8BF9 | pdb_00008bf9

Molecular view of ER membrane remodeling by the Sec61/TRAP translocon.

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: PDBTM

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
H [auth R]	PF01280	Ribosomal protein L19e, N-terminal domain (Ribosomal_L19e)	Ribosomal protein L19e, N-terminal domain	This domain is found at the N-terminal end of the large ribosomal subunit protein eL19 found in eukaryotes and archaea. This is an helical domain that assumes an orthogonal bundle topology.	Domain
G [auth P]	PF00237	Ribosomal protein L22p/L17e (Ribosomal_L22)	Ribosomal protein L22p/L17e	This family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes.	Domain
F [auth G]	PF00584	SecE/Sec61-gamma subunits of protein translocation complex (SecE)	SecE/Sec61-gamma subunits of protein translocation complex	-	Family
E [auth D]	PF01198	Ribosomal protein L31e (Ribosomal_L31e)	Ribosomal protein L31e	-	Family
L [auth C]	PF10559	Plug domain of Sec61p (Plug_translocon)	Plug domain of Sec61p	The Sec61/SecY translocon mediates translocation of proteins across the membrane and integration of membrane proteins into the lipid bilayer. The structure of the translocon revealed a plug domain blocking the pore on the lumenal side.The plug is unl ...	The Sec61/SecY translocon mediates translocation of proteins across the membrane and integration of membrane proteins into the lipid bilayer. The structure of the translocon revealed a plug domain blocking the pore on the lumenal side.The plug is unlikely to be important for sealing the translocation pore in yeast but it plays a role in stabilising Sec61p during translocon formation. The domain runs from residues 52-74 [1].	Domain
K [auth Y]	PF16906	Ribosomal proteins L26 eukaryotic, L24P archaeal (Ribosomal_L26)	Ribosomal proteins L26 eukaryotic, L24P archaeal	-	Family
K [auth Y]	PF00467	KOW motif (KOW)	KOW motif	-	Family
J [auth X]	PF00276	Ribosomal protein L23 (Ribosomal_L23)	Ribosomal protein L23	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth U]	RL22 protein (Fragment)	RNA binding binding nucleic acid binding structural molecule activity structural constituent of ribosome	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process	protein-containing complex ribonucleoprotein complex cellular anatomical structure intracellular anatomical structure cytoplasm intracellular organelle organelle membraneless organelle intracellular membraneless organelle ribosome
H [auth R]	Ribosomal protein L19	RNA binding binding nucleic acid binding structural molecule activity structural constituent of ribosome	biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit
G [auth P]	Large ribosomal subunit protein uL22	structural molecule activity structural constituent of ribosome	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit
F [auth G]	Translocon-associated protein subunit gamma	-	establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane establishment of localization protein targeting to membrane localization SRP-dependent cotranslational protein targeting to membrane establishment of protein localization to organelle cotranslational protein targeting to membrane cellular process establishment of protein localization to endoplasmic reticulum protein targeting to ER	membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane
E [auth D]	Translocon-associated protein subunit delta	-	-	membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane
D [auth B]	Translocon-associated protein subunit beta	-	developmental process multicellular organism development multicellular organismal process embryo development ending in birth or egg hatching chordate embryonic development anatomical structure development embryo development in utero embryonic development	membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane
C [auth A]	Translocon-associated protein subunit alpha	-	-	membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane
B [auth 8]	RNA (156-MER)	-	-	-
S [auth l]	60S ribosomal protein L39	structural molecule activity structural constituent of ribosome	biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit
