Structure of PDB 7d80 Chain L Binding Site BS01

Receptor Information

>7d80 Chain L (length=117) Species: 562 (Escherichia coli)

RKQVSDGVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFA
AQVAAERCADAVKEYGIKNLEVMVKGPGPGRESTIRALNAAGFRITNITD
VTPIPHNGCRPPKKRRV

Ligand information

>7d80 Chain B (length=1539)

aauugaagaguuugaucauggcucagauugaacgcuggcggcaggccuaa
cacaugcaagucgaacgguaacaggaagaagcuugcuucuuugcugacga
guggcggacgggugaguaaugucugggaaacugccugauggagggggaua
acuacuggaaacgguagcuaauaccgcauaacgucgcaagaccaaagagg
gggaccuucgggccucuugccaucggaugugcccagaugggauuagcuag
uaggugggguaacggcucaccuaggcgacgaucccuagcuggucugagag
gaugaccagccacacuggaacugagacacgguccagacuccuacgggagg
cagcaguggggaauauugcacaaugggcgcaagccugaugcagccaugcc
gcguguaugaagaaggccuucggguuguaaaguacuuucagcggggagga
agggaguaaaguuaauaccuuugcucauugacguuacccgcagaagaagc
accggcuaacuccgugccagcagccgcgguaauacggagggugcaagcgu
uaaucggaauuacugggcguaaagcgcacgcaggcgguuuguuaagucag
augugaaauccccgggcucaaccugggaacugcaucugauacuggcaagc
uugagucucguagagggggguagaauuccagguguagcggugaaaugcgu
agagaucuggaggaauaccgguggcgaaggcggcccccuggacgaagacu
gacgcucaggugcgaaagcguggggagcaaacaggauuagauacccuggu
aguccacgccguaaacgaugucgacuuggagguugugcccuugaggcgug
gcuuccggagcuaacgcguuaagucgaccgccuggggaguacggccgcaa
gguuaaaacucaaaugaauugacgggggcccgcacaagcgguggagcaug
ugguuuaauucgaugcaacgcgaagaaccuuaccuggucuugacauccac
ggaaguuuucagagaugagaaugugccuucgggaaccgugagacaggugc
ugcauggcugucgucagcucguguugugaaauguuggguuaagucccgca
acgagcgcaacccuuauccuuuguugccagcgguccggccgggaacucaa
aggagacugccagugauaaacuggaggaagguggggaugacgucaaguca
ucauggcccuuacgaccagggcuacacacgugcuacaauggcgcauacaa
agagaagcgaccucgcgagagcaagcggaccucauaaagugcgucguagu
ccggauuggagucugcaacucgacuccaugaagucggaaucgcuaguaau
cguggaucagaaugccacggugaauacguucccgggccuuguacacaccg
cccgucacaccaugggaguggguugcaaaagaaguagguagcuuaaccuu
cgggagggcgcuuaccacuuugugauucaugacuggggugaagucguaac
aagguaaccguaggggaaccugcgguuggaucaccuccu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7d80 Structural insights into the interplay of protein biogenesis factors with the 70S ribosome.
• Resolution: 4.1 Å
• Binding residue (original residue number in PDB): N28 N29 I31 G39 N40 A41 W44 T46 G48 G49 R53 G54 S55 K57 K87 I116 P117 H118 N119 G120 R122 K125 K126 R127 R128
• Binding residue (residue number reindexed from 1): N16 N17 I19 G27 N28 A29 W32 T34 G36 G37 R41 G42 S43 K45 K75 I104 P105 H106 N107 G108 R110 K113 K114 R115 R116

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding
• GO:0070181 small ribosomal subunit rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7d80, PDBe:7d80, PDBj:7d80
• PDBsum: 7d80
• PubMed: 33761323
• UniProt: P0A7R9|RS11_ECOLI Small ribosomal subunit protein uS11 (Gene Name=rpsK)