Structure of PDB 7sfr Chain d Binding Site BS01

Receptor Information

>7sfr Chain d (length=200) Species: 1773 (Mycobacterium tuberculosis)

ARYTGPVTRKSRRLRTDLVGGDQAFEKRPYPPGQHGRARIKESEYLLQLQ
EKQKARFTYGVMEKQFRRYYEEAVRQPGKTGEELLKILESRLDNVIYRAG
LARTRRMARQLVSHGHFNVNGVHVNVPSYRVSQYDIVDVRDKSLNTVPFQ
IARETAGERPIPSWLQVVGERQRVLIHQLPERAQIDVPLTEQLIVEYYSK

Ligand information

>7sfr Chain a (length=1519)

uggagaguuugauccuggcucaggacgaacgcuggcggcgugcuuaacac
augcaagucgaacggaaaggucucuucggagauacucgaguggcgaacgg
gugaguaacacgugggugaucugcccugcacuucgggauaagccugggaa
acugggucuaauaccggauaggaccacgggaugcaugucuugugguggaa
agcgcuuuagcggugugggaugagcccgcggccuaucagcuuguuggugg
ggugacggccuaccaaggcgacgacggguagccggccugagagggugucc
ggccacacugggacugagauacggcccagacuccuacgggaggcagcagu
ggggaauauugcacaaugggcgcaagccugaugcagcgacgccgcguggg
ggaugacggccuucggguuguaaaccucuuucaccaucgacgaagguccg
gguucucucggauugacgguagguggagaagaagcaccggccaacuacgu
gccagcagccgcgguaauacguagggugcgagcguuguccggaauuacug
ggcguaaagagcucguaggugguuugucgcguuguucgugaaaucucacg
gcuuaacugugagcgugcgggcgauacgggcagacuagaguacugcaggg
gagacuggaauuccugguguagcgguggaaugcgcagauaucaggaggaa
caccgguggcgaaggcgggucucugggcaguaacugacgcugaggagcga
aagcguggggagcgaacaggauuagauacccugguaguccacgccguaaa
cgguggguacuagguguggguuuccuuccuugggauccgugccguagcua
acgcauuaaguaccccgccuggggaguacggccgcaaggcuaaaacucaa
aggaauugacgggggcccgcacaagcggcggagcauguggauuaauucga
ugcaacgcgaagaaccuuaccuggguuugacaugcacaggacgcgucuag
agauaggcguucccuuguggccugugugcagguggugcauggcugucguc
agcucgugucgugagauguuggguuaagucccgcaacgagcgcaacccuu
gucucauguugccagcacguaaugguggggacucgugagagacugccggg
gucaacucggaggaagguggggaugacgucaagucaucaugccccuuaug
uccagggcuucacacaugcuacaauggccgguacaaagggcugcgaugcc
gcgagguuaagcgaauccuuaaaagccggucucaguucggaucggggucu
gcaacucgaccccgugaagucggagucgcuaguaaucgcagaucagcaac
gcugcggugaauacguucccgggccuuguacacaccgcccgucacgucau
gaaagucgguaacacccgaagccaguggccuaacccucgggagggagcug
ucgaaggugggaucggcgauugggacgaagucguaacaagguagccguac
cggaaggugcggcuggauc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7sfr Discovery of natural-product-derived sequanamycins as potent oral anti-tuberculosis agents.
• Resolution: 2.6 Å
• Binding residue (original residue number in PDB): A2 R3 T5 T9 R10 R13 R14 D23 Q24 E27 K28 R29 G34 Q35 H36 S44 Y46 L47 Q54 R57 E64 K65 R76 R104 R107 M108 R110 Q111 S114 H115 H117 H124 V125 N126 V127 S129 Y130 V148 P149 K201
• Binding residue (residue number reindexed from 1): A1 R2 T4 T8 R9 R12 R13 D22 Q23 E26 K27 R28 G33 Q34 H35 S43 Y45 L46 Q53 R56 E63 K64 R75 R103 R106 M107 R109 Q110 S113 H114 H116 H123 V124 N125 V126 S128 Y129 V147 P148 K200

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation
• GO:0042274 ribosomal small subunit biogenesis

Cellular Component

• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005886 plasma membrane
• GO:0009274 peptidoglycan-based cell wall
• GO:0015935 small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7sfr, PDBe:7sfr, PDBj:7sfr
• PDBsum: 7sfr
• PubMed: 36827973
• UniProt: P9WH35|RS4_MYCTU Small ribosomal subunit protein uS4 (Gene Name=rpsD)