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31  structures 404  species 0  interactions 2307  sequences 44  architectures

Family: Glyco_hydro_100 (PF12899)

Summary: Alkaline and neutral invertase

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 "Glycoside hydrolase family 100". More...

Glycoside hydrolase family 100 Edit Wikipedia article

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.

Alkaline and neutral invertase Provide feedback

This is a family of bacterial and plant alkaline and neutral invertases, EC:3.2.1.26, previously known as Invertase_neut PF04853.

Literature references

  1. Lee HS, Sturm A; , Plant Physiol 1996;112:1513-1522.: Purification and characterization of neutral and alkaline invertase from carrot. PUBMED:8972597 EPMC:8972597

  2. Sturm A;, Plant Physiol. 1999;121:1-8.: Invertases. Primary structures, functions, and roles in plant development and sucrose partitioning. PUBMED:10482654 EPMC:10482654


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR024746

O-Glycosyl hydrolases ( EC ) are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [ PUBMED:7624375 , PUBMED:8535779 ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) website.

Glycosyl hydrolase family 100 includes enzymes with invertase activity [ PUBMED:8972597 , PUBMED:10482654 ].

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 6_Hairpin (CL0059), which has the following description:

This Clan includes CAZy clans GH-L, GH-M and GH-G. The members of this clan share a common structure composed of 6 helical hairpins. Most members of this superfamily are glycosyl hydrolase enzymes.

The clan contains the following 30 members:

Bac_rhamnosid6H C5-epim_C Cobalamin_bind DUF608 GDE_C GlcNAc_2-epim Glyco_hydro81C Glyco_hydro_100 Glyco_hydro_125 Glyco_hydro_127 Glyco_hydro_15 Glyco_hydro_36 Glyco_hydro_47 Glyco_hydro_48 Glyco_hydro_63 Glyco_hydro_65m Glyco_hydro_76 Glyco_hydro_8 Glyco_hydro_88 Glyco_hydro_9 Glycoamylase LANC_like Ldi Pec_lyase Prenyltrans SQHop_cyclase_C SQHop_cyclase_N TED_complement Terpene_synth Trehalase

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
(40)
Full
(2307)
Representative proteomes UniProt
(4388)
RP15
(299)
RP35
(1224)
RP55
(2147)
RP75
(2925)
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
(40)
Full
(2307)
Representative proteomes UniProt
(4388)
RP15
(299)
RP35
(1224)
RP55
(2147)
RP75
(2925)
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
(40)
Full
(2307)
Representative proteomes UniProt
(4388)
RP15
(299)
RP35
(1224)
RP55
(2147)
RP75
(2925)
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: manual
Previous IDs: none
Type: Repeat
Sequence Ontology: SO:0001068
Author: Coggill P
Number in seed: 40
Number in full: 2307
Average length of the domain: 345.10 aa
Average identity of full alignment: 55 %
Average coverage of the sequence by the domain: 70.78 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild --amino -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 23.6 23.6
Trusted cut-off 23.6 23.6
Noise cut-off 23.5 23.5
Model length: 435
Family (HMM) version: 10
Download: download the raw HMM for this family

Species distribution

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

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 Glyco_hydro_100 domain has been found. There are 31 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
A0A096RVL5 View 3D Structure Click here
A0A1D6EK50 View 3D Structure Click here
A0A1D6GZA1 View 3D Structure Click here
A0A1D6K0W9 View 3D Structure Click here
A0A1D6MSG6 View 3D Structure Click here
A0A1D6Q2Z7 View 3D Structure Click here
B4FS06 View 3D Structure Click here
B6SW95 View 3D Structure Click here
B8A2U9 View 3D Structure Click here
B9DFA8 View 3D Structure Click here
C0P5I5 View 3D Structure Click here
C0PG72 View 3D Structure Click here
C7IZ70 View 3D Structure Click here
F4I2X9 View 3D Structure Click here
I1K4T0 View 3D Structure Click here
I1KMM2 View 3D Structure Click here
I1KTC2 View 3D Structure Click here
I1LB29 View 3D Structure Click here
I1LD52 View 3D Structure Click here
I1MRV0 View 3D Structure Click here
I1NEX3 View 3D Structure Click here
I1NHC6 View 3D Structure Click here
K7KGJ9 View 3D Structure Click here
K7KHF4 View 3D Structure Click here
K7KSB5 View 3D Structure Click here
K7LCM5 View 3D Structure Click here
K7LSN0 View 3D Structure Click here
K7MZT1 View 3D Structure Click here
Q0JD43 View 3D Structure Click here
Q10MC0 View 3D Structure Click here
Q4JF04 View 3D Structure Click here
Q53PH5 View 3D Structure Click here
Q5ZA22 View 3D Structure Click here
Q67XD9 View 3D Structure Click here
Q69T31 View 3D Structure Click here
Q6H6N5 View 3D Structure Click here
Q84JL5 View 3D Structure Click here
Q9C560 View 3D Structure Click here
Q9FK88 View 3D Structure Click here
Q9FXA8 View 3D Structure Click here