Summary
ATP-grasp superfamily
The ATP-grasp domain is found in a wide variety of carboxylate-amine/thiol ligases [1]. It is composed of two subdomains, with ATP being bound in the cleft between the two.
This clan contains 26 families and the total number of domains in the clan is 170380. The clan was built by A Bateman.
Literature references
- Galperin MY, Koonin EV; , Protein Sci 1997;6:2639-2643.: A diverse superfamily of enzymes with ATP-dependent carboxylate-amine/thiol ligase activity. PUBMED:9416615 EPMC:9416615
Members
This clan contains the following 26 member families:
ATP-grasp ATP-grasp_2 ATP-grasp_3 ATP-grasp_4 ATP-grasp_5 ATP-grasp_6 ATPgrasp_ST ATPgrasp_Ter ATPgrasp_TupA ATPgrasp_YheCD CP_ATPgrasp_1 CP_ATPgrasp_2 CPSase_L_D2 D123 Dala_Dala_lig_C DUF1297 GARS_A GSH-S_ATP GSP_synth Ins134_P3_kin PPDK_N R2K_2 R2K_3 RimK Synapsin_C TTLExternal database links
| CATH: | 3.30.470.20 |
| SCOP: | 56059 |
Domain organisation
Below is a listing of the unique domain organisations or architectures from this clan. More...
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Alignments
The table below shows the number of occurrences of each domain throughout the sequence database. More...
| Pfam family | Num. domains | Alignment |
|---|---|---|
| CPSase_L_D2 (PF02786) | 54254 (31.8%) | View |
| PPDK_N (PF01326) | 17188 (10.1%) | View |
| Dala_Dala_lig_C (PF07478) | 11914 (7.0%) | View |
| ATP-grasp_2 (PF08442) | 11471 (6.7%) | View |
| TTL (PF03133) | 11376 (6.7%) | View |
| GARS_A (PF01071) | 10062 (5.9%) | View |
| ATP-grasp (PF02222) | 9632 (5.7%) | View |
| RimK (PF08443) | 7891 (4.6%) | View |
| ATP-grasp_5 (PF13549) | 6324 (3.7%) | View |
| CP_ATPgrasp_2 (PF14403) | 4502 (2.6%) | View |
| ATP-grasp_4 (PF13535) | 4005 (2.4%) | View |
| GSH-S_ATP (PF02955) | 3697 (2.2%) | View |
| ATPgrasp_YheCD (PF14398) | 2599 (1.5%) | View |
| Ins134_P3_kin (PF05770) | 2299 (1.3%) | View |
| continued | ||
| Pfam family | Num. domains | Alignment |
|---|---|---|
| ATP-grasp_3 (PF02655) | 2282 (1.3%) | View |
| GSP_synth (PF03738) | 2151 (1.3%) | View |
| D123 (PF07065) | 2011 (1.2%) | View |
| Synapsin_C (PF02750) | 1682 (1.0%) | View |
| ATPgrasp_Ter (PF15632) | 1365 (0.8%) | View |
| ATPgrasp_ST (PF14397) | 1291 (0.8%) | View |
| ATPgrasp_TupA (PF14305) | 914 (0.5%) | View |
| R2K_3 (PF14243) | 473 (0.3%) | View |
| ATP-grasp_6 (PF18419) | 307 (0.2%) | View |
| R2K_2 (PF18299) | 252 (0.1%) | View |
| DUF1297 (PF06973) | 238 (0.1%) | View |
| CP_ATPgrasp_1 (PF04174) | 200 (0.1%) | View |
| Total: 26 | Total: 170380 | Clan alignment |
Please note: Clan alignments can be very large and can cause problems for some browsers. Read the note above before viewing.
Family relationships
This diagram shows the relationships between members of this clan. More...
Species distribution
Tree controls
HideThis tree shows the occurrence of the domains in this clan across different species. 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 MSD group, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the mapping between the Pfam families in this clan, the corresponding UniProt entries, and the region of the three-dimensional structures that are available for that sequence.
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