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Tubulin nucleotide-binding domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Tubulin nucleotide-binding domain-like [ 52489]
Superfamily:   Tubulin nucleotide-binding domain-like [ 52490]
Families:   Tubulin, GTPase domain [ 52491] (3)


Superfamily statistics
Genomes (3,030) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 10,893 76,293 19
Proteins 10,801 76,009 19


Functional annotation
General category Processes_IC
Detailed category Cell motility

Document:
Function annotation of SCOP domain superfamilies

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)disease of mental health0.01642Moderately InformativeInherited
Disease Ontology (DO)schizophrenia0.0008584InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.1928Least InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.04955Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0.1663Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cerebral subcortex0.1252InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia of the brainstem0.000000314Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of neuronal migration0.00006777Highly InformativeDirect
Phenotypic Abnormality (PA)Hypoplasia of the corpus callosum0.0002572Highly InformativeDirect
Phenotypic Abnormality (PA)Cortical dysplasia0.0003574Highly InformativeDirect

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 variant0Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0000004046Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.00003161Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.00008235Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0003536Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0006143Least InformativeDirect
Worm Phenotype (WP)cell development variant0.02037Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.0000000000843Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.0000155Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.01379Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.03313Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.08952Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.1134Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.1619Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.257Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.2879Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.8815Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.9223Moderately InformativeInherited
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00000003425InformativeDirect
Worm Phenotype (WP)nicotine response variant0.00000009371InformativeDirect
Worm Phenotype (WP)neuronal outgrowth variant0.0000417InformativeDirect
Worm Phenotype (WP)cytokinesis variant emb0.00007998InformativeDirect
Worm Phenotype (WP)mechanosensation variant0.00008195InformativeDirect
Worm Phenotype (WP)mitosis variant0.0003478InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.000445InformativeDirect
Worm Phenotype (WP)reduced brood size0.0009188InformativeDirect
Worm Phenotype (WP)gonad development variant0.00735InformativeInherited
Worm Phenotype (WP)epithelial system development variant0.05007InformativeInherited
Worm Phenotype (WP)organelle organization biogenesis variant0.1842InformativeInherited
Worm Phenotype (WP)RNA expression variant0.2869InformativeInherited
Worm Phenotype (WP)egg laying variant0.6531InformativeInherited
Worm Phenotype (WP)locomotion reduced0.7198InformativeInherited
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.00000000001464Highly InformativeDirect
Worm Phenotype (WP)touch resistant0.000000001193Highly InformativeDirect
Worm Phenotype (WP)distal tip cell migration variant0.000000002261Highly InformativeDirect
Worm Phenotype (WP)recycling endosome localization variant0.0000005438Highly InformativeDirect
Worm Phenotype (WP)post hermaphrodite contact variant0.0000005915Highly InformativeDirect
Worm Phenotype (WP)mitotic spindle defective early emb0.0000008881Highly InformativeDirect
Worm Phenotype (WP)presynaptic region morphology variant0.000006533Highly InformativeDirect
Worm Phenotype (WP)dead eggs laid0.00001221Highly InformativeDirect
Worm Phenotype (WP)sluggish0.00001776Highly InformativeDirect
Worm Phenotype (WP)miRNA expression variant0.00002244Highly InformativeDirect
Worm Phenotype (WP)alae morphology variant0.00004152Highly InformativeDirect
Worm Phenotype (WP)exploded through vulva0.00007341Highly InformativeDirect
Worm Phenotype (WP)male somatic gonad development variant0.0002579Highly InformativeDirect
Worm Phenotype (WP)nose touch variant0.0004293Highly InformativeDirect
Worm Phenotype (WP)gonad arm morphology variant0.0004309Highly InformativeDirect
Worm Phenotype (WP)cytoskeleton organization biogenesis variant0.006818Highly 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 growth0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)fertile0.03251Moderately InformativeInherited
Fly Phenotype (FP)wild-type0.00008159InformativeDirect
Fly Phenotype (FP)cell cycle defective0.0001071InformativeDirect
Fly Phenotype (FP)male fertile0.000003064Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)multi-tissue structure0Least InformativeDirect
Fly Anatomy (FA)somatic cell1Least InformativeInherited
Fly Anatomy (FA)gonad0.0007432Moderately InformativeDirect
Fly Anatomy (FA)somatic precursor cell0.07479Moderately InformativeInherited
Fly Anatomy (FA)stem cell0.2969Moderately InformativeInherited
Fly Anatomy (FA)germline cell0.000801InformativeDirect
Fly Anatomy (FA)male organism0.004722InformativeInherited
Fly Anatomy (FA)germline cyst0.006851InformativeInherited
Fly Anatomy (FA)neuroblast0.08159InformativeInherited
Fly Anatomy (FA)type I neuroblast0.000003803Highly InformativeDirect
Fly Anatomy (FA)type II neuroblast0.00001466Highly InformativeDirect
Fly Anatomy (FA)spermatid0.00001624Highly 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)organism subdivision0Least InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)nervous system0.06023Least InformativeInherited
Xenopus ANatomical entity (XAN)trunk0.08845Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.1085Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.1526Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.4842Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.7652Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.00005161Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.008161Moderately InformativeInherited
Xenopus ANatomical entity (XAN)sensory system0.1049Moderately InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system0.3199Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus0.7356Moderately InformativeInherited
Xenopus ANatomical entity (XAN)neuron0.000000001426InformativeDirect
Xenopus ANatomical entity (XAN)epithelium0.0000003904InformativeDirect
Xenopus ANatomical entity (XAN)dermal system0.00002885InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.00018InformativeDirect
Xenopus ANatomical entity (XAN)pancreas0.0007499InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord0.05778InformativeInherited
Xenopus ANatomical entity (XAN)peripheral nervous system0.06159InformativeInherited
Xenopus ANatomical entity (XAN)epithelial cell0.00000000006447Highly InformativeDirect
Xenopus ANatomical entity (XAN)vegetal hemisphere0.0001814Highly InformativeDirect
Xenopus ANatomical entity (XAN)gustatory system0.0008897Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial nerve0.003475Highly InformativeInherited
Xenopus ANatomical entity (XAN)intersomitic region0.00691Highly InformativeInherited
Xenopus DEvelopment stage (XDE)post-embryonic stage0.09254Least InformativeInherited
Xenopus DEvelopment stage (XDE)climax stage0.08395Moderately InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 660.0009902InformativeDirect

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)whole plant0.1932Least InformativeInherited
Plant ANatomical entity (PAN)portion of vascular tissue0.0006345InformativeDirect

Document: AP annotation of SCOP domains

InterPro annotation
Cross references IPR003008 SSF52490 Protein matches
Abstract

This domain is found in all tubulin chains, as well as the bacterial FtsZ family of proteins. These proteins are involved in polymer formation. Tubulin is the major component of microtubules, while FtsZ is the polymer-forming protein of bacterial cell division, it is part of a ring in the middle of the dividing cell that is required for constriction of cell membrane and cell envelope to yield two daughter cells. FtsZ and tubulin are GTPases, this entry is the GTPase domain. FtsZ can polymerise into tubes, sheets, and rings in vitro and is ubiquitous in bacteria and archaea.


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 · Disease Ontology (DO) · 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) ]

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 7 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 Tubulin nucleotide-binding domain-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 7 hidden Markov models representing the Tubulin nucleotide-binding domain-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 · Disease Ontology (DO) · 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) · Internal database links ]