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381  structures 8593  species 0  interactions 71939  sequences 820  architectures

Family: Hydrolase (PF00702)

Summary: haloacid dehalogenase-like hydrolase

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

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.

haloacid dehalogenase-like hydrolase Provide feedback

This family is structurally different from the alpha/beta hydrolase family (PF00561). This family includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure of the family consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of P24069. The rest of the fold is composed of the core alpha/beta domain [1]. Those members with the characteristic DxD triad at the N-terminus are probably phosphatidylglycerolphosphate (PGP) phosphatases involved in cardiolipin biosynthesis in the mitochondria [2].

Literature references

  1. Hisano T, Hata Y, Fujii T, Liu JQ, Kurihara T, Esaki N, Soda K; , J Biol Chem 1996;271:20322-20330.: Crystal structure of L-2-haloacid dehalogenase from Pseudomonas sp. YL. An alpha/beta hydrolase structure that is different from the alpha/beta hydrolase fold. PUBMED:8702766 EPMC:8702766

  2. Osman C, Haag M, Wieland FT, Brugger B, Langer T;, EMBO J. 2010;29:1976-1987: A mitochondrial phosphatase required for cardiolipin biosynthesis: the PGP phosphatase Gep4. PUBMED:20485265 EPMC:20485265


Internal database links

External database links

This tab holds annotation information from the InterPro database.

No InterPro data for this Pfam family.

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 HAD (CL0137), which has the following description:

This clan represents the haloacid dehalogenase (HAD) superfamily that includes a diverse range of enzymes that use an asp carboxylate as a nucleophile [1].

The clan contains the following 24 members:

5_nucleotid Acid_phosphat_B Acid_PPase Cation_ATPase DHH DUF2608 DUF705 HAD HAD_2 Hydrolase Hydrolase_3 Hydrolase_6 Hydrolase_like LNS2 NIF NT5C PGP_phosphatase PhoLip_ATPase_C PMM PNK3P Put_Phosphatase S6PP Trehalose_PPase UMPH-1

