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Nucleotidylyl transferase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Adenine nucleotide alpha hydrolase-like [ 52373] (3)
Superfamily:   Nucleotidylyl transferase [ 52374] (5)
Families:   Class I aminoacyl-tRNA synthetases (RS), catalytic domain [ 52375] (12)
  Cytidylyltransferase [ 52394]
  Adenylyltransferase [ 52397] (5)
  Pantothenate synthetase (Pantoate-beta-alanine ligase, PanC) [ 63976]
  ATP sulfurylase catalytic domain [ 63979]


Superfamily statistics
Genomes (3,261) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 58,990 418,730 81
Proteins 58,098 415,759 81


Functional annotation
General category Metabolism
Detailed category Nucleotide metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Nucleotidyltransferases0Least InformativeDirect
Enzyme Commission (EC)Ligases0Least InformativeDirect
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compoun0Moderately InformativeDirect
Enzyme Commission (EC)Forming carbon-nitrogen bonds1Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep1Moderately InformativeInherited
Enzyme Commission (EC)Acid--D-amino-acid ligases (peptide synthases)0InformativeDirect
Enzyme Commission (EC)Phosphotransferases with a phosphate group as acce1InformativeInherited
Enzyme Commission (EC)Tryptophan--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Isoleucine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Methionine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Leucine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Valine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Sulfate adenylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)FAD synthetase0Highly InformativeDirect
Enzyme Commission (EC)Arginine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Glutamate--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Acid--ammonia (or amide) ligases (amide synthases)0.00000001827Highly 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 the musculature0.0008864Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.0292Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.1986Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.7284Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of acid-base homeostasis0.00003223Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the cerebrum0.006598Moderately InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.05993Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.6219Moderately InformativeInherited
Phenotypic Abnormality (PA)Acidosis0.00001291InformativeDirect
Phenotypic Abnormality (PA)Hepatic steatosis0.0002628InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the cerebral white matter0.0243InformativeInherited
Phenotypic Abnormality (PA)Hypoplasia of the corpus callosum0.0003631Highly InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism environmental stimulus response variant0.0001267Least InformativeDirect
Worm Phenotype (WP)cell development variant0.0001903Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.0002208Least InformativeDirect
Worm Phenotype (WP)blast cell physiology variant0.001436Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.001442Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.03182Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.03555Least InformativeInherited
Worm Phenotype (WP)developmental timing variant0.377Least InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.00001666Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.0005121Moderately InformativeDirect
Worm Phenotype (WP)germ cell development variant0.0009341Moderately InformativeDirect
Worm Phenotype (WP)level of transgene expression variant0.02765Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.4656Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.5438Moderately InformativeInherited
Worm Phenotype (WP)germ cell differentiation variant0.5667Moderately InformativeInherited
Worm Phenotype (WP)organism stress response variant0.67Moderately InformativeInherited
Worm Phenotype (WP)oxygen response variant0.0000000000003051InformativeDirect
Worm Phenotype (WP)pleiotropic defects severe early emb0.0000000158InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.00000002379InformativeDirect
Worm Phenotype (WP)transgene expression increased0.0000001516InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant0.0007151InformativeDirect
Worm Phenotype (WP)pesticide response variant0.06344InformativeInherited
Worm Phenotype (WP)cell stress response variant0.2345InformativeInherited
Worm Phenotype (WP)nuclear appearance variant0.2389InformativeInherited
Worm Phenotype (WP)hypoxia resistant0Highly InformativeDirect
Worm Phenotype (WP)cell differentiation variant0.000000000003471Highly InformativeDirect
Worm Phenotype (WP)general pace of development defective early emb0.0005103Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)metabolism and growth0.9548Least InformativeInherited
Yeast Phenotype (YP)nutrient utilization0.197Moderately InformativeInherited
Yeast Phenotype (YP)respiratory metabolism0.07626InformativeInherited
Yeast Phenotype (YP)mitochondrial genome maintenance0.000483Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)cell size defective0.003947Highly InformativeInherited

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)cavitated compound organ0Least InformativeDirect

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)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0.01137Least InformativeInherited
Plant ANatomical entity (PAN)inflorescence0.0228Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.09774Least InformativeInherited
Plant ANatomical entity (PAN)leaf0.4185Least InformativeInherited
Plant structure DEvelopment stage (PDE)F mature embryo stage0.0002928Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0.0008738Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0Least InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Ligases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor1Moderately InformativeInherited
Enzyme Commission (EC)Forming carbon-oxygen bonds0InformativeDirect
Enzyme Commission (EC)Acid--amino-acid ligases (peptide synthases)0InformativeDirect
Enzyme Commission (EC)Sulfate adenylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Acid--ammonia (or amine) ligases (amide synthases)0.00000001028Highly InformativeDirect
Enzyme Commission (EC)Acid--thiol ligases1Highly InformativeInherited

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 114 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 Nucleotidylyl transferase 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 114 hidden Markov models representing the Nucleotidylyl transferase 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) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]