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.


ADC-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Double psi beta-barrel [ 50684] (2)
Superfamily:   ADC-like [ 50692] (3)
Families:   Pyruvoyl dependent aspartate decarboxylase, ADC [ 50693]
  Formate dehydrogenase/DMSO reductase, C-terminal domain [ 50696] (10)
  Cdc48 N-terminal domain-like [ 50708] (4)


Superfamily statistics
Genomes (2,540) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 13,273 85,394 42
Proteins 13,268 85,389 42


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) single-organism metabolic process 0.0000000003387 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0000000329 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.621 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.01228 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.1395 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 0.9784 Least Informative Inherited
Biological Process (BP) response to stimulus 0.7321 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) generation of precursor metabolites and energy 0 Moderately Informative Direct
Biological Process (BP) oxidation-reduction process 0.000000000001929 Moderately Informative Direct
Biological Process (BP) cellular localization 0.0000007542 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.0002673 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.0003658 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0009815 Moderately Informative Direct
Biological Process (BP) organelle organization 0.07439 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.009744 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.2203 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.3674 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 0.039 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.06357 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.09103 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.5588 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.3383 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.1922 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.001014 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.05594 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.05974 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.02889 Moderately Informative Inherited
Biological Process (BP) cellular respiration 0 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0.00000001349 Informative Direct
Biological Process (BP) proteolysis 0.0000002146 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.00002188 Informative Direct
Biological Process (BP) response to nitrogen compound 0.00002871 Informative Direct
Biological Process (BP) electron transport chain 0.0001351 Informative Direct
Biological Process (BP) single-organism intracellular transport 0.0001574 Informative Direct
Biological Process (BP) membrane organization 0.001725 Informative Inherited
Biological Process (BP) regulation of catabolic process 0.004291 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.003224 Informative Inherited
Biological Process (BP) cellular response to DNA damage stimulus 0.3096 Informative Inherited
Biological Process (BP) DNA metabolic process 0.0229 Informative Inherited
Biological Process (BP) organelle fusion 0.00000000000006905 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 0.0000000001562 Highly Informative Direct
Biological Process (BP) autophagy 0.0000001031 Highly Informative Direct
Biological Process (BP) cellular component disassembly 0.0000002628 Highly Informative Direct
Biological Process (BP) macromolecule glycosylation 0.0000004945 Highly Informative Direct
Biological Process (BP) double-strand break repair 0.000005175 Highly Informative Direct
Biological Process (BP) glycoprotein metabolic process 0.00002388 Highly Informative Direct
Biological Process (BP) proteolysis involved in cellular protein catabolic process 0.00002832 Highly Informative Direct
Biological Process (BP) pigmentation 0.00006444 Highly Informative Direct
Biological Process (BP) single-organism membrane fusion 0.0001248 Highly Informative Direct
Biological Process (BP) protein modification by small protein conjugation 0.001454 Highly Informative Inherited
Biological Process (BP) modification-dependent macromolecule catabolic process 0.03016 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0.2753 Least Informative Inherited
Molecular Function (MF) binding 0.04173 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.00000000000000324 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity 0.00000000003063 Moderately Informative Direct
Molecular Function (MF) metal ion binding 0.1257 Moderately Informative Inherited
Molecular Function (MF) ATPase activity 0 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.0003098 Informative Direct
Molecular Function (MF) iron-sulfur cluster binding 0.000000001344 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the aldehyde or oxo group of donors 0.0007334 Highly Informative Direct
Cellular Component (CC) macromolecular complex 0.00006886 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.1556 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.2863 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.7406 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.05268 Least Informative Inherited
Cellular Component (CC) oxidoreductase complex 0 Informative Direct
Cellular Component (CC) microbody 0.00007144 Informative Direct
Cellular Component (CC) external encapsulating structure 0.0005329 Informative Direct
Cellular Component (CC) chromosome 0.004868 Informative Inherited
Cellular Component (CC) lytic vacuole 0.05617 Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides1Least InformativeInherited
Enzyme Commission (EC)Carboxy-lyases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0.5931Moderately InformativeInherited
Enzyme Commission (EC)Glycosyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Acting on NADH or NADPH0.2132Moderately InformativeInherited
Enzyme Commission (EC)Acting on the aldehyde or oxo group of donors0.8366Moderately InformativeInherited
Enzyme Commission (EC)With other acceptors0.00001206InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0.7643InformativeInherited
Enzyme Commission (EC)Nitrate reductase0Highly InformativeDirect
Enzyme Commission (EC)Formate dehydrogenase0Highly InformativeDirect
Enzyme Commission (EC)Thymidine phosphorylase0.00000000005855Highly InformativeDirect
Enzyme Commission (EC)NADH dehydrogenase (quinone)0.000002852Highly InformativeDirect
Enzyme Commission (EC)With a cytochrome as acceptor0.3666Highly InformativeInherited

