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.


Ammonium transporter superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Membrane and cell surface proteins and peptides [ 56835] (58)
Fold:   Ammonium transporter [ 111351]
Superfamily:   Ammonium transporter [ 111352]
Families:   Ammonium transporter [ 111353]


Superfamily statistics
Genomes (2,322) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 5,264 32,615 5
Proteins 5,194 32,390 5


Functional annotation
General category Processes_IC
Detailed category Transport

Document:
Function annotation of SCOP domain superfamilies

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0Least InformativeDirect
Mammalian Phenotype (MP)abnormal ion homeostasis0InformativeDirect
Mammalian Phenotype (MP)abnormal mineral level0Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details) 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
Yeast Phenotype (YP)chemical compound accumulation0InformativeDirect

Document: YP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)trunk0Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0Least InformativeDirect
Xenopus DEvelopment stage (XDE)unspecified stage0Moderately InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0.2792Least InformativeInherited
Plant ANatomical entity (PAN)root system0.3034Least InformativeInherited
Plant ANatomical entity (PAN)root epidermis0.000004706InformativeDirect
Plant ANatomical entity (PAN)root tip0.000007032InformativeDirect
Plant ANatomical entity (PAN)root hair cell0.0000005321Highly InformativeDirect

Document: AP annotation of SCOP domains

InterPro annotation
Cross references IPR010256 SSF111352 Protein matches
Abstract

A number of evolutionarily-related proteins have been found to be involved in the transport of ammonium ions across membranes [PubMed8062823, PubMed8621394].

Members of this family include:

  • Saccharomyces cerevisiae ammonium transporters MEP1, MEP2 and MEP3.
  • Arabidopsis thaliana high affinity ammonium transporter (gene AMT1).
  • Corynebacterium glutamicum ammonium and methylammonium transport system.
  • Escherichia coli putative ammonium transporter amtB.
  • Bacillus subtilis nrgA.
  • Mycobacterium tuberculosis hypothetical protein MtCY338.09c.
  • Synechocystis sp. (strain PCC 6803) hypothetical proteins sll0108, sll0537 and sll1017.
  • Methanococcus jannaschii hypothetical proteins MJ0058 and MJ1343.
  • Caenorhabditis elegans hypothetical proteins C05E11.4, F49E11.3 and M195.3.

As expected by their transport function, these proteins are highly hydrophobic and seem to contain from 10 to 12 transmembrane domains.


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 · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · 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 3 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 Ammonium transporter 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 3 hidden Markov models representing the Ammonium transporter 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 · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Internal database links ]