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0  structures 3156  species 0  interactions 5115  sequences 22  architectures

Family: Nramp (PF01566)

Summary: Natural resistance-associated macrophage protein

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Natural resistance-associated macrophage protein Provide feedback

The natural resistance-associated macrophage protein (NRAMP) family consists of Nramp1, Nramp2, and yeast proteins Smf1 and Smf2. The NRAMP family is a novel family of functional related proteins defined by a conserved hydrophobic core of ten transmembrane domains [5]. This family of membrane proteins are divalent cation transporters. Nramp1 is an integral membrane protein expressed exclusively in cells of the immune system and is recruited to the membrane of a phagosome upon phagocytosis [1]. By controlling divalent cation concentrations Nramp1 may regulate the interphagosomal replication of bacteria [1]. Mutations in Nramp1 may genetically predispose an individual to susceptibility to diseases including leprosy and tuberculosis conversely this might however provide protection form rheumatoid arthritis [1]. Nramp2 is a multiple divalent cation transporter for Fe2+, Mn2+ and Zn2+ amongst others it is expressed at high levels in the intestine; and is major transferrin-independent iron uptake system in mammals [1]. The yeast proteins Smf1 and Smf2 may also transport divalent cations [3].

Literature references

  1. Govoni G, Gros P; , Inflamm Res 1998;47:277-284.: Macrophage NRAMP1 and its role in resistance to microbial infections. PUBMED:9719491 EPMC:9719491

  2. Agranoff DD, Krishna S , Mol Microbiol 1998;28:403-412.: Metal ion homeostasis and intracellular parasitism. PUBMED:9632246 EPMC:9632246

  3. Pinner E, Gruenheid S, Raymond M, Gros P; , J Biol Chem 1997;272:28933-28938.: Functional complementation of the yeast divalent cation transporter family SMF by NRAMP2, a member of the mammalian natural resistance- associated macrophage protein family. PUBMED:9360964 EPMC:9360964

  4. Cellier M, Belouchi A, Gros P; , Trends Genet 1996;12:201-204.: Resistance to intracellular infections: comparative genomic analysis of Nramp. PUBMED:8928221 EPMC:8928221

  5. Cellier M, Prive G, Belouchi A, Kwan T, Rodrigues V, Chia W, Gros P; , Proc Natl Acad Sci U S A 1995;92:10089-10093.: Nramp defines a family of membrane proteins. PUBMED:7479731 EPMC:7479731


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001046

The natural resistance-associated macrophage protein (NRAMP) family consists of Nramp1, Nramp2, and yeast proteins Smf1 and Smf2. The NRAMP family is a novel family of functionally related proteins defined by a conserved hydrophobic core of ten transmembrane domains [PUBMED:7479731]. Nramp1 is an integral membrane protein expressed exclusively in cells of the immune system and is recruited to the membrane of a phagosome upon phagocytosis. Nramp2 is a multiple divalent cation transporter for Fe2+, Mn2+ and Zn2+ amongst others. It is expressed at high levels in the intestine; and is major transferrin-independent iron uptake system in mammals [PUBMED:9719491]. The yeast proteins Smf1 and Smf2 may also transport divalent cations [PUBMED:9632246].

The natural resistance of mice to infection with intracellular parasites is controlled by the Bcg locus, which modulates the cytostatic/cytocidal activity of phagocytes. Nramp1, the gene responsible, is expressed exclusively in macrophages and poly-morphonuclear leukocytes, and encodes a polypeptide (natural resistance-associated macrophage protein) with features typical of integral membrane proteins. Other transporter proteins from a variety of sources also belong to this family.

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Pfam Clan

This family is a member of clan APC (CL0062), which has the following description:

This large superfamily contains a variety of transporters including amino acid permeases that according to TCDB belong to the APC (Amino acid-Polyamine-organoCation) superfamily.

The clan contains the following 18 members:

AA_permease AA_permease_2 AA_permease_C Aa_trans BenE Branch_AA_trans CstA HCO3_cotransp K_trans Na_Ala_symp Nramp Spore_permease SSF Sulfate_tra_GLY Sulfate_transp Transp_cyt_pur Trp_Tyr_perm Xan_ur_permease

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the NCBI sequence database, and our metagenomics sequence database. More...

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We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(126)
Full
(5115)
Representative proteomes NCBI
(3862)
Meta
(534)
RP15
(404)
RP35
(819)
RP55
(1134)
RP75
(1386)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(126)
Full
(5115)
Representative proteomes NCBI
(3862)
Meta
(534)
RP15
(404)
RP35
(819)
RP55
(1134)
RP75
(1386)
Alignment:
Format:
Order:
Sequence:
Gaps:
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Download options

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(126)
Full
(5115)
Representative proteomes NCBI
(3862)
Meta
(534)
RP15
(404)
RP35
(819)
RP55
(1134)
RP75
(1386)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

External links

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

Pfam alignments:

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: Pfam-B_624 (release 4.0)
Previous IDs: none
Type: Family
Author: Bashton M, Bateman A
Number in seed: 126
Number in full: 5115
Average length of the domain: 343.50 aa
Average identity of full alignment: 27 %
Average coverage of the sequence by the domain: 78.31 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 29.8 29.8
Trusted cut-off 29.8 29.8
Noise cut-off 29.7 29.7
Model length: 358
Family (HMM) version: 13
Download: download the raw HMM for this family

Species distribution

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