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170  structures 3416  species 0  interactions 21084  sequences 718  architectures

Family: Glyco_hydro_16 (PF00722)

Summary: Glycosyl hydrolases family 16

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 16". More...

Glycoside hydrolase family 16 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.

Glycosyl hydrolases family 16 Provide feedback

No Pfam abstract.

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR000757

The glycosyl hydrolases family 16 (GH16) [ PUBMED:1747104 ] contains functionally heterogeneous members, including lichenase ( EC ); xyloglucan xyloglucosyltransferase ( EC ); agarase ( EC ); kappa-carrageenase ( EC ); endo-beta-1,3-glucanase ( EC ); endo-beta-1,3-1,4-glucanase ( EC ); endo-beta-galactosidase ( EC ). These enzymes share a common ancestor and have diverged significantly in their primary sequence.

The GH16 catalytic domain has a classical sandwich-like beta-jelly roll fold, formed by two main, closely packed and curved antiparallel beta sheets, creating a deep channel harboring the catalytic machinery. Even though the GH16 domains have now diverged significantly in their primary sequences, they all feature a common catalytic motif, E-[ILV]-D-[IVAF]-[VILMF](0,1)-E. The two glutamic acid residues in the conserved motif are the nucleophile and the general base involved in catalysis, whereas the aspartic acid residue is important in maintaining the relative position of these catalytic amino acids [ PUBMED:12970344 , PUBMED:11435116 ].

Two closely clustered conserved glutamates have been shown [ PUBMED:8182059 ] to be involved in the catalytic activity of Bacillus licheniformis lichenase. This domain contains these residues.

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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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
(79)
Full
(21084)
Representative proteomes UniProt
(48731)
RP15
(2567)
RP35
(9559)
RP55
(17581)
RP75
(26816)
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
(79)
Full
(21084)
Representative proteomes UniProt
(48731)
RP15
(2567)
RP35
(9559)
RP55
(17581)
RP75
(26816)
Alignment:
Format:
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Sequence:
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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
(79)
Full
(21084)
Representative proteomes UniProt
(48731)
RP15
(2567)
RP35
(9559)
RP55
(17581)
RP75
(26816)
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_759 (release 2.1)
Previous IDs: glycosyl_hydro9;
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A
Number in seed: 79
Number in full: 21084
Average length of the domain: 178.60 aa
Average identity of full alignment: 19 %
Average coverage of the sequence by the domain: 46.68 %

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 20.7 20.7
Trusted cut-off 20.7 20.7
Noise cut-off 20.6 20.6
Model length: 178
Family (HMM) version: 23
Download: download the raw HMM for this family

