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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) cellular component organization or biogenesis 0.00000000004563 Least Informative Direct
Biological Process (BP) biological regulation 0.000001248 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.00003604 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.00007226 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.00008182 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.0002459 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0224 Least Informative Inherited
Biological Process (BP) response to stimulus 0.04352 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.01875 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 0.005682 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.01658 Least Informative Inherited
Biological Process (BP) regulation of signaling 0.0000000003649 Moderately Informative Direct
Biological Process (BP) regulation of cell communication 0.00000000271 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.000000003854 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 0.00000001504 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.00000003119 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 0.00000005122 Moderately Informative Direct
Biological Process (BP) single-organism transport 0.0000002169 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.0000004581 Moderately Informative Direct
Biological Process (BP) reproduction 0.0000007254 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.0000007697 Moderately Informative Direct
Biological Process (BP) gene expression 0.000001497 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0.000001921 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.000006088 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.00002441 Moderately Informative Direct
Biological Process (BP) cellular developmental process 0.00003605 Moderately Informative Direct
Biological Process (BP) cellular localization 0.0000534 Moderately Informative Direct
Biological Process (BP) regulation of molecular function 0.0001369 Moderately Informative Direct
Biological Process (BP) response to external stimulus 0.0002154 Moderately Informative Direct
Biological Process (BP) cell communication 0.0008718 Moderately Informative Direct
Biological Process (BP) system development 0.001013 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.03291 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.6923 Moderately Informative Inherited
Biological Process (BP) single organism signaling 0.0147 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.07886 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.02367 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.04912 Moderately Informative Inherited
Biological Process (BP) growth 0 Informative Direct
Biological Process (BP) generation of neurons 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.00000000000002463 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.00000000000003469 Informative Direct
Biological Process (BP) ion homeostasis 0.0000000000001217 Informative Direct
Biological Process (BP) regulation of transferase activity 0.0000000000002269 Informative Direct
Biological Process (BP) behavior 0.0000000000006101 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.000000000008069 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.00000000009811 Informative Direct
Biological Process (BP) regulation of nervous system development 0.0000000001851 Informative Direct
Biological Process (BP) microtubule-based process 0.0000000002537 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.000000000378 Informative Direct
Biological Process (BP) multi-organism reproductive process 0.000000000433 Informative Direct
Biological Process (BP) central nervous system development 0.0000000009219 Informative Direct
Biological Process (BP) phosphorylation 0.000000007109 Informative Direct
Biological Process (BP) single-organism intracellular transport 0.00000007289 Informative Direct
Biological Process (BP) locomotion 0.0000002891 Informative Direct
Biological Process (BP) regulation of growth 0.000001032 Informative Direct
Biological Process (BP) circulatory system development 0.00001972 Informative Direct
Biological Process (BP) regulation of cell cycle 0.000022 Informative Direct
Biological Process (BP) response to radiation 0.0000329 Informative Direct
Biological Process (BP) cell development 0.00005653 Informative Direct
Biological Process (BP) movement of cell or subcellular component 0.0001735 Informative Direct
Biological Process (BP) system process 0.0006096 Informative Direct
Biological Process (BP) regulation of cell differentiation 0.0008451 Informative Direct
Biological Process (BP) tissue development 0.05077 Informative Inherited
Biological Process (BP) regulation of protein modification process 0.01983 Informative Inherited
Biological Process (BP) cell surface receptor signaling pathway 0.00227 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.001419 Informative Inherited
Biological Process (BP) regulation of phosphorylation 0.207 Informative Inherited
Biological Process (BP) mRNA processing 0 Highly Informative Direct
Biological Process (BP) cell growth 0 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0 Highly Informative Direct
Biological Process (BP) morphogenesis of an epithelium 0 Highly Informative Direct
Biological Process (BP) neuron development 0 Highly Informative Direct
Biological Process (BP) plasma membrane bounded cell projection organization 0 Highly Informative Direct
Biological Process (BP) transition metal ion homeostasis 0 Highly Informative Direct
Biological Process (BP) microtubule-based movement 0 Highly Informative Direct
Biological Process (BP) developmental growth involved in morphogenesis 0.000000000000003764 Highly Informative Direct
Biological Process (BP) neurological system process 0.00000000000003307 Highly Informative Direct
Biological Process (BP) single-organism behavior 0.0000000002285 Highly Informative Direct
Biological Process (BP) cell morphogenesis involved in differentiation 0.000000003227 Highly Informative Direct
Biological Process (BP) chemotaxis 0.000000003281 Highly Informative Direct
Biological Process (BP) cell maturation 0.000000008567 Highly Informative Direct
Biological Process (BP) locomotory behavior 0.000009265 Highly Informative Direct
Biological Process (BP) regulation of developmental growth 0.0001024 Highly Informative Direct
Molecular Function (MF) binding 0.0005464 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0.000003795 Moderately Informative Direct
Molecular Function (MF) DNA binding 0.00000003034 Informative Direct
Cellular Component (CC) membrane 0.0004405 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.006069 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.4095 Least Informative Inherited
Cellular Component (CC) intrinsic component of membrane 0.000000003319 Moderately Informative Direct
Cellular Component (CC) cell projection 0.000000006515 Moderately Informative Direct
Cellular Component (CC) vesicle 0.008866 Moderately Informative Inherited
Cellular Component (CC) neuron projection 0.00000000001809 Informative Direct
Cellular Component (CC) Golgi apparatus 0.00000000002636 Informative Direct

Document: GO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)growth/size/body region phenotype0Least InformativeDirect
Mammalian Phenotype (MP)mortality/aging0Least InformativeDirect
Mammalian Phenotype (MP)abnormal postnatal growth/weight/body size0Moderately InformativeDirect
Mammalian Phenotype (MP)lethality during fetal growth through weaning0Moderately InformativeDirect
Mammalian Phenotype (MP)decreased body size0InformativeDirect

Document: MP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0Least InformativeDirect
Xenopus ANatomical entity (XAN)brain0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)immune system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)visual system0Moderately InformativeDirect

Document: XA 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 splicing0.00000000001087Least InformativeDirect
DomainSignal0Least InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionZinc0.00000002852Least InformativeDirect
Molecular functionMetal-binding0.0000177Least InformativeDirect
Molecular functionIron0.0000008292Moderately InformativeDirect
Molecular functionCopper0InformativeDirect
Post-translational modificationHeparin-binding0InformativeDirect
Post-translational modificationProtease inhibitor0InformativeDirect
Post-translational modificationSerine protease inhibitor0Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0.00001201Least InformativeDirect
Post-translational modificationIsopeptide bond0.00000004935Moderately InformativeDirect
Post-translational modificationUbl conjugation0.000003001Moderately InformativeDirect
Post-translational modificationProteoglycan0.000000000009117InformativeDirect

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) · Mouse Phenotype (MP) · Xenopus Anatomy (XA) · 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) · Mouse Phenotype (MP) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · Internal database links ]