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109  structures 467  species 0  interactions 43213  sequences 3501  architectures

Family: Laminin_G_2 (PF02210)

Summary: Laminin G domain

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 "Laminin". More...

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.

Laminin G domain Provide feedback

This family includes the Thrombospondin N-terminal-like domain, a Laminin G subfamily.

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001791

Laminins are large heterotrimeric glycoproteins involved in basement membrane function [ PUBMED:15037599 ]. The Laminin G or LNS domain (for Laminin-alpha, Neurexin and Sex hormone-binding globulin) is an around 180 amino acid long domain found in a large and diverse set of extracellular proteins [ PUBMED:1975589 , PUBMED:9480764 ]. The laminin globular (G) domain can be found in one to several copies in various laminin family members, including a large number of extracellular proteins. The C terminus of the laminin alpha chain contains a tandem repeat of five laminin G domains, which are critical for heparin-binding and cell attachment activity [ PUBMED:10747011 ]. Laminin alpha4 is distributed in a variety of tissues including peripheral nerves, dorsal root ganglion, skeletal muscle and capillaries; in the neuromuscular junction, it is required for synaptic specialisation [ PUBMED:15823034 ]. The structure of the laminin-G domain has been predicted to resemble that of pentraxin [ PUBMED:9480764 ].

Laminin G domains can vary in their function, and a variety of binding functions have been ascribed to different LamG modules. For example, the laminin alpha1 and alpha2 chains each have five C-teminal laminin G domains, where only domains LG4 and LG5 contain binding sites for heparin, sulphatides and the cell surface receptor dystroglycan [ PUBMED:10747011 ]. Laminin G-containing proteins appear to have a wide variety of roles in cell adhesion, signalling, migration, assembly and differentiation. Proteins with laminin-G domains include:

  • Laminin.
  • Merosin.
  • Agrin.
  • Neurexins.
  • Vitamin K dependent protein S.
  • Sex steroid binding protein SBP/SHBG.
  • Drosophila proteins Slit, Crumbs, Fat.
  • several proteoglycan precursors.

Domain organisation

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

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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
(152)
Full
(43213)
Representative proteomes UniProt
(78497)
RP15
(4840)
RP35
(13736)
RP55
(37633)
RP75
(53378)
Jalview View  View  View  View  View  View  View 
HTML View             
PP/heatmap 1            

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

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

Format an alignment

  Seed
(152)
Full
(43213)
Representative proteomes UniProt
(78497)
RP15
(4840)
RP35
(13736)
RP55
(37633)
RP75
(53378)
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
(152)
Full
(43213)
Representative proteomes UniProt
(78497)
RP15
(4840)
RP35
(13736)
RP55
(37633)
RP75
(53378)
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: Pfam-B_4211 (release 12.0)
Previous IDs: TSPN; TSP_N;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD
Number in seed: 152
Number in full: 43213
Average length of the domain: 129.50 aa
Average identity of full alignment: 21 %
Average coverage of the sequence by the domain: 17.25 %

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 22.9 22.9
Trusted cut-off 22.9 22.9
Noise cut-off 22.8 22.8
Model length: 126
Family (HMM) version: 26
Download: download the raw HMM for this family

Species distribution

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Selections

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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...

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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 Laminin_G_2 domain has been found. There are 109 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.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0B4KGL0 View 3D Structure Click here
A0A0B4KGL0 View 3D Structure Click here
A0A0B4KGL0 View 3D Structure Click here
A0A0B4KGL0 View 3D Structure Click here
A0A0B4KGL0 View 3D Structure Click here
A0A0B4KGL0 View 3D Structure Click here
A0A0G2K8H2 View 3D Structure Click here
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A0A0G2KJI7 View 3D Structure Click here
A0A0R4IBP9 View 3D Structure Click here
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A0A0R4IBP9 View 3D Structure Click here
A0A1B0GTE1 View 3D Structure Click here
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A0A2R8PV37 View 3D Structure Click here
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A0A2R8QNN3 View 3D Structure Click here
A0A2R8QT87 View 3D Structure Click here
A0A2R8RKP6 View 3D Structure Click here
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A0A2R8RKP6 View 3D Structure Click here
A0A2R8RKP6 View 3D Structure Click here
A0A2R8RXU4 View 3D Structure Click here
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A1ZA87 View 3D Structure Click here
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F1RB21 View 3D Structure Click here
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