9VVI | pdb_00009vvi

Cryo-EM structure of SecM-arrested 70S ribosome with YheS


Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
16S rRNA---
30S ribosomal protein S2
Small ribosomal subunit protein uS3
Small ribosomal subunit protein uS4
Small ribosomal subunit protein uS5
30S ribosomal protein S6, fully modified isoform
Small ribosomal subunit protein uS7
Small ribosomal subunit protein uS8
Small ribosomal subunit protein uS9
Small ribosomal subunit protein uS10
Small ribosomal subunit protein uS11
Small ribosomal subunit protein uS12
Small ribosomal subunit protein uS13
Small ribosomal subunit protein uS14
Small ribosomal subunit protein uS15
Small ribosomal subunit protein bS16
Small ribosomal subunit protein uS17
Small ribosomal subunit protein bS18
Small ribosomal subunit protein uS19
Small ribosomal subunit protein bS20
30S ribosomal protein S21
V [auth a]23S rRNA---
W [auth b]5S rRNA---
X [auth 7]Large ribosomal subunit protein uL1
Y [auth c]Large ribosomal subunit protein uL2
Z [auth d]50S ribosomal protein L3
AA [auth e]50S ribosomal protein L4
BA [auth f]Large ribosomal subunit protein uL5
CA [auth g]Large ribosomal subunit protein uL6
DA [auth h]50S ribosomal protein L9
EA [auth i]50S ribosomal protein L13
FA [auth j]50S ribosomal protein L14
GA [auth k]50S ribosomal protein L15
HA [auth l]50S ribosomal protein L16
IA [auth m]Large ribosomal subunit protein bL17
JA [auth n]Large ribosomal subunit protein uL18
KA [auth o]Large ribosomal subunit protein bL19
LA [auth p]Large ribosomal subunit protein bL20
MA [auth q]50S ribosomal protein L21
NA [auth r]50S ribosomal protein L22
OA [auth s]Large ribosomal subunit protein uL23
PA [auth t]50S ribosomal protein L24
QA [auth u]50S ribosomal protein L25
RA [auth v]Large ribosomal subunit protein bL27
SA [auth w]Large ribosomal subunit protein bL28
TA [auth x]Large ribosomal subunit protein uL29
UA [auth y]Large ribosomal subunit protein uL30
VA [auth 4]50S ribosomal protein L31
WA [auth z]Large ribosomal subunit protein bL32
XA [auth 0]Large ribosomal subunit protein bL33
YA [auth 1]50S ribosomal protein L34
ZA [auth 2]Large ribosomal subunit protein bL35
AB [auth 3]50S ribosomal protein L36
BB [auth W]Probable ATP-binding protein YheS - -
CB [auth X]SecM mRNA---
DB [auth Y]A-site tRNA (prolyl-tRNAPro)---
EB [auth Z]P-site tRNA (tRNAGly)---
FB [auth 6]Secretion monitor -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR005706Small ribosomal subunit protein uS2, bacteria/mitochondria/plastidFamily
IPR023591Small ribosomal subunit protein uS2, flavodoxin-like domain superfamilyHomologous Superfamily
IPR018130Small ribosomal subunit protein uS2, conserved siteConserved Site
IPR001865Small ribosomal subunit protein uS2Family
IPR005704Small ribosomal subunit protein uS3, bacteriaFamily
IPR001351Small ribosomal subunit protein uS3, C-terminalDomain
IPR057258Small ribosomal subunit protein uS3Family
IPR009019K homology domain superfamily, prokaryotic typeHomologous Superfamily
IPR004087K Homology domainDomain
IPR004044K Homology domain, type 2Domain
IPR015946K homology domain-like, alpha/betaHomologous Superfamily
IPR036419Ribosomal protein S3, C-terminal domain superfamilyHomologous Superfamily
IPR018280Small ribosomal subunit protein uS3, conserved siteConserved Site
IPR002942RNA-binding S4 domainDomain
IPR022801Small ribosomal subunit protein uS4Family
IPR018079Small ribosomal subunit protein uS4, conserved siteConserved Site
IPR001912Small ribosomal subunit protein uS4, N-terminalDomain
IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily
IPR005709Small ribosomal subunit protein uS4, bacteriaFamily
IPR000851Small ribosomal subunit protein uS5Family
IPR005324Small ribosomal subunit protein uS5, C-terminalDomain
IPR005712Small ribosomal subunit protein uS5, bacteriaFamily
IPR013810Small ribosomal subunit protein uS5, N-terminalDomain
IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
IPR018192Small ribosomal subunit protein uS5, N-terminal, conserved siteConserved Site
IPR014721Small ribosomal subunit protein uS5 domain 2-type fold, subgroupHomologous Superfamily
IPR020815Small ribosomal subunit protein bS6, conserved siteConserved Site
IPR000529Small ribosomal subunit protein bS6Family
IPR020814Small ribosomal subunit protein bS6, plastid/chloroplastFamily
IPR035980Small ribosomal subunit protein bS6 superfamilyHomologous Superfamily
IPR014717Translation elongation factor EF1B/small ribosomal subunit protein bS6Homologous Superfamily
IPR020606Small ribosomal subunit protein uS7, conserved siteConserved Site
IPR005717Small ribosomal subunit protein uS7, bacteria/organellaFamily
