Please note: this site relies heavily on the use of javascript. Without a javascript-enabled browser, this site will not function correctly. Please enable javascript and reload the page, or switch to a different browser.
26  structures 420  species 0  interactions 546  sequences 12  architectures

Family: LAMTOR5 (PF16672)

Summary: Ragulator complex protein LAMTOR5

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

This is the Wikipedia entry entitled "HBXIP". More...

HBXIP Edit Wikipedia article

LAMTOR5
Protein HBXIP PDB 3MS6.png
Available structures
PDBOrtholog search: PDBe RCSB
Identifiers
AliasesLAMTOR5, HBXIP, XIP, late endosomal/lysosomal adaptor, MAPK and MTOR activator 5
External IDsOMIM: 608521 MGI: 1915826 HomoloGene: 4668 GeneCards: LAMTOR5
Gene location (Human)
Chromosome 1 (human)
Chr.Chromosome 1 (human)[1]
Chromosome 1 (human)
Genomic location for LAMTOR5
Genomic location for LAMTOR5
Band1p13.3Start110,401,249 bp[1]
End110,407,942 bp[1]
RNA expression pattern
PBB GE HBXIP 202299 s at fs.png

PBB GE HBXIP 202300 at fs.png
More reference expression data
Orthologs
SpeciesHumanMouse
Entrez
Ensembl
UniProt
RefSeq (mRNA)

NM_006402

NM_026774

RefSeq (protein)

NP_006393
NP_006393.2

NP_081050

Location (UCSC)Chr 1: 110.4 – 110.41 MbChr 3: 107.28 – 107.28 Mb
PubMed search[3][4]
Wikidata
View/Edit HumanView/Edit Mouse

Hepatitis B virus X-interacting protein is a protein that in humans is encoded by the HBXIP gene.[5][6]

This gene encodes a protein that specifically complexes with the C-terminus of hepatitis B virus X protein (HBx). The function of this protein is to negatively regulate HBx activity and thus to alter the replication life cycle of the virus.[6]

Interactions

HBXIP has been shown to interact with NCOA6.[7]

References

  1. ^ a b c GRCh38: Ensembl release 89: ENSG00000134248 - Ensembl, May 2017
  2. ^ a b c GRCm38: Ensembl release 89: ENSMUSG00000087260 - Ensembl, May 2017
  3. ^ "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
  4. ^ "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
  5. ^ Melegari M, Scaglioni PP, Wands JR (March 1998). "Cloning and characterization of a novel hepatitis B virus x binding protein that inhibits viral replication". Journal of Virology. 72 (3): 1737–43. PMC 109461. PMID 9499022.
  6. ^ a b "Entrez Gene: HBXIP hepatitis B virus x interacting protein".
  7. ^ Kong HJ, Park MJ, Hong S, Yu HJ, Lee YC, Choi YH, Cheong J (November 2003). "Hepatitis B virus X protein regulates transactivation activity and protein stability of the cancer-amplified transcription coactivator ASC-2". Hepatology. 38 (5): 1258–66. doi:10.1053/jhep.2003.50451. PMID 14578865.

Further reading

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

Ragulator complex protein LAMTOR5 Provide feedback

No Pfam abstract.

Literature references

  1. Garcia-Saez I, Lacroix FB, Blot D, Gabel F, Skoufias DA;, J Mol Biol. 2011;405:331-340.: Structural characterization of HBXIP: the protein that interacts with the anti-apoptotic protein survivin and the oncogenic viral protein HBx. PUBMED:21059355 EPMC:21059355


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR024135

Hepatitis B X-interacting protein (HBXIP, also known as LAMTOR5) was originally recognised for its association with the X protein of hepatitis B virus (HBV) and ability to down-regulate HBV replication [ PUBMED:9499022 ]. When complexed to the anti-apoptotic protein survivin, HBXIP interferes with apoptosome assembly, preventing recruitment of pro-caspase-9 to oligomerised APAF1, thereby selectively suppressing apoptosis initiated via the mitochondrial/cytochrome c pathway [ PUBMED:12773388 ]. HBXIP is one of the Ragulator components that are required for mTORC1 activation by amino acids [ PUBMED:22980980 ]. It is also part of the AA (amino acid) sensing machinery in human CD4+ T cells [ PUBMED:26084023 ].

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...

Loading domain graphics...

Pfam Clan

This family is a member of clan PF (CL0431), which has the following description:

The families here all show the Profilin-like fold, and represent both the Profilin (actin-binding protein) (55770) and the Roadblock/LC7 domain-type (103196) superfamilies.

The clan contains the following 21 members:

Clat_adaptor_s FNIP_N Fuz_longin_1 Fuz_longin_2 Fuz_longin_3 Intu_longin_1 Intu_longin_2 Intu_longin_3 LAMTOR5 Longin Longin_2 MAPKK1_Int Nyv1_N Profilin Robl_LC7 Sedlin_N SLM4 SRP-alpha_N SRX Sybindin uDENN

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 (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

View options

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
(29)
Full
(546)
Representative proteomes UniProt
(953)
RP15
(118)
RP35
(233)
RP55
(453)
RP75
(575)
Jalview View  View  View  View  View  View  View 
HTML View  View           
PP/heatmap 1 View           

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

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

Format an alignment

  Seed
(29)
Full
(546)
Representative proteomes UniProt
(953)
RP15
(118)
RP35
(233)
RP55
(453)
RP75
(575)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

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
(29)
Full
(546)
Representative proteomes UniProt
(953)
RP15
(118)
RP35
(233)
RP55
(453)
RP75
(575)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped 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.

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: PDB:3ms6
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Eberhardt R
Number in seed: 29
Number in full: 546
Average length of the domain: 82.50 aa
Average identity of full alignment: 43 %
Average coverage of the sequence by the domain: 71.19 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 27.0 27.0
Trusted cut-off 27.0 27.0
Noise cut-off 26.9 26.9
Model length: 88
Family (HMM) version: 7
Download: download the raw HMM for this family

Species distribution

Sunburst controls

Hide

Weight segments by...


Change the size of the sunburst

Small
Large

Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

Selections

Align selected sequences to HMM

Generate a FASTA-format file

Clear selection

This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

Loading sunburst data...

Tree controls

Hide

The tree shows the occurrence of this domain across different species. More...

Loading...

Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.

Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the LAMTOR5 domain has been found. There are 26 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

Loading structure mapping...

AlphaFold Structure Predictions