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409  structures 8662  species 0  interactions 44514  sequences 209  architectures

Family: AA_kinase (PF00696)

Summary: Amino acid kinase family

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 "Amino acid kinase". More...

Amino acid kinase Edit Wikipedia article

AA_kinase
PDB 2bty EBI.jpg
acetylglutamate kinase from thermotoga maritima complexed with its inhibitor arginine
Identifiers
Symbol AA_kinase
Pfam PF00696
InterPro IPR001048
PROSITE PDOC00289
SCOP 1e19
SUPERFAMILY 1e19

In molecular biology, the amino acid kinase domain is a protein domain. It is found in protein kinases with various specificities, including the aspartate, glutamate and uridylate kinase families. In prokaryotes and plants the synthesis of the essential amino acids lysine and threonine is predominantly regulated by feed-back inhibition of aspartate kinase (AK) and dihydrodipicolinate synthase (DHPS). In Escherichia coli, thrA, metLM, and lysC encode aspartokinase isozymes that show feedback inhibition by threonine, methionine, and lysine, respectively.[1] The lysine-sensitive isoenzyme of aspartate kinase from spinach leaves has a subunit composition of 4 large and 4 small subunits.[2]

In plants although the control of carbon fixation and nitrogen assimilation has been studied in detail, relatively little is known about the regulation of carbon and nitrogen flow into amino acids. The metabolic regulation of expression of an Arabidopsis thaliana aspartate kinase/homoserine dehydrogenase (AK/HSD) gene, which encodes two linked key enzymes in the biosynthetic pathway of aspartate family amino acids has been studied.[3] The conversion of aspartate into either the storage amino acid asparagine or aspartate family amino acids may be subject to a coordinated, reciprocal metabolic control, and this biochemical branch point is a part of a larger, coordinated regulatory mechanism of nitrogen and carbon storage and utilization.

References

  1. ^ Kikuchi Y, Kojima H, Tanaka T (April 1999). "Mutational analysis of the feedback sites of lysine-sensitive aspartokinase of Escherichia coli". FEMS Microbiol. Lett. 173 (1): 211–5. doi:10.1111/j.1574-6968.1999.tb13504.x. PMID 10220897. 
  2. ^ Kochhar S, Kochhar VK, Sane PV (April 1998). "Subunit structure of lysine sensitive aspartate kinase from spinach leaves". Biochem. Mol. Biol. Int. 44 (4): 795–806. doi:10.1080/15216549800201842. PMID 9584993. 
  3. ^ Zhu-Shimoni JX, Galili G (March 1998). "Expression of an arabidopsis aspartate Kinase/Homoserine dehydrogenase gene is metabolically regulated by photosynthesis-related signals but not by nitrogenous compounds". Plant Physiol. 116 (3): 1023–8. doi:10.1104/pp.116.3.1023. PMC 35071Freely accessible. PMID 9501134. 

This article incorporates text from the public domain Pfam and InterPro IPR001048

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.

Amino acid kinase family Provide feedback

This family includes kinases that phosphorylate a variety of amino acid substrates, as well as uridylate kinase and carbamate kinase. This family includes: Aspartokinase EC:2.7.2.4, P00561. Acetylglutamate kinase EC:2.7.2.8, Q07905. Glutamate 5-kinase EC:2.7.2.11, P07005. Uridylate kinase EC:2.7.4.-, P29464. Carbamate kinase EC:2.7.2.2, O96432.

Literature references

  1. Ramon-Maiques S, Marina A, Uriarte M, Fita I, Rubio V; , J Mol Biol 2000;299:463-476.: The 1.5 A resolution crystal structure of the carbamate kinase-like carbamoyl phosphate synthetase from the hyperthermophilic Archaeon pyrococcus furiosus, bound to ADP, confirms that this thermostable enzyme is a carbamate kinase, and provides insight in PUBMED:10860751 EPMC:10860751


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001048

This entry contains proteins with various specificities and includes the aspartate, glutamate and uridylate kinase families. In prokaryotes and plants the synthesis of the essential amino acids lysine and threonine is predominantly regulated by feed-back inhibition of aspartate kinase (AK) and dihydrodipicolinate synthase (DHPS). In Escherichia coli, thrA, metLM, and lysC encode aspartokinase isozymes that show feedback inhibition by threonine, methionine, and lysine, respectively [ PUBMED:10220897 ]. The lysine-sensitive isoenzyme of aspartate kinase from spinach leaves has a subunit composition of 4 large and 4 small subunits [ PUBMED:9584993 ].

