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117  structures 8574  species 0  interactions 62140  sequences 495  architectures

Family: Biotin_lipoyl (PF00364)

Summary: Biotin-requiring enzyme

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 "Biotin attachment domain". More...

Biotin attachment domain Edit Wikipedia article

Biotin-requiring enzyme
Identifiers
Symbol Biotin_lipoyl
Pfam PF00364
InterPro IPR000089
PROSITE PDOC00168
SCOP 1lab
SUPERFAMILY 1lab
TCDB 3.B.1
CDD cd06663

Biotin/lipoyl attachment domain has a conserved lysine residue that binds biotin or lipoic acid. Biotin plays a catalytic role in some carboxyl transfer reactions and is covalently attached, via an amide bond, to a lysine residue in enzymes requiring this coenzyme.[1] Lipoamide acyltransferases have an essential cofactor, lipoic acid, which is covalently bound via an amide linkage to a lysine group.[2] The lipoic acid cofactor is found in a variety of proteins.

Human proteins containing this domain

ACACA; ACACB; DBT; DLAT; DLST; DLSTP; MCCC1; PC; PCCA; PDHX;

References

  1. ^ Kumar GK, Shenoy BC, Wood HG, Samols D, Xie Y, Park VL, Beegen H (1992). "The importance of methionine residues for the catalysis of the biotin enzyme, transcarboxylase. Analysis by site-directed mutagenesis". J. Biol. Chem. 267 (26): 18407–18412. PMID 1526981. 
  2. ^ Guest JR, Russell GC (1991). "Sequence similarities within the family of dihydrolipoamide acyltransferases and discovery of a previously unidentified fungal enzyme". Biochim. Biophys. Acta. 1076 (2): 225–232. doi:10.1016/0167-4838(91)90271-z. PMID 1825611. 

This article incorporates text from the public domain Pfam and InterPro IPR000089

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.

Biotin-requiring enzyme Provide feedback

This family covers two Prosite entries, the conserved lysine residue binds biotin in one group and lipoic acid in the other. Note that the HMM does not currently recognise the Glycine cleavage system H proteins.

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR000089

The biotin / lipoyl attachment domain has a conserved lysine residue that binds biotin or lipoic acid. Biotin plays a catalytic role in some carboxyl transfer reactions and is covalently attached, via an amide bond, to a lysine residue in enzymes requiring this coenzyme [ PUBMED:1526981 ]. E2 acyltransferases have an essential cofactor, lipoic acid, which is covalently bound via an amide linkage to a lysine group [ PUBMED:1825611 ]. The lipoic acid cofactor is found in a variety of proteins that include, H-protein of the glycine cleavage system (GCS), mammalian and yeast pyruvate dehydrogenases and fast migrating protein (FMP) (gene acoC) from Ralstonia eutropha (Alcaligenes eutrophus).

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 Hybrid (CL0105), which has the following description:

This superfamily contains proteins with a hybrid motif [1]. This motif is embedded in structurally diverse proteins.

The clan contains the following 25 members:

Apocytochr_F_C Biotin_carb_C Biotin_lipoyl Biotin_lipoyl_2 Complex1_51K CusB_dom_1 DUF2118 DUF2254 GARS_C GCV_H HlyD_2 HlyD_3 HlyD_D23 HlyD_D4 HMBD LAL_C2 NAPRTase_N NQRA OEP Peptidase_M23 PTS_EIIA_1 PurK_C PYNP_C QRPTase_N RnfC_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
(38)
Full
(62140)
Representative proteomes UniProt
(251560)
RP15
(7897)
RP35
(27831)
RP55
(60051)
RP75
(100665)
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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
(38)
Full
(62140)
Representative proteomes UniProt
(251560)
RP15
(7897)
RP35
(27831)
RP55
(60051)
RP75
(100665)
Alignment:
Format:
Order:
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
(38)
Full
(62140)
Representative proteomes UniProt
(251560)
RP15
(7897)
RP35
(27831)
RP55
(60051)
RP75
(100665)
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: biotin_req_enzy; biotin_lipoyl;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD
Number in seed: 38
Number in full: 62140
Average length of the domain: 71.50 aa
Average identity of full alignment: 28 %
Average coverage of the sequence by the domain: 13.08 %

