Structure of PDB 7qwr Chain B Binding Site BS01

Receptor Information

>7qwr Chain B (length=394) Species: 9986 (Oryctolagus cuniculus)

SHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKA
GMTHIVREVDRPGSKVNKKEVVEAVTIVETPPMVVVGIVGYVETPRGLRT
FKTVFAEHISDECKRRFYKNWHKSKKKAFTKYCKKWQDDAGKRQLDKDFS
SMKKYCQVIRVLAHTQMRLLPLRQKKAHLMEIQVNGGTVAEKLDWARERL
EQQVPVSQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKV
ACIGAWHPARVAFSVARAGQKGYHHRTEINKKIYKIGQGYLIKDGKLIKN
NASTDYDLSDKSINPLGGFVHYGEVTNDFVMLKGCVVGTKKRVLTLRKSL
LVQTKRRALEKIDLKFIDTTSKFGHGRFQTVEEKKAFMGPLKKD

Ligand information

>7qwr Chain 5 (length=3493)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggcggggcgcgggacau
guggcguacggaagacccgcuccccggcgccgcucguggggggcccaagu
ccuucugaucgaggcccagcccguggacggugugaggccgguagcggccc
ccggcgcgccgggcccgggucuucccggagucggguugcuugggaaugca
gcccaaagcgggugguaaacuccaucuaaggcuaaauaccggcacgagac
cgauagucaacaaguaccguaagggaaaguugaaaagaacuuugaagaga
gaguucaagagggcgugaaaccguuaagagguaaacgggugggguccgcg
caguccgcccgguucaacccggcggcggguccggccgugucggcgggucc
cccgaccggcgaccggccgccgccgggcgcauuuccaccgcggcggugcg
ccgcgaccggcuccgggacggcugggaaggcccggcggggaagguggcuc
ggccgaguguuacagcccccccggcagcagcacucgccgaaucccggggc
cgagggagcgagacccgucgccgcgcucuccccccucgggggggccgggc
caccccucccacggcgcgaccgcucggggcggacuguccccagugcgccc
cgggcgggucgcgccgucgggcccgggggaggggccacgcggcgagcgca
cggggucggcggcgacgucggcuacccacccgacccgucuugaaacacgg
accaaggagucuaacacgugcgcgagucgggggcucgcacgaaagccgcc
guggcgcaaugaaggugaaggccggcgcgcucgccggccgaggugggauc
ccgaggccucuccaguccgccgagggcgcaccaccggcccgucucgcccg
ccgcgccggggagguggagcacgagcgcacguguuaggacccgaaagaug
gugaacuaugccugggcagggcgaagccagaggaaacucugguggagguc
cguagcgguccugacgugcaaaucggucguccgaccuggguauaggggcg
aaagacuaaucgaaccaucuaguagcugguucccuccgaaguuucccuca
ggauagcuggcgcucucgcacacgcaguuuuauccgguaaagcgaaugau
uagaggucuuggggccgaaacgaucucaaccuauucucaaacuuuaaaug
gguaagaagcccggcucgcuggcgugagccgggcguggaauggagugccu
agugggccacuuuugguaagcagaacuggcgcugcgggaugaaccgaacg
ccggguuaaggcgcccgaugccgacgcucaucagaccccagaaaaggugu
ugguugauauagagccgaaucaacuagcccugaaaauggauggcgcugga
gcgucgggcccauacccggccgucgccggcagucgagaguggacgggagc
ccgcccccggagccccgcggacgcuacgccgcgacgaguaggagggccgc
ugcggugagccuugaagccuagggcgcgggcccggguggagccgccgcag
gugcagaucuuggugguaguagcaaauauucaaacgagaacuuugaaggc
cgaaguggagaaggguuccaugugaacagcaguugaacaugggucagucg
guccugagagaugggcgagcgccguuccgaagggacgggcgauggccucc
guugcccucggccgaucgaaagggagucggguucagauccccgaauccgg
aguggcggagaugggcgccgcgaggcguccagugcgguaacgcgaccgau
cccggagaagccggcgggagccccggggagaguucucuuuucuuugugaa
gggcagggcgcccuggaauggguucgccccgagagaggggcccgugccuu
ggaaagcgucgcgguuccggcggcguccggugagcucucgcuggcccuug
aaaauccgggggagaggguguaaaucucgcgccgggccguacccauaucc
gcagcaggucuccaaggugaacagccucuggcauguuggaacaauguagg
uaagggaagucggcaagccggauccguaacuucgggauaaggauuggcuc
uaagggcugggucggucgucggccggcgccuagcagccgacuuagaacug
