SUPERFAMILY 1.75 HMM library and genome assignments server

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HAD-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   HAD-like [ 56783]
Superfamily:   HAD-like [ 56784] (25)
Families:   Probable phosphatase YrbI [ 69467]
  HAD-related [ 56785] (2)
  beta-Phosphoglucomutase-like [ 75173] (9)
  YihX-like [ 56789] (2)
  Phosphonoacetaldehyde hydrolase-like [ 56792] (2)
  Phosphoserine phosphatase [ 64511]
  5'(3')-deoxyribonucleotidase (dNT-2) [ 82382]
  Homoserine kinase ThrH [ 102304]
  Class B acid phosphatase, AphA [ 102307]
  Hypothetical protein MW1667 (SA1546) [ 102310]
  phosphatase domain of polynucleotide kinase [ 82385] (2)
  Predicted hydrolases Cof [ 82388] (11)
  NagD-like [ 102317] (6)
  Meta-cation ATPase, catalytic domain P [ 81656] (2)
  Trehalose-phosphatase [ 110506]
  NLI interacting factor-like phosphatase [ 110509]
  Magnesium-dependent phosphatase-1, Mdp1 [ 117509]
  Hypothetical protein VC0232 [ 117512]
  Histidinol phosphatase-like [ 142177] (3)
  MtnX-like [ 142180]
  Pyrimidine 5'-nucleotidase (UMPH-1) [ 142183]
  Enolase-phosphatase E1 [ 142186] (2)
  5' nucleotidase-like [ 142191]
  AF1437-like [ 159537]
  BT0820-like [ 159540]


Superfamily statistics
Genomes (3,242) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 91,203 556,902 77
Proteins 90,654 554,995 77


Functional annotation
General category Metabolism
Detailed category Other enzymes

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on acid anhydrides0Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Isomerases1Least InformativeInherited
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases1Least InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Hydro-lyases0.0001661Moderately InformativeDirect
Enzyme Commission (EC)In phosphorous-containing anhydrides1Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep1Moderately InformativeInherited
Enzyme Commission (EC)Glycosyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembran0InformativeDirect
Enzyme Commission (EC)Phosphotransferases (phosphomutases)0.00005104InformativeDirect
Enzyme Commission (EC)Potassium-transporting ATPase0Highly InformativeDirect
Enzyme Commission (EC)Proton-exporting ATPase0Highly InformativeDirect
Enzyme Commission (EC)Phospholipid-translocating ATPase0Highly InformativeDirect
Enzyme Commission (EC)Sodium/potassium-exchanging ATPase0Highly InformativeDirect
Enzyme Commission (EC)Inorganic diphosphatase0Highly InformativeDirect
Enzyme Commission (EC)Calcium-transporting ATPase0Highly InformativeDirect
Enzyme Commission (EC)Copper-exporting ATPase0Highly InformativeDirect
Enzyme Commission (EC)Histidinol-phosphatase0Highly InformativeDirect
Enzyme Commission (EC)Cu(+) exporting ATPase0.0000000000001039Highly InformativeDirect
Enzyme Commission (EC)Cadmium-exporting ATPase0.000000000006865Highly InformativeDirect
Enzyme Commission (EC)Hydrogen/potassium-exchanging ATPase0.0000000004443Highly InformativeDirect
Enzyme Commission (EC)Zinc-exporting ATPase0.000000007143Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.359Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of central motor function0.03647Moderately InformativeInherited
Phenotypic Abnormality (PA)Upper motor neuron dysfunction0.2936InformativeInherited
Phenotypic Abnormality (PA)Weakness due to upper motor neuron dysfunction0.2697Highly InformativeInherited

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell morphology variant0.003609Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.007249Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.07791Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.2645Moderately InformativeInherited
Worm Phenotype (WP)nicotine response variant0.01413InformativeInherited
Worm Phenotype (WP)plasma membrane composition variant0.000000000000207Highly InformativeDirect
Worm Phenotype (WP)seam cell morphology variant0.0000000005388Highly InformativeDirect
Worm Phenotype (WP)nicotine hypersensitive0.000002848Highly InformativeDirect
Worm Phenotype (WP)membrane trafficking variant0.0004562Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)nervous system0.2936Least InformativeInherited
Fly Anatomy (FA)somatic cell0.4134Least InformativeInherited
Fly Anatomy (FA)organ system subdivision0.4753Least InformativeInherited
Fly Anatomy (FA)anatomical group0.7405Least InformativeInherited
Fly Anatomy (FA)adult0.8696Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)peripheral nervous system0.03324Moderately InformativeInherited
Fly Anatomy (FA)neuron0.3593Moderately InformativeInherited
Fly Anatomy (FA)cell cluster organ0.4927Moderately InformativeInherited
Fly Anatomy (FA)adult nervous system0.6055Moderately InformativeInherited
Fly Anatomy (FA)head0.6155Moderately InformativeInherited
Fly Anatomy (FA)sense organ0.6511Moderately InformativeInherited
Fly Anatomy (FA)portion of tissue0.9487Moderately InformativeInherited
Fly Anatomy (FA)cell component0.06468InformativeInherited
Fly Anatomy (FA)eye photoreceptor cell0.1288InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)sporangium0.00000009857Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0.002131Least InformativeInherited
Plant ANatomical entity (PAN)portion of meristem tissue0.02539Least InformativeInherited
Plant ANatomical entity (PAN)microsporophyll0.1461Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.1937Least InformativeInherited
Plant ANatomical entity (PAN)pollen0.0000001574Moderately InformativeDirect
Plant ANatomical entity (PAN)gamete0.00001694InformativeDirect
Plant ANatomical entity (PAN)pollen tube cell0.000429InformativeDirect
Plant ANatomical entity (PAN)primordium0.00253InformativeInherited
Plant ANatomical entity (PAN)portion of ground tissue0.006633InformativeInherited
Plant ANatomical entity (PAN)parenchyma cell0.000002949Highly InformativeDirect
Plant ANatomical entity (PAN)vegetative shoot apex0.00002763Highly InformativeDirect
Plant ANatomical entity (PAN)phyllome primordium0.00003467Highly InformativeDirect
Plant ANatomical entity (PAN)mesophyll1Highly InformativeInherited
Plant structure DEvelopment stage (PDE)pollen development stage0.00008103Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorus-containing groups1Least InformativeInherited
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.00000000000003283Moderately InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0.2661Moderately InformativeInherited
Enzyme Commission (EC)Glycosyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor1Moderately InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)Translocases0InformativeDirect
Enzyme Commission (EC)Hexosyltransferases0.1205InformativeInherited
Enzyme Commission (EC)Intramolecular transferases0.623InformativeInherited
Enzyme Commission (EC)In phosphorus-containing anhydrides1InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembrane movement of substances0Highly InformativeDirect
Enzyme Commission (EC)Linked to the hydrolysis of a nucleoside triphosphate0.0000005637Highly InformativeDirect
Enzyme Commission (EC)Hydron translocation linked to the hydrolysis of a nucleoside triphosphate0.0000005999Highly InformativeDirect
Enzyme Commission (EC)Phosphotransferases (phosphomutases)0.00007331Highly InformativeDirect
Enzyme Commission (EC)Acting on ether bonds1Highly InformativeInherited
Enzyme Commission (EC)Linked to the hydrolysis of a nucleoside triphosphate1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Post-translational modificationHydrolase0Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · 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 125 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 HAD-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 125 hidden Markov models representing the HAD-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 · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]