In plants although the control of carbon fixation and nitrogen assimilation has been studied in detail, relatively little is known about the regulation of carbon and nitrogen flow into amino acids. The metabolic regulation of expression of an Arabidopsis thaliana aspartate kinase/homoserine dehydrogenase (AK/HSD) gene, which encodes two linked key enzymes in the biosynthetic pathway of aspartate family amino acids has been studied [ PUBMED:9501134 ]. The conversion of aspartate into either the storage amino acid asparagine or aspartate family amino acids may be subject to a coordinated, reciprocal metabolic control, and this biochemical branch point is a part of a larger, coordinated regulatory mechanism of nitrogen and carbon storage and utilization.

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...

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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
(128)
Full
(44514)
Representative proteomes UniProt
(202340)
RP15
(6076)
RP35
(21568)
RP55
(44031)
RP75
(74662)
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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
(128)
Full
(44514)
Representative proteomes UniProt
(202340)
RP15
(6076)
RP35
(21568)
RP55
(44031)
RP75
(74662)
Alignment:
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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
(128)
Full
(44514)
Representative proteomes UniProt
(202340)
RP15
(6076)
RP35
(21568)
RP55
(44031)
RP75
(74662)
Raw Stockholm Download   Download   Download   Download   Download   Download    
Gzipped 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_100 (release 2.1)
Previous IDs: aakinase;
Type: Family
Sequence Ontology: SO:0100021
Author: Bateman A , Birney E , Griffiths-Jones SR
Number in seed: 128
Number in full: 44514
Average length of the domain: 236.80 aa
Average identity of full alignment: 21 %
Average coverage of the sequence by the domain: 60.47 %

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 24.9 24.9
Trusted cut-off 24.9 24.9
Noise cut-off 24.8 24.8
Model length: 241
Family (HMM) version: 30
Download: download the raw HMM for this family

