SUPERFAMILY 1.75 HMM library and genome assignments server

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 (639) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 5,417 7,084 4
Proteins 5,304 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) localization 0.000000000007356 Least Informative Direct
Biological Process (BP) developmental process 0.0000009806 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.000004458 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.00004419 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.05393 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 0.8042 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.9908 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.9256 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.6367 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.00005129 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.0001976 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.0003853 Moderately Informative Direct
Biological Process (BP) single-organism organelle organization 0.001424 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.2839 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.1997 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.3408 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.851 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.2578 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.7247 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.02321 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.8799 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.6268 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.07863 Moderately Informative Inherited
Biological Process (BP) reproductive process 0.06549 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.2482 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.0901 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.2035 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.05106 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.2137 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.02279 Moderately Informative Inherited
Biological Process (BP) immune system process 0.2343 Moderately Informative Inherited
Biological Process (BP) organ development 0.004507 Moderately Informative Inherited
Biological Process (BP) tissue development 0.1024 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) cell projection organization 0.00000000419 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.00000001305 Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 0.00000008812 Informative Direct
Biological Process (BP) organ morphogenesis 0.0000005913 Informative Direct
Biological Process (BP) embryonic organ development 0.000002726 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.00002704 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.0001079 Informative Direct
Biological Process (BP) single-organism membrane organization 0.0001229 Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 0.0002422 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.000257 Informative Direct
Biological Process (BP) positive regulation of developmental process 0.0006944 Informative Direct
Biological Process (BP) embryonic morphogenesis 0.0007792 Informative Direct
Biological Process (BP) negative regulation of signaling 0.0008909 Informative Direct
Biological Process (BP) regulation of secretion 0.02911 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.2257 Informative Inherited
Biological Process (BP) regulation of intracellular transport 0.3499 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.1117 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.1345 Informative Inherited
Biological Process (BP) cardiovascular system development 0.683 Informative Inherited
Biological Process (BP) tube development 0.01106 Informative Inherited
Biological Process (BP) anatomical structure homeostasis 0.01089 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.001095 Informative Inherited
Biological Process (BP) single-organism cellular localization 0.1465 Informative Inherited
Biological Process (BP) organelle localization 0.2214 Informative Inherited
Biological Process (BP) negative regulation of transport 0.02888 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.003054 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.07409 Informative Inherited
Biological Process (BP) leukocyte activation 0.0716 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.5411 Informative Inherited
Biological Process (BP) central nervous system development 0.3739 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.005645 Informative Inherited
Biological Process (BP) muscle structure development 0.2573 Informative Inherited
Biological Process (BP) growth 0.02258 Informative Inherited
Biological Process (BP) epithelium development 0.5501 Informative Inherited
Biological Process (BP) localization of cell 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.01287 Informative Inherited
Biological Process (BP) cellular component movement 0.001214 Informative Inherited
Biological Process (BP) locomotion 0.01054 Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.002362 Informative Inherited
Biological Process (BP) sexual reproduction 0.1384 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.03744 Informative Inherited
Biological Process (BP) single organism reproductive process 0.1897 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.05575 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.003414 Informative Inherited
Biological Process (BP) positive regulation of transport 0.01011 Informative Inherited
Biological Process (BP) sensory organ development 0.1166 Informative Inherited
Biological Process (BP) generation of neurons 0.164 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.3077 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.1472 Informative Inherited
Biological Process (BP) artery morphogenesis 0.00000003212 Highly Informative Direct
Biological Process (BP) respiratory system development 0.0000001814 Highly Informative Direct
Biological Process (BP) Golgi vesicle transport 0.000001137 Highly Informative Direct
Biological Process (BP) regulation of organ morphogenesis 0.00000141 Highly Informative Direct
Biological Process (BP) protein glycosylation 0.000002255 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0.000002331 Highly Informative Direct
Biological Process (BP) vesicle organization 0.000006907 Highly Informative Direct
Biological Process (BP) post-translational protein modification 0.00001033 Highly Informative Direct
Biological Process (BP) epithelial cell development 0.00007834 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0.00009783 Highly Informative Direct
Biological Process (BP) regulation of cellular response to growth factor stimulus 0.0002239 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 0.0003056 Highly Informative Direct
Biological Process (BP) post-embryonic organ development 0.0003132 Highly Informative Direct
Biological Process (BP) post-embryonic development 0.0004335 Highly Informative Direct
Biological Process (BP) regulation of synaptic transmission 0.0004745 Highly Informative Direct
Biological Process (BP) T cell differentiation 0.00055 Highly Informative Direct
Biological Process (BP) cell growth 0.0006356 Highly Informative Direct
Biological Process (BP) regulation of protein complex assembly 0.0007732 Highly Informative Direct
Biological Process (BP) antigen processing and presentation 0.0009203 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.1868 Highly Informative Inherited
Biological Process (BP) regulation of exocytosis 0.1682 Highly Informative Inherited
Biological Process (BP) respiratory tube development 0.003463 Highly Informative Inherited
Biological Process (BP) skeletal system development 0.02923 Highly Informative Inherited
Biological Process (BP) ear development 0.01438 Highly Informative Inherited
Biological Process (BP) epidermis development 0.02444 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.1145 Highly Informative Inherited
Biological Process (BP) neuron projection development 0.3465 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 0.3911 Highly Informative Inherited
Biological Process (BP) negative regulation of secretion by cell 0.001223 Highly Informative Inherited
Biological Process (BP) limb morphogenesis 0.8505 Highly Informative Inherited
Biological Process (BP) regulation of cell adhesion 0.01771 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.06368 Highly Informative Inherited
Biological Process (BP) neural tube development 0.00125 Highly Informative Inherited
Biological Process (BP) morphogenesis of embryonic epithelium 0.006262 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.006851 Highly Informative Inherited
Biological Process (BP) germ cell development 0.1599 Highly Informative Inherited
Biological Process (BP) columnar/cuboidal epithelial cell differentiation 0.2436 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.2812 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.119 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.01207 Highly Informative Inherited
Biological Process (BP) connective tissue development 0.001525 Highly Informative Inherited
Biological Process (BP) ossification 0.01313 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.001423 Highly Informative Inherited
Biological Process (BP) epithelial tube formation 0.03455 Highly Informative Inherited
Molecular Function (MF) binding 0.06923 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.01256 Moderately Informative Inherited
Molecular Function (MF) receptor binding 0.08812 Informative Inherited
Molecular Function (MF) DNA binding 0.1517 Informative Inherited
Molecular Function (MF) transcription factor binding 0.002509 Highly Informative Inherited
Molecular Function (MF) transcription factor binding transcription factor activity 0.007475 Highly Informative Inherited
Molecular Function (MF) transcription regulatory region DNA binding 0.004681 Highly Informative Inherited
Molecular Function (MF) sequence-specific DNA binding 0.01148 Highly Informative Inherited
Cellular Component (CC) cytoplasmic part 0.04843 Least Informative Inherited
Cellular Component (CC) membrane 0.5146 Least Informative Inherited
Cellular Component (CC) protein complex 0.007645 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.04303 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.01139 Least Informative Inherited
Cellular Component (CC) vesicle 0.000000000005278 Moderately Informative Direct
Cellular Component (CC) nuclear part 1 Moderately Informative Inherited
Cellular Component (CC) endoplasmic reticulum 0.002243 Moderately Informative Inherited
Cellular Component (CC) bounding membrane of organelle 0.001872 Moderately Informative Inherited
Cellular Component (CC) transport vesicle 0 Highly Informative Direct
Cellular Component (CC) coated vesicle 0 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 0.00000005857 Highly Informative Direct
Cellular Component (CC) cytoplasmic vesicle membrane 0.000003201 Highly Informative Direct
Cellular Component (CC) receptor complex 0.02829 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