Species distribution

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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_16 domain has been found. There are 170 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
A0A096T7G6 View 3D Structure Click here
A0A0N7KPI2 View 3D Structure Click here
A0A0P0VHJ0 View 3D Structure Click here
A0A0P0VHK3 View 3D Structure Click here
A0A0P0VHK4 View 3D Structure Click here
A0A0P0WUV5 View 3D Structure Click here
A0A0P0WW62 View 3D Structure Click here
A0A0P0XDI5 View 3D Structure Click here
A0A0P0XEA0 View 3D Structure Click here
A0A0P0XEA0 View 3D Structure Click here
A0A0P0XR14 View 3D Structure Click here
A0A0P0XWT6 View 3D Structure Click here
A0A0P0Y0M3 View 3D Structure Click here
A0A0R0EKA9 View 3D Structure Click here
A0A0R0EV19 View 3D Structure Click here
A0A0R0F2H9 View 3D Structure Click here
A0A0R0F8D6 View 3D Structure Click here
A0A0R0FA59 View 3D Structure Click here
A0A0R0FLF0 View 3D Structure Click here
A0A0R0FQV9 View 3D Structure Click here
A0A0R0FRF4 View 3D Structure Click here
A0A0R0GK00 View 3D Structure Click here
A0A0R0GKM0 View 3D Structure Click here
A0A0R0GKR5 View 3D Structure Click here
A0A0R0GL47 View 3D Structure Click here
A0A0R0GVM5 View 3D Structure Click here
A0A0R0GWA8 View 3D Structure Click here
A0A0R0HAK1 View 3D Structure Click here
A0A0R0I8A1 View 3D Structure Click here
A0A0R0J6V4 View 3D Structure Click here
A0A0R0JVY2 View 3D Structure Click here
A0A0R0KFJ7 View 3D Structure Click here
A0A0R0KYU7 View 3D Structure Click here
A0A0R0LB87 View 3D Structure Click here
A0A0R0LDD3 View 3D Structure Click here
A0A0R4J5H9 View 3D Structure Click here
A0A1D6DXK9 View 3D Structure Click here
A0A1D6E0F5 View 3D Structure Click here
A0A1D6E0F6 View 3D Structure Click here
A0A1D6E0F8 View 3D Structure Click here
A0A1D6GUH2 View 3D Structure Click here
A0A1D6GUH3 View 3D Structure Click here
A0A1D6H4U7 View 3D Structure Click here
A0A1D6IZ08 View 3D Structure Click here
A0A1D6K9K3 View 3D Structure Click here
A0A1D6PF72 View 3D Structure Click here
A0A1D6Q7L1 View 3D Structure Click here
A0A1D6Q7L1 View 3D Structure Click here
A3AX59 View 3D Structure Click here
B4F9C6 View 3D Structure Click here
B4FAV6 View 3D Structure Click here
B4FHS5 View 3D Structure Click here
B4FSS4 View 3D Structure Click here
B4FTH5 View 3D Structure Click here
B4FWW4 View 3D Structure Click here
B4G1Z2 View 3D Structure Click here
B6T2W7 View 3D Structure Click here
B6TNS1 View 3D Structure Click here
B7E3J2 View 3D Structure Click here
C0HJ15 View 3D Structure Click here
C0P6G9 View 3D Structure Click here
C0PCM5 View 3D Structure Click here
C6T7L6 View 3D Structure Click here
C6TH50 View 3D Structure Click here
C6TJL7 View 3D Structure Click here
C6TMD1 View 3D Structure Click here
C6TMX0 View 3D Structure Click here
I1J4Q1 View 3D Structure Click here
I1JJ51 View 3D Structure Click here
I1JPQ7 View 3D Structure Click here
I1K2H6 View 3D Structure Click here
I1K3C9 View 3D Structure Click here
I1K447 View 3D Structure Click here
I1KKZ1 View 3D Structure Click here
I1KPZ2 View 3D Structure Click here
I1KRR6 View 3D Structure Click here
I1KSJ7 View 3D Structure Click here
I1KZ59 View 3D Structure Click here
I1L4L2 View 3D Structure Click here
I1L513 View 3D Structure Click here
I1L8W9 View 3D Structure Click here
I1LEB2 View 3D Structure Click here
I1LH32 View 3D Structure Click here
I1LR80 View 3D Structure Click here
I1LTN0 View 3D Structure Click here
I1LU96 View 3D Structure Click here
I1LVS8 View 3D Structure Click here
I1LZ59 View 3D Structure Click here
I1M4H0 View 3D Structure Click here
I1MH66 View 3D Structure Click here
I1MSS9 View 3D Structure Click here
I1MST0 View 3D Structure Click here
