Structure of PDB 5ngm Chain Ag Binding Site BS01

Receptor Information
>5ngm Chain Ag (length=152) Species: 1280 (Staphylococcus aureus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MPRKGSVPKRDVLPDPIHNSKLVTKLINKIMLDGKRGTAQRILYSAFDLV
EQRSGRDALEVFEEAINNIMPVLEVKARRVGGSNYQVPVEVRPERRTTLG
LRWLVNYARLRGEKTMEDRLANEILDAANNTGGAVKKREDTHKMAEANKA
FA
Ligand information
>5ngm Chain Aa (length=1539) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
auggagaguuugauccuggcucaggaugaacgcuggcggcgugccuaaua
caugcaagucgagcgaacggacgagaagcuugcuucucugauguuagcgg
cggacgggugaguaacacguggauaaccuaccuauaagacugggauaacu
ucgggaaaccggagcuaauaccggauaauauuuugaaccgcaugguucaa
aagugaaagacggucuugcugucacuuauagauggauccgcgcugcauua
gcuaguugguaagguaacggcuuaccaaggcaacgaugcauagccgaccu
gagagggugaucggccacacuggaacugagacacgguccagacuccuacg
ggaggcagcaguagggaaucuuccgcaaugggcgaaagccugacggagca
acgccgcgugagugaugaaggucuucggaucguaaaacucuguuauuagg
gaagaacauauguguaaguaacugugcacaucuugacgguaccuaaucag
aaagccacggcuaacuacgugccagcagccgcgguaauacguagguggca
agcguuauccggaauuauugggcguaaagcgcgcguaggcgguuuuuuaa
gucugaugugaaagcccacggcucaaccguggagggucauuggaaacugg
aaaacuugagugcagaagaggaaaguggaauuccauguguagcggugaaa
ugcgcagagauauggaggaacaccaguggcgaaggcgacuuucuggucug
uaacugacgcugaugugcgaaagcguggggaucaaacaggauuagauacc
cugguaguccacgccguaaacgaugagugcuaaguguuaggggguuuccg
ccccuuagugcugcagcuaacgcauuaagcacuccgccuggggaguacga
ccgcaagguugaaacucaaaggaauugacggggacccgcacaagcggugg
agcaugugguuuaauucgaagcaacgcgaagaaccuuaccaaaucuugac
auccuuugacaacucuagagauagagccuuccccuucgggggacaaagug
acagguggugcaugguugucgucagcucgugucgugagauguuggguuaa
gucccgcaacgagcgcaacccuuaagcuuaguugccaucauuaaguuggg
cacucuaaguugacugccggugacaaaccggaggaagguggggaugacgu
caaaucaucaugccccuuaugauuugggcuacacacgugcuacaauggac
aauacaaagggcagcgaaaccgcgaggucaagcaaaucccauaaaguugu
ucucaguucggauuguagucugcaacucgacuacaugaagcuggaaucgc
uaguaaucguagaucagcaugcuacggugaauacguucccgggucuugua
cacaccgcccgucacaccacgagaguuuguaacacccgaagccgguggag
uaaccuuuuaggagcuagccgucgaaggugggacaaaugauuggggugaa
gucguaacaagguagccguaucggaaggugcggcuggau
.....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....<<
<.<<<..<<<..<<.<<<<......................>>>>.>>>>
>......<<........<<<<<<<..<<...<<<<<<<.<<<<.....<<
<<<<....>>>>>>......>>>>......<<<.<...........>.>>
>.......<....<...>...>..>>>>>>>..>>>>>>>>>.<<<....
<<<..<<<<<<<<.......>>>>>>>>>>>......>>>..<<<<<<<<
....>>>>...>>>>.>>.<<<<<.<.........>>>>>>.<<<<....
>>>>...>>>>>>.........<<<....<<<<....>>>>..>>>..>>
.>>>>>>..<<<<.......<<<....>>>......>>>>....<<<<<<
.......<.<<<<<<<........>>>>>>>.>........>>>>>>...
...<<<<<(((...<<<<<.....<<.)))>>.......>>>>>>>>>>.
.>>>>>>>>>..........<<<((.....<<<<<..<<<.<<<<<<<.<
<<<<<<<<.......<<<<<<.....>>>>>>.....>>>>>>>..>>>>
>>>>>...<<<<<<<<...<<<<<<<....<<<<<<<<...<<<......
>>>......>>>>>>>>...........<<....>>.>>>>>>>..>>>>
>.>>>...>>>..>>>>>....<<<<<<<...<...<<<<.........>
>>>...>>>>>>>>..........<<<<<<..<<<<<<<<<<<<<....>
>>>>>>>>>>>>...<<..))>>.....>>>>>>.>>>.<<<......<<
<<....>>>>....>>>..)))).]<<<<<.<<<<<<<.<<..<<<<<..
<<<<<<<<<<......<<........>>..........<<<<<<<.....
..<<<<......<<<<<....>>>>>.....<<<<..>>>>....>>>.>
..<<<.<<<..<<<<<<.......<<<<<<<<<....>>>..<<<<....
..>>>>..>>>>>>.....<<<<..<.<<.........<<......>>..
.......>>>......<<<<.......>>>>........>>>>.......
..>>>...>>>>>>>>>...>>>>>>>...>>.>>>>>>>>......<<<
<<<.....<<<..<<...<<<....>>>...>>....>>>.....>>>>>
>.......<..<.<<<..<<........>>..>>>>...>.....>>>>>
.....<<<<<<<.........>>>>>>>......>>...>>>>>>>>>>.
>>....<..<<.<.<<<<.<<<..<<<<<<..<<<<....<.<<<<..<<
<..<<<...>>>.>>>.>>>>.>...>>>>..>>>>>>..>>>.>>>>..
>.>>...>.....<<<<<<<<<....>>>>>>>>>....
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5ngm The cryo-EM structure of hibernating 100S ribosome dimer from pathogenic Staphylococcus aureus.
Resolution2.9 Å
Binding residue
(original residue number in PDB)		P2 R3 K4 S6 V7 R10 K25 N28 I30 M31 L32 D33 G34 K35 R36 G37 T38 R41 I42 R79 G82 R95 T98 R102 R109 E113 K114 T115 M116
Binding residue
(residue number reindexed from 1)		P2 R3 K4 S6 V7 R10 K25 N28 I30 M31 L32 D33 G34 K35 R36 G37 T38 R41 I42 R79 G82 R95 T98 R102 R109 E113 K114 T115 M116
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0003723 RNA binding
GO:0003729 mRNA binding
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0000028 ribosomal small subunit assembly
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0015935 small ribosomal subunit
GO:0022627 cytosolic small ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5ngm, PDBe:5ngm, PDBj:5ngm
PDBsum5ngm
PubMed28959035
UniProtA0A077VHU6

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