IPR036823Small ribosomal subunit protein uS7 domain superfamilyHomologous Superfamily
IPR000235Small ribosomal subunit protein uS7Family
IPR023798Small ribosomal subunit protein uS7 domainDomain
IPR000630Small ribosomal subunit protein uS8Family
IPR047863Small ribosomal subunit protein uS8, conserved siteConserved Site
IPR035987Small ribosomal subunit protein uS8 superfamilyHomologous Superfamily
IPR020574Small ribosomal subunit protein uS9, conserved siteConserved Site
IPR023035Small ribosomal subunit protein uS9, bacteria/plastidFamily
IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
IPR000754Small ribosomal subunit protein uS9Family
IPR014721Small ribosomal subunit protein uS5 domain 2-type fold, subgroupHomologous Superfamily
IPR027486Small ribosomal subunit protein uS10 domainDomain
IPR036838Small ribosomal subunit protein uS10 domain superfamilyHomologous Superfamily
IPR018268Small ribosomal subunit protein uS10, conserved siteConserved Site
IPR001848Small ribosomal subunit protein uS10Family
IPR001971Small ribosomal subunit protein uS11Family
IPR036967Small ribosomal subunit protein uS11 superfamilyHomologous Superfamily
IPR019981Small ribosomal subunit protein uS11, bacteriaFamily
IPR018102Small ribosomal subunit protein uS11, conserved siteConserved Site
IPR005679Ribosomal protein uS12, bacteriaFamily
IPR006032Small ribosomal subunit protein uS12Family
IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
IPR018269Small ribosomal subunit protein uS13, conserved siteConserved Site
IPR027437Small ribosomal subunit protein uS13, C-terminalHomologous Superfamily
IPR001892Small ribosomal subunit protein uS13Family
IPR010979Small ribosomal subunit protein uS13-like, H2THHomologous Superfamily
IPR019980Small ribosomal subunit protein uS13, bacteriaFamily
IPR001209Small ribosomal subunit protein uS14Family
IPR018271Small ribosomal subunit protein uS14, conserved siteConserved Site
IPR023036Small ribosomal subunit protein uS14, bacteria/plastidFamily
IPR009068uS15/NS1, RNA-binding domain superfamilyHomologous Superfamily
IPR000589Small ribosomal subunit protein uS15Family
IPR005290Small ribosomal subunit protein uS15, bacteriaFamily
IPR023803Small ribosomal subunit protein bS16 domain superfamilyHomologous Superfamily
IPR000307Small ribosomal subunit protein bS16Family
IPR020592Small ribosomal subunit protein bS16, conserved siteConserved Site
IPR019979Small ribosomal subunit protein uS17, conserved siteConserved Site
IPR019984Small ribosomal subunit protein uS17, bacteria/chloroplastFamily
IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
IPR000266Small ribosomal subunit protein uS17Family
IPR001648Small ribosomal subunit protein bS18Family
IPR018275Small ribosomal subunit protein bS18, conserved siteConserved Site
IPR036870Small ribosomal subunit protein bS18 superfamilyHomologous Superfamily
IPR005732Small ribosomal subunit protein uS19, bacteriaFamily
IPR002222Small ribosomal subunit protein uS19Family
IPR023575Small ribosomal subunit protein uS19, superfamilyHomologous Superfamily
IPR020934Small ribosomal subunit protein uS19, conserved siteConserved Site
IPR036510Small ribosomal subunit protein bS20 superfamilyHomologous Superfamily
IPR002583Small ribosomal subunit protein bS20Family
IPR038380Small ribosomal subunit protein bS21 superfamilyHomologous Superfamily
IPR018278Small ribosomal subunit protein bS21, conserved siteConserved Site
IPR001911Small ribosomal subunit protein bS21Family
X [auth 7]IPR023673Large ribosomal subunit protein uL1, conserved siteConserved Site
X [auth 7]IPR005878Large ribosomal subunit protein uL1, bacteriaFamily
X [auth 7]IPR016095Large ribosomal subunit protein uL1, 3-layer alpha/beta-sandwich domainHomologous Superfamily
X [auth 7]IPR023674Ribosomal protein uL1-likeHomologous Superfamily
X [auth 7]IPR002143Large ribosomal subunit protein uL1Family
X [auth 7]IPR028364Ribosomal protein uL1/ribosomal biogenesis proteinFamily
Y [auth c]IPR005880Large ribosomal subunit protein uL2, bacteria/organellaFamily
Y [auth c]IPR022669Large ribosomal subunit protein uL2, C-terminalDomain
Y [auth c]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
Y [auth c]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
Y [auth c]IPR022671Large ribosomal subunit protein uL2, conserved siteConserved Site
Y [auth c]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
Y [auth c]IPR022666Large ribosomal subunit protein uL2, RNA-binding domainDomain
Y [auth c]IPR014726Large ribosomal subunit protein uL2, domain 3Homologous Superfamily
Y [auth c]IPR002171Large ribosomal subunit protein uL2Family
Z [auth d]IPR019926Large ribosomal subunit protein uL3, conserved siteConserved Site
