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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 health0.01652Moderately InformativeInherited
Disease Ontology (DO)schizophrenia0.0008675InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Mode of Inheritance (MI)Autosomal dominant inheritance0.00002348Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.1499Least InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.04103Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0.05728Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal cortical gyration0.000007928Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of brainstem morphology0.00008754Highly InformativeDirect
Phenotypic Abnormality (PA)Cortical dysplasia0.0004534Highly 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 variant0.0000004092Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.00003283Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.00008211Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0004193Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0005995Least InformativeDirect
Worm Phenotype (WP)cell development variant0.004865Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.00000000007206Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.00001362Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.01318Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.04102Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.08702Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.1084Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.1595Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.26Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.2676Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.8597Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.925Moderately InformativeInherited
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00000002941InformativeDirect
Worm Phenotype (WP)nicotine response variant0.00000007731InformativeDirect
Worm Phenotype (WP)axon outgrowth variant0.000002347InformativeDirect
Worm Phenotype (WP)cytokinesis variant emb0.00007986InformativeDirect
Worm Phenotype (WP)mechanosensation variant0.000103InformativeDirect
Worm Phenotype (WP)pericellular component morphology variant0.0003036InformativeDirect
Worm Phenotype (WP)mitosis variant0.0003547InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.0004InformativeDirect
Worm Phenotype (WP)neurite morphology variant0.0005375InformativeDirect
Worm Phenotype (WP)cell component localization variant0.001311InformativeInherited
Worm Phenotype (WP)brood size variant0.001669InformativeInherited
Worm Phenotype (WP)copulation variant0.002262InformativeInherited
Worm Phenotype (WP)sexually dimorphic behavior variant0.002315InformativeInherited
Worm Phenotype (WP)somatic gonad development variant0.00355InformativeInherited
Worm Phenotype (WP)epithelial system development variant0.05036InformativeInherited
Worm Phenotype (WP)organelle organization biogenesis variant0.1974InformativeInherited
Worm Phenotype (WP)RNA expression variant0.2801InformativeInherited
Worm Phenotype (WP)egg laying variant0.6623InformativeInherited
Worm Phenotype (WP)locomotion reduced0.7112InformativeInherited
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.00000000001272Highly InformativeDirect
Worm Phenotype (WP)touch resistant0.000000001452Highly InformativeDirect
Worm Phenotype (WP)distal tip cell migration variant0.000000002256Highly InformativeDirect
Worm Phenotype (WP)RAB-11 recycling endosome localization variant0.0000005063Highly InformativeDirect
Worm Phenotype (WP)post hermaphrodite contact variant0.0000005574Highly InformativeDirect
Worm Phenotype (WP)mitotic spindle defective early emb0.0000007807Highly InformativeDirect
Worm Phenotype (WP)presynaptic region morphology variant0.00000697Highly InformativeDirect
Worm Phenotype (WP)dead eggs laid0.00001225Highly InformativeDirect
Worm Phenotype (WP)sluggish0.00001819Highly InformativeDirect
Worm Phenotype (WP)miRNA expression variant0.0000224Highly InformativeDirect
Worm Phenotype (WP)alae morphology variant0.00003818Highly InformativeDirect
Worm Phenotype (WP)exploded through vulva0.00006827Highly InformativeDirect
Worm Phenotype (WP)male somatic gonad development variant0.0002335Highly InformativeDirect
Worm Phenotype (WP)gonad arm morphology variant0.0003959Highly InformativeDirect
Worm Phenotype (WP)nose touch variant0.0004071Highly InformativeDirect
Worm Phenotype (WP)cytoskeleton organization biogenesis variant0.00661Highly 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)fertile0.07272Moderately InformativeInherited
Fly Phenotype (FP)wild-type0.0002069InformativeDirect
Fly Phenotype (FP)cell cycle defective0.0002524InformativeDirect
Fly Phenotype (FP)male fertile0.000004008Highly 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 structure0.03873Least InformativeInherited
Fly Anatomy (FA)somatic cell0.9472Least InformativeInherited
Fly Anatomy (FA)gonad0.003245Moderately InformativeInherited
Fly Anatomy (FA)somatic precursor cell0.03465Moderately InformativeInherited
Fly Anatomy (FA)stem cell0.178Moderately InformativeInherited
Fly Anatomy (FA)germline cell0.003827InformativeInherited
Fly Anatomy (FA)germline cyst0.006209InformativeInherited
Fly Anatomy (FA)male organism0.007602InformativeInherited
Fly Anatomy (FA)neuroblast0.03248InformativeInherited
Fly Anatomy (FA)spermatid0.000046Highly InformativeDirect
Fly Anatomy (FA)type I neuroblast0.00008933Highly InformativeDirect
Fly Anatomy (FA)type II neuroblast0.0003616Highly 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)embryo0.06734Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.2037Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.2672Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.7801Least InformativeInherited
Xenopus ANatomical entity (XAN)anatomical system1Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.000007325Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.003728Moderately InformativeInherited
Xenopus ANatomical entity (XAN)sensory system0.03884Moderately InformativeInherited
Xenopus ANatomical entity (XAN)epithelium0.0000006817InformativeDirect
Xenopus ANatomical entity (XAN)dermal system0.000176InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.0008886InformativeDirect
Xenopus ANatomical entity (XAN)peripheral nervous system0.07112InformativeInherited
Xenopus ANatomical entity (XAN)anatomical space0.0911InformativeInherited
Xenopus ANatomical entity (XAN)endoderm0.1146InformativeInherited
Xenopus ANatomical entity (XAN)spinal cord0.1712InformativeInherited
Xenopus ANatomical entity (XAN)cell part0.000000000000003105Highly InformativeDirect
Xenopus ANatomical entity (XAN)epithelial cell0.00000000009274Highly InformativeDirect
Xenopus ANatomical entity (XAN)neuron0.000000002435Highly InformativeDirect
Xenopus ANatomical entity (XAN)vegetal hemisphere0.0001535Highly InformativeDirect
Xenopus ANatomical entity (XAN)archenteron0.001393Highly InformativeInherited
Xenopus ANatomical entity (XAN)gustatory system0.001446Highly InformativeInherited
Xenopus ANatomical entity (XAN)cranial nerve0.004617Highly InformativeInherited
Xenopus ANatomical entity (XAN)intersomitic region0.009275Highly InformativeInherited

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 plant0.1936Least InformativeInherited
Plant ANatomical entity (PAN)portion of vascular tissue0.0006374InformativeDirect

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 13 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 13 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 ]