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beta-sandwich domain of Sec23/24 superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Common fold of diphtheria toxin/transcription factors/cytochrome f [ 49379] (10)
Superfamily:   beta-sandwich domain of Sec23/24 [ 81995]
Families:   beta-sandwich domain of Sec23/24 [ 81996] (2)


Superfamily statistics
Genomes (640) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 5,444 7,084 4
Proteins 5,331 6,950 4


Functional annotation
General category Other
Detailed category Unknown function

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 0.00000001305 Least Informative Direct
Biological Process (BP) biological regulation 0.02114 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.08205 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.0001095 Moderately Informative Direct
Biological Process (BP) cellular developmental process 0.0001575 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.0002753 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.0007041 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.01597 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.05774 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.00999 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.6366 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.3583 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.1675 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.3446 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.9998 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.8626 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.874 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.9685 Moderately Informative Inherited
Biological Process (BP) system development 0.3554 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.9542 Moderately Informative Inherited
Biological Process (BP) response to stress 0.4343 Moderately Informative Inherited
Biological Process (BP) cell communication 0.9982 Moderately Informative Inherited
Biological Process (BP) reproduction 0.08949 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.07471 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.02896 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.9156 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) immune system process 0.1488 Moderately Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.00000000004383 Informative Direct
Biological Process (BP) animal organ morphogenesis 0.000000109 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.0000001638 Informative Direct
Biological Process (BP) regulation of cellular localization 0.0000002046 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.000004997 Informative Direct
Biological Process (BP) single-organism membrane organization 0.000302 Informative Direct
Biological Process (BP) multi-organism reproductive process 0.0005417 Informative Direct
Biological Process (BP) negative regulation of transport 0.02962 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.05945 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.001069 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.002971 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.09915 Informative Inherited
Biological Process (BP) generation of neurons 0.1411 Informative Inherited
Biological Process (BP) cell development 0.005892 Informative Inherited
Biological Process (BP) epithelium development 0.04655 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.1376 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.239 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.08826 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.04634 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.5189 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.06089 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.07409 Informative Inherited
Biological Process (BP) regulation of secretion 0.1073 Informative Inherited
Biological Process (BP) regulation of growth 0.002569 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.02334 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.317 Informative Inherited
Biological Process (BP) circulatory system development 0.7823 Informative Inherited
Biological Process (BP) secretion 0.1159 Informative Inherited
Biological Process (BP) embryo development 0.001138 Informative Inherited
Biological Process (BP) central nervous system development 0.2099 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 0.001229 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.001434 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.517 Informative Inherited
Biological Process (BP) single organism reproductive process 0.1122 Informative Inherited
Biological Process (BP) locomotion 0.01174 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.0123 Informative Inherited
Biological Process (BP) protein targeting 0.07565 Informative Inherited
Biological Process (BP) positive regulation of transport 0.1728 Informative Inherited
Biological Process (BP) post-embryonic development 0.002102 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.06486 Informative Inherited
Biological Process (BP) regulation of vesicle-mediated transport 0.00000000002751 Highly Informative Direct
Biological Process (BP) cell projection organization 0.000000001727 Highly Informative Direct
Biological Process (BP) tube morphogenesis 0.0000000108 Highly Informative Direct
Biological Process (BP) vesicle organization 0.0000001728 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0.00000023 Highly Informative Direct
Biological Process (BP) positive regulation of growth 0.000000404 Highly Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 0.0000005383 Highly Informative Direct
Biological Process (BP) Golgi vesicle transport 0.000001239 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0.00000318 Highly Informative Direct
Biological Process (BP) metamorphosis 0.000004678 Highly Informative Direct
Biological Process (BP) appendage development 0.00001593 Highly Informative Direct
Biological Process (BP) antigen processing and presentation of exogenous peptide antigen 0.00002533 Highly Informative Direct
Biological Process (BP) regulation of cell shape 0.00004168 Highly Informative Direct
Biological Process (BP) epithelial cell differentiation 0.0001193 Highly Informative Direct
Biological Process (BP) establishment of protein localization to membrane 0.0001285 Highly Informative Direct
Biological Process (BP) positive regulation of GTPase activity 0.0001408 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 0.000153 Highly Informative Direct
Biological Process (BP) neuron development 0.0002753 Highly Informative Direct
Biological Process (BP) endomembrane system organization 0.0006625 Highly Informative Direct
Biological Process (BP) chemotaxis 0.0007672 Highly Informative Direct
Biological Process (BP) regulation of cell division 0.0008361 Highly Informative Direct
Biological Process (BP) vesicle-mediated transport to the plasma membrane 0.0008452 Highly Informative Direct