R [auth k]	Large ribosomal subunit protein eL38	structural molecule activity structural constituent of ribosome	cellular component organization cellular component biogenesis ribonucleoprotein complex biogenesis protein-RNA complex organization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis protein-RNA complex assembly biosynthetic process metabolic process primary metabolic process protein metabolic process cellular component organization cellular component biogenesis ribonucleoprotein complex biogenesis protein-RNA complex organization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis protein-RNA complex assembly biosynthetic process metabolic process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit
Q [auth j]	Ribosomal protein L37	cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding structural molecule activity structural constituent of ribosome RNA binding rRNA binding nucleic acid binding	biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit
P [auth h]	Large ribosomal subunit protein uL29	RNA binding binding nucleic acid binding mRNA binding structural molecule activity structural constituent of ribosome	ribonucleoprotein complex biogenesis RNA metabolic process rRNA processing cellular component biogenesis nucleobase-containing compound metabolic process RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process cellular component organization or biogenesis RNA processing rRNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process ribonucleoprotein complex biogenesis RNA metabolic process rRNA processing cellular component biogenesis nucleobase-containing compound metabolic process RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process cellular component organization or biogenesis RNA processing rRNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process ribosomal large subunit biogenesis macromolecule biosynthetic process nucleic acid metabolic process maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) biosynthetic process cellular process metabolic process macromolecule metabolic process maturation of LSU-rRNA protein metabolic process translation protein biosynthetic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit
O [auth g]	Protein transport protein Sec61 subunit gamma	macromolecule transmembrane transporter activity protein transporter activity protein transmembrane transporter activity transporter activity transmembrane transporter activity	cellular localization establishment of protein localization nitrogen compound transport transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport protein targeting	membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane
N [auth d]	Large ribosomal subunit protein eL31	structural molecule activity structural constituent of ribosome	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit
M [auth b]	Sec61b	-	-	-
L [auth C]	Sec61a	-	localization establishment of protein localization nitrogen compound transport protein transport transport macromolecule localization intracellular protein localization establishment of localization	membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane
K [auth Y]	RL26 protein (Fragment)	RNA binding binding nucleic acid binding structural molecule activity structural constituent of ribosome	biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process	membrane-bounded organelle cellular anatomical structure organelle membrane organelle membrane protein-containing complex intracellular anatomical structure intracellular membraneless organelle ribosomal subunit intracellular organelle ribonucleoprotein complex membraneless organelle ribosome large ribosomal subunit
J [auth X]	Ribosomal protein L23/L25 N-terminal domain-containing protein	structural molecule activity structural constituent of ribosome RNA binding binding rRNA binding nucleic acid binding protein-containing complex binding TORC2 complex binding	biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit membrane-bounded organelle nucleus intracellular membrane-bounded organelle
A [auth 5]	RNA (1766)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I [auth U]	IPR002671	Large ribosomal subunit protein eL22	Family
I [auth U]	IPR038526	Large ribosomal subunit protein eL22 superfamily	Homologous Superfamily
