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216  structures 1473  species 0  interactions 13316  sequences 256  architectures

Family: Dynamin_M (PF01031)

Summary: Dynamin central region

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 "Dynamin". 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.

Dynamin central region Provide feedback

This is the stalk region which lies between the GTPase domain, see PF00350 and the pleckstrin homology (PH) domain, see PF00169. This region dimerises in a cross-like fashion forming a dynamin dimer in which the two G-domains are oriented in opposite directions [1].

Literature references

  1. Ferguson SM, De Camilli P;, Nat Rev Mol Cell Biol. 2012;13:75-88.: Dynamin, a membrane-remodelling GTPase. PUBMED:22233676 EPMC:22233676


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR000375

Dynamin is a microtubule-associated force-producing protein of 100kDa which is involved in membrane remodelling and is critical for endocytic membrane fission. At the N terminus of dynamin is a GTPase domain (see INTERPRO ), and at the C terminus is a PH domain (see INTERPRO ). This entry represents the stalk (or middle) region which lies between these two domains, and dimerises in a cross-like fashion forming a dynamin dimer in which the two G-domains are oriented in opposite directions [ PUBMED:22233676 ]. This domain is found in dynamin and related proteins.

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
(191)
Full
(13316)
Representative proteomes UniProt
(22872)
RP15
(1798)
RP35
(5667)
RP55
(10492)
RP75
(14531)
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
(191)
Full
(13316)
Representative proteomes UniProt
(22872)
RP15
(1798)
RP35
(5667)
RP55
(10492)
RP75
(14531)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(191)
Full
(13316)
Representative proteomes UniProt
(22872)
RP15
(1798)
RP35
(5667)
RP55
(10492)
RP75
(14531)
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_220 (release 3.0)
Previous IDs: dynamin_2;
Type: Family
Sequence Ontology: SO:0100021
Author: Finn RD , Bateman A
Number in seed: 191
Number in full: 13316
Average length of the domain: 249.50 aa
Average identity of full alignment: 24 %
Average coverage of the sequence by the domain: 35.83 %

