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 metabolic process 0.0009335 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0002295 Least Informative Direct
Biological Process (BP) developmental process 7.489e-05 Least Informative Direct
Biological Process (BP) single-organism cellular process 8.595e-07 Least Informative Direct
Biological Process (BP) regulation of cellular process 2.92e-11 Least Informative Direct
Biological Process (BP) response to stimulus 0.000135 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.1615 Least Informative Inherited
Biological Process (BP) signal transduction 0.0001349 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 3.77e-15 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0007636 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 7.377e-15 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 7.377e-15 Moderately Informative Direct
Biological Process (BP) cell differentiation 3.79e-09 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 1.129e-05 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.0004877 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0001635 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.002478 Moderately Informative Inherited
Biological Process (BP) organ development 0.3045 Moderately Informative Inherited
Biological Process (BP) immune system process 0.00113 Moderately Informative Inherited
Biological Process (BP) tissue development 0.03186 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.3063 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.08399 Moderately Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 6.393e-09 Informative Direct
Biological Process (BP) positive regulation of signal transduction 1.229e-05 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0 Informative Direct
Biological Process (BP) positive regulation of gene expression 0 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0 Informative Direct
Biological Process (BP) tube development 4.439e-06 Informative Direct
Biological Process (BP) hematopoietic or lymphoid organ development 0.0004271 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 5.74e-05 Informative Direct
Biological Process (BP) gland development 1.522e-06 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0 Informative Direct
Biological Process (BP) epithelium development 9.947e-08 Informative Direct
Biological Process (BP) cardiovascular system development 4.187e-05 Informative Direct
Biological Process (BP) organ morphogenesis 0.003365 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.01243 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.01273 Informative Inherited
Biological Process (BP) angiogenesis 1.09e-09 Highly Informative Direct
Biological Process (BP) pattern specification process 7.286e-06 Highly Informative Direct
Biological Process (BP) regulation of striated muscle tissue development 1.943e-09 Highly Informative Direct
Biological Process (BP) endocrine system development 4.346e-09 Highly Informative Direct
Biological Process (BP) cell fate commitment 8.917e-09 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0 Highly Informative Direct
Biological Process (BP) stem cell development 0.0005063 Highly Informative Direct
Biological Process (BP) mesenchyme development 8.216e-07 Highly Informative Direct
Molecular Function (MF) binding 3.436e-05 Least Informative Direct
Molecular Function (MF) nucleic acid binding 1.666e-10 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 7.414e-06 Informative Direct
Molecular Function (MF) DNA binding 2.021e-12 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 2.59e-06 Highly Informative Direct
Molecular Function (MF) transcription factor binding 2.493e-06 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 1.372e-10 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1.184e-07 Least Informative Direct
Cellular Component (CC) protein complex 9.289e-06 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.3947 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 3.292e-05 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.1649 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.0005436 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
DomainRepeat9.034e-08Least InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor1.325e-14Moderately 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 ]