Z [auth d]IPR019927Large ribosomal subunit protein uL3, bacteria/organellaFamily
Z [auth d]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
Z [auth d]IPR000597Large ribosomal subunit protein uL3Family
AA [auth e]IPR013005Large ribosomal subunit protein uL4-likeFamily
AA [auth e]IPR002136Large ribosomal subunit protein uL4Family
AA [auth e]IPR023574Large ribosomal subunit protein uL4 domain superfamilyHomologous Superfamily
BA [auth f]IPR020929Large ribosomal subunit protein uL5, conserved siteConserved Site
BA [auth f]IPR022803Large ribosomal subunit protein uL5 domain superfamilyHomologous Superfamily
BA [auth f]IPR031309Large ribosomal subunit protein uL5, C-terminalDomain
BA [auth f]IPR031310Large ribosomal subunit protein uL5, N-terminalDomain
BA [auth f]IPR002132Large ribosomal subunit protein uL5Family
BA [auth f]IPR020930Large ribosomal subunit protein uL5, bacteriaFamily
CA [auth g]IPR036789Large ribosomal subunit protein uL6-like, alpha-beta domain superfamilyHomologous Superfamily
CA [auth g]IPR020040Large ribosomal subunit protein uL6, alpha-beta domainDomain
CA [auth g]IPR000702Large ribosomal subunit protein uL6-likeFamily
CA [auth g]IPR019906Large ribosomal subunit protein uL6, bacteriaFamily
CA [auth g]IPR002358Large ribosomal subunit protein uL6, conserved siteConserved Site
DA [auth h]IPR036935Large ribosomal subunit protein bL9, N-terminal domain superfamilyHomologous Superfamily
DA [auth h]IPR020069Large ribosomal subunit protein bL9, C-terminalDomain
DA [auth h]IPR020070Large ribosomal subunit protein bL9, N-terminalDomain
DA [auth h]IPR009027Large ribosomal subunit protein bL9/RNase H1, N-terminalHomologous Superfamily
DA [auth h]IPR020594Large ribosomal subunit protein bL9, bacteria/chloroplastFamily
DA [auth h]IPR036791Large ribosomal subunit protein bL9, C-terminal domain superfamilyHomologous Superfamily
DA [auth h]IPR000244Large ribosomal subunit protein bL9Family
EA [auth i]IPR023563Large ribosomal subunit protein uL13, conserved siteConserved Site
EA [auth i]IPR005822Large ribosomal subunit protein uL13Family
EA [auth i]IPR005823Large ribosomal subunit protein uL13, bacteriaFamily
EA [auth i]IPR036899Large ribosomal subunit protein uL13 superfamilyHomologous Superfamily
FA [auth j]IPR036853Large ribosomal subunit protein uL14 superfamilyHomologous Superfamily
FA [auth j]IPR000218Large ribosomal subunit protein uL14Family
FA [auth j]IPR019972Large ribosomal subunit protein uL14, conserved siteConserved Site
FA [auth j]IPR005745Large ribosomal subunit protein uL14, bacteriaFamily
GA [auth k]IPR021131Large ribosomal subunit protein uL15/eL18Domain
GA [auth k]IPR030878Large ribosomal subunit protein uL15Family
GA [auth k]IPR001196Large ribosomal subunit protein uL15, conserved siteConserved Site
GA [auth k]IPR036227Large ribosomal subunit protein uL15/eL18 superfamilyHomologous Superfamily
GA [auth k]IPR005749Large ribosomal subunit protein uL15, bacteriaFamily
HA [auth l]IPR000114Large ribosomal subunit protein uL16, bacteriaFamily
HA [auth l]IPR036920Large ribosomal subunit protein uL16 superfamilyHomologous Superfamily
HA [auth l]IPR020798Large ribosomal subunit protein uL16, conserved siteConserved Site
HA [auth l]IPR016180Large ribosomal subunit protein uL16 domainDomain
HA [auth l]IPR047873Large ribosomal subunit protein uL16Family
IA [auth m]IPR036373Large ribosomal subunit protein bL17 superfamilyHomologous Superfamily
IA [auth m]IPR047859Large ribosomal subunit protein bL17, conserved siteConserved Site
IA [auth m]IPR000456Large ribosomal subunit protein bL17Family
JA [auth n]IPR005484Large ribosomal subunit protein uL18, bacterial/plantae/animaliaFamily
JA [auth n]IPR057268Large ribosomal subunit protein uL18Family
JA [auth n]IPR004389Large ribosomal subunit protein uL18, bacteriaFamily
KA [auth o]IPR001857Large ribosomal subunit protein bL19Family
KA [auth o]IPR038657Large ribosomal subunit protein bL19 superfamilyHomologous Superfamily
KA [auth o]IPR018257Large ribosomal subunit protein bL19, conserved siteConserved Site
KA [auth o]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
LA [auth p]IPR049946Large ribosomal subunit protein bL20, conserved siteConserved Site
LA [auth p]IPR035566Ribosomal protein bL20, C-terminalHomologous Superfamily
LA [auth p]IPR005813Large ribosomal subunit protein bL20Family
MA [auth q]IPR028909Large ribosomal subunit protein bL21-likeFamily
MA [auth q]IPR001787Large ribosomal subunit protein bL21Family
MA [auth q]IPR036164Large ribosomal subunit protein bL21-like superfamilyHomologous Superfamily
MA [auth q]IPR018258Large ribosomal subunit protein bL21, conserved siteConserved Site
