Structure of PDB 4d5l Chain Y Binding Site BS01

Receptor Information
>4d5l Chain Y (length=122) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TVTIRTRKFMTNRLLQRKQMVIDVLHPGKATVPKTEIREKLAKMYKTTPD
VIFVFGFRTHFGGGKTTGFGMIYDSLDYAKKNEPKHRLARHGLYEKKKTS
RKQRKERKNRMKKVRGTAKANV
Ligand information
>4d5l Chain 1 (length=1742) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgcuccucucccacuuggauaa
cugugguaauucuagagcuaauacaugccgacgggcgcugacccccuucg
cgggggggaugcgugcauuuaucagaucaaaaccaacccguagauaaccu
cgggccgaucgcacgccccccguggcggcgacgacccauucgaacgucug
cccuaucaacuuucgaugguagucgccgugccuaccauggugaccacggg
ugacggggaaucaggguucgauuccggagagggagccugagaaacggcua
ccacauccaaggaaggcagcaggcgcgcaaauuacccacucccgacccgg
ggagguagugacgaaaaauaacaauacaggacucuuucgaggcccuguaa
uuggaaugaguccacuuuaaauccuuuaacgaggauccauuggagggcaa
gucuggugccagcagccgcgguaauuccagcuccaauagcguauauuaaa
guugcugcaguuaaaaagcucguaguuggaucuugggagcgcgccccuug
ccucucggcgcgcccgaagcguuuacuuugaaaaaauuagaguguucaaa
gcaggcccgagccgccuggauaccgcagcuaggaauaauggaauaggacc
gcgguucuauuuuguugguuuucggaacugaggccaugauuaagagggac
ggccgggggcauucguauugcgccgcuagaggugaaauucuuggaccggc
gcaagacggaccagagcgaaagcauuugccaagaauguuuucauuaauca
agaacgaaagucggagguucgaagacgaucagauaccgucguaguuccga
ccauaaacgaugccgaccggcgaugcggcggcguuauucccaugacccgc
cgggcagcuuccgggaaaccaaagucuuuggguuccggggggaguauggu
ugcaaagcugaaacuuaaaggaauugacggaagggcaccaccaggagugg
agccugcggcuuaauuugacucaacacgggaaaccucacccggcccggac
acggacaggauugacagauugauagcucuuucucgauuccguggguggug
gugcauggccguucuuaguugguggagcgauuugucugguuaauuccgau
aacgaacgagacucuggcaugcuaacuaguuacgcgacccccgagcgguc
ggcgucccccaacuucuuagagggacaaguggcguucagccacccgagau
ugagcaauaacaggucugugaugcccuuagauguccggggcugcacgcgc
gcuacacugacuggcucagcgugugccuacccuacgccggcaggcgcggg
uaacccguugaaccccauucgugauggggaucggggauugcaauuauucc
ccaugaacgaggaauucccaguaagugcgggucauaagcuugcguugauu
aagucccugcccuuuguacacaccgcccgucgcuacuaccgauuggaugg
uuuagugaggcccucggaucggccccgccggggucggcccacggccucgg
cggagcgcugagaagacggucgaacuugacuaucuagaggaaguaaaagu
cguaacaagguuuccguaggugaaccugcggaaggaucauua
...<<<<..{.[[[[.>>>><<<.<<<<<<...<.<<..<......<<<.
<<<..<<...<<<.....................>>>>>......<<...
.....<<<......<<....<<<......................<....
<<.<<.......>>.>>......>...........<<<...<<<<<....
..>>>>>...>>>.....<<<<<........((((((.....>>>>>...
........<<<<..<<<......>>>.>>>>....>>>...>>....>>>
.<<<....<<<....<<<<<<<.........>>>>>>>>>>......>>>
...<<<<<<<<....>>>>...>>>>.>>.<<.<<<..........>>>.
>>.<.<<....>>.>...>>>>>>.........<<<....<<<<...>>>
>..>>>..>...>>.>.....<<<<<<<<<.<<<....>>>..>>>>>.>
>>>......<<..<...........>..>>.........<<<<<((....
..<<<<.....<<..))>>.......>>>>.>>>>>..>>>>>>.>>>..
.......<.<[[.....<.<<...<<<.<<....<<<.<<<>>>>>>...
....<<<<.<..>>>>>.....<<<<<..<.......<<...<.......
>..<<<.......>>>....>>......>..>>..>>>..........<<
.<<<<<<<.....))))))....>>>>>>>.>>......>>....<<<<<
<......<<<<..<<..<<<<<<<....<<<......>>>.......>>>
>>>>..>>.......<<....>>...>>>>.....>>>.>>>...>>>..
.>>.>....<<<<<<<...<...<<<<.........>>>>...>>>>>>>
>..........<<<.<<.<<<....<<<<<<.<<<<......>>>>>>>>
>>....>>>...<<..]]>>...>>.....>>>.>.>.<<<......<<<
<....>>>>....>>>..]]]].}<<<<<.<<<<<<<..<<..<<<<<..
<<<.<<<<........<<........>>..........<<<<<.<....<
<<<<........<<.<<<........>>>.>>......>>>>>...<<.<
<<..<<.<<<<<<....<<<.<<<<<....>>>...<<<......>>>..
.>>.>>>....<<<...<...<<<...<.<<....<<...<<<<....>>
>>..>>....>>.>...>>>..>.....<<<<<.....>>>>>.......
.>>>....>>>.>>>.....>>>>>>>.....>.>>>>>......>>>>.
>>>.....<<.<<<................<<<.<<<<....>>>>.>>>
..............>>>.>>......<.....<<<<<..........>>>
>>.....>.....>>>>>.....<<<<<<<<.......>>>>>>>>....
..>>...>>>>>>>>>>.>>.......<<.<..<<<<.<<....<<<<<<
<<.<<<..<<<<.<<...<<<<<.<<<<<<<<<<<<.....>>>>>>>>>
>>>...>>>>>...>>.>>>>..>>>.>>>>>>>>...>>.>>>>...>.
>>.........<<<<<<<<<....>>>>>>>>>.........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4d5l Cryo-Em of Ribosomal 80S Complexes with Termination Factors Reveals the Translocated Cricket Paralysis Virus Ires.
Resolution9.0 Å
Binding residue
(original residue number in PDB)		I7 R8 T9 R10 K11 F12 T14 K21 A33 P36 K37 M47 Y48 K49 F58 G59 F60 R61 F64 D77 H89 K100 T102 S103 R104 K108 K111 N112 K115 K116 R118 G119 T120 K122 A123
Binding residue
(residue number reindexed from 1)		I4 R5 T6 R7 K8 F9 T11 K18 A30 P33 K34 M44 Y45 K46 F55 G56 F57 R58 F61 D74 H86 K97 T99 S100 R101 K105 K108 N109 K112 K113 R115 G116 T117 K119 A120
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0022626 cytosolic ribosome
GO:0044391 ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4d5l, PDBe:4d5l, PDBj:4d5l
PDBsum4d5l
PubMed25601755
UniProtG1TS40

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