SUPERFAMILY 1.75 HMM library and genome assignments server

LDL receptor-like module superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   LDL receptor-like module [ 57423]
Superfamily:   LDL receptor-like module [ 57424]
Families:   LDL receptor-like module [ 57425] (6)


Superfamily statistics
Genomes (205) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 31,135 31,536 26
Proteins 7,372 7,746 18


Functional annotation
General category Processes_IC
Detailed category Transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details) 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) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) localization 0.0000000000004169 Least Informative Direct
Biological Process (BP) response to stimulus 0.00000002737 Least Informative Direct
Biological Process (BP) protein metabolic process 0.00002558 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 0.01643 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.05179 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) cell differentiation 0.000000000003225 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.000000002024 Moderately Informative Direct
Biological Process (BP) regulation of phosphorus metabolic process 0.00005244 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 0.0002877 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.000292 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.3389 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.001191 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.547 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) defense response 0.1319 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.02925 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.7339 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.1548 Moderately Informative Inherited
Biological Process (BP) organ development 0.599 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.7609 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.09418 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.4454 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.9645 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.6919 Moderately Informative Inherited
Biological Process (BP) reproductive process 0.07813 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.01014 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.002452 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.1619 Moderately Informative Inherited
Biological Process (BP) immune system process 0.6211 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.003189 Moderately Informative Inherited
Biological Process (BP) locomotion 0 Informative Direct
Biological Process (BP) vesicle-mediated transport 0 Informative Direct
Biological Process (BP) cellular component movement 0 Informative Direct
Biological Process (BP) generation of neurons 0.000000000000003707 Informative Direct
Biological Process (BP) organic hydroxy compound transport 0.00000000001805 Informative Direct
Biological Process (BP) cell projection organization 0.0000000004064 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 0.000000007222 Informative Direct
Biological Process (BP) proteolysis 0.0000002592 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.0000003705 Informative Direct
Biological Process (BP) regulation of response to wounding 0.0000004571 Informative Direct
Biological Process (BP) protein maturation 0.000001562 Informative Direct
Biological Process (BP) alcohol metabolic process 0.000001782 Informative Direct
Biological Process (BP) single-organism behavior 0.000004 Informative Direct
Biological Process (BP) regulation of transferase activity 0.000009225 Informative Direct
Biological Process (BP) regulation of immune effector process 0.00001866 Informative Direct
Biological Process (BP) negative regulation of developmental process 0.00002893 Informative Direct
Biological Process (BP) regulation of locomotion 0.00003187 Informative Direct
Biological Process (BP) vitamin metabolic process 0.00004991 Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 0.0001985 Informative Direct
Biological Process (BP) lipid localization 0.0004181 Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 0.0005101 Informative Direct
Biological Process (BP) positive regulation of cellular protein metabolic process 0.0005553 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0.7354 Informative Inherited
Biological Process (BP) sensory organ development 0.7428 Informative Inherited
Biological Process (BP) cardiovascular system development 0.2944 Informative Inherited
Biological Process (BP) gland development 0.1171 Informative Inherited
Biological Process (BP) epithelium development 0.6221 Informative Inherited
Biological Process (BP) tube development 1 Informative Inherited
Biological Process (BP) tissue morphogenesis 1 Informative Inherited
Biological Process (BP) protein oligomerization 0.03 Informative Inherited
Biological Process (BP) growth 0.02409 Informative Inherited
Biological Process (BP) neurological system process 0.194 Informative Inherited
Biological Process (BP) regulation of defense response 0.01768 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.3112 Informative Inherited
