Structure of PDB 4v61 Chain AG Binding Site BS01

Receptor Information
>4v61 Chain AG (length=154) Species: 3562 (Spinacia oleracea) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SRRGTVEEKTAKSDPIYRNRLVNMLVNRILKHGKKSLAYQILYRAVKKIQ
QKTETNPLSVLRQAIRGVTPDIAVKARRVGGSTHQVPIEIGSTQGKALAI
RWLLGAARKRPGRNMAFKLSSELVDAAKGSGDAVRKKEETHRMAEANRAF
AHFR
Ligand information
>4v61 Chain AA (length=1478) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uggagaguucgauccuggcucaggaugaacgcuggcggcaugcuuaacac
augcaagucggacgggaagugguguuuccaguggcggacgggugaguaac
gcguaagaaccugcccuugggaggggaacaacagcuggaaacggcugcua
auaccccguaggcugagaagcaaaaggaggaauccgcccgaggaggggcu
cgcgucugauuagcuaguuggugagguaauagcuuaccaaggcgaugauc
aguagcugguccgagaggaugaucagccacacugggacugagacacggcc
cagacuccuacgggaggcagcaguggggaauuuuccgcaaugggcgaaag
ccugacggagcaaugccgcguggaggcagaaggcccacgggucgugaacu
ucuuuucccggagaagaagcaaugacgguauccggggaauaagcaucggc
uaacucugugccagcagccgcgguaagacagaggaugcaagcguuauccg
gaaugauugggcguaaagcgucuguagguggcuuuuuaaguccgccguca
aaucccagggcucaacccuggacaggcgguggaaacuaccaagcuggagu
acgguaggggcagagggaauuuccgguggagcggugaaaugcguagagau
cggaaagaacaccaacggcgaaagcacucugcugggccgacacugacacu
gagagacgaaagcuaggggagcgaaugggauuagauaccccaguaguccu
agccguaaacgauggauacuaggcgcugugcguaucgacccgugcagugu
uguagcuaacgcguuaaguaucccgccuggggaguacguucgcaagaaug
aaacucaaaggaauugacgggggcccgcacaagcgguggagcaugugguu
uaauucgaugcaaagcgaagaaccuuaccagggcuugacaugccgcgaau
ccucuugaaagagaggggugccuucgggaacgcggacacagguggugcau
ggcugucgucagcucgugccguaagguguuggguuaagucccgcaacgag
cgcaacccucguguuuaguugccaacguugaguuuggaacccugaacaga
cugccggugauaagccggaggaaggugaggaugacgucaagucaucaugc
cccuuaugcccugggcgacacacgugcuacaauggccgggacaaaggguc
gcgaucccgcgagggugagcuaaccccaaaaacccguccucaguucggau
ugcaggcugcaacucgccugcaugaagccggaaucgcuaguaaucgccgg
ucagcaauacggcggugaauucguucccgggccuuguacacaccgcccgu
cacacuaugggagcuggccaugcccgaagucguuaccuuaaccgcaagga
gggggaugccgaaggcagggcuagugacuggagugaagucguaacaaggu
agccguacuggaaggugcggcuggauca
....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....<<<
.<<<..<<<..<<.<<..<......>>>..>>>>>......<<.......
<<<<.<<..<<<..<<<<<<<.<<<<.....<<<<<......>>>>>...
...>>>>....<<<....>>>....<<<....>>>.>>>>>>>.>>>.>>
.>>>><<<....<<<..<<<<<<<<.......>>>>>>>>>>>......>
>>..<<<<<<<<....>>>>...>>>>.>>.<<<<<.<.........>>>
>>>.<<<<....>>>>...>>>>>>.........<<<....<<<<....>
>>>..>>>..>>.>>>>>>..<<<<.......<<<....>>>......>>
>>.....<<<<<..................>>>>>.......<<<<<(((
...<<<<<.....<<.)))>>.......>>>>>>>>>>..>>>>>>>>>.
.........<<<((.....<<<<...<<<.<<<<..<.<<<<<<<<<<..
....<<<<<<.....>>>>>>....>>>>>>>>..>>>..>>>>...<<<
.<<<<...<<<<<<<....<<<<<<<<...<<<......>>>......>>
>>>>>.>..........<<....>>.>>>>>>>..>>>>..>>>...>>>
...>>>>....<<<<<<...<<...<<<<.<.....>.>>>>...>>>>>
>>>..........<<<<<<..<....<<<<.<......>.>>>>.....>
....<<..))>>.....>>>>>>.>>>.<<<......<<<<....>>>>.
...>>>..)))).]<<<<<.<<<<<<<.<<.<<<<<<..<<<<<<<<<<.
.....<<........>>..........<<<<<<<......<<<<<<<..<
<<<<<<....>>>>>>>...<<....>>..>>>>>.>>.<<<.<<<..<<
<<<<.......<<<<<<<<<....>>>..<<<<......>>>>..>>>>>
>.....<<<<.<<<<<<<...<<............>>....>>>>>>>..
...<<<<<.....>>>>>........>>>>.........>>>...>>>>>
>>>>...>>>>>>>...>>.>>>>>>>>.....<<.<<<<.....<<<..
<<...<<<....>>>...>>....>>>.....>>>>.>>......<....
<<<<<<<........>>>>>>>....>.....>>>>>>....<<<<<<<.
.........>>>>>>>......>>...>>>>>>>>>>.>>....<..<<.
<.<<<<.<<<..<<<<<<<.<<<<....<.<<<<.<<<<..<<....>>.
>>>>>>>>.>...>>>>.>>>>>>>..>>>.>>>>..>.>>...>.....
<<<<<<<<<....>>>>>>>>>......
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4v61 Cryo-EM study of the spinach chloroplast ribosome reveals the structural and functional roles of plastid-specific ribosomal proteins
Resolution9.4 Å
Binding residue
(original residue number in PDB)		S2 R4 G5 T6 K10 N28 R29 I30 K32 H33 G34 K35 K36 S37 L38 R78 R79 Q95 R102 R109 R114 N115 M116
Binding residue
(residue number reindexed from 1)		S1 R3 G4 T5 K9 N27 R28 I29 K31 H32 G33 K34 K35 S36 L37 R77 R78 Q94 R101 R108 R113 N114 M115
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
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:0009507 chloroplast
GO:0015935 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:4v61, PDBe:4v61, PDBj:4v61
PDBsum4v61
PubMed18042701
UniProtP82129|RR7_SPIOL Small ribosomal subunit protein uS7cz/uS7cy (Gene Name=rps7-A)

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