Structure of PDB 7paq Chain I Binding Site BS01

Receptor Information

>7paq Chain I (length=101) Species: 272634 (Mycoplasmoides pneumoniae M129)

VKYPELKIKLESYDSTLLDLTTKKIVEVVKGVDVKIKGPLPLPTKKEVIT
IIRSPHVDKASREQFEKNRHKRLMILVDVNQGAIDSLKRIKIPVGVTLRF
S

Ligand information

>7paq Chain 5 (length=1493)

ucugagaguuugauccuggcucaggauuaacgcuggcggcaugccuaaua
caugcaagucgaucgaaaguaguaauacuuuagaggcgaacgggugagua
acacguauccaaucuaccuuauaaugggggauaacuaguugaaagacuag
cuaauaccgcauaagaacuuugguucgaaucaaaguugaaaggaccugca
aggguucguuauuugaugagggugcgccauaucagcuaguugguggggua
acggccuaccaaggcaaugacguguagcuaugcugagaaguagaauagcc
acaaugggacugagacacggcccauacuccuacgggaggcagcaguaggg
aauuuuucacaaugagcgaaagcuugauggagcaaugccgcgugaacgau
gaaggucuuuaagauuguaaaguucuuuuauuugggaagaaugacuuuag
cagguaauggcuagaguuugacuguaccauuuugaauaagugacgacuaa
cuaugugccagcagucgcgguaauacauaggucgcaagcguuauccggau
uuauugggcguaaagcaagcgcaggcggauugaaaagucugguguuaaag
gcagcugcuuaacaguuguaugcauuggaaacuauuaaucuagagugugg
uagggaguuuuggaauuucauguggagcggugaaaugcguagauauauga
aggaacaccaguggcgaaggcgaaaacuuaggccauuacugacgcuuagg
cuugaaaguguggggagcaaauaggauuagauacccuaguaguccacacc
guaaacgauagauacuagcugucggggcgauccccucgguagugaaguua
acacauuaaguaucucgccuggguaguacauucgcaagaaugaaacucaa
acggaauugacggggacccgcacaagugguggagcauguugcuuaauucg
acgguacacgaaaaaccuuaccuagacuugacauccuuggcaaaguuaug
gaaacauaaugccgagugacagguggugcaugguugucgucagcucgugu
cgugagauguuggguuaagucccgcaacgagcgcaacccuuaucguuagu
uacauugucuagcgagacugcuaaugcaaauuggaggaaggaagggauga
cgucaaaucaucaugccccuuaugucuagggcugcaaacgugcuacaaug
gccaauacaaacagucgccagcuuguaaaagugagcaaaucuguaaaguu
ggucucaguucggauugagggcugcaauucguccucaugaagucggaauc
acuaguaaucgcgaaucagcuaugucgcggugaauacguucucgggucuu
guacacaccgcccgucaaacuaugaaagcugguaauauuuaaaaacgugu
ugcuaaccauuaggaagcgcaugucaaggauagcaccggugauuggaguu
aagucguaacaagguaccccuacgagaacguggggguggauca

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7paq Visualizing translation dynamics at atomic detail inside a bacterial cell.
• Resolution: 8.9 Å
• Binding residue (original residue number in PDB): K15 S21 D25 L46 P47 L48 P49 T50 K51 K52 E53 T56 R59 S60 P61 H62 V63 D64 K65 S67 R68 R75 R78 L79 R105
• Binding residue (residue number reindexed from 1): K9 S15 D19 L40 P41 L42 P43 T44 K45 K46 E47 T50 R53 S54 P55 H56 V57 D58 K59 S61 R62 R69 R72 L73 R99

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7paq, PDBe:7paq, PDBj:7paq
• PDBsum: 7paq
• PubMed: 36171285
• UniProt: P75581|RS10_MYCPN Small ribosomal subunit protein uS10 (Gene Name=rpsJ)