SUPERFAMILY 1.75 HMM library and genome assignments server

CRAL/TRIO N-terminal domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   RuvA C-terminal domain-like [ 46928] (9)
Superfamily:   CRAL/TRIO N-terminal domain [ 46938]
Families:   CRAL/TRIO N-terminal domain [ 46939] (3)


Superfamily statistics
Genomes (493) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 6,421 5,784 5
Proteins 6,398 5,765 5


Functional annotation
General category Processes_IC
Detailed category Phospholipid metabolism and transport

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 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.7119 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.6676 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.7296 Least Informative Inherited
Biological Process (BP) localization 0.01694 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.00003456 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 0.01753 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.7294 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.02028 Moderately Informative Inherited
Biological Process (BP) ion transport 0.002715 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.001844 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.102 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.09601 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.003403 Moderately Informative Inherited
Biological Process (BP) lipid localization 0 Informative Direct
Biological Process (BP) anion transport 0.00000000011 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.00002367 Informative Direct
Biological Process (BP) vitamin metabolic process 0.00003057 Informative Direct
Biological Process (BP) organic hydroxy compound biosynthetic process 0.000121 Informative Direct
Biological Process (BP) regulation of lipid metabolic process 0.0002 Informative Direct
Biological Process (BP) alcohol metabolic process 0.001596 Informative Inherited
Biological Process (BP) dephosphorylation 0.008186 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.09711 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.5862 Informative Inherited
Biological Process (BP) organophosphate ester transport 0 Highly Informative Direct
Biological Process (BP) lysosome organization 0 Highly Informative Direct
Biological Process (BP) regulation of alcohol biosynthetic process 0.000000008493 Highly Informative Direct
Biological Process (BP) protein dephosphorylation 0.00006744 Highly Informative Direct
Biological Process (BP) Golgi vesicle transport 0.00009296 Highly Informative Direct
Biological Process (BP) response to drug 0.0007685 Highly Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) anion binding 0.000001829 Moderately Informative Direct
Molecular Function (MF) transporter activity 0.000004746 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.0004488 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.1207 Moderately Informative Inherited
Molecular Function (MF) lipid binding 0.000000000000001593 Informative Direct
Molecular Function (MF) phosphatase activity 0.002592 Informative Inherited
Molecular Function (MF) lipid transporter activity 0 Highly Informative Direct
Molecular Function (MF) phosphoprotein phosphatase activity 0.00007328 Highly Informative Direct
Molecular Function (MF) phosphatidylinositol binding 0.002783 Highly Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.04033 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.4566 Least Informative Inherited
Cellular Component (CC) vesicle 0.001742 Moderately Informative Inherited
Cellular Component (CC) Golgi apparatus 0.0000000009076 Informative Direct
Cellular Component (CC) endosome 0.00000001326 Informative Direct
Cellular Component (CC) coated vesicle 0.0000000001126 Highly Informative Direct
Cellular Component (CC) trans-Golgi network 0.0000000001677 Highly Informative Direct

Document: GO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)developmental timing variant0Least InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0InformativeDirect

Document: EC annotation of SCOP domains

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)alimentary tract and metabolism0Least InformativeDirect
Drugbank ATC_code (DB)other plain vitamin preparations1Moderately InformativeInherited
Drugbank ATC_code (DB)tocopherol (vit e)0.00000001802InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processLipid transport0InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentEndosome0.000000000004171Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0.000000004525Moderately InformativeDirect
Cellular componentMicrosome0Highly InformativeDirect
DomainCoiled coil0.00000000002851Moderately InformativeDirect
Molecular functionLipid-binding0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR011074 SSF46938 Protein matches
Abstract

This entry contains the phosphatidylinositol transfer protein, Sec14p, which catalyses the exchange of phosphatidylinositol and phosphatidylcholine between membrane bilayers in vitro [PubMed9461221]. Other related proteins include the retinaldehyde/retinal-binding proteins, which are functional components of the visual cycle, guanine nucleotide exchange factor, and alpha-tocopherol transfer protein, which enhances the transfer of ligand between separate membranes, as well as several hypothetical 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 · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · DrugBank ATC (DB) · 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 3 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 CRAL/TRIO N-terminal domain 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 3 hidden Markov models representing the CRAL/TRIO N-terminal domain 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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · Internal database links ]