SUPERFAMILY 1.75 HMM library and genome assignments server

Spermadhesin, CUB domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   CUB-like [ 49853] (3)
Superfamily:   Spermadhesin, CUB domain [ 49854]
Families:   Spermadhesin, CUB domain [ 49855] (5)


Superfamily statistics
Genomes (209) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 20,873 20,268 8
Proteins 8,479 8,560 7


Functional annotation
General category General
Detailed category General

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) developmental process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) response to stimulus 0.00000000000001752 Least Informative Direct
Biological Process (BP) protein metabolic process 0.0000005941 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.00001067 Least Informative Direct
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 0.2664 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.1265 Least Informative Inherited
Biological Process (BP) localization 0.5652 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) cell differentiation 0 Moderately Informative Direct
Biological Process (BP) nervous system development 0.00000007035 Moderately Informative Direct
Biological Process (BP) defense response 0.0000002536 Moderately Informative Direct
Biological Process (BP) signal transduction 0.000001082 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.00008462 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.0001702 Moderately Informative Direct
Biological Process (BP) positive regulation of response to stimulus 0.0002829 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 1 Moderately Informative Inherited
Biological Process (BP) organ development 0.0341 Moderately Informative Inherited
Biological Process (BP) gene expression 0.4044 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.01824 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.3821 Moderately Informative Inherited
Biological Process (BP) tissue development 0.005589 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.1563 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.5571 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.6968 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.8998 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.0272 Moderately Informative Inherited
Biological Process (BP) reproductive process 0.7092 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.8128 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.1385 Moderately Informative Inherited
Biological Process (BP) immune system process 0.001806 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.005745 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component movement 0 Informative Direct
Biological Process (BP) cell projection organization 0 Informative Direct
Biological Process (BP) regulation of locomotion 0.000000000000007248 Informative Direct
Biological Process (BP) locomotion 0.0000000000003099 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.000000000002381 Informative Direct
Biological Process (BP) protein maturation 0.00000000001265 Informative Direct
Biological Process (BP) regulation of growth 0.000000000222 Informative Direct
Biological Process (BP) cardiovascular system development 0.0000000004361 Informative Direct
Biological Process (BP) cellular component movement 0.0000000007461 Informative Direct
Biological Process (BP) positive regulation of developmental process 0.00000003459 Informative Direct
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.0000000675 Informative Direct
Biological Process (BP) localization of cell 0.0000002556 Informative Direct
Biological Process (BP) regulation of nervous system development 0.0000003079 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0.0000004261 Informative Direct
Biological Process (BP) regulation of response to external stimulus 0.000002666 Informative Direct
Biological Process (BP) embryonic organ development 0.000005728 Informative Direct
Biological Process (BP) regulation of cell development 0.000007011 Informative Direct
Biological Process (BP) tissue morphogenesis 0.00002775 Informative Direct
Biological Process (BP) single-organism behavior 0.00003595 Informative Direct
Biological Process (BP) tube development 0.00003603 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.00005796 Informative Direct
Biological Process (BP) proteolysis 0.00008197 Informative Direct
Biological Process (BP) organ morphogenesis 0.00016 Informative Direct
Biological Process (BP) immune effector process 0.0003158 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 0.0003631 Informative Direct
Biological Process (BP) embryonic morphogenesis 0.0005239 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.05984 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 0.05061 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.5792 Informative Inherited
Biological Process (BP) generation of neurons 0.008461 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.002453 Informative Inherited
Biological Process (BP) epithelium development 0.1329 Informative Inherited
Biological Process (BP) synaptic transmission 0.3769 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.2236 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.006192 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.5748 Informative Inherited
Biological Process (BP) response to lipid 0.268 Informative Inherited
Biological Process (BP) response to cytokine 0.06005 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.001302 Informative Inherited
Biological Process (BP) central nervous system development 0.6859 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.06999 Informative Inherited
Biological Process (BP) multi-multicellular organism process 0.1376 Informative Inherited
Biological Process (BP) immune response 0.002133 Informative Inherited
Biological Process (BP) regulation of immune response 0.4568 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.2083 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.004381 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.9984 Informative Inherited