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 22.1 22.1
Trusted cut-off 22.1 22.1
Noise cut-off 22.0 22.0
Model length: 73
Family (HMM) version: 24
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
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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 Biotin_lipoyl domain has been found. There are 117 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
A0A0P0VJK1 View 3D Structure Click here
A0A0R0EDH2 View 3D Structure Click here
A0A0R0EDH2 View 3D Structure Click here
A0A0R0HXH4 View 3D Structure Click here
A0A0R0I2Q6 View 3D Structure Click here
A0A0R0I683 View 3D Structure Click here
A0A0R0I683 View 3D Structure Click here
A0A0R0JI69 View 3D Structure Click here
A0A0R0K6S7 View 3D Structure Click here
A0A0R0LFB4 View 3D Structure Click here
A0A0R4IFJ4 View 3D Structure Click here
A0A0R4IH35 View 3D Structure Click here
A0A1D6ECC8 View 3D Structure Click here
A0A1D6EDR6 View 3D Structure Click here
A0A1D6GRS0 View 3D Structure Click here
A0A1D6H6Z1 View 3D Structure Click here
A0A1D6I451 View 3D Structure Click here
A0A1D6J3D9 View 3D Structure Click here
A0A1D6KPB2 View 3D Structure Click here
A0A1D6L8E8 View 3D Structure Click here
A0A1D6MYM9 View 3D Structure Click here
A0A1D6Q1G1 View 3D Structure Click here
A0A1D6QQD9 View 3D Structure Click here
A0A1D8PDC6 View 3D Structure Click here
A0A1D8PLY4 View 3D Structure Click here
A0A1D8PRR7 View 3D Structure Click here
A0A1D8PTH3 View 3D Structure Click here
A0A2R8PV58 View 3D Structure Click here
A0A2R8Q4A3 View 3D Structure Click here
A1Z784 View 3D Structure Click here
A4HRC6 View 3D Structure Click here
A4HZ54 View 3D Structure Click here
A4HZ54 View 3D Structure Click here
A4I3X3 View 3D Structure Click here
A4I7A2 View 3D Structure Click here
A4I7C0 View 3D Structure Click here
A4ICH2 View 3D Structure Click here
B2GV15 View 3D Structure Click here
B3DIV6 View 3D Structure Click here
B3DIV6 View 3D Structure Click here
B4G1C9 View 3D Structure Click here
B6SKB7 View 3D Structure Click here
B6TFG5 View 3D Structure Click here
B6TJY4 View 3D Structure Click here
B9FK36 View 3D Structure Click here
C6TB35 View 3D Structure Click here
C6TK92 View 3D Structure Click here
E9AG63 View 3D Structure Click here
E9PSQ0 View 3D Structure Click here
E9Q4Z2 View 3D Structure Click here
F1QFQ6 View 3D Structure Click here
F1QH12 View 3D Structure Click here
F1QM37 View 3D Structure Click here
F1QYZ6 View 3D Structure Click here
F1R0J8 View 3D Structure Click here
F4I1L3 View 3D Structure Click here
H2L0M0 View 3D Structure Click here
I1JF82 View 3D Structure Click here
I1JJB5 View 3D Structure Click here
I1KA18 View 3D Structure Click here
I1KH71 View 3D Structure Click here
I1L691 View 3D Structure Click here
I1LD65 View 3D Structure Click here
I1LMV4 View 3D Structure Click here
I1LWR8 View 3D Structure Click here
I1M5S0 View 3D Structure Click here
I1M6P8 View 3D Structure Click here
I1MCI0 View 3D Structure Click here
I1MJX0 View 3D Structure Click here
I1MRK4 View 3D Structure Click here
I1NFH4 View 3D Structure Click here
I1NHB5 View 3D Structure Click here
I6YEU0 View 3D Structure Click here
O00330 View 3D Structure Click here
O00763 View 3D Structure Click here
O06159 View 3D Structure Click here
O17732 View 3D Structure Click here
O45148 View 3D Structure Click here
O45430 View 3D Structure Click here
O59816 View 3D Structure Click here
O94681 View 3D Structure Click here
O94709 View 3D Structure Click here
O97227 View 3D Structure Click here
P05165 View 3D Structure Click here
P06959 View 3D Structure Click here
P06959 View 3D Structure Click here
P06959 View 3D Structure Click here
P08461 View 3D Structure Click here
P08461 View 3D Structure Click here
P0ABD8 View 3D Structure Click here
