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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)
Mode of Inheritance (MI)Autosomal dominant inheritance0.0005298Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.1647Least InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.004025Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cerebrum0.008818Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cerebral subcortex0.2266InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia of the brainstem0.000001091Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of neuronal migration0.00008434Highly InformativeDirect
Phenotypic Abnormality (PA)Hypoplasia of the corpus callosum0.0002489Highly InformativeDirect
Phenotypic Abnormality (PA)Cortical dysplasia0.0003559Highly 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 variant0.0000004067Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.000031Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.00008267Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0003549Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0006068Least InformativeDirect
Worm Phenotype (WP)cell development variant0.005191Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.00000000008066Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.00001567Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.01336Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.03402Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.0899Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.1124Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.1608Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.2535Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.2915Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.8795Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.9237Moderately InformativeInherited
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00000003385InformativeDirect
Worm Phenotype (WP)nicotine response variant0.0000000947InformativeDirect
Worm Phenotype (WP)axon outgrowth variant0.000001868InformativeDirect
Worm Phenotype (WP)cytokinesis variant emb0.000079InformativeDirect
Worm Phenotype (WP)mitosis variant0.0003523InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.000437InformativeDirect
Worm Phenotype (WP)neurite morphology variant0.0004612InformativeDirect
Worm Phenotype (WP)brood size variant0.001638InformativeInherited
Worm Phenotype (WP)somatic gonad development variant0.003779InformativeInherited
Worm Phenotype (WP)epithelial system development variant0.05014InformativeInherited
Worm Phenotype (WP)organelle organization biogenesis variant0.1857InformativeInherited
Worm Phenotype (WP)RNA expression variant0.2875InformativeInherited
Worm Phenotype (WP)egg laying variant0.6612InformativeInherited
Worm Phenotype (WP)locomotion reduced0.72InformativeInherited
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.00000000001485Highly InformativeDirect
Worm Phenotype (WP)touch resistant0.000000001207Highly InformativeDirect
Worm Phenotype (WP)distal tip cell migration variant0.00000000229Highly InformativeDirect
Worm Phenotype (WP)recycling endosome localization variant0.0000005495Highly InformativeDirect
Worm Phenotype (WP)post hermaphrodite contact variant0.0000005971Highly InformativeDirect
Worm Phenotype (WP)mitotic spindle defective early emb0.0000008696Highly InformativeDirect
Worm Phenotype (WP)presynaptic region morphology variant0.000006572Highly InformativeDirect
Worm Phenotype (WP)dead eggs laid0.00001229Highly InformativeDirect
Worm Phenotype (WP)sluggish0.0000174Highly InformativeDirect
Worm Phenotype (WP)miRNA expression variant0.00002369Highly InformativeDirect
Worm Phenotype (WP)alae morphology variant0.0000418Highly InformativeDirect
Worm Phenotype (WP)exploded through vulva0.00007307Highly InformativeDirect
Worm Phenotype (WP)male somatic gonad development variant0.0002471Highly InformativeDirect
Worm Phenotype (WP)nose touch variant0.000374Highly InformativeDirect
Worm Phenotype (WP)gonad arm morphology variant0.0004161Highly InformativeDirect
Worm Phenotype (WP)cytoskeleton organization biogenesis variant0.006808Highly 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)fertile0.03136Moderately InformativeInherited
Fly Phenotype (FP)wild-type0.00008409InformativeDirect
Fly Phenotype (FP)cell cycle defective0.000122InformativeDirect
Fly Phenotype (FP)male fertile0.000003211Highly 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 structure0.03754Least InformativeInherited
Fly Anatomy (FA)somatic cell1Least InformativeInherited
Fly Anatomy (FA)gonad0.00325Moderately InformativeInherited
Fly Anatomy (FA)somatic precursor cell0.03725Moderately InformativeInherited
Fly Anatomy (FA)stem cell0.1833Moderately InformativeInherited
Fly Anatomy (FA)germline cell0.003935InformativeInherited
Fly Anatomy (FA)germline cyst0.006631InformativeInherited
Fly Anatomy (FA)male organism0.007449InformativeInherited
Fly Anatomy (FA)neuroblast0.03372InformativeInherited
Fly Anatomy (FA)spermatid0.00004076Highly InformativeDirect
Fly Anatomy (FA)type I neuroblast0.0000888Highly InformativeDirect
Fly Anatomy (FA)type II neuroblast0.0003244Highly 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 system0.06064Least InformativeInherited
Xenopus ANatomical entity (XAN)trunk0.08871Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.1108Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.1557Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.484Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.7651Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.0000593Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.008167Moderately InformativeInherited
Xenopus ANatomical entity (XAN)sensory system0.1081Moderately InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system0.3198Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus0.7354Moderately InformativeInherited
Xenopus ANatomical entity (XAN)neuron0.000000001707InformativeDirect
Xenopus ANatomical entity (XAN)epithelium0.0000004699InformativeDirect
Xenopus ANatomical entity (XAN)dermal system0.00002902InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.0001902InformativeDirect
Xenopus ANatomical entity (XAN)pancreas0.0007485InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord0.05895InformativeInherited
Xenopus ANatomical entity (XAN)peripheral nervous system0.06183InformativeInherited
Xenopus ANatomical entity (XAN)epithelial cell0.00000000009295Highly InformativeDirect
Xenopus ANatomical entity (XAN)vegetal hemisphere0.0001819Highly InformativeDirect
Xenopus ANatomical entity (XAN)gustatory system0.0008702Highly InformativeDirect
Xenopus ANatomical entity (XAN)cranial nerve0.003687Highly InformativeInherited
Xenopus ANatomical entity (XAN)intersomitic region0.007828Highly 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 plant0.1932Least 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 ]