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the eye0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the immune system0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the digestive system0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limbs0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the ear0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of central motor function0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of higher mental function0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of muscle physiology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal eye physiology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Neurodevelopmental abnormality0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the inner ear0InformativeDirect
Phenotypic Abnormality (PA)Hearing impairment0InformativeDirect
Phenotypic Abnormality (PA)Abnormal nervous system electrophysiology0InformativeDirect
Phenotypic Abnormality (PA)Neurological speech impairment0InformativeDirect
Phenotypic Abnormality (PA)Upper motor neuron dysfunction0InformativeDirect
Phenotypic Abnormality (PA)Abnormal conjugate eye movement0Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0Least InformativeDirect
Mammalian Phenotype (MP)prenatal lethality0.1951Moderately InformativeInherited
Mammalian Phenotype (MP)embryonic lethality prior to organogenesis0.0007437InformativeDirect
Mammalian Phenotype (MP)preweaning lethality, complete penetrance0.0008321Highly InformativeDirect

Document: MP 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)organism metabolism processing variant0.02792Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.00007393Moderately InformativeDirect
Worm Phenotype (WP)reproductive system development variant0.00008801Moderately InformativeDirect
Worm Phenotype (WP)germ cell morphology variant0.0001424Moderately InformativeDirect
Worm Phenotype (WP)cell division variant0.0002092Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.0002356Moderately InformativeDirect
Worm Phenotype (WP)protein protein interaction variant0.0002384Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.0003758Moderately InformativeDirect
Worm Phenotype (WP)cell component morphology variant0.0006349Moderately InformativeDirect
Worm Phenotype (WP)level of transgene expression variant0.0009538Moderately InformativeDirect
Worm Phenotype (WP)germ cell cytoplasmic morphology variant0.000001706InformativeDirect
Worm Phenotype (WP)gonad development variant0.000007486InformativeDirect
Worm Phenotype (WP)endoplasmic reticulum morphology variant0.00000000008814Highly InformativeDirect
Worm Phenotype (WP)multiple nuclei0.0000001149Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic processing body variant0.0000005676Highly InformativeDirect

Document: WP 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)behavior defective0Moderately InformativeDirect
Fly Phenotype (FP)neuroanatomy defective0Moderately InformativeDirect
Fly Phenotype (FP)lethal - all die before end of P-stage0Moderately InformativeDirect
Fly Phenotype (FP)locomotor behavior defective0Highly 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)nervous system0Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0Least InformativeDirect
Fly Anatomy (FA)anatomical group0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)somatic cell0Least InformativeDirect
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)peripheral nervous system0Moderately InformativeDirect
Fly Anatomy (FA)late embryo0Moderately InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0Least InformativeDirect
Zebrafish Anatomy (ZA)compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)organism subdivision0Least InformativeDirect
Zebrafish Anatomy (ZA)multi-tissue structure0Least InformativeDirect
Zebrafish Anatomy (ZA)sensory system0Moderately InformativeDirect
Zebrafish Anatomy (ZA)head0Moderately InformativeDirect
Zebrafish Anatomy (ZA)portion of tissue0Moderately InformativeDirect
Zebrafish Anatomy (ZA)anatomical cluster0Moderately InformativeDirect
Zebrafish Anatomy (ZA)cell0Moderately InformativeDirect
Zebrafish Anatomy (ZA)retina0InformativeDirect

