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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 digestive system0.3958Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.3053Moderately InformativeInherited
Phenotypic Abnormality (PA)Hepatic steatosis0.0001058InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0.00008268Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0001593Least InformativeDirect
Worm Phenotype (WP)cell development variant0.0002267Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.004499Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.08228Least InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.00000371Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.005479Moderately InformativeInherited
Worm Phenotype (WP)level of transgene expression variant0.01642Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.1986Moderately InformativeInherited
Worm Phenotype (WP)organism stress response variant0.4286Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.5435Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.6025Moderately InformativeInherited
Worm Phenotype (WP)oxygen response variant0.0000000000003853InformativeDirect
Worm Phenotype (WP)pleiotropic defects severe early emb0.00000002307InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.00000003966InformativeDirect
Worm Phenotype (WP)transgene expression increased0.0000001158InformativeDirect
Worm Phenotype (WP)reduced brood size0.0002752InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant0.0007936InformativeDirect
Worm Phenotype (WP)pesticide response variant0.04455InformativeInherited
Worm Phenotype (WP)RNA expression variant0.1429InformativeInherited
Worm Phenotype (WP)cell stress response variant0.1442InformativeInherited
Worm Phenotype (WP)hypoxia resistant0Highly InformativeDirect
Worm Phenotype (WP)cell differentiation variant0.00000000006606Highly InformativeDirect
Worm Phenotype (WP)RNA processing variant0.01989Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)metabolism and growth0.9526Least InformativeInherited
Yeast Phenotype (YP)nutrient utilization0.1967Moderately InformativeInherited
Yeast Phenotype (YP)respiratory metabolism0.07673InformativeInherited
Yeast Phenotype (YP)mitochondrial genome maintenance0.0004772Highly 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 defective0.002036Highly 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)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 structure0.01132Least InformativeInherited
Plant ANatomical entity (PAN)inflorescence0.02268Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.09745Least InformativeInherited
Plant ANatomical entity (PAN)leaf0.4182Least InformativeInherited
Plant structure DEvelopment stage (PDE)F mature embryo stage0.0002927Least 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)Ligases forming aminoacyl-tRNA and related compounds0InformativeDirect
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)0.00000001041Highly 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 43 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 43 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 ]