SUPERFAMILY 1.75 HMM library and genome assignments server

SAP domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   LEM/SAP HeH motif [ 63450] (6)
Superfamily:   SAP domain [ 68906]
Families:   SAP domain [ 68907] (7)


Superfamily statistics
Genomes (544) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,870 6,290 8
Proteins 4,745 6,200 7


Functional annotation
General category Regulation
Detailed category DNA-binding

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) regulation of metabolic process 0.000000000000001913 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.000000000004112 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.00004988 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.00007281 Least Informative Direct
Biological Process (BP) positive regulation of biological process 0.0002337 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.03155 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.255 Least Informative Inherited
Biological Process (BP) response to stimulus 0.252 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.7376 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.006783 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.8851 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.2086 Least Informative Inherited
Biological Process (BP) developmental process 0.3667 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.003557 Least Informative Inherited
Biological Process (BP) cellular response to stress 0.0000000006023 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0.00000005722 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0003469 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.5981 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.02037 Moderately Informative Inherited
Biological Process (BP) defense response 0.361 Moderately Informative Inherited
Biological Process (BP) tissue development 0.3789 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.06484 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.4175 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.1374 Moderately Informative Inherited
Biological Process (BP) organ development 0.001997 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.9198 Moderately Informative Inherited
Biological Process (BP) immune system process 0.0309 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.5162 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.9377 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.7476 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.1488 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.6089 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.005051 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.1111 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.003106 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) single-organism organelle organization 0.001462 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.007861 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) gene expression 0.6087 Moderately Informative Inherited
Biological Process (BP) protein modification by small protein conjugation or removal 0 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.0000000001709 Informative Direct
Biological Process (BP) DNA repair 0.0000000007042 Informative Direct
Biological Process (BP) negative regulation of signaling 0.00000002043 Informative Direct
Biological Process (BP) regulation of peptidase activity 0.00000002106 Informative Direct
Biological Process (BP) chromosome organization 0.00000008101 Informative Direct
Biological Process (BP) negative regulation of cell communication 0.0000001322 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.0000008372 Informative Direct
Biological Process (BP) negative regulation of catalytic activity 0.000004205 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.000008494 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.00004805 Informative Direct
Biological Process (BP) positive regulation of RNA metabolic process 0.0000832 Informative Direct
Biological Process (BP) negative regulation of protein processing 0.0001443 Informative Direct
Biological Process (BP) hematopoietic or lymphoid organ development 0.0001505 Informative Direct
Biological Process (BP) negative regulation of cell death 0.0005046 Informative Direct
Biological Process (BP) negative regulation of cellular protein metabolic process 0.000748 Informative Direct
Biological Process (BP) defense response to other organism 0.0009692 Informative Direct
Biological Process (BP) growth 0.0009957 Informative Direct
Biological Process (BP) positive regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 0.04413 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.04809 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.111 Informative Inherited
Biological Process (BP) cardiovascular system development 0.1402 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.006432 Informative Inherited
Biological Process (BP) regulation of immune response 0.07593 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.01967 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.06553 Informative Inherited
Biological Process (BP) apoptotic process 0.05554 Informative Inherited
Biological Process (BP) proteolysis 0.2931 Informative Inherited
Biological Process (BP) response to bacterium 0.003258 Informative Inherited
Biological Process (BP) muscle structure development 0.001204 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.4668 Informative Inherited
Biological Process (BP) cell cycle process 0.0168 Informative Inherited
Biological Process (BP) regulation of defense response 0.3739 Informative Inherited
Biological Process (BP) protein catabolic process 0.05449 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.006647 Informative Inherited
Biological Process (BP) sensory organ development 0.01238 Informative Inherited
Biological Process (BP) anatomical structure homeostasis 0.001003 Informative Inherited
Biological Process (BP) RNA processing 0.5349 Informative Inherited
Biological Process (BP) negative regulation of endopeptidase activity 0.000000000000003707 Highly Informative Direct
Biological Process (BP) DNA integrity checkpoint 0.000000007768 Highly Informative Direct
Biological Process (BP) regulation of innate immune response 0.00000001008 Highly Informative Direct
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0.0000001046 Highly Informative Direct
Biological Process (BP) cardiac muscle tissue development 0.0000001992 Highly Informative Direct
