Structure of PDB 7ood Chain s Binding Site BS01

Receptor Information
>7ood Chain s (length=92) Species: 272634 (Mycoplasmoides pneumoniae M129) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DVTNVLLKPVLTEKVYFNQMGETKKYVFVVNPKASKTRVKLAFELVYGIK
PLKVNTLIRKPTTIRGGSRFPGLSKLEKLAVITLPKGIAISV
Ligand information
>7ood Chain 3 (length=2879) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aguuacuaagggcuuaugguggaugccuuggcacuaauaggcgaugaagg
acguguuaaccugcgauaagcuucggguaggugguaagaaccucagaucc
ggagauuuccgaauggagcaauccgguaguuggaaacagcuaucauuaau
ugaugaauaaauagucaauuaaagcaauacguggugaagugaaacaucuc
aguagccacaggaaaagaaaacgaaugugauuccguguguaguggcgagc
gaaagcggaacaggccaaacuuaucauuagauagggguuguagggcuugc
aauguggacuugaaaacgauagaagaagcuguuggaaagcagcgcgcaaa
agggugauagccccguauuugaaauuguuuucauaccuagcgagaucccu
gaguagcucggaaaacguuauuuugagugaaucugcccagaccauugggu
aagccuaaauacuaauuagugaccgauagcgaaacaguaccgugagggaa
aggugaaaagaacccagagaugggagugaaauagauucugaaaccauaug
ccuacaacgugucagagcacauuaaugugugauggcgugcguuuugaagu
augagccggcgaguuaugauagcaagcguuaguuaaccaggagaugggga
gcuguagcgaaagcgaguuuuaaaagagcguuuguuuguuauuauagacc
cgaaacggguugagcuagucaugagcagguugaagguugaguaacaucaa
cuggaggaccgaaccgacucucguugaaacgauagcggaugacuugugau
uaggggugaaauuccaaucgaaauccgugauagcugguucucgucgaaau
agcuuuaaggcuagcgugagaucacaaauaaguggagguaaagcuacuga
auguaugauggcgccaccuaggcguacugaauacaauuaaacucugaaug
ccauuuauuuuauucucgcagucagacagugggggauaagcuucauuguc
aagaggggaagagcccagaucauuaaauaagguccccaaaauauacuaag
uggaaaaggaugugaaagugcuaaaacagcaaggauguuggcuuagaagc
agccaucguuuaaagagugcguaacagcucacuugucgaguguuuuugcg
ccgaagauguaacggggcuaaguauauuaccgaauuuauggauaagauuu
auaucuugugguagacgagcguuguauuggaguugaagucaaagcgugag
cauugguggauccaauacaagugagaaugccggcaugaguaacgcuuggg
agugagaaucucccaaaccgauugacuaagguuuccuggaccagggucgu
ccuuccaggguuagucuggaccuaagcugaggcugaaaagcguaggcgau
ggacaacagguuaauauuccuguacuuacaguuagacugauggagugaca
aagaagguuuuccacccccauaauuggauuuggggauaaaucauaaggug
guacaauaggcaaauccguugugcauaacauugagugaugaugucgagug
aaaguagcgaaggugguauuaaucaugcuuucaagaaaagcuucuagggu
uaaucuagcuguaaccaguaccgagaacgaacacacguagucaaggagag
gauccuaagguuagcgagugaacuauagccaaggaacucugcaaauuaac
cccguaaguuagcgagaaggggugcuuauguaaaaguaagccgcagugaa
gaacgaggggggacuguuuaacuaaaacacaacucuaugccaaaccguaa
ggugauguauauggggugacaccugcccagugcuggaagguuaaagaagg
agguuagcgcaagcgaagcuuuuaacugaagccccagugaacggcggccg
uaacuauaacgguccuaagguagcgaaauuccuagucggguaaauuccgu
cccgcuugaaugguguaaccaucucuugacugucucggcuauagacucgg
ugaaauccagguacgggugaagacacccguuaggcgcaacgggacggaaa
gaccccgugaagcuuuacuguagcuuaauauugaucaggacauuaucaug
uagagaauagguaggagcaaucgaugcaaguucgcuaggacuuguugaug
cgaaagguggaauacuacccuugguugugugcuguucuaauugguaacug
uuauccaguuucaagacaguguuaggugggcaguuugacuggggcggucg
ccuccuaaaagguaacggaggcguacaaagguaccuucaguacgguugga
aaucguauguagaguguaaugguguaagggugcuugacugugagacauac
aggucgaacaggugagaaaucaggucauagugauccggugguccaguaug
gaauggccaucgcucaacggauaaaagcuacuccggggauaacaggcuga
uacugcccaagaguucauaucgacggcaguguuuggcaccucgaugucga
cucaucucauccucgagcugaagcagguucgaaggguucggcuguucgcc
gauuaaagagauacgugaguuggguucaaaccgucgugagacagguuggu
cccuaucuauugugcccguaggaagauugaagaguguugcuucuaguacg
agaggaccgaagcgaggacaccucuuaugcuccaguuguagcgccagcug
caccgcuggguaguaacgugucuauuagauaaacgcugaaagcaucuaag
ugugaaacuaucucaaagauuaaucuucccauuucgaaaguaagagccgu
caaagacgaugacguugauagguuacagguguaagcauagugauauguug
agcugaguaauacuaauugcucgaggacu
<<<......<<<<.<<<<<<....{[[..[[<<<<<<<[[<<......<<
<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>.....>>>
>>>>...>>>....<<<....>>><<<<<<<<....>>>>>>>>.<<<<<
<<<<.........>>>>>>>>>.>>....<<<<<<.....<<....>>..
