SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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 (644) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 5,495 7,084 4
Proteins 5,381 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 0.0000000009634 Least Informative Direct
Biological Process (BP) biological regulation 0.01234 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.01169 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) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.0009644 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.0002707 Moderately Informative Direct
Biological Process (BP) cellular developmental process 0.00004067 Moderately Informative Direct
Biological Process (BP) cellular localization 0.0001764 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.00003667 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.4031 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.01081 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.4437 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.7296 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.3043 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.9436 Moderately Informative Inherited
Biological Process (BP) system development 0.4725 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.4649 Moderately Informative Inherited
Biological Process (BP) protein complex biogenesis 0.7488 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.4272 Moderately Informative Inherited
Biological Process (BP) immune system process 0.1757 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.8437 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.8928 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.9734 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.5948 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.001485 Moderately Informative Inherited
Biological Process (BP) reproduction 0.06991 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.9121 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.8697 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.01583 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.2287 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.4529 Moderately Informative Inherited
Biological Process (BP) embryo development 0.00004798 Informative Direct
Biological Process (BP) animal organ morphogenesis 0.000001113 Informative Direct
Biological Process (BP) tissue development 0.0004478 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.00007428 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.0007185 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.00000005011 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.000008115 Informative Direct
Biological Process (BP) generation of neurons 0.00000008064 Informative Direct
Biological Process (BP) regulation of cellular localization 0.0000002718 Informative Direct
Biological Process (BP) membrane organization 0.00003519 Informative Direct
Biological Process (BP) regulation of secretion 0.1147 Informative Inherited
Biological Process (BP) negative regulation of transport 0.04393 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.001332 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.009048 Informative Inherited
Biological Process (BP) intracellular protein transport 0.4474 Informative Inherited
Biological Process (BP) sensory organ development 0.0747 Informative Inherited
Biological Process (BP) cell development 0.001609 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.1053 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.104 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.3376 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.104 Informative Inherited
Biological Process (BP) organelle localization 0.3456 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.07557 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.5892 Informative Inherited
Biological Process (BP) regulation of growth 0.002292 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.3218 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.01858 Informative Inherited
Biological Process (BP) circulatory system development 0.6438 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.04195 Informative Inherited
Biological Process (BP) single organism reproductive process 0.06541 Informative Inherited
Biological Process (BP) central nervous system development 0.1294 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.01594 Informative Inherited
Biological Process (BP) chromosome organization 0.9358 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.02963 Informative Inherited
Biological Process (BP) locomotion 0.01075 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.002407 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.4084 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.01075 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.09184 Informative Inherited
Biological Process (BP) positive regulation of transport 0.2228 Informative Inherited
Biological Process (BP) post-embryonic development 0.048 Informative Inherited
Biological Process (BP) chemotaxis 0.0005609 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0.000003324 Highly Informative Direct
Biological Process (BP) regulation of cell shape 0.00001381 Highly Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 0.0000004795 Highly Informative Direct
Biological Process (BP) endomembrane system organization 0.0007174 Highly Informative Direct
Biological Process (BP) vesicle organization 0.000001439 Highly Informative Direct
Biological Process (BP) histone modification 0.0006717 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0.0000000867 Highly Informative Direct
Biological Process (BP) epithelial cell differentiation 0.00003788 Highly Informative Direct
Biological Process (BP) tube morphogenesis 0.000001381 Highly Informative Direct
Biological Process (BP) positive regulation of growth 0.0000008597 Highly Informative Direct