Biological Process (BP) muscle structure development 0.4448 Informative Inherited
Biological Process (BP) organ morphogenesis 0.1269 Informative Inherited
Biological Process (BP) protein catabolic process 0.6117 Informative Inherited
Biological Process (BP) regulation of anatomical structure size 0.1902 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.7379 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.001614 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.1148 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.002031 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.005104 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.04625 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 1 Informative Inherited
Biological Process (BP) localization of cell 0.001032 Informative Inherited
Biological Process (BP) central nervous system development 0.1379 Informative Inherited
Biological Process (BP) isoprenoid metabolic process 0.01161 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.002733 Informative Inherited
Biological Process (BP) regulation of cell development 0.002233 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 0.4177 Informative Inherited
Biological Process (BP) single organism reproductive process 0.6464 Informative Inherited
Biological Process (BP) reproductive structure development 1 Informative Inherited
Biological Process (BP) response to light stimulus 0.1357 Informative Inherited
Biological Process (BP) response to nutrient levels 0.2143 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 1 Informative Inherited
Biological Process (BP) immune response 0.3967 Informative Inherited
Biological Process (BP) regulation of immune response 0.8755 Informative Inherited
Biological Process (BP) immune effector process 0.0156 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.8292 Informative Inherited
Biological Process (BP) single-organism cellular localization 0.01937 Informative Inherited
Biological Process (BP) protein localization to organelle 0.7387 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.1205 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.807 Informative Inherited
Biological Process (BP) protein transport 0.9137 Informative Inherited
Biological Process (BP) regulation of cell proliferation 1 Informative Inherited
Biological Process (BP) single-organism membrane organization 0.5475 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.4603 Informative Inherited
Biological Process (BP) cell recognition 0 Highly Informative Direct
Biological Process (BP) response to drug 0 Highly Informative Direct
Biological Process (BP) sterol transport 0 Highly Informative Direct
Biological Process (BP) regulation of acute inflammatory response 0.0000000000003407 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0.000000000003763 Highly Informative Direct
Biological Process (BP) regulation of humoral immune response 0.000000000005235 Highly Informative Direct
Biological Process (BP) sterol metabolic process 0.000000002703 Highly Informative Direct
Biological Process (BP) chemotaxis 0.00000008285 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.0000002297 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0.0000002852 Highly Informative Direct
Biological Process (BP) lipoprotein metabolic process 0.0000007065 Highly Informative Direct
Biological Process (BP) neuron projection development 0.000001956 Highly Informative Direct
Biological Process (BP) retinoid metabolic process 0.000003625 Highly Informative Direct
Biological Process (BP) cell junction organization 0.000004926 Highly Informative Direct
Biological Process (BP) telencephalon development 0.000005561 Highly Informative Direct
Biological Process (BP) connective tissue development 0.000006021 Highly Informative Direct
Biological Process (BP) mammary gland epithelium development 0.000006334 Highly Informative Direct
Biological Process (BP) regulation of neuron projection development 0.00000693 Highly Informative Direct
Biological Process (BP) protein activation cascade 0.00000985 Highly Informative Direct
Biological Process (BP) negative regulation of nervous system development 0.00003687 Highly Informative Direct
Biological Process (BP) cell projection morphogenesis 0.0000479 Highly Informative Direct
Biological Process (BP) cell morphogenesis involved in differentiation 0.00006418 Highly Informative Direct
Biological Process (BP) limb morphogenesis 0.0001759 Highly Informative Direct
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.0003255 Highly Informative Direct
Biological Process (BP) protein tetramerization 0.0003931 Highly Informative Direct
Biological Process (BP) innate immune response 0.0004521 Highly Informative Direct
Biological Process (BP) humoral immune response 0.0007723 Highly Informative Direct
Biological Process (BP) retina development in camera-type eye 0.002595 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.03444 Highly Informative Inherited
Biological Process (BP) developmental growth 0.02209 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.01314 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.9276 Highly Informative Inherited
