Structure of PDB 5gae Chain g Binding Site BS01

Receptor Information

>5gae Chain g (length=399) Species: 562 (Escherichia coli)

GGLGELKRRLLFVIGALIVFRIGSFIPIPGIDAAVLAKLLEQQRGTIIEM
FNMFSGGALSRASIFALGIMPYISASIIIQLLTVVHPTLAEIKKEGESGR
RKISQYTRYGTLVLAIFQSIGIATGLPNFAFYFTAVVSLVTGTMFLMWLG
EQITERGIGNGISIIIFAGIVAGLPPAIAHTIEQARQGDLHFLVLLLVAV
LVFAVTFFVVFVERGQRRIVVNYAKRQQGRRVYAAQSTHLPLKVNMAGVI
PAIFASSIILFPATIASWFGGWNWLTTISLYLQPGQPLYVLLYASAIIFF
CFFYTALVFNPRETADNLKKSGAFVPGIRPGEQTAKYIDKVMTRLTLVGA
LYITFICLIPEFMRDAMKVPFYFGGTSLLIVVVVIMDFMAQVQTLMMSS

Ligand information

>5gae Chain A (length=2884)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcacuguuucggcaaggggguacuuaccaacccgaug
caaacugcgaauaccggagaauguuaucacgggagacacacggcgggugc
uaacguccgucgugaagagggaaacaacccagaccgccagcuaagguccc
aaagucaugguuaagugggaaacgaugugggaaggcccagacagccagga
uguuggcuuagaagcagccaucauuuaaagaaagcguaauagcucacugg
ucgagucggccugcgcggaagauguaacggggcuaaaccaugcaccgaag
cugcggcagcgacgcugcguuguuggguaggggagcguucuguaagccug
cgaaggugugcugugaggcaugcuggagguaucagaagugcgaaugcuga
cauaaguaacgauaaagcgggugaaaagcccgcucgccggaagaccaagg
guuccuguccaacguuaaucggggcagggugagucgaccccuaaggcgag
gccgaaaggcguagucgaugggaaacagguuaauauuccuguacuuggug
uuacugcgaaggggggacggagaaggcuauguuggccgggcgacgguugu
cccgguuuaagcguguaggcugguuuuccaggcaaauccggaaaaucaag
gcugaggcgugaugacgaggcacuacggugcugaagcaacaaaugcccug
cuuccaggaaaagccucuaagcaucagguaacaucaaaucguaccccaaa
ccgacacagguggucagguagagaauaccaaggcgcuugagagaacucgg
gugaaggaacuaggcaaaauggugccguaacuucgggagaaggcacgcug
auauguaggugaggucccucgcggauggagcugaaaucagucgaagauac
cagcuggcugcaacuguuuauuaaaaacacagcacugugcaaacacgaaa
guggacguauacggugugacgccugcccggugccggaagguuaauugaug
ggguuagcgcaagcgaagcucuugaucgaagccccgguaaacggcggccg
cgguccuaagguagcgaaauuccuugucggguaaguuccgaccugcacga
auggcguaaugauggccaggcugucuccacccgagacucagugaaauuga
acucgcugugaagaugcaguguacccgcggcaagacggaaagaccccgug
aaccuuuacuauagcuugacacugaacauugagccuugauguguaggaua
ggugggaggcuuugaaguguggacgccagucugcauggagccgaccuuga
aauaccacccuuuaauguuugauguucuaacguugacccguaauccgggu
ugcggacagugucugguggguaguuugacuggggcggucuccuccuaaag
aguaacggaggagcacgaagguuggcuaauccuggucggacaucaggagg
uuagugcaauggcauaagccagcuugacugcgagcgugacggcgcgagca
ggugcgaaagcaggucauagugauccggugguucugaauggaagggccau
cgcucaacggauaaaagguacuccggggauaacaggcugauaccgcccaa
gaguucauaucgacggcgguguuuggcaccucgaugucggcucaucacau
ccuggggcugaaguaggucccaaggguauggcuguucgccauuuaaagug
guacgcgagcuggguuuagaacgucgugagacaguucggucccuaucugc
cgugggcgcuggagaacugaggggggcugcuccuaguacgagaggaccgg
aguggacgcaucacugguguucggguugucaugccaauggcacugcccgg
uagcuaaaugcggaagagauaagugcugaaagcaucuaagcacgaaacuu
gccccgagaugaguucucccugacccuuuaaggguccugaaggaacguug
aagacgacgacguugauaggccggguguguaagcgcagcgaugcguugag
cuaaccgguacuaaugaaccgugaggcuuaaccu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5gae Structures of the E. coli translating ribosome with SRP and its receptor and with the translocon.
• Resolution: 3.33 Å
• Binding residue (original residue number in PDB): Q253 R255 R256 K347 F352 G355 R357
• Binding residue (residue number reindexed from 1): Q228 R230 R231 K319 F324 G327 R329

Gene Ontology

Molecular Function

• GO:0005048 signal sequence binding
• GO:0005515 protein binding
• GO:0008320 protein transmembrane transporter activity

Biological Process

• GO:0006605 protein targeting
• GO:0006616 SRP-dependent cotranslational protein targeting to membrane, translocation
• GO:0006886 intracellular protein transport
• GO:0015031 protein transport
• GO:0032978 protein insertion into membrane from inner side
• GO:0043952 protein transport by the Sec complex
• GO:0065002 intracellular protein transmembrane transport

Cellular Component

• GO:0005886 plasma membrane
• GO:0016020 membrane
• GO:0031522 cell envelope Sec protein transport complex

External links

• PDB: RCSB:5gae, PDBe:5gae, PDBj:5gae
• PDBsum: 5gae
• PubMed: 26804923
• UniProt: P0AGA2|SECY_ECOLI Protein translocase subunit SecY (Gene Name=secY)