Structure of PDB 4v4i Chain e Binding Site BS01

Receptor Information

>4v4i Chain e (length=208) Species: 262724 (Thermus thermophilus HB27)

GRYIGPVCRLCRREGVKLYLKGERCYSPKCAMERRPYPPGQHGQKRARRP
SDYAVRLREKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRL
DNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEK
SRNLELIRQNLEAMKGRKVGPWLSLDVEGMKGKFLRLPDREDLALPVNEQ
LVIEFYSR

Ligand information

>4v4i Chain y (length=1502)

uggagaguuugauccuggcucagggugaacgcuggcggcgugccuaagac
augcaagucgugcgggccgcgggguuuuacuccguggucagcggcggacg
ggugaguaacgcgugggugaccuacccggaagagggggacaacccgggga
aacucgggcuaaucccccauguggacccgccccuugggguguguccaaag
ggcuuugcccgcuuccggaugggcccgcgucccaucagcuaguugguggg
guaauggcccaccaaggcgacgacggguagccggucugagaggauggccg
gccacaggggcacugagacacgggccccacuccuacgggaggcagcaguu
aggaaucuuccgcaaugggcgcaagccugacggagcgacgccgcuuggag
gaagaagcccuucgggguguaaacuccugaacccgggacgaaacccccga
ggaggggacugacgguaccgggguaauagcgccggccaacuccgugccag
cagccgcgguaauacggagggcgcgagcguuacccggauucacugggcgu
aaagggcguguaggcggccuggggcgucccaugugaaagaccacggcuca
accgugggggagcgugggauacgcucaggcuagacggugggagagggugg
uggaauucccggaguagcggugaaaugcgcagauaccgggaggaacgccg
auggcgaaggcagccaccugguccacccgugacgcugaggcgcgaaagcg
uggggagcaaaccggauuagauacccggguaguccacgcccuaaacgaug
cgcgcuaggucucugggucuccugggggccgaagcuaacgcguuaagcgc
gccgccuggggaguacggccgcaaggcugaaacucaaaggaauugacggg
ggcccgcacaagcgguggagcaugugguuuaauucgaagcaacgcgaaga
accuuaccaggccuugacaugcuagggaacccgggugaaagccuggggug
ccccgcgaggggagcccuagcacaggugcugcauggccgucgucagcucg
ugccgugagguguuggguuaagucccgcaacgagcgcaacccccgccguu
aguugccagcgguucggccgggcacucuaacgggacugcccgcgaaagcg
ggaggaaggaggggacgacgucuggucagcauggcccuuacggccugggc
gacacacgugcuacaaugcccacuacaaagcgaugccacccggcaacggg
gagcuaaucgcaaaaaggugggcccaguucggauuggggucugcaacccg
accccaugaagccggaaucgcuaguaaucgcggaucagccaugccgcggu
gaauacguucccgggccuuguacacaccgcccgucacgccaugggagcgg
gcucuacccgaagucgccgggagccuacgggcaggcgccgaggguagggc
ccgugacuggggcgaagucguaacaagguagcuguaccggaaggugcggc
ug

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v4i Crystal Structure of a 70S Ribosome-tRNA Complex Reveals Functional Interactions and Rearrangements
• Resolution: 3.71 Å
• Binding residue (original residue number in PDB): G2 R3 I5 R10 R25 K30 Y38 H43 S52 Y54 A55 E72 R73 Q74 S83 K84 K85 K86 G87 V88 R115 Q116 R118 Q119 R122 H123 R132 D134 L135 S137 Y138 R209
• Binding residue (residue number reindexed from 1): G1 R2 I4 R9 R24 K29 Y37 H42 S51 Y53 A54 E71 R72 Q73 S82 K83 K84 K85 G86 V87 R114 Q115 R117 Q118 R121 H122 R131 D133 L134 S136 Y137 R208

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding

Biological Process

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

Cellular Component

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

External links

• PDB: RCSB:4v4i, PDBe:4v4i, PDBj:4v4i
• PDBsum: 4v4i
• PubMed: 16962654
• UniProt: P80373|RS4_THET8 Small ribosomal subunit protein uS4 (Gene Name=rpsD)