Biological Process (BP) negative regulation of apoptotic signaling pathway 0.0000005158 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular signal transduction 0.0000008694 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity involved in apoptotic process 0.000001307 Highly Informative Direct
Biological Process (BP) defense response to bacterium 0.000001376 Highly Informative Direct
Biological Process (BP) positive regulation of defense response 0.000002379 Highly Informative Direct
Biological Process (BP) positive regulation of protein modification by small protein conjugation or removal 0.000006535 Highly Informative Direct
Biological Process (BP) developmental growth 0.000008337 Highly Informative Direct
Biological Process (BP) proteasomal protein catabolic process 0.00002234 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 0.00005791 Highly Informative Direct
Biological Process (BP) ubiquitin-dependent protein catabolic process 0.0003245 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-templated 0.0003441 Highly Informative Direct
Biological Process (BP) double-strand break repair 0.000462 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.02157 Highly Informative Inherited
Biological Process (BP) protein ubiquitination 1 Highly Informative Inherited
Biological Process (BP) RNA splicing 0.04059 Highly Informative Inherited
Biological Process (BP) mRNA processing 0.0295 Highly Informative Inherited
Molecular Function (MF) binding 0.00000000005909 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.000002915 Moderately Informative Direct
Molecular Function (MF) anion binding 0.3478 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.3047 Moderately Informative Inherited
Molecular Function (MF) ligase activity 0 Informative Direct
Molecular Function (MF) nuclease activity 0.0002682 Informative Direct
Molecular Function (MF) lipid binding 0.1824 Informative Inherited
Molecular Function (MF) enzyme binding 0.01396 Informative Inherited
Molecular Function (MF) cytoskeletal protein binding 0.008839 Informative Inherited
Molecular Function (MF) DNA binding 0.06296 Informative Inherited
Molecular Function (MF) acid-amino acid ligase activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0.000000000000005438 Highly Informative Direct
Molecular Function (MF) ubiquitin-protein transferase activity 0.00005632 Highly Informative Direct
Molecular Function (MF) phosphatidylinositol binding 0.0001678 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0.05291 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0005183 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.08142 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.00000000000124 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.00000003529 Moderately Informative Direct
Cellular Component (CC) nucleoplasm part 0.9051 Informative Inherited
Cellular Component (CC) chromosome 0.05821 Informative Inherited
Cellular Component (CC) nuclear body 0.0000000001875 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 acid anhydrides0.00000000002257Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an4.713e-16Moderately InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.09282Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.6377Least InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.05022Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.2196Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.2598Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron physiology0.02591InformativeInherited
Mammalian Phenotype (MP)abnormal telencephalon morphology0.04491InformativeInherited
Mammalian Phenotype (MP)increased apoptosis0.5523InformativeInherited
Mammalian Phenotype (MP)abnormal basal ganglion morphology0.0002133Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details) 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 mortality0Least InformativeDirect
Fly Phenotype (FP)lethal - all die before end of P-stage0Moderately InformativeDirect
Fly Phenotype (FP)lethal - all die before end of larval stage0InformativeDirect
Fly Phenotype (FP)some die during larval stage0Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0Least InformativeDirect
Fly Anatomy (FA)organ system0Least InformativeDirect
Fly Anatomy (FA)cell0Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)portion of tissue0Least 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 ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.000003676Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.000000000001262Moderately InformativeDirect
Enzyme Commission (EC)Glycosyltransferases0.00314Moderately InformativeInherited
Enzyme Commission (EC)DNA helicase0InformativeDirect
Enzyme Commission (EC)Pentosyltransferases0.000365InformativeDirect
Enzyme Commission (EC)NAD(+) ADP-ribosyltransferase0.00000000002566Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Biological processApoptosis4.711e-16Moderately InformativeDirect
Biological processDNA damage0.00000261Moderately InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Biological processDNA recombination0.0000000006788InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentSecreted0.000283Moderately InformativeDirect
Cellular componentChromosome0.0000000000506InformativeDirect
Cellular componentTelomere0.000008006Highly InformativeDirect
DomainZinc-finger0.0000003565Moderately InformativeDirect
DomainCoiled coil0.00003022Moderately InformativeDirect
Molecular functionDNA-binding9.203e-16Least InformativeDirect
Molecular functionZinc0.000004555Least InformativeDirect
Post-translational modificationHydrolase0.3317Least InformativeInherited
Post-translational modificationActivator0.00000000007343Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.000000001168Moderately InformativeDirect
Post-translational modificationRepressor0.000000002691Moderately InformativeDirect
Post-translational modificationLigase0.0000007287Moderately InformativeDirect
Post-translational modificationHelicase0.0000000000218InformativeDirect
Post-translational modificationGrowth factor0.00000000119InformativeDirect
Post-translational modificationPhosphoprotein0.00000002894Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0.0000002783Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein sumoylation0Highly InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · 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 7 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 SAP 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 7 hidden Markov models representing the SAP 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 · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · 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 ]