7OCI | pdb_00007oci

Cryo-EM structure of yeast Ost6p containing oligosaccharyltransferase complex


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
DSCOP2B SuperfamilyOligosaccharyltransferase subunit ost4p 8040737 3000297 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
DOst4e7ociD1 A: extended segmentsX: Oligosaccharyltransferase subunit ost4p (From Topology)H: Oligosaccharyltransferase subunit ost4p (From Topology)T: Oligosaccharyltransferase subunit ost4pF: Ost4ECOD (1.6)
FSTT3e7ociF1 A: alpha bundlesX: STT3/PglB/AglB transmembrane domain (From Topology)H: STT3/PglB/AglB transmembrane domain (From Topology)T: STT3/PglB/AglB transmembrane domainF: STT3ECOD (1.6)
FKOG2292e7ociF2 A: a/b three-layered sandwichesX: STT3/PglB/AglB core domain (From Topology)H: STT3/PglB/AglB core domain (From Topology)T: STT3/PglB/AglB core domainF: KOG2292ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF04597Ribophorin I (Ribophorin_I)Ribophorin I- Family
PF02109DAD family (DAD)DAD family- Family
PF10215Oligosaccaryltransferase (Ost4)Oligosaccaryltransferase- Family
PF05251Oligosaccharyltransferase subunit 5 (Ost5)Oligosaccharyltransferase subunit 5- Family
PF02516Oligosaccharyl transferase STT3, N-terminal (STT3)Oligosaccharyl transferase STT3, N-terminalThis entry consists of the oligosaccharyl transferase STT3 subunit and related proteins. The STT3 subunit is part of the oligosaccharyl transferase (OTase) complex of proteins and is required for its activity [2]. In eukaryotes, OTase transfers a l ...This entry consists of the oligosaccharyl transferase STT3 subunit and related proteins. The STT3 subunit is part of the oligosaccharyl transferase (OTase) complex of proteins and is required for its activity [2]. In eukaryotes, OTase transfers a lipid-linked core-oligosaccharide to selected asparagine residues in the ER [2]. In the archaea STT3 occurs alone, rather than in an OTase complex, and is required for N-glycosylation of asparagines [3-4]. This entry represents the N-terminal domain, consisting of transmembrane helices.
Domain
PF21436STT3/PglB/AglB core domain (STT3-PglB_core)STT3/PglB/AglB core domainThis entry represents the C-terminal core domain found in the oligosaccharyl transferase STT3 subunit and related proteins, such as bacterial PglB and archaeal AlgB. STT3 is part of the oligosccharyl transferase (OTase) complex and required for its a ...This entry represents the C-terminal core domain found in the oligosaccharyl transferase STT3 subunit and related proteins, such as bacterial PglB and archaeal AlgB. STT3 is part of the oligosccharyl transferase (OTase) complex and required for its activity, which transfers a lipid-linked core-oligosaccharide to selected asparagine residues in the ER. In the archaea STT3 occurs alone, rather than in an OTase complex, and is required for N-glycosylation of asparagines [1-5]. This is a globular domain which adopts a mixed alpha/beta fold and contains the highly conserved WWDYG motif, in which the aspartate residue is thought to function as a catalytic residue [1-5].
Domain
PF03345OST48, N-terminal domain (OST48_N)OST48, N-terminal domainMembers of this entry are involved in asparagine-linked protein glycosylation. In particular, dolichyl-diphosphooligosaccharide-protein glycosyltransferase (DDOST), also known as oligosaccharyltransferase, transfers the high-mannose sugar GlcNAc(2)-M ...Members of this entry are involved in asparagine-linked protein glycosylation. In particular, dolichyl-diphosphooligosaccharide-protein glycosyltransferase (DDOST), also known as oligosaccharyltransferase, transfers the high-mannose sugar GlcNAc(2)-Man(9)-Glc(3) from a dolichol-linked donor to an asparagine acceptor in a consensus Asn-X-Ser/Thr motif. In most eukaryotes, the DDOST complex is composed of three subunits, which in humans are described as a 48kD subunit, ribophorin I, and ribophorin II. However, the yeast DDOST appears to consist of six subunits (alpha, beta, gamma, delta, epsilon, zeta). The yeast beta subunit is a 45kD polypeptide, previously discovered as the Wbp1 protein, with known sequence similarity to the human 48kD subunit and the other orthologues. This is the N-terminal domain of OST48 subunits from animals and plants and the orthologue from yeast Wbp1. This domain is distantly related to the IFT52 N-terminal domain (Pfam:PF23355).
Domain
PF05817Ribophorin II N-terminal domain (Ribophorin_II)Ribophorin II N-terminal domain- Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 1
Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit OST2-
Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit OST6
Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit OST4
Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit OST5
Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3
Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit WBP1
Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit SWP1
Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit OST6 - TM1---

Membrane Protein Annotation: OPM OPM Database Homepage

ChainsExternal LinkTypeClassSuperfamilyFamily
A, B, C, D, E
OPMTransmembraneAlpha-helical polytopicGlycosyl transferase GT-C superfamilyOligosaccharyltransferase

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

ChainsExternal LinkComment
A, B, C, D, E
PDBTMAnnotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

ChainsExternal LinkComment
A, B, C, D, E
MemProtMDAnnotated as membrane protein by MemProtMD