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ATP-dependent DNA ligase DNA-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   ATP-dependent DNA ligase DNA-binding domain [ 117017]
Superfamily:   ATP-dependent DNA ligase DNA-binding domain [ 117018]
Families:   ATP-dependent DNA ligase DNA-binding domain [ 117019]


Superfamily statistics
Genomes (886) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 1,700 6,764 1
Proteins 1,695 6,751 1


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) cellular nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0000000000002738 Least Informative Direct
Biological Process (BP) response to stimulus 0.0000000004604 Least Informative Direct
Biological Process (BP) cellular response to stress 0.00000000000006022 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.4159 Moderately Informative Inherited
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) response to radiation 0.000005042 Informative Direct
Biological Process (BP) double-strand break repair 0.006202 Highly Informative Inherited
Molecular Function (MF) ligase activity 0 Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.000003444 Least Informative Direct
Cellular Component (CC) protein complex 0.005222 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.003382 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.3053 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.00004841 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.0002977 Moderately Informative Direct
Cellular Component (CC) chromosome 0.0002085 Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Ligases0Least InformativeDirect
Enzyme Commission (EC)Ligases that form phosphoric-ester bonds1InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0Moderately InformativeDirect
Biological processDNA damage0Moderately InformativeDirect
Biological processDNA recombination0InformativeDirect
Biological processDNA repair0InformativeDirect
Biological processDNA replication0InformativeDirect
Cellular componentNucleus0.000000434Least InformativeDirect
Molecular functionMagnesium0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · 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 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 ATP-dependent DNA ligase DNA-binding 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 1 hidden Markov models representing the ATP-dependent DNA ligase DNA-binding 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 · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]