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 (197) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 393 398 2
Proteins 388 393 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 0.0009723 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0001832 Least Informative Direct
Biological Process (BP) developmental process 0.00005888 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0000006177 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.00000000001845 Least Informative Direct
Biological Process (BP) response to stimulus 0.0001023 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.1471 Least Informative Inherited
Biological Process (BP) signal transduction 0.0001313 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 0.000000000000003722 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0006543 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.000000000000003722 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.000000000000003722 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.000000002717 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.000011 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.0004916 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0001348 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.002465 Moderately Informative Inherited
Biological Process (BP) organ development 0.3044 Moderately Informative Inherited
Biological Process (BP) immune system process 0.001007 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.02276 Moderately Informative Inherited
Biological Process (BP) tissue development 0.03125 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.3023 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.08302 Moderately Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.000000005412 Informative Direct
Biological Process (BP) positive regulation of signal transduction 0.00001014 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 0.000004566 Informative Direct
Biological Process (BP) hematopoietic or lymphoid organ development 0.0004194 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.00005371 Informative Direct
Biological Process (BP) gland development 0.000001591 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0 Informative Direct
Biological Process (BP) epithelium development 0.00000008481 Informative Direct
Biological Process (BP) cardiovascular system development 0.00004322 Informative Direct
Biological Process (BP) organ morphogenesis 0.003424 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.01222 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.01259 Informative Inherited
Biological Process (BP) angiogenesis 0.000000001148 Highly Informative Direct
Biological Process (BP) pattern specification process 0.000007412 Highly Informative Direct
Biological Process (BP) regulation of striated muscle tissue development 0.000000001716 Highly Informative Direct
Biological Process (BP) endocrine system development 0.000000004466 Highly Informative Direct
Biological Process (BP) cell fate commitment 0.000000009689 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0 Highly Informative Direct
Biological Process (BP) stem cell development 0.0004707 Highly Informative Direct
Biological Process (BP) mesenchyme development 0.0000007993 Highly Informative Direct
Molecular Function (MF) binding 0.00002478 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0.0000000001213 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 0.000006576 Informative Direct
Molecular Function (MF) DNA binding 0.000000000001373 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0.000002291 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.000002492 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0.00000000008131 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.00000008623 Least Informative Direct
Cellular Component (CC) protein complex 0.000007622 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.4001 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.00002891 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.1658 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.0005323 Informative Direct
Cellular Component (CC) transcription factor complex 0.00004033 Highly 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
DomainRepeat0.00000009045Least InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor0.00000000000001303Moderately 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 ]