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AraD/HMP-PK domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   AraD/HMP-PK domain-like [ 53638]
Superfamily:   AraD/HMP-PK domain-like [ 53639] (2)
Families:   AraD-like aldolase/epimerase [ 53640] (4)
  Phosphomethylpyrimidine kinase C-terminal domain-like [ 159768] (2)


Superfamily statistics
Genomes (2,456) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 6,462 35,763 20
Proteins 6,414 35,467 20


Functional annotation
General category Metabolism
Detailed category Other enzymes

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)organonitrogen compound metabolic process0.34630.4515Least InformativeInherited
Biological Process (BP)biosynthetic process0.0044530.03385Least InformativeInherited
Biological Process (BP)primary metabolic process0.01050.4031Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.00083760.01Least InformativeInherited
Biological Process (BP)single-organism cellular process0.37550.6854Least InformativeInherited
Biological Process (BP)cellular amino acid metabolic process0.000000043370.00000002987Moderately InformativeDirect
Biological Process (BP)sulfur compound metabolic process0.00000000061660.0000000008126Moderately InformativeDirect
Biological Process (BP)small molecule biosynthetic process0.00039210.00006425Moderately InformativeDirect
Biological Process (BP)carbohydrate metabolic process0.0012040.00119Moderately InformativeInherited
Biological Process (BP)monosaccharide metabolic process0.00041720.0003241InformativeDirect
Biological Process (BP)aspartate family amino acid metabolic process00InformativeDirect
Biological Process (BP)cellular metabolic compound salvage00InformativeDirect
Biological Process (BP)sulfur compound biosynthetic process0.00000000000011510.00000000000007943InformativeDirect
Biological Process (BP)alpha-amino acid biosynthetic process0.000000000000041590.00000000000004411InformativeDirect
Biological Process (BP)L-methionine salvage00Highly InformativeDirect
Molecular Function (MF)binding0.000022440.05446Least InformativeInherited
Molecular Function (MF)lyase activity00Moderately InformativeDirect
Molecular Function (MF)metal ion binding00Moderately InformativeDirect
Molecular Function (MF)zinc ion binding00InformativeDirect
Molecular Function (MF)hydro-lyase activity00InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) organonitrogen compound metabolic process 0.4515 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.03385 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.4031 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.01 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.6854 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.2067 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.00000002987 Moderately Informative Direct
Biological Process (BP) sulfur compound metabolic process 0.0000000008126 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 0.00006425 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.6691 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.2297 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.5787 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.03039 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.02498 Moderately Informative Inherited
Biological Process (BP) protein complex biogenesis 0.002364 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.00119 Moderately Informative Inherited
Biological Process (BP) monosaccharide metabolic process 0.0003241 Informative Direct
Biological Process (BP) aspartate family amino acid metabolic process 0 Informative Direct
Biological Process (BP) cellular metabolic compound salvage 0 Informative Direct
Biological Process (BP) sulfur compound biosynthetic process 0.00000000000007943 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.0001677 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.00000000000004411 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.002651 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.008424 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.02667 Informative Inherited
Biological Process (BP) regulation of actin polymerization or depolymerization 0.000001472 Highly Informative Direct
Biological Process (BP) negative regulation of protein complex assembly 0.00000009502 Highly Informative Direct
Biological Process (BP) regulation of protein polymerization 0.000002943 Highly Informative Direct
Biological Process (BP) negative regulation of cytoskeleton organization 0.000001021 Highly Informative Direct
Biological Process (BP) L-methionine salvage 0 Highly Informative Direct
Biological Process (BP) negative regulation of supramolecular fiber organization 0.000000651 Highly Informative Direct
Molecular Function (MF) binding 0.05446 Least Informative Inherited
Molecular Function (MF) structural molecule activity 0.000003884 Moderately Informative Direct
Molecular Function (MF) lyase activity 0 Moderately Informative Direct
Molecular Function (MF) metal ion binding 0 Moderately Informative Direct
Molecular Function (MF) zinc ion binding 0 Informative Direct
Molecular Function (MF) hydro-lyase activity 0 Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0.004772 Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.09227 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0.00008928 Moderately Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Isomerases0.0009987Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0.997Least InformativeInherited
Enzyme Commission (EC)Racemases and epimerases0Moderately InformativeDirect
Enzyme Commission (EC)Hydro-lyases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.003305Moderately InformativeInherited
Enzyme Commission (EC)Acting on carbohydrates and derivatives0InformativeDirect
Enzyme Commission (EC)Aldehyde-lyases0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processApoptosis0.000001305Moderately InformativeDirect
Biological processCarbohydrate metabolism0.0006824Moderately InformativeDirect
Biological processMethionine biosynthesis0Highly InformativeDirect
Cellular componentCytoplasm0.0000000003253Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect
Post-translational modificationIsomerase0.00000007003Moderately InformativeDirect
Post-translational modificationCalmodulin-binding0.0000000000354InformativeDirect
Post-translational modificationActin-binding0.00000000006236InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001303 SSF53639 Protein matches
Abstract

This entry represents the alpha/beta/alpha domain found in class II aldolases and adducin, usually at the N-terminus. These proteins form part of a family that includes: rhamnulose-1-phosphate aldolase , L-fuculose phosphate aldolase [PubMed8515438, PubMed8676381] that is involved in the third step in fucose metabolism, L-ribulose- 5-phosphate 4-epimerase involved in the third step of L-arabinose catabolism, a probable sugar isomerase SgbE, hypothetical proteins and the metazoan adducins which have not been ascribed any enzymatic function but which play a role in cell membrane cytoskeleton organisation.

Adducins are members of the Ig superfamily and encode cell surface sialoglycoproteins expressed by cytokine-activated endothelium. This type I membrane protein mediates leukocyte-endothelial cell adhesion and signal transduction, and may play a role in the development of artherosclerosis and rheumatoid arthritis. Adducin is a cell-membrane skeletal protein that was first purified from human erythrocytes and subsequently isolated from bovine brain membranes. Isoforms of this protein have been detected in lung, kidney, testes and liver. Erythrocyte adducin is a 200-kDa heterodimer protein, composed of alpha and beta subunits, present at about 30,000 copies per cell. It binds with high affinity to Ca(2+)/calmodulin and is a substrate for protein kinases A and C. Both alpha-adducin and beta-adducin show alternative splicing. Thus, there may be several different heterodimeric or homodimeric forms of adducin, each with a different functional specificity. It is thought to play a role in assembly of the spectrin-actin lattice that underlies the plasma membrane [PubMed102560]. Missense mutations in both the alpha- and beta-adducin genes that alter amino acids that are normally phosphorylated have been associated with the regulation of blood pressure in the Milan hypertensive strain (MHS) of rats. Gamma adducin was isolated from human foetal brain [PubMed8893809]. It shows a high degree of similarity to the alpha and beta adducins.


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-quality) · 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 6 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 AraD/HMP-PK 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 6 hidden Markov models representing the AraD/HMP-PK 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-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]