H [auth R]	IPR015972	Large ribosomal subunit protein eL19, domain 1	Homologous Superfamily
H [auth R]	IPR057259	Ribosomal protein L19e, N-terminal domain	Domain
H [auth R]	IPR039547	Large ribosomal subunit protein eL19	Family
H [auth R]	IPR023638	Large ribosomal subunit protein eL19, conserved site	Conserved Site
H [auth R]	IPR035970	Large ribosomal subunit protein eL19 superfamily	Homologous Superfamily
H [auth R]	IPR057260	Ribosomal protein L19e, C-terminal domain	Domain
H [auth R]	IPR000196	Large ribosomal subunit protein eL19 domain	Domain
H [auth R]	IPR033935	Large ribosomal subunit protein eL19, eukaryotic	Domain
G [auth P]	IPR018260	Large ribosomal subunit protein uL22, conserved site	Conserved Site
G [auth P]	IPR005721	Large ribosomal subunit protein uL22, eukaryota/archaea	Family
G [auth P]	IPR036394	Ribosomal protein uL22 superfamily	Homologous Superfamily
G [auth P]	IPR001063	Large ribosomal subunit protein uL22	Family
G [auth P]	IPR057265	Large ribosomal subunit protein uL22, archaea	Family
F [auth G]	IPR009779	Translocon-associated protein subunit gamma	Family
E [auth D]	IPR008855	Translocon-associated	Family
D [auth B]	IPR008856	Translocon-associated protein subunit beta	Family
C [auth A]	IPR005595	Translocon-associated protein (TRAP), alpha subunit	Family
S [auth l]	IPR023626	Large ribosomal subunit protein eL39 domain superfamily	Homologous Superfamily
S [auth l]	IPR000077	Large ribosomal subunit protein eL39	Family
S [auth l]	IPR020083	Large ribosomal subunit protein eL39, conserved site	Conserved Site
R [auth k]	IPR002675	Large ribosomal subunit protein eL38	Family
R [auth k]	IPR038464	Large ribosomal subunit protein eL38 superfamily	Homologous Superfamily
Q [auth j]	IPR001569	Large ribosomal subunit protein eL37	Family
Q [auth j]	IPR018267	Large ribosomal subunit protein eL37, conserved site	Conserved Site
Q [auth j]	IPR011332	Zinc-binding ribosomal protein	Homologous Superfamily
Q [auth j]	IPR011331	Large ribosomal subunit protein eL37/eL43	Homologous Superfamily
P [auth h]	IPR001854	Large ribosomal subunit protein uL29	Family
P [auth h]	IPR036049	Large ribosomal subunit protein uL29 superfamily	Homologous Superfamily
P [auth h]	IPR018254	Large ribosomal subunit protein uL29, conserved site	Conserved Site
P [auth h]	IPR045059	Large ribosomal subunit protein uL29, eukaryota	Family
O [auth g]	IPR008158	Protein translocase SEC61 complex, gamma subunit	Family
O [auth g]	IPR001901	Protein translocase complex, SecE/Sec61-gamma subunit	Family
O [auth g]	IPR023391	Protein translocase SecE domain superfamily	Homologous Superfamily
N [auth d]	IPR020052	Large ribosomal subunit protein eL31, conserved site	Conserved Site
N [auth d]	IPR023621	Large ribosomal subunit protein eL31 domain superfamily	Homologous Superfamily
N [auth d]	IPR000054	Large ribosomal subunit protein eL31	Family
L [auth C]	IPR002208	SecY/SEC61-alpha family	Family
L [auth C]	IPR030659	SecY conserved site	Conserved Site
L [auth C]	IPR019561	Translocon Sec61/SecY, plug domain	Domain
L [auth C]	IPR023201	SecY domain superfamily	Homologous Superfamily
K [auth Y]	IPR005756	Large ribosomal subunit protein uL24, eukaryota_archaea	Family
K [auth Y]	IPR041988	Large ribosomal subunit protein uL24, KOW domain	Domain
K [auth Y]	IPR014722	Large ribosomal subunit protein uL2, domain 2	Homologous Superfamily
K [auth Y]	IPR005824	KOW	Domain
K [auth Y]	IPR008991	Translation protein SH3-like domain superfamily	Homologous Superfamily
K [auth Y]	IPR005825	Large ribosomal subunit protein uL24, conserved site	Conserved Site
J [auth X]	IPR012678	Ribosomal protein uL23/eL15/eS24 core domain superfamily	Homologous Superfamily
J [auth X]	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
J [auth X]	IPR005633	Large ribosomal subunit protein uL23, N-terminal	Domain
J [auth X]	IPR019985	Large ribosomal subunit protein uL23	Family
J [auth X]	IPR001014	Large ribosomal subunit protein uL23, conserved site	Conserved Site
J [auth X]	IPR013025	Large ribosomal subunit protein uL23-like	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
C [auth A], D [auth B], E [auth D], F [auth G], L [auth C] C [auth A], D [auth B], E [auth D], F [auth G], L [auth C], O [auth g]	PDBTM	Annotated as membrane protein by PDBTM