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 health0.01649Moderately InformativeInherited
Disease Ontology (DO)schizophrenia0.0008665InformativeDirect

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 inheritance0.0002529Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.2329Least InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.1296Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0.1963Moderately InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia of the brainstem0.0000008493Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal cortical gyration0.000006564Highly InformativeDirect
Phenotypic Abnormality (PA)Cortical dysplasia0.0006165Highly 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 variant0.0000004641Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.00003556Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.00008808Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0004105Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.00064Least InformativeDirect
Worm Phenotype (WP)cell development variant0.005327Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.00000000007924Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.00001579Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.01355Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.03861Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.08858Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.1112Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.1604Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.2593Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.2746Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.8644Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.922Moderately InformativeInherited
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.0000000355InformativeDirect
Worm Phenotype (WP)nicotine response variant0.00000009282InformativeDirect
Worm Phenotype (WP)axon outgrowth variant0.000002099InformativeDirect
Worm Phenotype (WP)cytokinesis variant emb0.00007928InformativeDirect
Worm Phenotype (WP)mechanosensation variant0.00009047InformativeDirect
Worm Phenotype (WP)pericellular component morphology variant0.0003019InformativeDirect
Worm Phenotype (WP)mitosis variant0.0003404InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.0004427InformativeDirect
Worm Phenotype (WP)neurite morphology variant0.0005152InformativeDirect
Worm Phenotype (WP)reduced brood size0.0009273InformativeDirect
Worm Phenotype (WP)copulation variant0.002138InformativeInherited
Worm Phenotype (WP)sexually dimorphic behavior variant0.002189InformativeInherited
Worm Phenotype (WP)gonad development variant0.007243InformativeInherited
Worm Phenotype (WP)cell component localization variant0.008982InformativeInherited
Worm Phenotype (WP)epithelial system development variant0.05087InformativeInherited
Worm Phenotype (WP)organelle organization biogenesis variant0.1908InformativeInherited
Worm Phenotype (WP)RNA expression variant0.287InformativeInherited
Worm Phenotype (WP)egg laying variant0.6605InformativeInherited
Worm Phenotype (WP)locomotion reduced0.712InformativeInherited
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.00000000001445Highly InformativeDirect
Worm Phenotype (WP)touch resistant0.000000001306Highly InformativeDirect
Worm Phenotype (WP)distal tip cell migration variant0.000000002617Highly InformativeDirect
Worm Phenotype (WP)recycling endosome localization variant0.0000005383Highly InformativeDirect
Worm Phenotype (WP)post hermaphrodite contact variant0.000000587Highly InformativeDirect
Worm Phenotype (WP)mitotic spindle defective early emb0.0000009365Highly InformativeDirect
Worm Phenotype (WP)presynaptic region morphology variant0.000006933Highly InformativeDirect
Worm Phenotype (WP)dead eggs laid0.00001214Highly InformativeDirect
Worm Phenotype (WP)sluggish0.00001811Highly InformativeDirect
Worm Phenotype (WP)miRNA expression variant0.0000234Highly InformativeDirect
Worm Phenotype (WP)alae morphology variant0.00004296Highly InformativeDirect
Worm Phenotype (WP)exploded through vulva0.00007576Highly InformativeDirect
Worm Phenotype (WP)male somatic gonad development variant0.0002503Highly InformativeDirect
Worm Phenotype (WP)nose touch variant0.0003752Highly InformativeDirect
Worm Phenotype (WP)gonad arm morphology variant0.0004294Highly InformativeDirect
Worm Phenotype (WP)cytoskeleton organization biogenesis variant0.00641Highly 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)fertile0.0316Moderately InformativeInherited
Fly Phenotype (FP)wild-type0.00008878InformativeDirect
Fly Phenotype (FP)cell cycle defective0.0001299InformativeDirect
Fly Phenotype (FP)male fertile0.000003436Highly 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 structure0.03791Least InformativeInherited
Fly Anatomy (FA)somatic cell0.9456Least InformativeInherited
Fly Anatomy (FA)gonad0.003245Moderately InformativeInherited
Fly Anatomy (FA)somatic precursor cell0.03669Moderately InformativeInherited
Fly Anatomy (FA)stem cell0.1792Moderately InformativeInherited
Fly Anatomy (FA)germline cell0.003891InformativeInherited
Fly Anatomy (FA)germline cyst0.006658InformativeInherited
Fly Anatomy (FA)male organism0.007555InformativeInherited
Fly Anatomy (FA)neuroblast0.03315InformativeInherited
Fly Anatomy (FA)spermatid0.00004287Highly InformativeDirect
Fly Anatomy (FA)type I neuroblast0.00009049Highly InformativeDirect
Fly Anatomy (FA)type II neuroblast0.0003297Highly 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 system0.06164Least InformativeInherited
Xenopus ANatomical entity (XAN)trunk0.09003Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.1139Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.159Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.4843Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.7648Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.0000105Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.008504Moderately InformativeInherited
Xenopus ANatomical entity (XAN)sensory system0.1122Moderately InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system0.322Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus0.7368Moderately InformativeInherited
Xenopus ANatomical entity (XAN)epithelium0.00000003264InformativeDirect
Xenopus ANatomical entity (XAN)dermal system0.00003101InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.0002186InformativeDirect
Xenopus ANatomical entity (XAN)pancreas0.0007508InformativeDirect
Xenopus ANatomical entity (XAN)peripheral nervous system0.06203InformativeInherited
Xenopus ANatomical entity (XAN)spinal cord0.06468InformativeInherited
Xenopus ANatomical entity (XAN)anatomical space0.0846InformativeInherited
Xenopus ANatomical entity (XAN)endoderm0.08821InformativeInherited
Xenopus ANatomical entity (XAN)epithelial cell0.000000000002353Highly InformativeDirect
Xenopus ANatomical entity (XAN)neuron0.000000001982Highly InformativeDirect
Xenopus ANatomical entity (XAN)vegetal hemisphere0.0001814Highly InformativeDirect
Xenopus ANatomical entity (XAN)gustatory system0.0008044Highly InformativeDirect
Xenopus ANatomical entity (XAN)archenteron0.001196Highly InformativeInherited
Xenopus ANatomical entity (XAN)cranial nerve0.003816Highly InformativeInherited
Xenopus ANatomical entity (XAN)intersomitic region0.008642Highly InformativeInherited
Xenopus DEvelopment stage (XDE)post-embryonic stage0.0985Least InformativeInherited
Xenopus DEvelopment stage (XDE)climax stage0.6522Moderately InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 660.0009649InformativeDirect

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 ]