Biological Process (BP) regulation of neuron projection development 0 Highly Informative Direct
Biological Process (BP) cell recognition 0 Highly Informative Direct
Biological Process (BP) regulation of cell size 0 Highly Informative Direct
Biological Process (BP) regulation of chemotaxis 0.000000000000009016 Highly Informative Direct
Biological Process (BP) regulation of developmental growth 0.0000000000001208 Highly Informative Direct
Biological Process (BP) chemotaxis 0.000000000000147 Highly Informative Direct
Biological Process (BP) positive regulation of behavior 0.0000000000002375 Highly Informative Direct
Biological Process (BP) protein activation cascade 0.0000000000005384 Highly Informative Direct
Biological Process (BP) positive regulation of growth 0.0000000001937 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.000000001144 Highly Informative Direct
Biological Process (BP) positive regulation of response to external stimulus 0.000000002516 Highly Informative Direct
Biological Process (BP) positive regulation of neurogenesis 0.0000002017 Highly Informative Direct
Biological Process (BP) pattern specification process 0.0000004489 Highly Informative Direct
Biological Process (BP) humoral immune response 0.0000005753 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 0.0000007347 Highly Informative Direct
Biological Process (BP) skeletal system development 0.0000008811 Highly Informative Direct
Biological Process (BP) neuron projection development 0.000007424 Highly Informative Direct
Biological Process (BP) negative regulation of cell growth 0.00001326 Highly Informative Direct
Biological Process (BP) adult behavior 0.00004901 Highly Informative Direct
Biological Process (BP) female pregnancy 0.0001239 Highly Informative Direct
Biological Process (BP) mesenchyme development 0.0001286 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 0.0002075 Highly Informative Direct
Biological Process (BP) heart morphogenesis 0.0002441 Highly Informative Direct
Biological Process (BP) response to purine-containing compound 0.0002561 Highly Informative Direct
Biological Process (BP) innate immune response 0.0009379 Highly Informative Direct
Biological Process (BP) angiogenesis 0.000981 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 0.01678 Highly Informative Inherited
Biological Process (BP) negative regulation of locomotion 0.04647 Highly Informative Inherited
Biological Process (BP) negative regulation of nervous system development 0.08632 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.1193 Highly Informative Inherited
Biological Process (BP) negative regulation of response to external stimulus 0.1701 Highly Informative Inherited
Biological Process (BP) regulation of membrane potential 0.1022 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 1 Highly Informative Inherited
Biological Process (BP) stem cell development 0.04973 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 0.4914 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.05938 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.5662 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.01229 Highly Informative Inherited
Molecular Function (MF) binding 0.4549 Least Informative Inherited
Molecular Function (MF) hydrolase activity 0.01206 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.9882 Moderately Informative Inherited
Molecular Function (MF) peptidase activity 0 Informative Direct
Molecular Function (MF) receptor activity 0.000000001112 Informative Direct
Molecular Function (MF) molecular transducer activity 0.0002784 Informative Direct
Molecular Function (MF) enzyme binding 0.6083 Informative Inherited
Molecular Function (MF) kinase activity 0.8384 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.7176 Informative Inherited
Molecular Function (MF) serine hydrolase activity 0.0000000000001939 Highly Informative Direct
Molecular Function (MF) transmembrane signaling receptor activity 0.1084 Highly Informative Inherited
Molecular Function (MF) protein kinase activity 0.4006 Highly Informative Inherited
Cellular Component (CC) membrane 0.0001629 Least Informative Direct
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) extracellular region part 0.00000000000000158 Moderately Informative Direct
Cellular Component (CC) vesicle 0.000000000006209 Moderately Informative Direct
Cellular Component (CC) cell projection 0.0000000008649 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum 0.0001562 Moderately Informative Direct
Cellular Component (CC) bounding membrane of organelle 0.004101 Moderately Informative Inherited
Cellular Component (CC) secretory granule 0.00000000000602 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 0.00009757 Informative Direct
Cellular Component (CC) extracellular space 0.0006976 Informative Direct
Cellular Component (CC) neuron projection 0.001278 Informative Inherited
Cellular Component (CC) cell body 0.000000003403 Highly Informative Direct
Cellular Component (CC) main axon 0.00000002234 Highly Informative Direct
Cellular Component (CC) cytoplasmic vesicle membrane 0.004989 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)Acting on peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0.0003183Moderately InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0.000000000008539InformativeDirect
Enzyme Commission (EC)Complement subcomponent C1s0.000000000003399Highly InformativeDirect
Enzyme Commission (EC)Complement subcomponent C1r0.000000000003399Highly InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.4079Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.3321Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal innervation0.03599InformativeInherited
Mammalian Phenotype (MP)abnormal Purkinje cell innervation0.000185Highly InformativeDirect
Mammalian Phenotype (MP)abnormal excitatory postsynaptic currents0.0004599Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)pericellular component development variant0.0000005539Moderately InformativeDirect
Worm Phenotype (WP)basement membrane remodeling variant0.00000007493InformativeDirect

