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 (2,361)	Uniprot 2013_05	PDB chains (SCOP 1.75)
Domains	9,085	27,804	19
Proteins	9,018	27,757	19

Functional annotation

General category	Processes_IC
Detailed category	Cell motility

Document: Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)

	GO term	FDR (singleton)	FDR (all)	SDFO level	Annotation (direct or inherited)
Cellular Component (CC)	intracellular non-membrane-bounded organelle	0	0	Least Informative	Direct
Cellular Component (CC)	cytoskeleton	0	0	Moderately Informative	Direct
Cellular Component (CC)	microtubule cytoskeleton	0	9.13e-15	Informative	Direct

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)

	GO term	FDR (all)	SDFO level	Annotation (direct or inherited)
Biological Process (BP)	cellular component organization or biogenesis	1.896e-14	Least Informative	Direct
Biological Process (BP)	single-organism cellular process	5.129e-08	Least Informative	Direct
Biological Process (BP)	protein metabolic process	0.4209	Least Informative	Inherited
Biological Process (BP)	cellular macromolecule metabolic process	1	Least Informative	Inherited
Biological Process (BP)	developmental process	1	Least Informative	Inherited
Biological Process (BP)	localization	0.03524	Least Informative	Inherited
Biological Process (BP)	biosynthetic process	0.8922	Least Informative	Inherited
Biological Process (BP)	organelle organization	0	Moderately Informative	Direct
Biological Process (BP)	macromolecular complex subunit organization	0.1825	Moderately Informative	Inherited
Biological Process (BP)	cell differentiation	0.8242	Moderately Informative	Inherited
Biological Process (BP)	single-organism developmental process	1	Moderately Informative	Inherited
Biological Process (BP)	cellular catabolic process	0.1188	Moderately Informative	Inherited
Biological Process (BP)	organic substance catabolic process	0.1335	Moderately Informative	Inherited
Biological Process (BP)	cellular localization	0.003144	Moderately Informative	Inherited
Biological Process (BP)	carbohydrate metabolic process	0.003234	Moderately Informative	Inherited
Biological Process (BP)	microtubule-based process	0	Informative	Direct
Biological Process (BP)	cell cycle process	4.21e-14	Informative	Direct
Biological Process (BP)	hexose metabolic process	1.977e-07	Informative	Direct
Biological Process (BP)	carbohydrate biosynthetic process	2.49e-07	Informative	Direct
Biological Process (BP)	cytoskeleton organization	1.505e-06	Informative	Direct
Biological Process (BP)	protein catabolic process	5.573e-05	Informative	Direct
Biological Process (BP)	cellular macromolecule catabolic process	0.0007261	Informative	Direct
Biological Process (BP)	mitochondrion organization	0.1344	Informative	Inherited
Biological Process (BP)	proteolysis	0.001007	Informative	Inherited
Biological Process (BP)	chromosome organization	1	Informative	Inherited
Biological Process (BP)	organelle localization	2.956e-09	Highly Informative	Direct
Biological Process (BP)	proteasomal protein catabolic process	1.514e-07	Highly Informative	Direct
Biological Process (BP)	monosaccharide biosynthetic process	2.521e-07	Highly Informative	Direct
Biological Process (BP)	chromosome segregation	1.062e-06	Highly Informative	Direct
Biological Process (BP)	cell division	4.22e-06	Highly Informative	Direct
Biological Process (BP)	protein folding	5.063e-06	Highly Informative	Direct
Biological Process (BP)	microtubule cytoskeleton organization	0.003295	Highly Informative	Inherited
Biological Process (BP)	nuclear division	1	Highly Informative	Inherited
Molecular Function (MF)	binding	1	Least Informative	Inherited
Molecular Function (MF)	hydrolase activity	1	Least Informative	Inherited
Molecular Function (MF)	structural molecule activity	0	Moderately Informative	Direct
Molecular Function (MF)	anion binding	0.00271	Moderately Informative	Inherited
Molecular Function (MF)	heterocyclic compound binding	0.4602	Moderately Informative	Inherited
Molecular Function (MF)	organic cyclic compound binding	0.4885	Moderately Informative	Inherited
Molecular Function (MF)	nucleotide binding	6.768e-06	Informative	Direct
Molecular Function (MF)	nucleoside-triphosphatase activity	0.03871	Informative	Inherited
Cellular Component (CC)	intracellular non-membrane-bounded organelle	0	Least Informative	Direct
Cellular Component (CC)	protein complex	0	Least Informative	Direct
Cellular Component (CC)	intracellular organelle part	4.391e-10	Least Informative	Direct
Cellular Component (CC)	membrane	0.07297	Least Informative	Inherited
Cellular Component (CC)	intracellular membrane-bounded organelle	1	Least Informative	Inherited
Cellular Component (CC)	cytoplasmic part	1	Least Informative	Inherited
Cellular Component (CC)	cytoskeleton	0	Moderately Informative	Direct
Cellular Component (CC)	organelle envelope	0.3721	Moderately Informative	Inherited
Cellular Component (CC)	organelle membrane	0.5227	Moderately Informative	Inherited
Cellular Component (CC)	mitochondrial part	0.2361	Moderately Informative	Inherited
Cellular Component (CC)	microtubule cytoskeleton	9.13e-15	Informative	Direct
Cellular Component (CC)	plastid	0.008184	Informative	Inherited
Cellular Component (CC)	cytoplasmic microtubule	3.129e-15	Highly Informative	Direct
Cellular Component (CC)	spindle	6.96e-10	Highly Informative	Direct
Cellular Component (CC)	chloroplast stroma	9.778e-06	Highly Informative	Direct
Cellular Component (CC)	mitochondrial outer membrane	0.0001119	Highly Informative	Direct
Cellular Component (CC)	microtubule organizing center	0.9027	Highly Informative	Inherited

