SUPERFAMILY 1.75 HMM library and genome assignments server

DNA-binding protein LAG-1 (CSL) superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   beta-Trefoil [ 50352] (8)
Superfamily:   DNA-binding protein LAG-1 (CSL) [ 110217]
Families:   DNA-binding protein LAG-1 (CSL) [ 110218]


Superfamily statistics
Genomes (202) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 411 398 2
Proteins 406 393 2


Functional annotation
General category Regulation
Detailed category DNA-binding

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 cellular process 0.00000000004588 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.000006794 Least Informative Direct
Biological Process (BP) developmental process 0.00008147 Least Informative Direct
Biological Process (BP) positive regulation of biological process 0.00009361 Least Informative Direct
Biological Process (BP) response to stimulus 0.0001621 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0001659 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.001398 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.1841 Least Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.000000000000003707 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.00000000000001071 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.00000000000002422 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.000000004728 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.00003251 Moderately Informative Direct
Biological Process (BP) signal transduction 0.0001207 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.0005196 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0008754 Moderately Informative Direct
Biological Process (BP) tissue development 0.03215 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.001559 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.0837 Moderately Informative Inherited
Biological Process (BP) immune system process 0.001175 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.175 Moderately Informative Inherited
Biological Process (BP) organ development 0.2881 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.3438 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0 Informative Direct
Biological Process (BP) positive regulation of gene expression 0 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0 Informative Direct
Biological Process (BP) positive regulation of RNA metabolic process 0 Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 0.000000006501 Informative Direct
Biological Process (BP) epithelium development 0.000000216 Informative Direct
Biological Process (BP) gland development 0.00001709 Informative Direct
Biological Process (BP) tube development 0.00001896 Informative Direct
Biological Process (BP) cardiovascular system development 0.00004361 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.00006186 Informative Direct
Biological Process (BP) negative regulation of developmental process 0.00009943 Informative Direct
Biological Process (BP) hematopoietic or lymphoid organ development 0.0006583 Informative Direct
Biological Process (BP) positive regulation of developmental process 0.002935 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.01087 Informative Inherited
Biological Process (BP) organ morphogenesis 0.005512 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.0142 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.02185 Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-templated 0 Highly Informative Direct
Biological Process (BP) mesenchyme development 0.000000000299 Highly Informative Direct
Biological Process (BP) angiogenesis 0.000000002556 Highly Informative Direct
Biological Process (BP) endocrine system development 0.000000004255 Highly Informative Direct
Biological Process (BP) cell fate commitment 0.00000000695 Highly Informative Direct
Biological Process (BP) pattern specification process 0.000009628 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.00005095 Highly Informative Direct
Biological Process (BP) stem cell development 0.0004399 Highly Informative Direct
Biological Process (BP) cell morphogenesis involved in differentiation 0.1136 Highly Informative Inherited
Molecular Function (MF) binding 0.00004589 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0.0000000004348 Moderately Informative Direct
Molecular Function (MF) DNA binding 0.000000000002623 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 0.000007192 Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0.0000000002019 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.000002422 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 0.003319 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.00000008439 Least Informative Direct
Cellular Component (CC) protein complex 0.000009513 Least Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Biological processNotch signaling pathway0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainRepeat0.00000009163Least InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor0.00000000000001454Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR015350 SSF110217 Protein matches
Abstract

This DNA-binding domain adopt a beta-trefoil fold, that is, a capped beta-barrel with internal pseudo threefold symmetry. In the DNA-binding protein LAG-1, it also is the site of mutually exclusive interactions with NotchIC (and the viral protein EBNA2) and corepressors (SMRT/N-Cor and CIR) [PubMed15297877].


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 1 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 DNA-binding protein LAG-1 (CSL) 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 1 hidden Markov models representing the DNA-binding protein LAG-1 (CSL) 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 ]