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
(227)
Full
(71939)
Representative proteomes UniProt
(255665)
RP15
(9412)
RP35
(32871)
RP55
(65912)
RP75
(106439)
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
(227)
Full
(71939)
Representative proteomes UniProt
(255665)
RP15
(9412)
RP35
(32871)
RP55
(65912)
RP75
(106439)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(227)
Full
(71939)
Representative proteomes UniProt
(255665)
RP15
(9412)
RP35
(32871)
RP55
(65912)
RP75
(106439)
Raw Stockholm Download   Download   Download   Download   Download      
Gzipped 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_566 (release 2.1)
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A
Number in seed: 227
Number in full: 71939
Average length of the domain: 238.70 aa
Average identity of full alignment: 22 %
Average coverage of the sequence by the domain: 29.02 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null --hand HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 26.4 26.4
Trusted cut-off 26.4 26.4
Noise cut-off 26.3 26.3
Model length: 210
Family (HMM) version: 28
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 Hydrolase domain has been found. There are 381 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
A0A096SBT9 View 3D Structure Click here
A0A0N7KES2 View 3D Structure Click here
A0A0P0V0Z2 View 3D Structure Click here
A0A0P0VFR4 View 3D Structure Click here
A0A0P0VQP6 View 3D Structure Click here
A0A0P0VTT2 View 3D Structure Click here
A0A0P0VTU7 View 3D Structure Click here
A0A0P0X004 View 3D Structure Click here
A0A0R0FIK0 View 3D Structure Click here
A0A0R0FZY9 View 3D Structure Click here
A0A0R0G1Y0 View 3D Structure Click here
A0A0R0H8K5 View 3D Structure Click here
A0A0R0I422 View 3D Structure Click here
A0A0R0IAH0 View 3D Structure Click here
A0A0R0IMZ6 View 3D Structure Click here
A0A0R0IZT6 View 3D Structure Click here
A0A0R0J2X3 View 3D Structure Click here
A0A0R0JX32 View 3D Structure Click here
A0A0R0JYV2 View 3D Structure Click here
A0A0R0JZ81 View 3D Structure Click here
A0A0R0K0B7 View 3D Structure Click here
A0A0R0K4C4 View 3D Structure Click here
A0A0R0KP42 View 3D Structure Click here
A0A0R0KQ68 View 3D Structure Click here
A0A0R0KRJ2 View 3D Structure Click here
A0A0R4IJ10 View 3D Structure Click here
A0A143ZZK9 View 3D Structure Click here
A0A1D6DVK9 View 3D Structure Click here
A0A1D6E3L5 View 3D Structure Click here
A0A1D6E3M8 View 3D Structure Click here
A0A1D6EKZ4 View 3D Structure Click here
A0A1D6EL09 View 3D Structure Click here
A0A1D6F8R7 View 3D Structure Click here
A0A1D6G4Q8 View 3D Structure Click here
A0A1D6GQJ5 View 3D Structure Click here
A0A1D6GU98 View 3D Structure Click here
A0A1D6GUZ6 View 3D Structure Click here
A0A1D6H246 View 3D Structure Click here
A0A1D6H478 View 3D Structure Click here
A0A1D6HUV1 View 3D Structure Click here
A0A1D6HW91 View 3D Structure Click here
A0A1D6I7L2 View 3D Structure Click here
A0A1D6I7P1 View 3D Structure Click here
A0A1D6IQZ9 View 3D Structure Click here
A0A1D6JDM1 View 3D Structure Click here
A0A1D6JGC8 View 3D Structure Click here
A0A1D6JJK6 View 3D Structure Click here
A0A1D6JMJ0 View 3D Structure Click here
A0A1D6JQD0 View 3D Structure Click here
A0A1D6JRX7 View 3D Structure Click here
A0A1D6KZT2 View 3D Structure Click here
A0A1D6L337 View 3D Structure Click here
A0A1D6LQL9 View 3D Structure Click here
A0A1D6MV33 View 3D Structure Click here
A0A1D6N1X0 View 3D Structure Click here
A0A1D6NTT8 View 3D Structure Click here
A0A1D6P3E7 View 3D Structure Click here
A0A1D6P5L7 View 3D Structure Click here
A0A1D6PWW2 View 3D Structure Click here
A0A1D6QC18 View 3D Structure Click here
A0A1D6QHD5 View 3D Structure Click here
A0A1D6QK34 View 3D Structure Click here
A0A1D8PEI4 View 3D Structure Click here
A0A1D8PGL4 View 3D Structure Click here
A0A1D8PJ01 View 3D Structure Click here
A0A1D8PLQ7 View 3D Structure Click here
A0A1D8PQK6 View 3D Structure Click here
A0A1D8PS08 View 3D Structure Click here
A0A286Y8X6 View 3D Structure Click here
A0A2R8QFL1 View 3D Structure Click here
A0A2R8QKM0 View 3D Structure Click here
A0A2R8RKF4 View 3D Structure Click here
A0A2R8RML2 View 3D Structure Click here
A0A368UHC2 View 3D Structure Click here
A0A368UHW8 View 3D Structure Click here
A0A381MFJ0 View 3D Structure Click here
A3AWA4 View 3D Structure Click here
A3BF39 View 3D Structure Click here
A4HRZ6 View 3D Structure Click here
A4HSA9 View 3D Structure Click here
A4HY23 View 3D Structure Click here
A4I980 View 3D Structure Click here
A7L9Z8 View 3D Structure Click here
A8DZ26 View 3D Structure Click here
A8QI34 View 3D Structure Click here
A9C3Q4 View 3D Structure Click here
B3DFZ2 View 3D Structure Click here
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F1LSP2 View 3D Structure Click here
F1MA70 View 3D Structure Click here
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I1JA65 View 3D Structure Click here
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I1JNA7 View 3D Structure Click here
I1JPG1 View 3D Structure Click here
I1JUM2 View 3D Structure Click here
I1JWZ3 View 3D Structure Click here
I1JXU9 View 3D Structure Click here
I1JZT5 View 3D Structure Click here
I1K370 View 3D Structure Click here
I1K8G7 View 3D Structure Click here
I1K937 View 3D Structure Click here
I1KBT2 View 3D Structure Click here
I1KCP1 View 3D Structure Click here
I1KDU3 View 3D Structure Click here
I1KGW2 View 3D Structure Click here
I1KR29 View 3D Structure Click here
I1KRI8 View 3D Structure Click here
I1KVJ0 View 3D Structure Click here
I1KVR4 View 3D Structure Click here
I1L152 View 3D Structure Click here
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I1LIT6 View 3D Structure Click here
I1LV18 View 3D Structure Click here
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I1LWI1 View 3D Structure Click here
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I1M368 View 3D Structure Click here
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I1MI27 View 3D Structure Click here
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M0R6E0 View 3D Structure Click here
O00167 View 3D Structure Click here
O01464 View 3D Structure Click here
O01590 View 3D Structure Click here
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O08575 View 3D Structure Click here
O14022 View 3D Structure Click here
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O14262 View 3D Structure Click here
O16331 View 3D Structure Click here
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O22218 View 3D Structure Click here
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O43861 View 3D Structure Click here
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O53289 View 3D Structure Click here
O59666 View 3D Structure Click here
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O70228 View 3D Structure Click here
O74382 View 3D Structure Click here
O75185 View 3D Structure Click here
O82796 View 3D Structure Click here
O95677 View 3D Structure Click here
P03960 View 3D Structure Click here
P05030 View 3D Structure Click here
P06686 View 3D Structure Click here
P09627 View 3D Structure Click here
P0A8Y1 View 3D Structure Click here
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P0ADP0 View 3D Structure Click here
P0AGB0 View 3D Structure Click here
P0CW77 View 3D Structure Click here
P11505 View 3D Structure Click here
P13586 View 3D Structure Click here
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P19456 View 3D Structure Click here
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P19881 View 3D Structure Click here
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P28876 View 3D Structure Click here
P32662 View 3D Structure Click here
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P41277 View 3D Structure Click here
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P90747 View 3D Structure Click here
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P9WMS5 View 3D Structure Click here
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Q00472 View 3D Structure Click here
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Q04223 View 3D Structure Click here
Q04656 View 3D Structure Click here
Q05201 View 3D Structure Click here
Q09893 View 3D Structure Click here
Q0DJ73 View 3D Structure Click here
Q0DSY0 View 3D Structure Click here
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Q10QA3 View 3D Structure Click here
Q10T57 View 3D Structure Click here
Q12486 View 3D Structure Click here
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Q2FV64 View 3D Structure Click here
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Q54X63 View 3D Structure Click here
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Q55DN5 View 3D Structure Click here
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Q5AG51 View 3D Structure Click here
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