Structure of PDB 7phc Chain K Binding Site BS01

Receptor Information

>7phc Chain K (length=136) Species: 272634 (Mycoplasmoides pneumoniae M129)

ATIAQLIRKPRKKKKVKSKSPALHYNLNLLNKKVTNVYSPLKRGVCTRVG
TMTPKKPNSALRKYAKVRLTNGFEVLTYIPGEGHNLQEHSVTLLRGGRVK
DLPGVRYHIVRGTLDTVGVEKRRQQRSAYGAKKPKA

Ligand information

>7phc 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: 7phc Visualizing translation dynamics at atomic detail inside a bacterial cell.
• Resolution: 9.9 Å
• Binding residue (original residue number in PDB): A2 T3 A5 Q6 R9 R12 K13 K14 K15 S19 K20 H25 N29 L30 L31 Y39 S40 P41 L42 R44 K57 N59 S60 A61 L62 R63 Y79 G82 E83 G84 R96 R99 K101 D102 P104 G105 R107 T114 K122 R123 R124 Q125 R127 S128 Y130 K133 K134 K136 A137
• Binding residue (residue number reindexed from 1): A1 T2 A4 Q5 R8 R11 K12 K13 K14 S18 K19 H24 N28 L29 L30 Y38 S39 P40 L41 R43 K56 N58 S59 A60 L61 R62 Y78 G81 E82 G83 R95 R98 K100 D101 P103 G104 R106 T113 K121 R122 R123 Q124 R126 S127 Y129 K132 K133 K135 A136

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:7phc, PDBe:7phc, PDBj:7phc
• PDBsum: 7phc
• PubMed: 36171285
• UniProt: P75546|RS12_MYCPN Small ribosomal subunit protein uS12 (Gene Name=rpsL)