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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 (2,543) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 13,291 0 42
Proteins 13,286 0 42


Functional annotation
General category General
Detailed category General

Document:
Function annotation of SCOP domain superfamilies

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 head0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the eye0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the skeletal system0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature0Least 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 skull0Moderately InformativeDirect
Phenotypic Abnormality (PA)Growth abnormality0Moderately InformativeDirect
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal muscle tone0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of central motor function0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of higher mental function0Moderately 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)Intellectual disability0InformativeDirect
Phenotypic Abnormality (PA)Seizures0InformativeDirect
Phenotypic Abnormality (PA)Upper motor neuron dysfunction0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the cerebral subcortex0InformativeDirect
Phenotypic Abnormality (PA)Abdominal symptom0InformativeDirect
Phenotypic Abnormality (PA)Hypertonia0Highly 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 lethality0.1947Moderately InformativeInherited
Mammalian Phenotype (MP)embryonic lethality prior to organogenesis0.0007345InformativeDirect
Mammalian Phenotype (MP)preweaning lethality, complete penetrance0.0008301Highly 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 variant0.002565Least InformativeInherited
Worm Phenotype (WP)cell development variant0.004628Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.00841Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.02981Least InformativeInherited
Worm Phenotype (WP)metabolic pathway variant0.00001015Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.00007782Moderately InformativeDirect
Worm Phenotype (WP)reproductive system development variant0.00009187Moderately InformativeDirect
Worm Phenotype (WP)germ cell morphology variant0.0001459Moderately InformativeDirect
Worm Phenotype (WP)cell division variant0.0002267Moderately InformativeDirect
Worm Phenotype (WP)protein protein interaction variant0.0002429Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.0002704Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.000393Moderately InformativeDirect
Worm Phenotype (WP)cell component morphology variant0.000675Moderately InformativeDirect
Worm Phenotype (WP)level of transgene expression variant0.0009704Moderately InformativeDirect
Worm Phenotype (WP)germ cell cytoplasmic morphology variant0.000001678InformativeDirect
Worm Phenotype (WP)gonad development variant0.00000782InformativeDirect
Worm Phenotype (WP)endoplasmic reticulum morphology variant0.00000000008931Highly InformativeDirect
Worm Phenotype (WP)multiple nuclei0.0000001233Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic processing body variant0.0000005531Highly 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 defective0InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)embryo0Least InformativeDirect
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)cell0Least 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)eye0InformativeDirect

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 donors0.00000000000005577InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups0.003271InformativeInherited
Enzyme Commission (EC)Acting on NADH or NADPH0.3196InformativeInherited
Enzyme Commission (EC)Acting on a sulfur group of donors0.5096InformativeInherited
Enzyme Commission (EC)Pentosyltransferases0.7499InformativeInherited
Enzyme Commission (EC)Acting on the aldehyde or oxo group of donors1InformativeInherited
Enzyme Commission (EC)Acting on a heme group of donors0Highly InformativeDirect
Enzyme Commission (EC)With a cytochrome as acceptor0.0000000002224Highly InformativeDirect
Enzyme Commission (EC)NADH dehydrogenase (quinone)0.000001376Highly InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0.0002825Highly InformativeDirect
Enzyme Commission (EC)With an iron-sulfur protein as acceptor0.0005744Highly InformativeDirect
Enzyme Commission (EC)With other acceptors0.008058Highly 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 processAutophagy0.0002335InformativeDirect
Biological processNitrate assimilation0Highly InformativeDirect
Cellular componentCytoplasm0.0000000000006931Least InformativeDirect
Cellular componentPeriplasm0InformativeDirect
Coding sequence diversitySelenocysteine0.000000007262InformativeDirect
DomainSignal0Least InformativeDirect
Molecular functionMetal-binding1Least InformativeInherited
Molecular functionIron0Moderately InformativeDirect
Molecular functionIron-sulfur0Moderately InformativeDirect
Molecular function4Fe-4S0InformativeDirect
Molecular functionMolybdenum0InformativeDirect
Molecular function2Fe-2S0.000000000000008299InformativeDirect
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

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 · 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) ]

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 · 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) · Internal database links ]