gugcggaccaggggaauccgacuguuuaauuaaaacaaagcaucgcgaag
gcccgcggcggguguugacgcgaugugauuucugcccagugcucugaaug
ucaaagugaagaaauucaaugaagcgcggguaaacggcgggaguaacuau
gacucucuuaagguagccaaaugccucgucaucuaauuagugacgcgcau
gaauggaugaacgagauucccacugucccuaccuacuauccagcgaaacc
acagccaagggaacgggcuuggcggaaucagcggggaaagaagacccugu
ugagcuugacucuagucuggcacggugaagagacauguuuuuucacugac
ccggugaggcgggggggcgcucgcuucuggcgccaagcgcccggccgcgc
gccggccgggcgcgacccgcuccggggacagugccagguggggaguuuga
cuggggcgguacaccugucaaacgguaacgcagguguccuaaggcgagcu
cagggaggacagaaaccucccguggagcagaagggcaaaagcucgcuuga
ucuugauuuucaguacgaauacagaccgugaaagcggggccucacgaucc
uucugaccuuuuggguuuuaagcaggaggugucagaaaaguuaccacagg
gauaacuggcuuguggcggccaagcguucauagcgacgucgcuuuuugau
ccuucgaugucggcucuuccuaucauugugaagcagaauucaccaagcgu
uggauuguucacccacuaauagggaacgugagcuggguuuagaccgucgu
gagacagguuaguuuuacccuacugaugauguguuguugccaugguaauc
cugcucaguacgagaggaaccgcagguucagacauuugguguaugugcuu
ggcugaggagccaauggggcgaagcuaccaucugugggauuaugacugaa
cgccucuaagucagaaucccgcccaggcggaacgauacggcagcgccgcg
gagccucgguuggccucggauagccggucccccgcgggguccggugcgga
gugcccuucguccugggaaacggggcgcggccggagaggcggccgccccc
ucgcccgucacgcacgccguucguggggaaccuggcgcuaaaccauucgu
agacgaccugcuucugggucgggguuucguacguagcagagcagcucccu
cgcugcgaucuauugaaagucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7qwr Mechanism of signal sequence handover from NAC to SRP on ribosomes during ER-protein targeting.
• Resolution: 2.9 Å
• Binding residue (original residue number in PDB): S2 H3 K5 S7 A8 P9 R10 H11 G12 S13 L14 G15 F16 L17 P18 R19 K20 R21 S23 H25 R26 K28 K30 S31 M53 H55 R62 G64 S65 A75 Y92 T95 P96 R97 L99 R100 T101 F102 T104 F106 R116 R117 F118 Y119 K120 H123 K124 S125 K126 K128 K132 Y156 R169 R174 Q175 K176 K177 E182 T223 K224 G225 K226 G227 Y228 K229 G230 R234 K238 K239 R242 K243 T244 H245 R246 G247 L248 R249 K250 A252 C253 I254 G255 A256 W257 H258 A260 R261 V262 S265 R268 Q271 Y274 H276 R277 T278 E279 I280 N281 L317 G318 V321 H322 G324 E325 K334 C336 V337 K341 K342 R343 R357 S372 K373 F374 G375 H376 K385 M389 K393
• Binding residue (residue number reindexed from 1): S1 H2 K4 S6 A7 P8 R9 H10 G11 S12 L13 G14 F15 L16 P17 R18 K19 R20 S22 H24 R25 K27 K29 S30 M52 H54 R61 G63 S64 A74 Y91 T94 P95 R96 L98 R99 T100 F101 T103 F105 R115 R116 F117 Y118 K119 H122 K123 S124 K125 K127 K131 Y155 R168 R173 Q174 K175 K176 E181 T222 K223 G224 K225 G226 Y227 K228 G229 R233 K237 K238 R241 K242 T243 H244 R245 G246 L247 R248 K249 A251 C252 I253 G254 A255 W256 H257 A259 R260 V261 S264 R267 Q270 Y273 H275 R276 T277 E278 I279 N280 L316 G317 V320 H321 G323 E324 K333 C335 V336 K340 K341 R342 R356 S371 K372 F373 G374 H375 K384 M388 K392

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7qwr, PDBe:7qwr, PDBj:7qwr
• PDBsum: 7qwr
• PubMed: 35201867
• UniProt: G1TL06|RL3_RABIT Large ribosomal subunit protein uL3 (Gene Name=RPL3)