Biological Process (BP) Golgi vesicle transport 0.0000000003242 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 0.00001125 Highly Informative Direct
Biological Process (BP) neuron development 0.000316 Highly Informative Direct
Biological Process (BP) inner ear development 0.0009307 Highly Informative Direct
Biological Process (BP) regulation of cell division 0.0009511 Highly Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 0.00000000002516 Highly Informative Direct
Biological Process (BP) plasma membrane bounded cell projection organization 0.0000000001015 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.1941 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular transport 0.1199 Highly Informative Inherited
Biological Process (BP) negative regulation of secretion by cell 0.001461 Highly Informative Inherited
Biological Process (BP) anatomical structure homeostasis 0.09401 Highly Informative Inherited
Biological Process (BP) sensory organ morphogenesis 0.3159 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.02988 Highly Informative Inherited
Biological Process (BP) regulation of neurotransmitter levels 0.01261 Highly Informative Inherited
Biological Process (BP) regulation of GTPase activity 0.01526 Highly Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 0.01983 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.1917 Highly Informative Inherited
Biological Process (BP) germ cell development 0.07039 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.01816 Highly Informative Inherited
Biological Process (BP) positive regulation of cell adhesion 0.01131 Highly Informative Inherited
Biological Process (BP) brain development 0.03042 Highly Informative Inherited
Biological Process (BP) muscle structure development 0.2677 Highly Informative Inherited
Biological Process (BP) vesicle localization 0.008213 Highly Informative Inherited
Biological Process (BP) protein localization to membrane 0.01623 Highly Informative Inherited
Biological Process (BP) positive regulation of secretion by cell 0.002491 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.003376 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 0.9582 Highly Informative Inherited
Molecular Function (MF) binding 0.08726 Least Informative Inherited
Molecular Function (MF) molecular function regulator 0.06436 Moderately Informative Inherited
Molecular Function (MF) receptor binding 0.07284 Informative Inherited
Molecular Function (MF) enzyme activator activity 0.007228 Informative Inherited
Molecular Function (MF) transcription factor activity, transcription factor binding 0.0006078 Highly Informative Direct
Molecular Function (MF) GTPase regulator activity 0.0006294 Highly Informative Direct
Cellular Component (CC) intracellular organelle part 0.05228 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) macromolecular complex 0.001387 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.1556 Least Informative Inherited
Cellular Component (CC) membrane 0.1625 Least Informative Inherited
Cellular Component (CC) endoplasmic reticulum 0.00001975 Moderately Informative Direct
Cellular Component (CC) vesicle 0.0000000006187 Moderately Informative Direct
Cellular Component (CC) bounding membrane of organelle 0.00005309 Moderately Informative Direct
Cellular Component (CC) membrane protein complex 0.00000000004768 Moderately Informative Direct
Cellular Component (CC) whole membrane 0.00000000000000914 Moderately Informative Direct
Cellular Component (CC) nuclear part 1 Moderately Informative Inherited
Cellular Component (CC) cytoplasmic vesicle part 0 Informative Direct
Cellular Component (CC) coated vesicle 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic vesicle membrane 0.000000008107 Highly Informative Direct
Cellular Component (CC) receptor complex 0.02657 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 variant0.002431Least InformativeInherited
Worm Phenotype (WP)cell development variant0.004501Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.008191Least InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.0001424Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.0003758Moderately InformativeDirect
Worm Phenotype (WP)cell component morphology variant0.0006349Moderately InformativeDirect
Worm Phenotype (WP)nuclear positioning variant0.000001423InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant0.000003314InformativeDirect
Worm Phenotype (WP)oocyte morphology variant0.00001583InformativeDirect
Worm Phenotype (WP)germ cell compartment size variant0.0000001527Highly 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 mortality0.1154Least InformativeInherited
Fly Phenotype (FP)lethal - all die before end of P-stage0.01118Moderately InformativeInherited
Fly Phenotype (FP)cell shape defective0.0002124Highly InformativeDirect
Fly Phenotype (FP)some die during larval stage0.0002192Highly 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 groups0.000219Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.4036Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.0000000003049Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.01021Moderately 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 regulation0.0001964Moderately InformativeDirect
Biological processER-Golgi transport0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentNucleus0.00009364Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
DomainCoiled coil0.00000000000001036Moderately InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionMetal-binding0.000006049Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationDevelopmental protein0.0000000003513Moderately InformativeDirect
Post-translational modificationKinase0.05897Moderately InformativeInherited
Post-translational modificationSerine/threonine-protein kinase0.0000008149InformativeDirect
Post-translational modificationPhosphoprotein0.000009339Least InformativeDirect
Post-translational modificationAcetylation0.00007526Least 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 ]