NA [auth r]IPR036394Ribosomal protein uL22 superfamilyHomologous Superfamily
NA [auth r]IPR001063Large ribosomal subunit protein uL22Family
NA [auth r]IPR047867Large ribosomal subunit protein uL22, bacteria/organellaFamily
NA [auth r]IPR018260Large ribosomal subunit protein uL22, conserved siteConserved Site
NA [auth r]IPR005727Large ribosomal subunit protein uL22, bacterial/chloroplast-typeFamily
OA [auth s]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
OA [auth s]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
OA [auth s]IPR001014Large ribosomal subunit protein uL23, conserved siteConserved Site
OA [auth s]IPR013025Large ribosomal subunit protein uL23-likeFamily
PA [auth t]IPR057264Large ribosomal subunit protein uL24, C-terminal domainDomain
PA [auth t]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
PA [auth t]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
PA [auth t]IPR003256Large ribosomal subunit protein uL24Family
PA [auth t]IPR041988Large ribosomal subunit protein uL24, KOW domainDomain
PA [auth t]IPR005824KOWDomain
PA [auth t]IPR005825Large ribosomal subunit protein uL24, conserved siteConserved Site
QA [auth u]IPR020055Ribosomal protein bL25, short-formFamily
QA [auth u]IPR029751Large ribosomal subunit protein bL25, L25 domainDomain
QA [auth u]IPR020056Large ribosomal subunit protein bL25/Gln-tRNA synthetase, N-terminalHomologous Superfamily
QA [auth u]IPR011035Large ribosomal subunit protein bL25/Gln-tRNA synthetase, anti-codon-binding domain superfamilyHomologous Superfamily
QA [auth u]IPR020930Large ribosomal subunit protein uL5, bacteriaFamily
RA [auth v]IPR001684Large ribosomal subunit protein bL27Family
RA [auth v]IPR018261Large ribosomal subunit protein bL27, conserved siteConserved Site
SA [auth w]IPR037147Large ribosomal subunit protein bL28 superfamilyHomologous Superfamily
SA [auth w]IPR001383Large ribosomal subunit protein bL28, bacteriaFamily
SA [auth w]IPR026569Large ribosomal subunit protein bL28Family
SA [auth w]IPR034704Large ribosomal subunit protein bL28/bL31-like superfamilyHomologous Superfamily
TA [auth x]IPR050063Universal ribosomal protein uL29Family
TA [auth x]IPR001854Large ribosomal subunit protein uL29Family
TA [auth x]IPR036049Large ribosomal subunit protein uL29 superfamilyHomologous Superfamily
TA [auth x]IPR018254Large ribosomal subunit protein uL29, conserved siteConserved Site
UA [auth y]IPR036919Large ribosomal subunit protein uL30, ferredoxin-like fold domain superfamilyHomologous Superfamily
UA [auth y]IPR005996Large ribosomal subunit protein uL30, bacteriaFamily
UA [auth y]IPR016082Large ribosomal subunit protein uL30-like, ferredoxin-like fold domainDomain
UA [auth y]IPR018038Large ribosomal subunit protein uL30, conserved siteConserved Site
VA [auth 4]IPR002150Large ribosomal subunit protein bL31 type A/BFamily
VA [auth 4]IPR027491Large ribosomal subunit protein bL31 type AFamily
VA [auth 4]IPR034704Large ribosomal subunit protein bL28/bL31-like superfamilyHomologous Superfamily
VA [auth 4]IPR042105Large ribosomal subunit protein bL31 superfamilyHomologous Superfamily
WA [auth z]IPR002677Large ribosomal subunit protein bL32Family
WA [auth z]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
WA [auth z]IPR044957Large ribosomal subunit protein bL32, bacteriaFamily
XA [auth 0]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
XA [auth 0]IPR038584Large ribosomal subunit protein bL33 superfamilyHomologous Superfamily
XA [auth 0]IPR001705Large ribosomal subunit protein bL33Family
XA [auth 0]IPR018264Large ribosomal subunit protein bL33, conserved siteConserved Site
YA [auth 1]IPR020939Large ribosomal subunit protein bL34, conserved siteConserved Site
YA [auth 1]IPR000271Large ribosomal subunit protein bL34Family
ZA [auth 2]IPR021137Large ribosomal subunit protein bL35-likeFamily
ZA [auth 2]IPR018265Large ribosomal subunit protein bL35, conserved siteConserved Site
ZA [auth 2]IPR001706Large ribosomal subunit protein bL35Family
ZA [auth 2]IPR037229Large ribosomal subunit protein bL35 superfamilyHomologous Superfamily
AB [auth 3]IPR000473Large ribosomal subunit protein bL36Family
AB [auth 3]IPR035977Large ribosomal subunit protein bL36 superfamilyHomologous Superfamily
BB [auth W]IPR003593AAA+ ATPase domainDomain
BB [auth W]IPR017871ABC transporter-like, conserved siteConserved Site
BB [auth W]IPR050611ABCF proteinFamily
BB [auth W]IPR032781ABC-transporter extension domainDomain
BB [auth W]IPR003439ABC transporter-like, ATP-binding domainDomain
BB [auth W]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
FB [auth 6]IPR009502Secretion monitorFamily