Species distribution

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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 AA_kinase domain has been found. There are 409 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
A0A0N7KJ06 View 3D Structure Click here
A0A0P0X853 View 3D Structure Click here
A0A0R0EVL3 View 3D Structure Click here
A0A0R0FVM5 View 3D Structure Click here
A0A0R0K2A2 View 3D Structure Click here
A0A1D6E3W6 View 3D Structure Click here
A0A1D6EBU9 View 3D Structure Click here
A0A1D6ENN1 View 3D Structure Click here
A0A1D6FNZ7 View 3D Structure Click here
A0A1D6FUA1 View 3D Structure Click here
A0A1D6G3Z5 View 3D Structure Click here
A0A1D6G8E7 View 3D Structure Click here
A0A1D6HMB7 View 3D Structure Click here
A0A1D6I1D8 View 3D Structure Click here
A0A1D6II30 View 3D Structure Click here
A0A1D6LBY0 View 3D Structure Click here
A0A1D6LBY0 View 3D Structure Click here
A0A1D6LW70 View 3D Structure Click here
A0A1D6M5N6 View 3D Structure Click here
A0A1D6N0H0 View 3D Structure Click here
A0A1D6N2F3 View 3D Structure Click here
A0A1D6NAU8 View 3D Structure Click here
A0A1D6PDQ8 View 3D Structure Click here
A0A1D6PMT4 View 3D Structure Click here
A0A1D6Q024 View 3D Structure Click here
A0A1D8PEI6 View 3D Structure Click here
A0A1D8PMB8 View 3D Structure Click here
A0A1D8PU95 View 3D Structure Click here
A0A1I9LRT3 View 3D Structure Click here
A0A368ULV3 View 3D Structure Click here
A3AJD2 View 3D Structure Click here
A4I2J6 View 3D Structure Click here
A4IGC8 View 3D Structure Click here
B4FA80 View 3D Structure Click here
B4FSD4 View 3D Structure Click here
B5X4Z4 View 3D Structure Click here
D3ZIE9 View 3D Structure Click here
I1J6X7 View 3D Structure Click here
I1J9F4 View 3D Structure Click here
I1JCZ5 View 3D Structure Click here
I1JI26 View 3D Structure Click here
I1JLN5 View 3D Structure Click here
I1JUK7 View 3D Structure Click here
I1K3R3 View 3D Structure Click here
I1K4X3 View 3D Structure Click here
I1K925 View 3D Structure Click here
I1KS56 View 3D Structure Click here
I1KTG2 View 3D Structure Click here
I1L966 View 3D Structure Click here
I1LCQ5 View 3D Structure Click here
I1M826 View 3D Structure Click here
I1MNP0 View 3D Structure Click here
I1N803 View 3D Structure Click here
K7L1J3 View 3D Structure Click here
K7LN31 View 3D Structure Click here
K7LZV4 View 3D Structure Click here
K7MLX9 View 3D Structure Click here
K7MP63 View 3D Structure Click here
K7MTA0 View 3D Structure Click here
K7N4D6 View 3D Structure Click here
O04226 View 3D Structure Click here
O13810 View 3D Structure Click here
O23653 View 3D Structure Click here
O60163 View 3D Structure Click here
O81852 View 3D Structure Click here
P00561 View 3D Structure Click here
P00562 View 3D Structure Click here
P08660 View 3D Structure Click here
P0A6C5 View 3D Structure Click here
P0A6C8 View 3D Structure Click here
P0A7B5 View 3D Structure Click here
P0A7E9 View 3D Structure Click here
P10869 View 3D Structure Click here
P31318 View 3D Structure Click here
P32264 View 3D Structure Click here
P37306 View 3D Structure Click here
P38690 View 3D Structure Click here
P49079 View 3D Structure Click here
P49080 View 3D Structure Click here
P54886 View 3D Structure Click here
P54887 View 3D Structure Click here
P54888 View 3D Structure Click here
P54889 View 3D Structure Click here
P77624 View 3D Structure Click here
P9WHK5 View 3D Structure Click here
P9WHU9 View 3D Structure Click here
P9WPX3 View 3D Structure Click here
P9WQ01 View 3D Structure Click here
Q01217 View 3D Structure Click here
Q0DLR8 View 3D Structure Click here
Q2FYP1 View 3D Structure Click here
Q2FYV5 View 3D Structure Click here
Q2FZ22 View 3D Structure Click here
Q2FZA9 View 3D Structure Click here
Q2G1H6 View 3D Structure Click here
Q46807 View 3D Structure Click here
Q4CVK6 View 3D Structure Click here
Q54JI5 View 3D Structure Click here
Q54M18 View 3D Structure Click here
Q57900 View 3D Structure Click here
Q57991 View 3D Structure Click here
Q58656 View 3D Structure Click here
Q5JJV9 View 3D Structure Click here
Q5JK18 View 3D Structure Click here
Q5JN10 View 3D Structure Click here
Q5KSL5 View 3D Structure Click here
Q60352 View 3D Structure Click here
Q60382 View 3D Structure Click here
Q69LG7 View 3D Structure Click here
Q6YS33 View 3D Structure Click here
Q6ZD10 View 3D Structure Click here
Q7X2S2 View 3D Structure Click here
Q7XU28 View 3D Structure Click here
Q84JF4 View 3D Structure Click here
Q8H1F7 View 3D Structure Click here
Q941T1 View 3D Structure Click here
Q94JR1 View 3D Structure Click here
Q9LYU8 View 3D Structure Click here
Q9S702 View 3D Structure Click here
Q9SA18 View 3D Structure Click here
Q9SCL7 View 3D Structure Click here
Q9VNW6 View 3D Structure Click here
Q9Z110 View 3D Structure Click here