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 (441) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 5,555 4,159 5
Proteins 5,546 4,146 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) biosynthetic process 0.6374 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.1476 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.5155 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.8015 Least Informative Inherited
Biological Process (BP) localization 0.006898 Least Informative Inherited
Biological Process (BP) cellular localization 0.1585 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.007299 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 0.005883 Moderately Informative Inherited
Biological Process (BP) ion transport 0.003203 Moderately Informative Inherited
Biological Process (BP) lipid biosynthetic process 0.005331 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.1385 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.002601 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.02757 Moderately Informative Inherited
Biological Process (BP) cellular lipid metabolic process 0.005715 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.06857 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.1915 Moderately Informative Inherited
Biological Process (BP) lipid localization 0 Informative Direct
Biological Process (BP) anion transport 4.936e-11 Informative Direct
Biological Process (BP) phospholipid metabolic process 1.941e-05 Informative Direct
Biological Process (BP) vitamin metabolic process 2.132e-05 Informative Direct
Biological Process (BP) organic hydroxy compound biosynthetic process 6.41e-05 Informative Direct
Biological Process (BP) regulation of lipid metabolic process 0.0001593 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.1174 Informative Inherited
Biological Process (BP) alcohol metabolic process 0.001029 Informative Inherited
Biological Process (BP) lysosome organization 0 Highly Informative Direct
Biological Process (BP) organophosphate ester transport 0 Highly Informative Direct
Biological Process (BP) alcohol biosynthetic process 5.363e-06 Highly Informative Direct
Biological Process (BP) Golgi vesicle transport 0.0003725 Highly Informative Direct
Biological Process (BP) response to drug 0.0006808 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 8.443e-07 Moderately Informative Direct
Molecular Function (MF) transporter activity 4.242e-06 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.09967 Moderately Informative Inherited
Molecular Function (MF) lipid binding 0 Informative Direct
Molecular Function (MF) anion transmembrane transporter activity 1.402e-05 Informative Direct
Molecular Function (MF) phosphatase activity 0.002004 Informative Inherited
Molecular Function (MF) lipid transporter activity 0 Highly Informative Direct
Molecular Function (MF) organic cation transmembrane transporter activity 2.349e-11 Highly Informative Direct
Molecular Function (MF) organic hydroxy compound transmembrane transporter activity 4.396e-11 Highly Informative Direct
Molecular Function (MF) phosphoprotein phosphatase activity 5.622e-05 Highly Informative Direct
Molecular Function (MF) phosphatidylinositol binding 0.002276 Highly Informative Inherited
Cellular Component (CC) cytoplasmic part 0.003139 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.3194 Least Informative Inherited
Cellular Component (CC) vesicle 0.002991 Moderately Informative Inherited
Cellular Component (CC) endosome 8.291e-09 Informative Direct
Cellular Component (CC) coated vesicle 1.042e-08 Informative Direct
Cellular Component (CC) trans-Golgi network 8.776e-11 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 6.669e-10 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

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 componentEndosome3.803e-12Moderately InformativeDirect
Cellular componentCytoplasmic vesicle3.855e-09Moderately InformativeDirect
Cellular componentMicrosome0Highly InformativeDirect
DomainCoiled coil2.519e-11Moderately InformativeDirect
Molecular functionLipid-binding0InformativeDirect
Post-translational modificationAcetylation0.000989Least InformativeDirect

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) · 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) · UniProtKB KeyWords (KW) · Internal database links ]