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A heparin-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   SRCR-like [ 56486] (2)
Superfamily:   A heparin-binding domain [ 56491]
Families:   A heparin-binding domain [ 56492]


Superfamily statistics
Genomes (130) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 400 1,001 1
Proteins 398 997 1


Functional annotation
General category General
Detailed category Small molecule 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) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.000000000342 Least Informative Direct
Biological Process (BP) biological regulation 0.000009492 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.00005052 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.00009782 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.00011 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.0003264 Least Informative Direct
Biological Process (BP) primary metabolic process 0.02189 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 0.005935 Least Informative Inherited
Biological Process (BP) response to stimulus 0.07581 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.06303 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.01912 Least Informative Inherited
Biological Process (BP) cell differentiation 0.000000000002979 Moderately Informative Direct
Biological Process (BP) regulation of signaling 0.0000000003099 Moderately Informative Direct
Biological Process (BP) regulation of cell communication 0.000000002411 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.00000000475 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 0.0000000049 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 0.00000003606 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.000000039 Moderately Informative Direct
Biological Process (BP) single-organism transport 0.0000003176 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.0000005546 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.0000007408 Moderately Informative Direct
Biological Process (BP) reproduction 0.000001399 Moderately Informative Direct
Biological Process (BP) gene expression 0.00000157 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0.000002979 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.000005494 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.00004983 Moderately Informative Direct
Biological Process (BP) cellular localization 0.00005473 Moderately Informative Direct
Biological Process (BP) regulation of molecular function 0.0001128 Moderately Informative Direct
Biological Process (BP) response to external stimulus 0.0002249 Moderately Informative Direct
Biological Process (BP) cell communication 0.0008735 Moderately Informative Direct
Biological Process (BP) tissue development 0.0213 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.6758 Moderately Informative Inherited
Biological Process (BP) single organism signaling 0.02321 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.0316 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.08057 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.02277 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.04771 Moderately Informative Inherited
Biological Process (BP) epithelium development 0 Informative Direct
Biological Process (BP) growth 0 Informative Direct
Biological Process (BP) generation of neurons 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.00000000000003598 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.0000000000000683 Informative Direct
Biological Process (BP) cation homeostasis 0.00000000000007943 Informative Direct
Biological Process (BP) inorganic ion homeostasis 0.00000000000009834 Informative Direct
Biological Process (BP) regulation of transferase activity 0.0000000000003822 Informative Direct
Biological Process (BP) behavior 0.000000000001829 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.000000000006121 Informative Direct
Biological Process (BP) regulation of nervous system development 0.00000000002068 Informative Direct
Biological Process (BP) central nervous system development 0.00000000005354 Informative Direct
Biological Process (BP) microtubule-based process 0.0000000002672 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.0000000006531 Informative Direct
Biological Process (BP) multi-organism reproductive process 0.0000000008607 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.0000000008738 Informative Direct
Biological Process (BP) phosphorylation 0.00000001044 Informative Direct
Biological Process (BP) single-organism cellular localization 0.00000008842 Informative Direct
Biological Process (BP) locomotion 0.0000006967 Informative Direct
Biological Process (BP) regulation of growth 0.0000012 Informative Direct
Biological Process (BP) circulatory system development 0.000002523 Informative Direct
Biological Process (BP) intracellular transport 0.000003115 Informative Direct
Biological Process (BP) regulation of cell cycle 0.00001903 Informative Direct
Biological Process (BP) response to radiation 0.00003496 Informative Direct
Biological Process (BP) regulation of cell differentiation 0.0002273 Informative Direct
Biological Process (BP) movement of cell or subcellular component 0.0002281 Informative Direct
Biological Process (BP) cell development 0.0002588 Informative Direct
Biological Process (BP) system process 0.001166 Informative Inherited
Biological Process (BP) regulation of protein modification process 0.02073 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.002335 Informative Inherited
Biological Process (BP) regulation of phosphorylation 0.2124 Informative Inherited
Biological Process (BP) cell surface receptor signaling pathway 0.002338 Informative Inherited
Biological Process (BP) mRNA processing 0 Highly Informative Direct
Biological Process (BP) positive regulation of mitotic cell cycle 0 Highly Informative Direct
Biological Process (BP) plasma membrane bounded cell projection organization 0 Highly Informative Direct
Biological Process (BP) cell growth 0 Highly Informative Direct
Biological Process (BP) neuron development 0 Highly Informative Direct
Biological Process (BP) transition metal ion homeostasis 0 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0 Highly Informative Direct
Biological Process (BP) microtubule-based movement 0 Highly Informative Direct
Biological Process (BP) morphogenesis of an epithelium 0 Highly Informative Direct
Biological Process (BP) developmental growth involved in morphogenesis 0.00000000000002102 Highly Informative Direct
Biological Process (BP) nervous system process 0.00000000000008895 Highly Informative Direct
Biological Process (BP) anatomical structure maturation 0.00000000004885 Highly Informative Direct
Biological Process (BP) single-organism behavior 0.0000000006285 Highly Informative Direct
Biological Process (BP) cell morphogenesis involved in differentiation 0.000000002788 Highly Informative Direct
Biological Process (BP) cell maturation 0.000000008435 Highly Informative Direct
Biological Process (BP) locomotory behavior 0.00000653 Highly Informative Direct
Biological Process (BP) regulation of developmental growth 0.0001036 Highly Informative Direct
Molecular Function (MF) binding 0.001598 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.00000683 Moderately Informative Direct
Molecular Function (MF) DNA binding 0.0000000641 Informative Direct
Cellular Component (CC) membrane 0.0007592 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.009409 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.4105 Least Informative Inherited
Cellular Component (CC) intrinsic component of membrane 0.000000005963 Moderately Informative Direct
Cellular Component (CC) cell projection 0.00000001454 Moderately Informative Direct
Cellular Component (CC) endomembrane system 0.000000846 Moderately Informative Direct
Cellular Component (CC) vesicle 0.008225 Moderately Informative Inherited
Cellular Component (CC) neuron projection 0.00000000004871 Informative Direct
Cellular Component (CC) Golgi apparatus 0.00000000005476 Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processApoptosis0Moderately InformativeDirect
Biological processCell adhesion0InformativeDirect
Biological processEndocytosis0InformativeDirect
Biological processNotch signaling pathway0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCoated pit0Highly InformativeDirect
Coding sequence diversityAlternative splicing0.0000000000106Least InformativeDirect
DomainSignal0Least InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionZinc0.0000000289Least InformativeDirect
Molecular functionMetal-binding0.00001911Least InformativeDirect
Molecular functionIron0.0000008265Moderately InformativeDirect
Molecular functionCopper0InformativeDirect
Post-translational modificationHeparin-binding0InformativeDirect
Post-translational modificationProtease inhibitor0InformativeDirect
Post-translational modificationSerine protease inhibitor0Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0.00001297Least InformativeDirect
Post-translational modificationIsopeptide bond0.0000007044Moderately InformativeDirect
Post-translational modificationUbl conjugation0.00001296Moderately InformativeDirect
Post-translational modificationProteoglycan0.000000000008766InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR015849 SSF56491 Protein matches
Abstract

This entry represents a heparin-binding domain found at the N-terminal of the extracellular domain, which is itself found at the N-terminal of amyloidogenic glycoproteins such as amyloid-beta precursor protein (APP, or A4). The core of the heparin-binding domain has an unusual disulphide-rich fold, consisting of a beta-x-alpha-beta-loop-beta topology [PubMed10201399].

More information about these protein can be found at Protein of the Month: Amyloid-beta Precursor Protein.


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 A heparin-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 A heparin-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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]