SUPERFAMILY 1.75 HMM library and genome assignments server


Smac/diablo superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Spectrin repeat-like [ 46965] (16)
Superfamily:   Smac/diablo [ 46984]
Families:   Smac/diablo [ 46985]


Superfamily statistics
Genomes (79) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 120 131 2
Proteins 119 131 2


Functional annotation
General category coiled coil
Detailed category This is a complex coiled arrangement. The details of which will appear on this page shortly (some coiled coil details are being checked before they are included on the site). If you want to see examples of the states please click here here. If you require further details urgently please contact Owen Rackham

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) regulation of metabolic process 1.144e-08 Least Informative Direct
Biological Process (BP) regulation of cellular process 1.149e-06 Least Informative Direct
Biological Process (BP) single-organism cellular process 1.327e-05 Least Informative Direct
Biological Process (BP) response to stimulus 0.0004164 Least Informative Direct
Biological Process (BP) positive regulation of molecular function 0 Moderately Informative Direct
Biological Process (BP) regulation of programmed cell death 1.931e-15 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 3.773e-14 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0002794 Moderately Informative Direct
Biological Process (BP) signal transduction 0.001356 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.001 Moderately Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 0 Informative Direct
Biological Process (BP) regulation of peptidase activity 0 Informative Direct
Biological Process (BP) cell death 0 Informative Direct
Biological Process (BP) response to oxidative stress 3.5e-11 Informative Direct
Biological Process (BP) intracellular signal transduction 4.884e-11 Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity 0 Highly Informative Direct
Biological Process (BP) intrinsic apoptotic signaling pathway 0 Highly Informative Direct
Biological Process (BP) positive regulation of peptidase activity 0 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0 Least Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processApoptosis0Moderately InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
DomainTransit peptide0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009062 SSF46984 Protein matches
Abstract

Smac/DIABLO (second mitochondria-derived activator of caspase/direct IAP-binding protein with low PI) is a 29 kDa mitochondrial precursor protein. Apoptosis, or programmed cell death, is an essential process in metazoan development and homeostasis. Apoptosis is carried out by caspases, which are under tight regulatory control. Inhibitor-of-apoptosis proteins (IAP) suppress apoptosis by inhibiting caspases, while the mitochondrial protein Smac/Diablo promotes apoptosis by suppressing IAPs. The N-terminal four sequences in Smac/Diablo are responsible for the protein's interaction with IAPs [PubMed11140638]. The crystal structure of Smac/Diablo reveals a closed, three-helical bundle structure with a left-handed twist, and that the protein homodimerises through an extensive hydrophobic interface [PubMed10972280].


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 · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) ]

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 2 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 Smac/diablo 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 2 hidden Markov models representing the Smac/diablo 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 · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]