.....<<<.<....<<....<<<<.........<<.....<<.<<.....
..>>.>>......>>.........<<<<...<<<<<<....>>>>>>...
>>>><<..<<<<<...<......>..>>>>>......>>...<<<<.<<<
<.>>>>>>>>..>.>>>...>>..>.>>>.<<<....<<<....<<<<<<
<.........>>>>>>>>>>......>>>...<<<.<<<<....>>>>..
..>>>.>>.<<.<<<..........>>>.>>.<.<<....>>.>...>>>
>>>.........<<<....<<<<...>>>>..>>>..>...>>.>.....
<<<.<<<<..<<<....>>>...>>>>..>>>......<<..<.......
....>..>>.........<<<<<((......<<<<.....<<..))>>..
.....>>>>.>>>>>..>>>>>>.>>>.........<.<((.....<.<<
...<<<.<<.....<<.<<<..>>>.>>....<<<<.<<..>>>>>>...
..<<<<<<.<.......<<...<.......>.<<<<.>>>>...>>....
..>.>>>..>>>..........<<.<<<<<<<...............>>>
>>>>.>>......>>....<<<<<<..<...<<<<..<<..<<<<<<<<.
..<<<......>>>......>>>>>>>.>.>>.......<<....>>...
>>>>..>..>>>.>>>...>>>...>>.>....<<<<<<<...<...<<<
<.<.....>.>>>>...>>>>>>>>..........<<<.<<.<<<..<.<
<<<<<.<<<<......>>>>>>>>>>.>..>>>...<<..))>>...>>.
....>>>.>.>.<<<......<<<<....>>>>....>>>..)))).]<<
<<<.<<<<<<<..<<..<<<<<..<<<.<<<<<.......<<........
>>..........<<<<<......<<<<<<.......<<.<<<........
>>>.>>.....>>>>>>...<<.<<<..<<.<<<<<<....<<<.<<<<.
.....>>...<<<......>>>...>>.>>>....<<<...<...<<<<.
.<<<<<<<<<<<<..>>>>.>>>>>>>>..>>>>..>.....<<<<<...
..>>>>>........>>>....>>>.>>>.....>>>>>>>.......>>
>>>....>.>>>>.>>>.....<<.<<<........<.......<<<.<<
<<....>>>>.>>>....>.........>>>.>>......<.....<<<<
<..........>>>>>.....>.....>>>>>.....<<<<<<<<.....
..>>>>>>>>......>>...>>>>>>>>>>.>>....<..<<.<..<<<
<.<<....<<<<<<<<.<<<..<<<<.<<...<<<<<.<<<<<<<<<..>
>>>>>>>>...>>>>>...>>.>>>>..>>>.>>>>>>>>...>>.>>>>
...>.>>...>.....<<<<<<<<<....>>>>>>>>>.........

Receptor-Ligand Complex Structure

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Structure summary

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PDB	6d90 Dual tRNA mimicry in the Cricket Paralysis Virus IRES uncovers an unexpected similarity with the Hepatitis C Virus IRES.
Resolution	3.2 Å
Binding residue (original residue number in PDB)	K63 R65
Binding residue (residue number reindexed from 1)	K58 R60

Enzymatic activity

Enzyme Commision number

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003747	translation release factor activity
GO:0004045	aminoacyl-tRNA hydrolase activity
GO:0005515	protein binding
GO:0008079	translation termination factor activity
GO:0016149	translation release factor activity, codon specific
GO:0043022	ribosome binding
GO:1990825	sequence-specific mRNA binding

	Biological Process
GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO:0002184	cytoplasmic translational termination
GO:0006412	translation
GO:0006415	translational termination
GO:0006449	regulation of translational termination
GO:0006479	protein methylation

	Cellular Component
GO:0005634	nucleus
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0018444	translation release factor complex
GO:0022626	cytosolic ribosome

View graph for
Molecular Function

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Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:6d90, PDBe:6d90, PDBj:6d90
PDBsum	6d90
PubMed	29856316
UniProt	P62495\|ERF1_HUMAN Eukaryotic peptide chain release factor subunit 1 (Gene Name=ETF1)

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