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.1655Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of movement0.08234InformativeInherited
Phenotypic Abnormality (PA)Involuntary movements0.0009842Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)growth/size/body phenotype0.4097Least InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.004687Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.01092Least InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.00007425Moderately InformativeDirect
Worm Phenotype (WP)germ cell morphology variant0.00007938Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.0002493Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.00121Moderately InformativeInherited
Worm Phenotype (WP)germline nuclear positioning variant0.0000006218InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant0.000003777InformativeDirect
Worm Phenotype (WP)germ cell compartment size variant0.0000001995Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0.1834Least InformativeInherited
Fly Phenotype (FP)lethal - all die before end of P-stage0.01044Moderately InformativeInherited
Fly Phenotype (FP)cell shape defective0.0001439Highly 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)alimentary system0Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)central 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)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)intestine0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ovary0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)gamete0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)embryonic structure0.03465Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.6949Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro0InformativeDirect

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 ANatomical entity (PAN)leaf0.01921Least InformativeInherited
Plant ANatomical entity (PAN)cotyledon0.0009963Moderately 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 phosphorous-containing groups0.00007723Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.3491Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.0000000001735Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.008794Moderately 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 regulation0.0001341Moderately InformativeDirect
Biological processER-Golgi transport0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentNucleus0.00002475Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
DomainCoiled coil0.00000000000001138Moderately InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionMetal-binding0.000001254Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationDevelopmental protein0.0000000001996Moderately InformativeDirect
Post-translational modificationKinase0.05757Moderately InformativeInherited
Post-translational modificationSerine/threonine-protein kinase0.0000006103InformativeDirect
Post-translational modificationPhosphoprotein0.000003752Least InformativeDirect
Post-translational modificationAcetylation0.0001595Least 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · 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 ]