SUPERFAMILY 1.75 HMM library and genome assignments server


post-AAA+ oligomerization domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   post-AAA+ oligomerization domain-like [ 48018]
Superfamily:   post-AAA+ oligomerization domain-like [ 48019] (2)
Families:   DNA polymerase III clamp loader subunits, C-terminal domain [ 48020] (9)
  MgsA/YrvN C-terminal domain-like [ 158600] (3)


Superfamily statistics
Genomes (3,176) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 10,960 24,106 15
Proteins 10,952 24,097 15


Functional annotation
General category Information
Detailed category DNA replication/repair

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 aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 1.717e-13 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 4.631e-11 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.8222 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.3134 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.3519 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1245 Least Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular response to stress 6.84e-13 Moderately Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 1.836e-11 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 3.131e-05 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 6.497e-05 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 8.175e-05 Moderately Informative Direct
Biological Process (BP) organic cyclic compound catabolic process 0.0007854 Moderately Informative Direct
Biological Process (BP) homeostatic process 0.08264 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.01974 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.002104 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.00424 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) nucleoside monophosphate metabolic process 0 Informative Direct
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) glycosyl compound catabolic process 0 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 1.931e-15 Informative Direct
Biological Process (BP) organophosphate catabolic process 7.333e-15 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 1.263e-14 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 3.773e-14 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 3.773e-14 Informative Direct
Biological Process (BP) cell cycle process 1.355e-06 Informative Direct
Biological Process (BP) chromosome organization 4.38e-05 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.007215 Informative Inherited
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 0 Highly Informative Direct
Biological Process (BP) ATP metabolic process 0 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 0 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 0 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 0 Highly Informative Direct
Biological Process (BP) DNA replication 0 Highly Informative Direct
Biological Process (BP) chromosome segregation 1.046e-05 Highly Informative Direct
Biological Process (BP) DNA recombination 0.5121 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 3.988e-05 Least Informative Direct
Molecular Function (MF) binding 0.07879 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.03571 Moderately Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 7.005e-14 Informative Direct
Molecular Function (MF) DNA binding 3.058e-09 Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 4.418e-11 Least Informative Direct
Cellular Component (CC) intracellular organelle part 5.56e-05 Least Informative Direct
Cellular Component (CC) protein complex 0.001792 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) nuclear part 0.3688 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.5595 Moderately Informative Inherited
Cellular Component (CC) chromosome 4.826e-11 Informative Direct
Cellular Component (CC) DNA polymerase complex 2.972e-15 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.3087 Highly Informative Inherited
Cellular Component (CC) chromatin 1 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Nucleotidyltransferases0Least InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details) Document: DO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.004687Least InformativeInherited
Worm Phenotype (WP)cell division variant1.941e-05InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)cell cycle progression0.0004032InformativeDirect
Yeast Phenotype (YP)chromosome/plasmid maintenance0.04029InformativeInherited
Yeast Phenotype (YP)mutation frequency3.349e-06Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0Least InformativeDirect
Fly Anatomy (FA)cell0Least InformativeDirect
Fly Anatomy (FA)developing material anatomical entity0Moderately InformativeDirect
Fly Anatomy (FA)ganglion mother cell0InformativeDirect
Fly Anatomy (FA)somatic stem cell0InformativeDirect
Fly Anatomy (FA)embryonic/larval neuroblast0Highly InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)gamete0Moderately InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups2.747e-14Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.723Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.01609Moderately InformativeInherited
Enzyme Commission (EC)DNA-directed DNA polymerase0InformativeDirect
Enzyme Commission (EC)In phosphorous-containing anhydrides2.843e-05InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDNA replication0InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionDNA-binding7.903e-05Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationNucleotidyltransferase3.219e-10Moderately InformativeDirect
Post-translational modificationDNA-directed DNA polymerase0InformativeDirect
Post-translational modificationAcetylation7.443e-06Least InformativeDirect
Post-translational modificationAutocatalytic cleavage3.696e-07InformativeDirect
Post-translational modificationProtein splicing0Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR008921 SSF48019 Protein matches
Abstract

The Escherichia coli DNA polymerase III gamma complex clamp loader assembles the ring-shaped beta sliding clamp onto DNA. The core polymerase is tethered to the template by beta, enabling progressive replication of the genome. The E. coli complex clamp loader contains five different subunits, clamp loading only requires 3 of these - the gamma, delta, delta' complex. Three gamma subunits, and one each of delta and delta', are arranged in a circle. Each subunit adopts the same chain topology, and folds into three domains. However, the relative orientation of these domains is different for each subunit. The carboxy-terminal domains provide the major subunit contacts of the pentamer, although other intersubunit contacts are present. The amino-terminal domains do not form a continuous circle. These domains are arranged in a highly asymmetric fashion, and appear to dangle under the carboxy-terminal pentamer 'umbrella' [PubMed11719243].


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) · Enzyme Commission (EC) · Disease Ontology (DO) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · 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 13 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 post-AAA+ oligomerization domain-like 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 13 hidden Markov models representing the post-AAA+ oligomerization domain-like 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) · Enzyme Commission (EC) · Disease Ontology (DO) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]