Structure of PDB 6r5q Chain x Binding Site BS01

Receptor Information

>6r5q Chain x (length=262) Species: 9986 (Oryctolagus cuniculus)

ARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIIFLRNR
LKYALTGDEVKKICMQRFIKIDGKVRTDITYPAGFMDVISIDKTGENFRL
IYDTKGRFAVHRITPEEAKYKLCKVRKIFVGTKGIPHLVTHDARTIRYPD
PLIKVNDTIQIDLETGKITDFIKFDTGNLCMVTGGANLGRIGVITNRERH
PGSFDVVHVKDANGNSFATRLSNIFVIGKGNKPWISLPRGKGIRLTIAEE
RDKRLAAKQSSG

Ligand information

>6r5q Chain K (length=1698)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucguacuuggauaacugugguaa
uucuagagcuaauacaugccgacgggcgcugacccccuucgcggggggga
ugcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacg
cccggcggcgacgacccauucgaacgucugcccuaucaacuuucgauggu
agucgccgugccuaccauggugaccacgggugacggggaaucaggguucg
auuccggagagggagccugagaaacggcuaccacauccaaggaaggcagc
aggcgcgcaaauuacccacucccgacccggggagguagugacgaaaaaua
acaauacaggacucuuucgaggcccuguaauuggaaugaguccacuuuaa
auccuuuaacgaggauccauuggagggcaagucuggugccagcagccgcg
guaauuccagcuccaauagcguauauuaaaguugcugcaguuaaaaagcu
cguaguuggaucuugggagcggccguccccugcucggcgccggcccgaag
cguuuacuuugaaaaaauuagaguguucaaagcaggccgccuggauaccg
cagcuaggaauaauggaauaggaccgcgguucuauuuuguugguuuucgg
aacugaggccaugauuaagagggacggccgggggcauucguauugcgccg
cuagaggugaaauucuuggaccggcgcaagacggaccagagcgaaagcau
uugccaagaauguuuucauuaaucaagaacgaaagucggagguucgaaga
cgaucagauaccgucguaguuccgaccauaaacgaugccgacuggcgaug
cggcggcguuauucccaugacccgccgggcagcuuccgggaaaccaaagu
cuuuggguuccggggggaguaugguugcaaagcugaaacuuaaaggaauu
gacggaagggcaccaccaggaguggagccugcggcuuaauuugacucaac
acgggaaaccucacccggcccggacacggacaggauugacagauugauag
cucuuucucgauuccgugggugguggugcauggccguucuuaguuggugg
agcgauuugucugguuaauuccgauaacgaacgagacucuggcaugcuaa
cuaguuacgcgaccccggucggcguaacuucuuagagggacaaguggcgu
ucagccacccgagauugagcaauaacaggucugugaugcccuuagauguc
cggggcugcacgcgcgcuacacugacuggcucagcgugugccuacccuac
gccggcaggcgcggguaacccguugaaccccauucgugauggggaucggg
gauugcaauuauuccccaugaacgaggaauucccaguaagugcgggucau
aagcuugcguugauuaagucccugcccuuuguacacaccgcccgucgcua
cuaccgauuggaugguuuagugaggcccucggaucggccccgccggggug
cccuggcggagcgcugagaagacggucgaacuugacuaucuagaggaagu
aaaagucguaacaagguuuccguaggugaaccugcggaaggaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6r5q Structural and mutational analysis of the ribosome-arresting human XBP1u.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): A2 R3 G4 P5 K6 K7 H8 K10 R11 V12 A13 M19 D21 K22 V26 F27 P29 R30 T33 G34 H36 K37 L38 R49 R51 T57 D59 K62 M66 Q67 K128 F130 V131 G132 T133 K134 V140 A144 R145 T146 R148 G186 A187 N188 H201 A219 R245 R255
• Binding residue (residue number reindexed from 1): A1 R2 G3 P4 K5 K6 H7 K9 R10 V11 A12 M18 D20 K21 V25 F26 P28 R29 T32 G33 H35 K36 L37 R48 R50 T56 D58 K61 M65 Q66 K127 F129 V130 G131 T132 K133 V139 A143 R144 T145 R147 G185 A186 N187 H200 A218 R244 R254

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6r5q, PDBe:6r5q, PDBj:6r5q
• PDBsum: 6r5q
• PubMed: 31246176
• UniProt: G1TK17|RS4X_RABIT Small ribosomal subunit protein eS4 (Gene Name=RPS4X)