SUPERFAMILY 1.75 HMM library and genome assignments server

SUPERFAMILY 2 can be accessed from supfam.org. Please contact us if you experience any problems.

Home > SCOP hierarchy > Viral glycoprotein, central and dimerisation domains superfamily

Viral glycoprotein, central and dimerisation domains superfamily

SCOP classification

Root:	SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:	Membrane and cell surface proteins and peptides [ 56835] (58)
Fold:	Viral glycoprotein, central and dimerisation domains [ 56982]
Superfamily:	Viral glycoprotein, central and dimerisation domains [ 56983]
Families:	Viral glycoprotein, central and dimerisation domains [ 56984] (2)

Superfamily statistics

	Genomes (0)	Uniprot 2018_03 genome	PDB chains (SCOP 1.75)
Domains	0	26,899	9
Proteins	0	26,872	9

Functional annotation

General category	Other
Detailed category	Viral proteins

Document: Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)

	EC term	FDR (all)	SDEO level	Annotation (direct or inherited)
Enzyme Commission (EC)	Acting on peptide bonds (peptide hydrolases)	0	Least Informative	Direct
Enzyme Commission (EC)	Nucleotidyltransferases	0	Least Informative	Direct
Enzyme Commission (EC)	Transferring one-carbon groups	0	Least Informative	Direct
Enzyme Commission (EC)	Acting on acid anhydrides	0.0000000004925	Least Informative	Direct
Enzyme Commission (EC)	In phosphorous-containing anhydrides	0	Moderately Informative	Direct
Enzyme Commission (EC)	Acting on acid anhydrides; involved in cellular an	0	Moderately Informative	Direct
Enzyme Commission (EC)	Serine endopeptidases	0	Moderately Informative	Direct
Enzyme Commission (EC)	Methyltransferases	0	Moderately Informative	Direct
Enzyme Commission (EC)	Nucleoside-triphosphatase	0	Informative	Direct
Enzyme Commission (EC)	mRNA (nucleoside-2'-O-)-methyltransferase	0	Informative	Direct
Enzyme Commission (EC)	mRNA (guanine-N(7)-)-methyltransferase	0	Informative	Direct
Enzyme Commission (EC)	RNA-directed RNA polymerase	0	Informative	Direct
Enzyme Commission (EC)	Flavivirin	0	Informative	Direct
Enzyme Commission (EC)	Togavirin	0	Highly Informative	Direct

Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details)

	EC term	FDR (all)	SDEC level	Annotation (direct or inherited)
Enzyme Commission (EC)	Transferring phosphorus-containing groups	0	Least Informative	Direct
Enzyme Commission (EC)	Hydrolases	0	Least Informative	Direct
Enzyme Commission (EC)	Acting on acid anhydrides	0	Moderately Informative	Direct
Enzyme Commission (EC)	Transferring one-carbon groups	0	Moderately Informative	Direct
Enzyme Commission (EC)	Nucleotidyltransferases	0	Moderately Informative	Direct
Enzyme Commission (EC)	Acting on peptide bonds (peptidases)	0	Moderately Informative	Direct
Enzyme Commission (EC)	Serine endopeptidases	0	Informative	Direct
Enzyme Commission (EC)	RNA helicase	0	Informative	Direct
Enzyme Commission (EC)	In phosphorus-containing anhydrides	0	Informative	Direct
Enzyme Commission (EC)	RNA-directed RNA polymerase	0	Informative	Direct
Enzyme Commission (EC)	Nucleoside-triphosphate phosphatase	0	Highly Informative	Direct
Enzyme Commission (EC)	Methyltransferase cap1	0	Highly Informative	Direct
Enzyme Commission (EC)	mRNA (guanine-N(7)-)-methyltransferase	0	Highly Informative	Direct
Enzyme Commission (EC)	Flavivirin	0	Highly Informative	Direct

Document: EC annotation of SCOP domains

InterPro annotation

Cross references IPR011998 SSF56983 Protein matches

Abstract
Flaviviruses and alphaviruses are arthropod-borne, enveloped RNA viruses that cause infections in vertebrate hosts [ PubMed 15378043]. These viruses have two envelope glycoproteins (also known as �spike� glycoproteins), one that undergoes proteolytic cleavage to prime the virus (glycoproteins M and P62 in flaviviruses and alphaviruses, respectively), and the other to mediate receptor binding and fusion (glycoproteins E and E1 in flaviviruses and alphaviruses, respectively). Glycoprotein E/E1 is comprised of three domains: domain I (dimerisation domain) is a beta-barrel, domain II (central domain) is an elongated beta-stranded and alpha-helical domain, and domain III (immunoglobulin-like domain) is an IgC-like beta-sandwich. This entry represents the intertwined central and dimerisation domains found in flaviviral glycoprotein E [ PubMed 12759475] and alphaviral glycoprotein E1 [ PubMed 11301009] proteins.

InterPro database

PDBeMotif information about ligands, sequence and structure motifs

Cross references

PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Enzyme Commission (EC) · Enzyme Commission (EC) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.

Alignments of sequences to 8 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.

Browse and view proteins in genomes which have different domain combinations including a Viral glycoprotein, central and dimerisation domains domain.

Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.

Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 8 hidden Markov models representing the Viral glycoprotein, central and dimerisation domains superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Enzyme Commission (EC) · Enzyme Commission (EC) · Internal database links ]