SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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 health0.01653Moderately InformativeInherited
Disease Ontology (DO)schizophrenia0.0008681InformativeDirect

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 inheritance0.00005918Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.1652Least InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.03993Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0.06189Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of brainstem morphology0.00001085Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal cortical gyration0.0000293Highly 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 variant0.0000006587Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.0000008398Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0001828Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.000315Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0008838Least InformativeDirect
Worm Phenotype (WP)cell development variant0.006061Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.0000163Moderately InformativeDirect
Worm Phenotype (WP)protein interaction variant0.00002777Moderately InformativeDirect
Worm Phenotype (WP)neuron development variant0.003815Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant0.01355Moderately InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.02315Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.04647Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.07695Moderately InformativeInherited
Worm Phenotype (WP)drug response variant0.08205Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.08266Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.1368Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.8303Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.9049Moderately InformativeInherited
Worm Phenotype (WP)cytoskeleton organization biogenesis variant0.00000001227InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00000003575InformativeDirect
Worm Phenotype (WP)nicotine response variant0.000000103InformativeDirect
Worm Phenotype (WP)axon outgrowth variant0.000003084InformativeDirect
Worm Phenotype (WP)cytokinesis variant emb0.00008645InformativeDirect
Worm Phenotype (WP)male mating variant0.0001081InformativeDirect
Worm Phenotype (WP)mechanosensation variant0.0001623InformativeDirect
Worm Phenotype (WP)pericellular component morphology variant0.000343InformativeDirect
Worm Phenotype (WP)male gonad development variant0.0003516InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.0004819InformativeDirect
Worm Phenotype (WP)mitosis variant0.0006142InformativeDirect
Worm Phenotype (WP)cell component localization variant0.003436InformativeInherited
Worm Phenotype (WP)somatic gonad development variant0.003903InformativeInherited
Worm Phenotype (WP)neuron morphology variant0.004644InformativeInherited
Worm Phenotype (WP)epithelial system development variant0.04859InformativeInherited
Worm Phenotype (WP)RNA expression variant0.2576InformativeInherited
Worm Phenotype (WP)sensillum morphology variant0.5787InformativeInherited
Worm Phenotype (WP)egg laying variant0.6169InformativeInherited
Worm Phenotype (WP)locomotion reduced0.663InformativeInherited
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.0000000000135Highly InformativeDirect
Worm Phenotype (WP)touch resistant0.000000001936Highly InformativeDirect
Worm Phenotype (WP)distal tip cell migration variant0.000000002661Highly InformativeDirect
Worm Phenotype (WP)RAB-11 recycling endosome localization variant0.0000005956Highly InformativeDirect
Worm Phenotype (WP)post hermaphrodite contact variant0.0000006395Highly InformativeDirect
Worm Phenotype (WP)mitotic spindle defective early emb0.0000008564Highly InformativeDirect
Worm Phenotype (WP)dead eggs laid0.00001409Highly InformativeDirect
Worm Phenotype (WP)sluggish0.00002073Highly InformativeDirect
Worm Phenotype (WP)miRNA expression variant0.00002496Highly InformativeDirect
Worm Phenotype (WP)alae morphology variant0.00004051Highly InformativeDirect
Worm Phenotype (WP)exploded through vulva0.00008064Highly InformativeDirect
Worm Phenotype (WP)male somatic gonad development variant0.0002353Highly InformativeDirect
Worm Phenotype (WP)gonad arm morphology variant0.000402Highly InformativeDirect
Worm Phenotype (WP)dye filling defect0.0008074Highly InformativeDirect
Worm Phenotype (WP)synapse morphology variant0.006676Highly 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)fertile0.07155Moderately InformativeInherited
Fly Phenotype (FP)wild-type0.0002099InformativeDirect
Fly Phenotype (FP)cell cycle defective0.0002652InformativeDirect
Fly Phenotype (FP)male fertile0.000004309Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)cell0Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0.03674Least InformativeInherited
Fly Anatomy (FA)gonad0.00294Moderately InformativeInherited
Fly Anatomy (FA)somatic precursor cell0.0333Moderately InformativeInherited
Fly Anatomy (FA)stem cell0.1819Moderately InformativeInherited
Fly Anatomy (FA)germline cell0.003538InformativeInherited
Fly Anatomy (FA)germline cyst0.005894InformativeInherited
Fly Anatomy (FA)male organism0.007226InformativeInherited
Fly Anatomy (FA)neuroblast0.03177InformativeInherited
Fly Anatomy (FA)spermatid0.00004232Highly InformativeDirect
Fly Anatomy (FA)type I neuroblast0.0001136Highly InformativeDirect
Fly Anatomy (FA)type II neuroblast0.0003778Highly 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
Zebrafish Anatomy (ZA)cavitated compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)sensory system0Moderately 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 system0.03055Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.1349Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.2601Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.2752Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.7798Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.00004603Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.01046Moderately InformativeInherited
Xenopus ANatomical entity (XAN)sensory system0.04527Moderately InformativeInherited
Xenopus ANatomical entity (XAN)epithelium0.000001147InformativeDirect
Xenopus ANatomical entity (XAN)dermal system0.0001627InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.001204InformativeInherited
Xenopus ANatomical entity (XAN)peripheral nervous system0.07769InformativeInherited
Xenopus ANatomical entity (XAN)anatomical space0.1225InformativeInherited
Xenopus ANatomical entity (XAN)endoderm0.1394InformativeInherited
Xenopus ANatomical entity (XAN)spinal cord0.1941InformativeInherited
Xenopus ANatomical entity (XAN)cell part0.00000000000001077Highly InformativeDirect
Xenopus ANatomical entity (XAN)epithelial cell0.0000000001041Highly InformativeDirect
Xenopus ANatomical entity (XAN)neuron0.000000002376Highly InformativeDirect
Xenopus ANatomical entity (XAN)vegetal hemisphere0.0001969Highly InformativeDirect
Xenopus ANatomical entity (XAN)gustatory system0.001156Highly InformativeInherited
Xenopus ANatomical entity (XAN)archenteron0.001613Highly InformativeInherited
Xenopus ANatomical entity (XAN)intersomitic region0.01105Highly InformativeInherited
Xenopus ANatomical entity (XAN)cranial nerve1Highly 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 ]