Document: ZA 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)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases0Moderately InformativeDirect
Enzyme Commission (EC)Glycosyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides1Moderately InformativeInherited
Enzyme Commission (EC)Acting on other nitrogenous compounds as donors0InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH0.3209InformativeInherited
Enzyme Commission (EC)Acting on a sulfur group of donors0.647InformativeInherited
Enzyme Commission (EC)Pentosyltransferases0.7529InformativeInherited
Enzyme Commission (EC)Acting on the aldehyde or oxo group of donors0.8821InformativeInherited
Enzyme Commission (EC)Formate dehydrogenase0Highly InformativeDirect
Enzyme Commission (EC)With other acceptors0Highly InformativeDirect
Enzyme Commission (EC)NADH dehydrogenase (quinone)0.000001416Highly InformativeDirect
Enzyme Commission (EC)With a cytochrome as acceptor0.1742Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processElectron transport0InformativeDirect
Biological processAutophagy0.0002311InformativeDirect
Biological processNitrate assimilation0Highly InformativeDirect
Cellular componentCytoplasm0.0000000000006307Least InformativeDirect
Cellular componentPeriplasm0InformativeDirect
Coding sequence diversitySelenocysteine0.000000008267InformativeDirect
DomainSignal0Least InformativeDirect
Molecular functionMetal-binding1Least InformativeInherited
Molecular functionIron0Moderately InformativeDirect
Molecular functionIron-sulfur0Moderately InformativeDirect
Molecular function4Fe-4S0InformativeDirect
Molecular functionMolybdenum0InformativeDirect
Molecular function2Fe-2S0.00000000000001024InformativeDirect
Molecular functionPyruvate0Highly InformativeDirect
Molecular functionSchiff base0Highly InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationDecarboxylase0Highly InformativeDirect
Post-translational modificationAutocatalytic cleavage0InformativeDirect
Post-translational modificationZymogen0InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)cofactor metabolism0Least InformativeDirect
UniPathway (UP)nitrogen metabolism0.1605Moderately InformativeInherited
UniPathway (UP)energy metabolism0.6817Moderately InformativeInherited
UniPathway (UP)one-carbon metabolism0.7988Moderately InformativeInherited
UniPathway (UP)nitrate reduction0.00001279InformativeDirect
UniPathway (UP)methanogenesis0.007162InformativeInherited
UniPathway (UP)(R)-pantothenate biosynthesis0Highly InformativeDirect
UniPathway (UP)methanogenesis from CO(2)0.0003409Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR009010 SSF50692 Protein matches
Abstract

Beta barrels are commonly observed in protein structures. They are classified in terms of two integral parameters: the number of strands in the sheet, n, and the shear number, S, a measure of the stagger of the strands in the beta-sheet. These two parameters have been shown to determine the major geometrical features of beta-barrels. Six-stranded beta-barrels with a pseudo-twofold axis are found in several proteins. One involving parallel strands forming two psi structures is known as the double-psi barrel. The first psi structure consists of the loop connecting strands beta1 and beta2 (a 'psi loop') and the strand beta5, whereas the second psi structure consists of the loop connecting strands beta4 and beta5 and the strand beta2. All the psi structures in double-psi barrels have a unique handedness, in that beta1 (beta4), beta2 (beta5) and the loop following beta5 (beta2) form a right-handed helix. The unique handedness may be related to the fact that the twisting angle between the parallel pair of strands is always larger than that between the antiparallel pair [PubMed10368289].

In many cases, including aspartate decarboxylase and aspartic proteinases, strands 1 and 4 are each bent and consist of two sections. The two sections normally make a right angle; sometimes their hydrogen-bond patterns are disrupted at the corner by a bulge or even by a large insertion. In these cases, the barrel can also be viewed as a pair of orthogonally packed sheets, each with four strands.


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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · 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 19 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 ADC-like 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 19 hidden Markov models representing the ADC-like 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]