P0AFG6 View 3D Structure Click here
P10515 View 3D Structure Click here
P10515 View 3D Structure Click here
P11154 View 3D Structure Click here
P11182 View 3D Structure Click here
P11497 View 3D Structure Click here
P11498 View 3D Structure Click here
P12695 View 3D Structure Click here
P14882 View 3D Structure Click here
P16451 View 3D Structure Click here
P19262 View 3D Structure Click here
P32327 View 3D Structure Click here
P32528 View 3D Structure Click here
P32874 View 3D Structure Click here
P36413 View 3D Structure Click here
P36413 View 3D Structure Click here
P36957 View 3D Structure Click here
P52873 View 3D Structure Click here
P53395 View 3D Structure Click here
P71538 View 3D Structure Click here
P78820 View 3D Structure Click here
P96890 View 3D Structure Click here
P9WIS7 View 3D Structure Click here
P9WIS7 View 3D Structure Click here
P9WPQ1 View 3D Structure Click here
P9WPQ3 View 3D Structure Click here
Q00955 View 3D Structure Click here
Q01205 View 3D Structure Click here
Q05920 View 3D Structure Click here
Q0E9E2 View 3D Structure Click here
Q0WQF7 View 3D Structure Click here
Q0WQF7 View 3D Structure Click here
Q13085 View 3D Structure Click here
Q19749 View 3D Structure Click here
Q19842 View 3D Structure Click here
Q23571 View 3D Structure Click here
Q2FXX0 View 3D Structure Click here
Q2FY42 View 3D Structure Click here
Q2FY54 View 3D Structure Click here
Q2FYM2 View 3D Structure Click here
Q2G2A4 View 3D Structure Click here
Q2G2C1 View 3D Structure Click here
Q2QMG2 View 3D Structure Click here
Q2QWU7 View 3D Structure Click here
Q38970 View 3D Structure Click here
Q42523 View 3D Structure Click here
Q42533 View 3D Structure Click here
Q42777 View 3D Structure Click here
Q42783 View 3D Structure Click here
Q4CNP4 View 3D Structure Click here
Q4CS16 View 3D Structure Click here
Q4CT14 View 3D Structure Click here
Q4D1R9 View 3D Structure Click here
Q4D8Z1 View 3D Structure Click here
Q4DDM3 View 3D Structure Click here
Q4DMG9 View 3D Structure Click here
Q4DYI5 View 3D Structure Click here
Q4DZT8 View 3D Structure Click here
Q54J08 View 3D Structure Click here
Q54KE6 View 3D Structure Click here
Q54TR7 View 3D Structure Click here
Q553S7 View 3D Structure Click here
Q58628 View 3D Structure Click here
Q5AGX8 View 3D Structure Click here
Q5AKV6 View 3D Structure Click here
Q5I0C3 View 3D Structure Click here
Q5M729 View 3D Structure Click here
Q5SWU9 View 3D Structure Click here
Q5VS74 View 3D Structure Click here
Q654L9 View 3D Structure Click here
Q655Q2 View 3D Structure Click here
Q69N33 View 3D Structure Click here
Q6YPG2 View 3D Structure Click here
Q6ZKB1 View 3D Structure Click here
Q7XAL3 View 3D Structure Click here
Q7XVM2 View 3D Structure Click here
Q869Y7 View 3D Structure Click here
Q8BKZ9 View 3D Structure Click here
Q8BMF4 View 3D Structure Click here
Q8BMF4 View 3D Structure Click here
Q8GRT9 View 3D Structure Click here
Q8H107 View 3D Structure Click here
Q8IEA6 View 3D Structure Click here
Q8IJJ4 View 3D Structure Click here
Q8IJJ4 View 3D Structure Click here
Q8RWN9 View 3D Structure Click here
Q8S6N5 View 3D Structure Click here
Q8VZ68 View 3D Structure Click here
Q91ZA3 View 3D Structure Click here
Q93W03 View 3D Structure Click here
Q96RQ3 View 3D Structure Click here
Q99MR8 View 3D Structure Click here
Q9C8P0 View 3D Structure Click here
Q9D2G2 View 3D Structure Click here
Q9FLQ4 View 3D Structure Click here
Q9GE06 View 3D Structure Click here
Q9LLC1 View 3D Structure Click here
Q9M7Z1 View 3D Structure Click here
Q9SQI8 View 3D Structure Click here
Q9UUE1 View 3D Structure Click here
Q9V9T5 View 3D Structure Click here
Q9VGQ1 View 3D Structure Click here
Q9VM14 View 3D Structure Click here
Q9VXY3 View 3D Structure Click here
Q9XUC3 View 3D Structure Click here