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 28.5 28.5
Trusted cut-off 28.5 28.5
Noise cut-off 28.4 28.4
Model length: 287
Family (HMM) version: 22
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 Dynamin_M domain has been found. There are 216 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
A0A0G2KXI9 View 3D Structure Click here
A0A0G2L559 View 3D Structure Click here
A0A0P0W699 View 3D Structure Click here
A0A0P0W9A2 View 3D Structure Click here
A0A0R0FD34 View 3D Structure Click here
A0A0R0FKB4 View 3D Structure Click here
A0A0R0H0V0 View 3D Structure Click here
A0A0R0IKS3 View 3D Structure Click here
A0A0R4IBZ4 View 3D Structure Click here
A0A0R4IIR1 View 3D Structure Click here
A0A1D6ECY4 View 3D Structure Click here
A0A1D6ECY4 View 3D Structure Click here
A0A1D6ELQ4 View 3D Structure Click here
A0A1D6FJS7 View 3D Structure Click here
A0A1D6G5W0 View 3D Structure Click here
A0A1D6HJQ5 View 3D Structure Click here
A0A1D6JWT4 View 3D Structure Click here
A0A1D6JWT6 View 3D Structure Click here
A0A1D6K8W1 View 3D Structure Click here
A0A1D6KPH4 View 3D Structure Click here
A0A1D6MC12 View 3D Structure Click here
A0A1D6N309 View 3D Structure Click here
A0A1D6NRA8 View 3D Structure Click here
A0A1D6Q9Y4 View 3D Structure Click here
A0A1D8PKC9 View 3D Structure Click here
A0A1D8PN45 View 3D Structure Click here
A4I4S9 View 3D Structure Click here
B6SKP8 View 3D Structure Click here
C0HFG9 View 3D Structure Click here
C0PHK6 View 3D Structure Click here
E7FC95 View 3D Structure Click here
F1QXF9 View 3D Structure Click here
F1R785 View 3D Structure Click here
F6NHV1 View 3D Structure Click here
F6P2T1 View 3D Structure Click here
F8W429 View 3D Structure Click here
I1JAE5 View 3D Structure Click here
I1JDI1 View 3D Structure Click here
I1JMI7 View 3D Structure Click here
I1JW11 View 3D Structure Click here
I1K5J8 View 3D Structure Click here
I1K693 View 3D Structure Click here
I1KHV2 View 3D Structure Click here
I1KJE0 View 3D Structure Click here
I1KNS5 View 3D Structure Click here
I1KQC2 View 3D Structure Click here
I1KQX5 View 3D Structure Click here
I1KYV5 View 3D Structure Click here
I1KZR0 View 3D Structure Click here
I1LG73 View 3D Structure Click here
I1LVI3 View 3D Structure Click here
I1M2M2 View 3D Structure Click here
I1ME12 View 3D Structure Click here
I1MQT0 View 3D Structure Click here
K7KQK4 View 3D Structure Click here
K7L2A6 View 3D Structure Click here
K7L2I2 View 3D Structure Click here
K7M173 View 3D Structure Click here
K7MAE3 View 3D Structure Click here
K7MD27 View 3D Structure Click here
O00429 View 3D Structure Click here
O35303 View 3D Structure Click here
P18588 View 3D Structure Click here
P18589 View 3D Structure Click here
P18590 View 3D Structure Click here
P20591 View 3D Structure Click here
P20592 View 3D Structure Click here
P21575 View 3D Structure Click here
P21576 View 3D Structure Click here
P27619 View 3D Structure Click here
P39052 View 3D Structure Click here
P39053 View 3D Structure Click here
P39054 View 3D Structure Click here
P39055 View 3D Structure Click here
P42697 View 3D Structure Click here
P50570 View 3D Structure Click here
P54861 View 3D Structure Click here
P87320 View 3D Structure Click here
Q05193 View 3D Structure Click here
Q08877 View 3D Structure Click here
Q09748 View 3D Structure Click here
Q0DG31 View 3D Structure Click here
Q0DXR0 View 3D Structure Click here
Q0J5L5 View 3D Structure Click here
Q10NS9 View 3D Structure Click here
Q39821 View 3D Structure Click here
Q39828 View 3D Structure Click here
Q3UD61 View 3D Structure Click here
Q4CPW0 View 3D Structure Click here
Q4E689 View 3D Structure Click here
Q5JJJ5 View 3D Structure Click here
Q5RHR9 View 3D Structure Click here
Q650Z3 View 3D Structure Click here
Q654U5 View 3D Structure Click here
Q6DKF0 View 3D Structure Click here
Q7SXN5 View 3D Structure Click here
Q7XBZ9 View 3D Structure Click here
Q800G5 View 3D Structure Click here
Q800G8 View 3D Structure Click here
Q84XF3 View 3D Structure Click here
Q8BZ98 View 3D Structure Click here
Q8IHR4 View 3D Structure Click here
Q8IJ32 View 3D Structure Click here
Q8JH68 View 3D Structure Click here
Q8K1M6 View 3D Structure Click here
Q8LF21 View 3D Structure Click here
Q8LFT2 View 3D Structure Click here
Q8S3C9 View 3D Structure Click here
Q8S944 View 3D Structure Click here
Q8W315 View 3D Structure Click here
Q8WQC9 View 3D Structure Click here
Q94464 View 3D Structure Click here
Q9FNX5 View 3D Structure Click here
Q9LQ55 View 3D Structure Click here
Q9SE83 View 3D Structure Click here
Q9U1M9 View 3D Structure Click here
Q9UQ16 View 3D Structure Click here
Q9URZ5 View 3D Structure Click here
Q9VQE0 View 3D Structure Click here
Q9WVP9 View 3D Structure Click here
Q9ZP55 View 3D Structure Click here
Q9ZP56 View 3D Structure Click here