Protein Modification Annotation

Modified Residue(s)
ChainResidue(s)Description
2MG Parent Component: G

4OC Parent Component: C

5MC Parent Component: C

G7M Parent Component: G

MA6 Parent Component: A

PSU Parent Component: U

UR3 Parent Component: U

IAS
D2T Parent Component: ASP

V [auth a]1MG Parent Component: G

V [auth a]2MA Parent Component: A

V [auth a]2MG Parent Component: G

V [auth a]3TD Parent Component: U

V [auth a]5MC Parent Component: C

V [auth a]5MU Parent Component: U

V [auth a]6MZ Parent Component: A

V [auth a]G7M Parent Component: G

V [auth a]H2U Parent Component: U

V [auth a]OMC Parent Component: C

V [auth a]OMG Parent Component: G

V [auth a]OMU Parent Component: U

V [auth a]PSU Parent Component: U

Z [auth d]MEQ Parent Component: GLN

AA0071

:  N5-methyl-L-glutamine MOD:00080
HA [auth l]4D4 Parent Component: ARG

AA0071

HA [auth l]MS6 Parent Component: MET

DB [auth Y]1MG Parent Component: G

AA0071

DB [auth Y]5MU Parent Component: U

AA0071

DB [auth Y]G7M Parent Component: G

AA0071

DB [auth Y]H2U Parent Component: U

AA0071

DB [auth Y]PSU Parent Component: U

AA0071

EB [auth Z]4SU Parent Component: U

AA0071

EB [auth Z]5MU Parent Component: U

AA0071

EB [auth Z]G7M Parent Component: G

AA0071

EB [auth Z]H2U Parent Component: U

AA0071

EB [auth Z]PSU Parent Component: U

AA0071