....>>>>>.>.........<<....>>..<<<<<<.....<<.....>>
....>>>>>>..(((....<<<<<......>>>>>......<<<<<<<<<
.....<....<<<<<<<<<<.<<<...<<<<<......>>>>>((.....
.<<<.....))>>>...>>>...>>>>>>>>>>...>..>>>>>..>>>>
.....<<<<<<<<.......>>>>>>>>......<<<<<..<<<<>>>>>
..)))......]].>>>>>>>.]]...............<<....>>...
.]].........<<<<....>>>>.............}....>>>>>>.>
>>>.......<<<<..<<<<......>>>>..>>>>...<<<........
>>>.<<<<<<....<<<<<<<<<<<<<...<<<...<<<.....>>>...
>>>...<<....>>..<<<<.....>>>>....>>>>>>>>>>>>>..<<
.<..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<......>>>>
>>.....>>>...<<<.<<.<<........>>.>>>>>....>>>>>>>>
>...<<.......>>......>>>>>>...>..>.>>..<<<<<<....<
<<<<....>>>>><<<<<<<<....<<<<<<<<<<......<<....<<.
.<<<<<...<.<<<<.....>>>>..>...>>>>>..>>..>>.......
>>>>>>>>>>...>>>>>>.>>..<<<<<<<<<<......>>>>>>>>>>
....<<<......>>>...<<<<.<<<...<<<(((...<<<<<<<....
.......<<..<<<<<<<<<<.......<<<<<.<<...<<<<.......
>>>>...>>.........<<......>>...>>>>>...>>>>>>>>>>.
>>...........))).....>>>>>>>>>>...>>>>>>><<<<<<<..
..>>>>>>>....>>>>>><<<<<<<<<<<<......<<<<<.<<....>
>.>>>>>...>>>>>>>>>>.>>.....>>>>>>.......<<...<<<<
<<.......>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....
>>.>>>>>>....((<<<<.<<...<<<...<<<....>>>...>>>...
>>...<<<<<........>>>>>))<<<<<<<<<<<<<...<<<<<...<
<<<...<<<..<<<<<<<<<....(((...>>>>><<..<<<<<..<<<<
<<<<<<<.<<.....>>>>>>>>>....>>>>..>>>>>...>><..<<.
......>>...>>>>>....>>>....>>>>........>>>>>..>>..
...>>>>>>>>>>>>>>>..>>.....<<......>>>>>>>.<<<<...
..>>>>..>>>>..<<<<<...<<<<<<<<.<<...............<<
<<<.....<..>......>>>>><<<<<<......>>>>>>.........
...<<<<<<<<<..<<<.........>>>..<<<<<<<.....<<<....
>>>.......>>>>>>>.<<<<<.<<<..<<<<<<<..<<<...<<..<<
<<<<..<<....>>...>>>>>>..>>...>>>>>>>>..>>>>><<<<<
<.......>>>>>>........<...........<.<<<.......>>>.
>.....>....>>>>>..>>.>>>>>>>.....>>.>>>>>>>>>>>>>>
>...........<<<<<........>>>>>..<<<<<<<..(((.[[...
...<<<<.[[<<<<..<<<<<.<<<<<<<<<.<<.<<<.<<<<..<<<..
.........<<<<<..<<<......<<<<<<<......>>>>>>>...>>
>.............>>>>>..>>>..>>>>.>>>.>>...<<<..<<<<<
.....>>>>>.>>>....>>>>>>>>>..>>>>>..<<<<.....>>>><
<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<<.....
..>>>>>>.....<<.[.(((>>....>>>>>>>...<<<<..<<<....
..>>>..>>>>.<<<....>>>.>>)))]......<<<<<<<.((..>>>
>..))>>>>>>>.............>>>>..]]>>>>.......<<<<..
.<<<<<<...<<.......>>...>>>>>>....>>>.>.......<<<<
<.<<<<<<..<<<<<<<<<......>>>>>>..>>>.<<<<<.....>>>
>>.....>>>>>..>...>>>.>>....<<<<<<<....>>>.>>>>...
.]]..))).>>>>>>>....<<<<<<<....<<<..<<<<<<<.......
........>>>>>>><<<<<<...<<<<...<<<<<<<<<<<.)))>>>>
>>..>>>>>...>>>>.>>>>>>..<<<....<<<<<...........>>
>>>....>>>.>>>........>>>>>>>...<<..>>.....<<<<<<<
<.........>>>>....<<<<<<<<.<<<....<<<<<....>>>>>..
.>>>..>>>>>.>>>...>>>>....>>>
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7ood Visualizing translation dynamics at atomic detail inside a bacterial cell.
Resolution3.4 Å
Binding residue
(original residue number in PDB)
D2 T13 K15 K26 S36 K37 R39 K41 K51 N56 T57 I59 R60 K61 R66 G67 F71 K76 K79
Binding residue
(residue number reindexed from 1)
D1 T12 K14 K25 S35 K36 R38 K40 K50 N55 T56 I58 R59 K60 R65 G66 F70 K75 K78
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:7ood, PDBe:7ood, PDBj:7ood
PDBsum7ood
PubMed36171285
UniProtP75578|RL23_MYCPN Large ribosomal subunit protein uL23 (Gene Name=rplW)

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