SUPERFAMILY 1.75 HMM library and genome assignments server

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GAT-like domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Spectrin repeat-like [ 46965] (16)
Superfamily:   GAT-like domain [ 89009] (2)
Families:   GAT domain [ 89010] (3)
  Phosphoinositide-binding clathrin adaptor, domain 2 [ 100929] (2)

Superfamily statistics
Genomes (417) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 3,354 2,512 11
Proteins 3,338 2,505 11

 Functional annotation
General category Processes_IC
Detailed category Transport

Document: Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) localization 3.641e-12 Least Informative Direct
Biological Process (BP) single-organism cellular process 7.43e-05 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.5487 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.009715 Least Informative Inherited
Biological Process (BP) cellular localization 1.479e-10 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.002182 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.01243 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.01018 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.1663 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2513 Moderately Informative Inherited
Biological Process (BP) protein transport 9.644e-13 Informative Direct
Biological Process (BP) cellular membrane organization 9.755e-07 Informative Direct
Biological Process (BP) positive regulation of protein metabolic process 0.0001079 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.0001343 Informative Direct
Biological Process (BP) protein localization to organelle 0.8729 Informative Inherited
Biological Process (BP) cytoplasmic transport 1 Informative Inherited
Biological Process (BP) vesicle organization 1.072e-10 Highly Informative Direct
Biological Process (BP) endosomal transport 0.0003852 Highly Informative Direct
Molecular Function (MF) binding 0.0001036 Least Informative Direct
Molecular Function (MF) protein binding 8.419e-08 Moderately Informative Direct
Molecular Function (MF) anion binding 8.288e-05 Moderately Informative Direct
Molecular Function (MF) lipid binding 1.343e-06 Informative Direct
Molecular Function (MF) phosphatidylinositol binding 0.03638 Highly Informative Inherited
Cellular Component (CC) membrane 7.518e-05 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.0001015 Least Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.7966 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.9051 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) endomembrane system 9.576e-05 Moderately Informative Direct
Cellular Component (CC) vesicle 0.0001552 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0.002741 Moderately Informative Inherited
Cellular Component (CC) coated vesicle 4.635e-10 Informative Direct
Cellular Component (CC) endosome 0.0002267 Informative Direct
Cellular Component (CC) synapse 0.0002728 Informative Direct
Cellular Component (CC) coated pit 0 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 5.328e-11 Highly Informative Direct
Cellular Component (CC) trans-Golgi network 7.429e-08 Highly Informative Direct

Document: GO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0.0476Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.1487Least InformativeInherited
Mammalian Phenotype (MP)preweaning lethality0.07005Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood homeostasis0.3582Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal circulating glucose level0.001377InformativeInherited
Mammalian Phenotype (MP)decreased birth weight7.335e-06Highly InformativeDirect
Mammalian Phenotype (MP)hypoglycemia1.108e-05Highly InformativeDirect
Mammalian Phenotype (MP)neonatal lethality0.01115Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)viable0Least InformativeDirect
Fly Phenotype (FP)fertile0Moderately InformativeDirect

Document: FP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant structure DEvelopment stage (PDE)pollen development stage5.109e-05Moderately InformativeDirect
Plant structure DEvelopment stage (PDE)M germinated pollen stage2.393e-05InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport1.655e-09Least InformativeDirect
Biological processProtein transport0Moderately InformativeDirect
Biological processEndocytosis0InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
Cellular componentCoated pit0Highly InformativeDirect
Post-translational modificationPhosphoprotein8.869e-09Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · 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 6 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 GAT-like domain 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 6 hidden Markov models representing the GAT-like domain 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 · Functional annotation · Gene Ontology (high-coverage) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]
Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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© Copyright 2013 The SUPERFAMILY authors and Julian Gough.