Biological Process (BP) histone modification 0.0008814 Highly Informative Direct
Biological Process (BP) negative regulation of secretion by cell 0.0008864 Highly Informative Direct
Biological Process (BP) regulation of neurotransmitter levels 0.007717 Highly Informative Inherited
Biological Process (BP) anatomical structure homeostasis 0.07306 Highly Informative Inherited
Biological Process (BP) sensory organ morphogenesis 0.5245 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.03256 Highly Informative Inherited
Biological Process (BP) vesicle localization 0.007353 Highly Informative Inherited
Biological Process (BP) endocytosis 1 Highly Informative Inherited
Biological Process (BP) inner ear development 0.001447 Highly Informative Inherited
Biological Process (BP) response to nutrient levels 0.008384 Highly Informative Inherited
Biological Process (BP) positive regulation of cell adhesion 0.008499 Highly Informative Inherited
Biological Process (BP) brain development 0.08113 Highly Informative Inherited
Biological Process (BP) muscle structure development 0.3404 Highly Informative Inherited
Biological Process (BP) cellular response to external stimulus 0.01092 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.01475 Highly Informative Inherited
Biological Process (BP) germ cell development 0.08724 Highly Informative Inherited
Biological Process (BP) cell migration 0.08805 Highly Informative Inherited
Biological Process (BP) establishment of organelle localization 0.08092 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.3515 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.002896 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 0.707 Highly Informative Inherited
Molecular Function (MF) binding 0.1169 Least Informative Inherited
Molecular Function (MF) protein binding 0.3234 Moderately Informative Inherited
Molecular Function (MF) molecular function regulator 0.07001 Moderately Informative Inherited
Molecular Function (MF) receptor binding 0.08427 Informative Inherited
Molecular Function (MF) enzyme activator activity 0.008982 Informative Inherited
Molecular Function (MF) transcription factor activity, transcription factor binding 0.0008978 Highly Informative Direct
Molecular Function (MF) GTPase regulator activity 0.000924 Highly Informative Direct
Cellular Component (CC) protein complex 0.0000000112 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.1283 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.01902 Least Informative Inherited
Cellular Component (CC) membrane 0.1382 Least Informative Inherited
Cellular Component (CC) whole membrane 0.00000000000002032 Moderately Informative Direct
Cellular Component (CC) membrane protein complex 0.0000000000004365 Moderately Informative Direct
Cellular Component (CC) organelle membrane 0.000000000005357 Moderately Informative Direct
Cellular Component (CC) vesicle 0.0000000007919 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum 0.00001242 Moderately Informative Direct
Cellular Component (CC) nuclear part 1 Moderately Informative Inherited
Cellular Component (CC) cytoplasmic vesicle part 0 Informative Direct
Cellular Component (CC) transport vesicle 0 Informative Direct
Cellular Component (CC) vesicle membrane 0 Highly Informative Direct
Cellular Component (CC) coated vesicle 0 Highly Informative Direct
Cellular Component (CC) receptor complex 0.02845 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)Protein-serine/threonine kinases0.000000001415Moderately InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details) Document: DO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell morphology variant0.00198Least InformativeInherited
Worm Phenotype (WP)cell development variant0.004447Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.006974Least InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.0001436Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.0003769Moderately InformativeDirect
Worm Phenotype (WP)cell component morphology variant0.0004564Moderately InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant0.000003439InformativeDirect
Worm Phenotype (WP)organelle organization biogenesis variant0.000009626InformativeDirect
Worm Phenotype (WP)oocyte morphology variant0.00001604InformativeDirect
Worm Phenotype (WP)germ cell compartment size variant0.0000001548Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)metabolism and growth0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0.1301Least InformativeInherited
Fly Phenotype (FP)lethal - all die before end of P-stage0.009598Moderately InformativeInherited
Fly Phenotype (FP)cell shape defective0.0001792Highly InformativeDirect
Fly Phenotype (FP)some die during larval stage0.0002162Highly InformativeDirect

Document: FP 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)embryo0Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0Least InformativeDirect
Xenopus ANatomical entity (XAN)brain0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)female genitalia0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)egg0Moderately InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.12 twelve leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.08 eight leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.02 two leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.10 ten leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.06 six leaves visible stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0.0002796Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.4091Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.0000000002807Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.01052Moderately InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processProtein transport0Moderately InformativeDirect
Biological processTranscription regulation0.0001834Moderately InformativeDirect
Biological processER-Golgi transport0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentNucleus0.00005266Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
DomainCoiled coil0.000000000000009116Moderately InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionMetal-binding0.000004817Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationDevelopmental protein0.0000000003072Moderately InformativeDirect
Post-translational modificationKinase0.05935Moderately InformativeInherited
Post-translational modificationSerine/threonine-protein kinase0.0000007921InformativeDirect
Post-translational modificationPhosphoprotein0.000009482Least InformativeDirect
Post-translational modificationAcetylation0.00007255Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details) Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · 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 2 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 beta-sandwich domain of Sec23/24 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 2 hidden Markov models representing the beta-sandwich domain of Sec23/24 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 · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]