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

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FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system0Least InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

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XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus DEvelopment stage (XDE)NF stage0.000005697Least InformativeDirect
Xenopus DEvelopment stage (XDE)embryonic stage0.0002623Least InformativeDirect

Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Moderately InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0.00000000000748InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0.0002585InformativeDirect
Enzyme Commission (EC)Enteropeptidase0.000000004284Highly InformativeDirect

Document: EC annotation of SCOP domains

DrugBank ATC (DB)

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DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)blood and blood forming organs0.0008949Least InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

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KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport1Least InformativeInherited
Biological processDifferentiation0Moderately InformativeDirect
Biological processProtein transport0.0004196Moderately InformativeDirect
Biological processInnate immunity0InformativeDirect
Biological processEndocytosis0.00000000001032InformativeDirect
Biological processNeurogenesis0.0000000007237InformativeDirect
Biological processAngiogenesis0.0000000123InformativeDirect
Biological processWnt signaling pathway0.00000006155InformativeDirect
Biological processCell adhesion0.00008007InformativeDirect
Biological processFertilization2.372e-16Highly InformativeDirect
Biological processComplement pathway0.0000000000001773Highly InformativeDirect
Cellular componentMembrane0.000000000001117Least InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0.000005064Moderately InformativeDirect
Cellular componentCoated pit0.0000000003397Highly InformativeDirect
DomainRepeat0Least InformativeDirect
DomainSignal0Least InformativeDirect
DomainTransmembrane0.02403Least InformativeInherited
DomainEGF-like domain0InformativeDirect
DomainSushi0Highly InformativeDirect
DomainLaminin EGF-like domain0.00000000000002655Highly InformativeDirect
DomainKringle0.000000003032Highly InformativeDirect
DomainKelch repeat0.0000001793Highly InformativeDirect
Molecular functionZinc0.00001422Least InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionHeparin-binding0InformativeDirect
Molecular functionLectin0.0001066InformativeDirect
Post-translational modificationHydrolase4.449e-16Least InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationProtease0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationGrowth factor0InformativeDirect
Post-translational modificationSerine protease0.000002163InformativeDirect
Post-translational modificationMetalloprotease0.0001126InformativeDirect
Post-translational modificationMitogen0Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationCleavage on pair of basic residues0.000000000005763Moderately InformativeDirect
Post-translational modificationHydroxylation0InformativeDirect
Post-translational modificationZymogen0.0000000001431InformativeDirect
Post-translational modificationProteoglycan0.005316InformativeInherited
Post-translational modificationHeparan sulfate0Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR000859 SSF49854 Protein matches
Abstract

The CUB domain (for complement C1r/C1s, Uegf, Bmp1) is a structural motif of approximately 110 residues found almost exclusively in extracellular and plasma membrane-associated proteins, many of which are developmentally regulated [PubMed8510165, PubMed2026272]. These proteins are involved in a diverse range of functions, including complement activation, developmental patterning, tissue repair, axon guidance and angiogenesis, cell signalling, fertilisation, haemostasis, inflammation, neurotransmission, receptor-mediated endocytosis, and tumour suppression [PubMed17335815, PubMed17051152]. Many CUB-containing proteins are peptidases belonging to MEROPS peptidase families M12A (astacin) and S1A (chymotrypsin). Proteins containing a CUB domain include:

  • Mammalian complement subcomponents C1s/C1r, which form the calcium-dependent complex C1, the first component of the classical pathway of the complement system.
  • Cricetidae sp. (Hamster) serine protease Casp, which degrades type I and IV collagen and fibronectin in the presence of calcium.
  • Mammalian complement-activating component of Ra-reactive factor (RARF), a protease that cleaves the C4 component of complement.
  • Vertebrate enteropeptidase , a type II membrane protein of the intestinal brush border, which activates trypsinogen.
  • Vertebrate bone morphogenic protein 1 (BMP-1), a protein which induces cartilage and bone formation and expresses metalloendopeptidase activity.
  • Sea urchin blastula proteins BP10 and SpAN.
  • Caenorhabditis elegans hypothetical proteins F42A10.8 and R151.5.
  • Neuropilin (A5 antigen), a calcium-independent cell adhesion molecule that functions during the formation of certain neuronal circuits.
  • Fibropellins I and III from Strongylocentrotus purpuratus (Purple sea urchin).
  • Mammalian hyaluronate-binding protein TSG-6 (or PS4), a serum and growth factor induced protein.
  • Mammalian spermadhesins.
  • Xenopus laevis embryonic protein UVS.2, which is expressed during dorsoanterior development.

Several of the above proteins consist of a catalytic domain together with several CUB domains interspersed by calcium-binding EGF domains. Some CUB domains appear to be involved in oligomerisation and/or recognition of substrates and binding partners. For example, in the complement proteases, the CUB domains mediate dimerisation and binding to collagen-like regions of target proteins (e.g. C1q for C1r/C1s). The structure of CUB domains consists of a beta-sandwich with a jelly-roll fold. Almost all CUB domains contain four conserved cysteines that probably form two disulphide bridges (C1-C2, C3-C4). The CUB1 domains of C1s and Map19 have calcium-binding sites [PubMed17446170].


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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · DrugBank ATC (DB) · 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 8 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 Spermadhesin, CUB 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 8 hidden Markov models representing the Spermadhesin, CUB 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) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · Internal database links ]