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details)

	DO term	FDR (all)	SDDO level	Annotation (direct or inherited)
Disease Ontology (DO)	cognitive disorder	0.003999	Moderately Informative	Inherited

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)

	HP term	FDR (all)	SDHP level	Annotation (direct or inherited)
Phenotypic Abnormality (PA)	Abnormality of head and neck	0	Least Informative	Direct
Phenotypic Abnormality (PA)	Abnormality of the central nervous system	0	Least Informative	Direct
Phenotypic Abnormality (PA)	Abnormality of skeletal morphology	0	Least Informative	Direct
Phenotypic Abnormality (PA)	Abnormality of the skull	0	Moderately Informative	Direct
Phenotypic Abnormality (PA)	Morphological abnormality of the central nervous system	0	Moderately Informative	Direct
Phenotypic Abnormality (PA)	Cognitive impairment	0	Moderately Informative	Direct
Phenotypic Abnormality (PA)	Microcephaly	0	Informative	Direct
Phenotypic Abnormality (PA)	Intellectual disability	0	Informative	Direct
Phenotypic Abnormality (PA)	Seizures	0	Informative	Direct
Phenotypic Abnormality (PA)	Global developmental delay	0	Informative	Direct
Phenotypic Abnormality (PA)	Polymicrogyria	0	Highly Informative	Direct
Phenotypic Abnormality (PA)	Abnormal thickness of corpus callosum	1.464e-06	Highly Informative	Direct
Phenotypic Abnormality (PA)	Agenesis of corpus callosum	7.494e-06	Highly Informative	Direct
Phenotypic Abnormality (PA)	Aplasia/Hypoplasia of the brainstem	1.497e-05	Highly Informative	Direct

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)

	WP term	FDR (all)	SDWP level	Annotation (direct or inherited)
Worm Phenotype (WP)	organism metabolism processing variant	1.806e-09	Least Informative	Direct
Worm Phenotype (WP)	organism environmental stimulus response variant	0.0007391	Least Informative	Direct
Worm Phenotype (WP)	cell physiology variant	0.005149	Least Informative	Inherited
Worm Phenotype (WP)	protein aggregation variant	3.373e-11	Moderately Informative	Direct
Worm Phenotype (WP)	early embryonic lethal	1.684e-05	Moderately Informative	Direct
Worm Phenotype (WP)	organ system development variant	6.973e-05	Moderately Informative	Direct
Worm Phenotype (WP)	pattern of transgene expression variant	0.04651	Moderately Informative	Inherited
Worm Phenotype (WP)	cell organization biogenesis variant	0.05181	Moderately Informative	Inherited
Worm Phenotype (WP)	chemical response variant	0.09361	Moderately Informative	Inherited
Worm Phenotype (WP)	cell death variant	0.2864	Moderately Informative	Inherited
Worm Phenotype (WP)	cell migration variant	2.856e-08	Informative	Direct
Worm Phenotype (WP)	embryonic cell organization biogenesis variant	3.995e-08	Informative	Direct
Worm Phenotype (WP)	nicotine response variant	1.017e-07	Informative	Direct
Worm Phenotype (WP)	exploded through vulva	7.293e-05	Informative	Direct
Worm Phenotype (WP)	mechanosensation variant	0.0003025	Informative	Direct
Worm Phenotype (WP)	cell division variant	0.0007981	Informative	Direct
Worm Phenotype (WP)	cell corpse number variant	0.000988	Informative	Direct
Worm Phenotype (WP)	copulation variant	0.004847	Informative	Inherited
Worm Phenotype (WP)	neuron development variant	0.01458	Informative	Inherited
Worm Phenotype (WP)	RNA expression variant	0.1576	Informative	Inherited
Worm Phenotype (WP)	male behavior variant	1	Informative	Inherited
Worm Phenotype (WP)	distal tip cell migration variant	1.035e-09	Highly Informative	Direct
Worm Phenotype (WP)	touch resistant	1.698e-08	Highly Informative	Direct
Worm Phenotype (WP)	mitotic spindle defective early emb	8.964e-07	Highly Informative	Direct
Worm Phenotype (WP)	presynaptic region morphology variant	4.435e-06	Highly Informative	Direct
Worm Phenotype (WP)	alae morphology variant	1.902e-05	Highly Informative	Direct
Worm Phenotype (WP)	miRNA expression variant	2.354e-05	Highly Informative	Direct
Worm Phenotype (WP)	cytoskeleton organization biogenesis variant	0.005831	Highly Informative	Inherited
Worm Phenotype (WP)	pronucleus centrosomes defective early emb	0.06953	Highly Informative	Inherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)

