Structure of PDB 6g4s Chain T Binding Site BS01

Receptor Information

>6g4s Chain T (length=144) Species: 9606 (Homo sapiens)

PGVTVKDVNQQEFVRALAAFLKKSGKLKVPEWVDTVKLAKHKELAPYDEN
WFYTRAASTARHLYLRGGAGVGSMTKIYGGRQRNGVMPSHFSRGSKSVAR
RVLQALEGLKMVEKDQDGGRKLTPQGQRDLDRIAGQVAAANKKH

Ligand information

>6g4s Chain 2 (length=1613)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucguacuuggauaacugugguaa
uucuagagcuaauacaugccgacgggcgcugacccccuucgcggggggga
ugcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacg
ccggcggcgacgacccauucgaacgucugcccuaucaacuuucgauggua
gucgccgugccuaccauggugaccacgggugacggggaaucaggguucga
uuccggagagggagccugagaaacggcuaccacauccaaggaaggcagca
ggcgcgcaaauuacccacucccgacccggggagguagugacgaaaaauaa
caauacaggacucuuucgaggcccuguaauuggaaugaguccacuuuaaa
uccuuuaacgaggauccauuggagggcaagucuggugccagcagccgcgg
uaauuccagcuccaauagcguauauuaaaguugcugcaguuaaaaagcuc
guaguuggaucucucucggccgaagcguuuacuuugaaaaaauuagagug
uucaaagcaggccgccuggauaccgcagcuaggaauaauggaauaggacc
gcgguucuauuuuguugguuuucggaacugaggccaugauuaagagggac
ggccgggggcauucguauugcgccgcuagaggugaaauucuuggaccggc
gcaagacggaccagagcgaaagcauuugccaagaauguuuucauuaauca
agaacgaaagucggagguucgaagacgauaccgucguaguuccgaccaua
aacgaugccgaccggcgaugcggcggcguuauucccaugacccgccgggc
agcuuccgggaaaccaaagucuuuggguuccggggggaguaugguugcaa
agcugaaacuuaaaggaauugacggaagggcaccaccaggaguggagccu
gcggcuuaauuugacucaacacgggaaaccucacccggcccggacacgga
caggauugacagauugauagcucuuucucgauuccgugggugguggugca
uggccguucuugguggagcgauuugucugguuaauuccgauaacggacuc
uggcaugcuauucuuagagggacaaguggcguucagccacccgagauuga
gcaauaacaggucugugaugcccuguccggggcugcacgcgcgcuacacu
gacuggcucagcguguccuacgccggcaggcgcggguaacccguugaacc
ccauucgugauggggaucggggauugcaauuauuccccaugaacgaggaa
uucccaguaagugcgggucauaagcuugcguugauuaagucccugcccuu
uguacaccgcgucgcuacuaccgauuggaugguuuagugaggcccucgga
ucggccccgccggggugcccuggcggagcgcugagaagacggucgaacuu
gacuaucuagaggaaguaaaagucggguuuccguaggugaaccugcggaa
ggaucauuaacgg

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6g4s Visualizing late states of human 40S ribosomal subunit maturation.
• Resolution: 4.0 Å
• Binding residue (original residue number in PDB): Q12 E44 L45 A46 P47 G71 V72 S74 R82 G86 V87 F92 G119
• Binding residue (residue number reindexed from 1): Q11 E43 L44 A45 P46 G70 V71 S73 R81 G85 V86 F91 G118

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0017134 fibroblast growth factor binding
• GO:0019901 protein kinase binding
• GO:0042802 identical protein binding

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0002181 cytoplasmic translation
• GO:0002548 monocyte chemotaxis
• GO:0006364 rRNA processing
• GO:0006412 translation
• GO:0007000 nucleolus organization
• GO:0030218 erythrocyte differentiation
• GO:0030490 maturation of SSU-rRNA
• GO:0031640 killing of cells of another organism
• GO:0042274 ribosomal small subunit biogenesis
• GO:0050829 defense response to Gram-negative bacterium
• GO:0060265 positive regulation of respiratory burst involved in inflammatory response
• GO:0060266 negative regulation of respiratory burst involved in inflammatory response
• GO:0061844 antimicrobial humoral immune response mediated by antimicrobial peptide

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0014069 postsynaptic density
• GO:0016020 membrane
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0032040 small-subunit processome
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6g4s, PDBe:6g4s, PDBj:6g4s
• PDBsum: 6g4s
• PubMed: 29875412
• UniProt: P39019|RS19_HUMAN Small ribosomal subunit protein eS19 (Gene Name=RPS19)