Biological Process (BP) phagocytosis 0.2623 Highly Informative Inherited
Biological Process (BP) protein localization to membrane 0.01147 Highly Informative Inherited
Biological Process (BP) respiratory system development 0.003333 Highly Informative Inherited
Biological Process (BP) mesenchyme development 0.2283 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.06817 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.9657 Highly Informative Inherited
Biological Process (BP) gonad development 0.2998 Highly Informative Inherited
Biological Process (BP) learning or memory 0.01706 Highly Informative Inherited
Biological Process (BP) detection of light stimulus 0.0016 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 0.1028 Highly Informative Inherited
Molecular Function (MF) binding 0.01414 Least Informative Inherited
Molecular Function (MF) hydrolase activity 0.001985 Least Informative Inherited
Molecular Function (MF) carbohydrate derivative binding 0.1847 Moderately Informative Inherited
Molecular Function (MF) receptor activity 0 Informative Direct
Molecular Function (MF) peptidase activity 8.141e-16 Informative Direct
Molecular Function (MF) molecular transducer activity 0.00000001037 Informative Direct
Molecular Function (MF) receptor binding 0.04969 Informative Inherited
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds 0.02201 Informative Inherited
Molecular Function (MF) serine hydrolase activity 0 Highly Informative Direct
Molecular Function (MF) deacetylase activity 0.0000149 Highly Informative Direct
Molecular Function (MF) transmembrane signaling receptor activity 0.02179 Highly Informative Inherited
Molecular Function (MF) endopeptidase activity 0.06375 Highly Informative Inherited
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.9922 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.4267 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.5255 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) extracellular region part 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane part 0.00007545 Moderately Informative Direct
Cellular Component (CC) vesicle 0.0001461 Moderately Informative Direct
Cellular Component (CC) membrane region 0.1148 Moderately Informative Inherited
Cellular Component (CC) cytoskeleton 0.6181 Moderately Informative Inherited
Cellular Component (CC) bounding membrane of organelle 0.003357 Moderately Informative Inherited
Cellular Component (CC) cell projection 0.06342 Moderately Informative Inherited
Cellular Component (CC) lipid particle 0 Informative Direct
Cellular Component (CC) endosome 0 Informative Direct
Cellular Component (CC) extracellular matrix 0 Informative Direct
Cellular Component (CC) lytic vacuole 0.00000003171 Informative Direct
Cellular Component (CC) cell surface 0.00000993 Informative Direct
Cellular Component (CC) Golgi apparatus 0.00006695 Informative Direct
Cellular Component (CC) vacuolar part 0.0001164 Informative Direct
Cellular Component (CC) plasma membrane region 0.0001171 Informative Direct
Cellular Component (CC) synapse 0.0001574 Informative Direct
Cellular Component (CC) extracellular matrix part 0 Highly Informative Direct
Cellular Component (CC) proteinaceous extracellular matrix 0.000000000000003071 Highly Informative Direct
Cellular Component (CC) cell body 0.000001757 Highly Informative Direct
Cellular Component (CC) brush border 0.000004044 Highly Informative Direct
Cellular Component (CC) receptor complex 0.00006357 Highly Informative Direct
Cellular Component (CC) endosomal part 0.0003797 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the immune system0.6678Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of complement system0.00003731InformativeDirect
Phenotypic Abnormality (PA)Recurrent infections0.3626InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cardiovascular system phenotype0.05586Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.3914Least InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.02893Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.1984Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.1997Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal circulating cholesterol level0.02257InformativeInherited
Mammalian Phenotype (MP)abnormal circulating lipoprotein level0.03925InformativeInherited
Mammalian Phenotype (MP)abnormal systemic artery morphology0.07964InformativeInherited
Mammalian Phenotype (MP)abnormal limb morphology0.8935InformativeInherited
Mammalian Phenotype (MP)abnormal circulating VLDL cholesterol level0.0003752Highly InformativeDirect
Mammalian Phenotype (MP)abnormal eye pigmentation0.01054Highly InformativeInherited
Mammalian Phenotype (MP)abnormal digit morphology0.03711Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)locomotion variant0.5864Moderately InformativeInherited
Worm Phenotype (WP)activity level variant0.01144InformativeInherited
Worm Phenotype (WP)paralyzed0.000304Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)alimentary system0.0231Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.7813Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.3134Moderately InformativeInherited
Xenopus ANatomical entity (XAN)hindgut0.000007089Highly InformativeDirect

Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.0000001715Least InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0InformativeDirect
Enzyme Commission (EC)Enteropeptidase0.0000000000409Highly InformativeDirect

Document: EC annotation of SCOP domains

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)blood and blood forming organs0.01104Least InformativeInherited
Drugbank ATC_code (DB)antithrombotic agents1Moderately InformativeInherited
Drugbank ATC_code (DB)enzymes0.000009415InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0.01115Least InformativeInherited
Biological processLipid metabolism0.0000002434Moderately InformativeDirect
Biological processCytolysis0InformativeDirect
Biological processEndocytosis0InformativeDirect
Biological processInnate immunity0InformativeDirect
Biological processLipid transport0InformativeDirect
Biological processSteroid metabolism0InformativeDirect
Biological processWnt signaling pathway0.0000000002583InformativeDirect
Biological processCell adhesion0.00000009041InformativeDirect
Biological processCholesterol metabolism0Highly InformativeDirect
Biological processComplement pathway0Highly InformativeDirect
Biological processComplement alternate pathway9.345e-16Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentEndosome0.000000002982Moderately InformativeDirect
Cellular componentGolgi apparatus0.00009368Moderately InformativeDirect
Cellular componentLysosome0.000002949InformativeDirect
Cellular componentCoated pit0Highly InformativeDirect
DiseaseDisease mutation0.0000009158Least InformativeDirect
DomainRepeat0Least InformativeDirect
DomainSignal0Least InformativeDirect
DomainTransmembrane0Least InformativeDirect
DomainEGF-like domain0InformativeDirect
DomainSignal-anchor0.00000006715InformativeDirect
DomainTransmembrane beta strand0.00004106InformativeDirect
DomainSushi0.0000000004017Highly InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Post-translational modificationHydrolase0.04407Least InformativeInherited
Post-translational modificationProtease0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.000003146Moderately InformativeDirect
Post-translational modificationSerine protease0InformativeDirect
Post-translational modificationTransducer0.00002837InformativeDirect
Post-translational modificationG-protein coupled receptor0.000009372Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationZymogen0.00009652InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)glycan metabolism0Moderately InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR002172 SSF57424 Protein matches
Abstract

Low density lipoprotein (LDL) is the major cholesterol-carrying lipoprotein of plasma. The receptor protein binds LDL and transports it into cells by endocytosis. In order to be internalised, the receptor-ligand complex must first cluster into clathrin-coated pits. Seven successive cysteine-rich repeats of about 40 amino acids are present in the N-terminal of this multidomain membrane protein [PubMed6091915].

The LDL-receptor class A domain contains 6 disulphide-bound cysteines [PubMed7548065] and a highly conserved cluster of negatively charged amino acids, of which many are clustered on one face of the module [PubMed7603991]. A schematic representation of this domain is shown here:

   +---------------------+        +--------------------------------+
   |                     |        |                                |
  -CxxxxxxxxxxxxCxxxxxxxxCxxxxxxxxCxxxxxxxxxxCxxxxxxxxxxxxxxxxxxxxxC-
                |                            |
                +----------------------------+

'C': conserved cysteine involved in a disulphide bond.
'x': any residue.

In LDL-receptors the class A domains form the binding site for LDL [PubMed6091915] and calcium [PubMed3320043]. The acidic residues between the fourth and sixth cysteines are important for high-affinity binding of positively charged sequences in LDLR's ligands [PubMed3283935]. The repeat has been shown [PubMed7603991] to consist of a beta-hairpin structure followed by a series of beta turns. In the absence of calcium, LDL-A domains are unstructured; the bound calcium ion imparts structural integrity.

Following these repeats is a 350 residue domain that resembles part of the epidermal growth factor (EGF) precursor [PubMed6327078, PubMed6091915].

Similar domains have been found (see references in [PubMed7603991]) in several extracellular and membrane proteins (see examples).

Numerous familial hypercholestorolemia mutations of the LDL receptor alter the calcium coordinating residue of LDL-A domains or other crucial scaffolding residues.


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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 15 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 LDL receptor-like module 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 15 hidden Markov models representing the LDL receptor-like module 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]