I1N0W4 View 3D Structure Click here
I1N264 View 3D Structure Click here
I1N842 View 3D Structure Click here
I1NAB6 View 3D Structure Click here
I1ND56 View 3D Structure Click here
I1NG54 View 3D Structure Click here
I1NGA4 View 3D Structure Click here
K7K2M4 View 3D Structure Click here
K7K3V5 View 3D Structure Click here
K7KC90 View 3D Structure Click here
K7LA03 View 3D Structure Click here
K7LA03 View 3D Structure Click here
K7LAP3 View 3D Structure Click here
K7LAP3 View 3D Structure Click here
K7LV85 View 3D Structure Click here
K7LWV9 View 3D Structure Click here
K7MLV8 View 3D Structure Click here
K7MRR9 View 3D Structure Click here
K7MRZ1 View 3D Structure Click here
K7MXT2 View 3D Structure Click here
K7MZV2 View 3D Structure Click here
K7N0R5 View 3D Structure Click here
K7N1Y7 View 3D Structure Click here
K7TQ85 View 3D Structure Click here
K7TVN2 View 3D Structure Click here
K7TW38 View 3D Structure Click here
K7U6H7 View 3D Structure Click here
K7U9U0 View 3D Structure Click here
K7UG65 View 3D Structure Click here
K7USG7 View 3D Structure Click here
K7V8Z6 View 3D Structure Click here
K7VQE7 View 3D Structure Click here
K7W8V9 View 3D Structure Click here
O07242 View 3D Structure Click here
O80803 View 3D Structure Click here
P24806 View 3D Structure Click here
P32623 View 3D Structure Click here
P35694 View 3D Structure Click here
P53301 View 3D Structure Click here
P93046 View 3D Structure Click here
Q05790 View 3D Structure Click here
Q0D9V3 View 3D Structure Click here
Q0JAD6 View 3D Structure Click here
Q10PC7 View 3D Structure Click here
Q10SM5 View 3D Structure Click here
Q10SX3 View 3D Structure Click here
Q2R336 View 3D Structure Click here
Q38857 View 3D Structure Click here
Q38907 View 3D Structure Click here
Q38908 View 3D Structure Click here
Q38909 View 3D Structure Click here
Q38910 View 3D Structure Click here
Q38911 View 3D Structure Click here
Q39099 View 3D Structure Click here
Q39857 View 3D Structure Click here
Q54CM9 View 3D Structure Click here
Q54CN0 View 3D Structure Click here
Q54VL7 View 3D Structure Click here
Q5AFA2 View 3D Structure Click here
Q5AJC0 View 3D Structure Click here
Q5AK54 View 3D Structure Click here
Q5Z6G7 View 3D Structure Click here
Q5Z6H0 View 3D Structure Click here
Q5Z6H3 View 3D Structure Click here
Q6H490 View 3D Structure Click here
Q6K9X1 View 3D Structure Click here
Q6YUP5 View 3D Structure Click here
Q6Z2L4 View 3D Structure Click here
Q76BW5 View 3D Structure Click here
Q7XBU8 View 3D Structure Click here
Q7XHY4 View 3D Structure Click here
Q7XNY6 View 3D Structure Click here
Q7XTP9 View 3D Structure Click here
Q84T83 View 3D Structure Click here
Q8GVR3 View 3D Structure Click here
Q8L7H3 View 3D Structure Click here
Q8L9A9 View 3D Structure Click here
Q8LC45 View 3D Structure Click here
Q8LDS2 View 3D Structure Click here
Q8LDW9 View 3D Structure Click here
Q8LER3 View 3D Structure Click here
Q8LF99 View 3D Structure Click here
Q8LG58 View 3D Structure Click here
Q8S902 View 3D Structure Click here
Q9FI31 View 3D Structure Click here
Q9FKL8 View 3D Structure Click here
Q9FKL9 View 3D Structure Click here
Q9LJR7 View 3D Structure Click here
Q9M0D1 View 3D Structure Click here
Q9M0D2 View 3D Structure Click here
Q9NHA8 View 3D Structure Click here
Q9NHB0 View 3D Structure Click here
Q9SJL9 View 3D Structure Click here
Q9SMP1 View 3D Structure Click here
Q9SV60 View 3D Structure Click here
Q9SV61 View 3D Structure Click here
Q9SVV2 View 3D Structure Click here
Q9USW3 View 3D Structure Click here
Q9VVR4 View 3D Structure Click here
Q9XIW1 View 3D Structure Click here
Q9ZSU4 View 3D Structure Click here
Q9ZV40 View 3D Structure Click here
Q9ZVK1 View 3D Structure Click here