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0  structures 42  species 0  interactions 248  sequences 5  architectures

Family: POM121 (PF15229)

Summary: POM121 family

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This is the Wikipedia entry entitled "POM121". More...

POM121 Edit Wikipedia article

POM121 transmembrane nucleoporin
Identifiers
Symbols POM121; P145; POM121A
External IDs MGI2137624 HomoloGene129118 GeneCards: POM121 Gene
RNA expression pattern
PBB GE POM121 212178 s at tn.png
PBB GE POM121 213360 s at tn.png
More reference expression data
Orthologs
Species Human Mouse
Entrez 9883 107939
Ensembl ENSG00000196313 ENSMUSG00000053293
UniProt Q96HA1 Q8K3Z9
RefSeq (mRNA) NM_001257190 NM_148932.2
RefSeq (protein) NP_001244119 NP_683734.2
Location (UCSC) Chr 7:
72.35 – 72.42 Mb
Chr 5:
135.38 – 135.39 Mb
PubMed search [1] [2]

Nuclear envelope pore membrane protein POM 121 is a protein that in humans is encoded by the POM121 gene.[1][2][3] Alternatively spliced variants that encode different protein isoforms have been described but the full-length nature of only one has been determined.[4]

Function[edit]

The nuclear envelope creates distinct nuclear and cytoplasmic compartments in eukaryotic cells. It consists of two concentric membranes perforated by nuclear pores, large protein complexes that form aqueous channels to regulate the flow of macromolecules between the nucleus and the cytoplasm. These complexes are composed of at least 100 different polypeptide subunits, many of which belong to the nucleoporin family. This gene encodes a member of the FG-repeat-containing nucleoporins. The protein encoded by this gene is an integral membrane protein that localizes to the central spoke ring complex and participates in anchoring the nuclear pore complex to the nuclear envelope.[4]

Antibodies against this protein can be used to identify the nuclear envelope in immunofluorescence experiments.[5]

References[edit]

  1. ^ Hallberg E, Wozniak RW, Blobel G (Aug 1993). "An integral membrane protein of the pore membrane domain of the nuclear envelope contains a nucleoporin-like region". J Cell Biol 122 (3): 513–21. doi:10.1083/jcb.122.3.513. PMC 2119659. PMID 8335683. 
  2. ^ Ishikawa K, Nagase T, Suyama M, Miyajima N, Tanaka A, Kotani H, Nomura N, Ohara O (Dec 1998). "Prediction of the coding sequences of unidentified human genes. X. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro". DNA Res 5 (3): 169–76. doi:10.1093/dnares/5.3.169. PMID 9734811. 
  3. ^ Funakoshi T, Maeshima K, Yahata K, Sugano S, Imamoto F, Imamoto N (Oct 2007). "Two distinct human POM121 genes: requirement for the formation of nuclear pore complexes". FEBS Lett 581 (25): 4910–6. doi:10.1016/j.febslet.2007.09.021. PMID 17900573. 
  4. ^ a b "Entrez Gene: POM121 POM121 membrane glycoprotein (homo sapiens)". 
  5. ^ Kihlmark M, Imreh G, Hallberg E (October 2001). "Sequential degradation of proteins from the nuclear envelope during apoptosis". J. Cell. Sci. 114 (Pt 20): 3643–53. PMID 11707516. 

Further reading[edit]

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.

POM121 family Provide feedback

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Literature references

  1. Funakoshi T, Maeshima K, Yahata K, Sugano S, Imamoto F, Imamoto N;, FEBS Lett. 2007;581:4910-4916.: Two distinct human POM121 genes: requirement for the formation of nuclear pore complexes. PUBMED:17900573 EPMC:17900573


External database links

This tab holds annotation information from the InterPro database.

No InterPro data for this Pfam family.

Domain organisation

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Alignments

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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.

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(32)
Full
(248)
Representative proteomes NCBI
(193)
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(25)
RP35
(28)
RP55
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RP75
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  Seed
(32)
Full
(248)
Representative proteomes NCBI
(193)
Meta
(0)
RP15
(25)
RP35
(28)
RP55
(36)
RP75
(92)
Alignment:
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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
(32)
Full
(248)
Representative proteomes NCBI
(193)
Meta
(0)
RP15
(25)
RP35
(28)
RP55
(36)
RP75
(92)
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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:

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Curation and family details

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This family is new in this Pfam release.

Seed source: Jackhmmer:A6NNC1
Previous IDs: none
Type: Family
Author: Eberhardt RY, Coggill P, Hetherington K
Number in seed: 32
Number in full: 248
Average length of the domain: 179.20 aa
Average identity of full alignment: 33 %
Average coverage of the sequence by the domain: 32.00 %

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 27.0 27.0
Trusted cut-off 27.5 27.2
Noise cut-off 26.7 26.8
Model length: 230
Family (HMM) version: 1
Download: download the raw HMM for this family

Species distribution

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