	FP term	FDR (all)	SDFP level	Annotation (direct or inherited)
Fly Phenotype (FP)	fertile	0.03501	Least Informative	Inherited
Fly Phenotype (FP)	male fertile	1.14e-07	Informative	Direct
Fly Phenotype (FP)	wild-type	0.0004941	Informative	Direct

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)

	FA term	FDR (all)	SDFA level	Annotation (direct or inherited)
Fly Anatomy (FA)	organ system	0	Least Informative	Direct
Fly Anatomy (FA)	cell	0.127	Least Informative	Inherited
Fly Anatomy (FA)	multi-tissue structure	0.1459	Least Informative	Inherited
Fly Anatomy (FA)	gonad	0.003864	Moderately Informative	Inherited
Fly Anatomy (FA)	germline cyst	0.01952	Informative	Inherited
Fly Anatomy (FA)	male germline cell	0.02957	Informative	Inherited
Fly Anatomy (FA)	testis	0.06955	Informative	Inherited
Fly Anatomy (FA)	spermatid	5.218e-05	Highly Informative	Direct

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)

	XA term	FDR (all)	SDXA level	Annotation (direct or inherited)
Xenopus ANatomical entity (XAN)	portion of tissue	0.3151	Least Informative	Inherited
Xenopus ANatomical entity (XAN)	cell	0.3389	Least Informative	Inherited
Xenopus ANatomical entity (XAN)	alimentary system	0.3993	Least Informative	Inherited
Xenopus ANatomical entity (XAN)	head	0.5172	Least Informative	Inherited
Xenopus ANatomical entity (XAN)	embryo	0.7114	Least Informative	Inherited
Xenopus ANatomical entity (XAN)	viscus	0.9428	Least Informative	Inherited
Xenopus ANatomical entity (XAN)	surface structure	0.1954	Moderately Informative	Inherited
Xenopus ANatomical entity (XAN)	ectoderm	0.2435	Moderately Informative	Inherited
Xenopus ANatomical entity (XAN)	multi-tissue structure	0.3869	Moderately Informative	Inherited
Xenopus ANatomical entity (XAN)	skin	0.1115	Informative	Inherited
Xenopus ANatomical entity (XAN)	neuron	2.729e-08	Highly Informative	Direct
Xenopus ANatomical entity (XAN)	nerve	0.0001143	Highly Informative	Direct
Xenopus ANatomical entity (XAN)	epidermis	0.0001396	Highly Informative	Direct
Xenopus ANatomical entity (XAN)	intersomitic region	0.0001797	Highly Informative	Direct
Xenopus ANatomical entity (XAN)	pancreas	0.0004507	Highly Informative	Direct
Xenopus ANatomical entity (XAN)	peripheral nervous system	0.007117	Highly Informative	Inherited

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)

	AP term	FDR (all)	SDAP level	Annotation (direct or inherited)
Plant ANatomical entity (PAN)	plant cell	0.0005032	Least Informative	Direct
Plant ANatomical entity (PAN)	guard cell	3.879e-10	Moderately Informative	Direct
Plant ANatomical entity (PAN)	portion of vascular tissue	0.0009648	Informative	Direct

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)

	KW term	FDR (all)	SDKW level	Annotation (direct or inherited)
Biological process	Cell cycle	0	Moderately Informative	Direct
Biological process	Antibiotic resistance	0.0002638	Informative	Direct
Biological process	Septation	0	Highly Informative	Direct
Cellular component	Cytoplasm	0	Least Informative	Direct
Cellular component	Cytoskeleton	0	Moderately Informative	Direct
Cellular component	Mitochondrion	0.2729	Moderately Informative	Inherited
Cellular component	Microtubule	0	Informative	Direct
Cellular component	Mitochondrion outer membrane	0.0007036	Informative	Direct
Molecular function	Nucleotide-binding	0	Least Informative	Direct
Molecular function	GTP-binding	0	Informative	Direct
Post-translational modification	Acetylation	0	Moderately Informative	Direct

Document: KW 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 · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) ]

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.

SEARCH

BROWSE

TOOLS

ABOUT

HELP

Tubulin nucleotide-binding domain-like superfamily