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959  structures 5397  species 0  interactions 20382  sequences 57  architectures

Family: MR_MLE_N (PF02746)

Summary: Mandelate racemase / muconate lactonizing enzyme, N-terminal domain

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The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

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.

Mandelate racemase / muconate lactonizing enzyme, N-terminal domain Provide feedback

SCOP reports fold similarity with enolase N-terminal domain.

Literature references

  1. Goldman A, Ollis DL, Steitz TA; , J Mol Biol 1987;194:143-153.: Crystal structure of muconate lactonizing enzyme at 3 A resolution. PUBMED:3612800 EPMC:3612800


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR013341

This entry represents a domain found towards the N-terminal region of mandelate racemase and muconate lactonizing enzyme. These enzymes share a bidomain structure containing a capping domain and a C-terminal barrel domain. The N-terminal domain forms part of the capping domain [ PUBMED:15581566 ].

This domain is also found in a variety of other enzymes, including D-galactonate dehydratase and D-mannonate dehydratase.

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 Enolase_N (CL0227), which has the following description:

This domain is found at the N-terminus of the catalytic Tim barrel-like domain in enolase and other enzymes.

The clan contains the following 4 members:

Enolase_like_N Enolase_N MAAL_N MR_MLE_N

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
(9)
Full
(20382)
Representative proteomes UniProt
(103029)
RP15
(1767)
RP35
(8660)
RP55
(20675)
RP75
(38104)
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
(9)
Full
(20382)
Representative proteomes UniProt
(103029)
RP15
(1767)
RP35
(8660)
RP55
(20675)
RP75
(38104)
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
(9)
Full
(20382)
Representative proteomes UniProt
(103029)
RP15
(1767)
RP35
(8660)
RP55
(20675)
RP75
(38104)
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: Prosite
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Bateman A , Griffiths-Jones SR
Number in seed: 9
Number in full: 20382
Average length of the domain: 111.80 aa
Average identity of full alignment: 24 %
Average coverage of the sequence by the domain: 28.78 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.0 22.0
Trusted cut-off 22.0 22.0
Noise cut-off 21.9 21.9
Model length: 117
Family (HMM) version: 19
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 MR_MLE_N domain has been found. There are 959 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
A0A1D6FE15 View 3D Structure Click here
A0A1D6MLT0 View 3D Structure Click here
A1B198 View 3D Structure Click here
A1WFL2 View 3D Structure Click here
A1WPC7 View 3D Structure Click here
A4FLW9 View 3D Structure Click here
A4XF23 View 3D Structure Click here
A5V6Z0 View 3D Structure Click here
A6TBU8 View 3D Structure Click here
A6TFZ4 View 3D Structure Click here
A8I5F1 View 3D Structure Click here
A8MA91 View 3D Structure Click here
A9B055 View 3D Structure Click here
A9BQY2 View 3D Structure Click here
A9CEQ8 View 3D Structure Click here
B2JLI8 View 3D Structure Click here
B2UCA8 View 3D Structure Click here
B3PDB1 View 3D Structure Click here
B5EFW2 View 3D Structure Click here
B9I2J6 View 3D Structure Click here
B9XEK4 View 3D Structure Click here
C0BK17 View 3D Structure Click here
C0QM06 View 3D Structure Click here
C4LDK0 View 3D Structure Click here
C6CVY9 View 3D Structure Click here
C7PW26 View 3D Structure Click here
D4GJ14 View 3D Structure Click here
D4GP40 View 3D Structure Click here
D7A0Y2 View 3D Structure Click here
D7BPX0 View 3D Structure Click here
E1V4Y0 View 3D Structure Click here
F1Q510 View 3D Structure Click here
I1K3D5 View 3D Structure Click here
I1KRS2 View 3D Structure Click here
O06741 View 3D Structure Click here
O34508 View 3D Structure Click here
O34514 View 3D Structure Click here
P05404 View 3D Structure Click here
P38104 View 3D Structure Click here
P42428 View 3D Structure Click here