Summary
HUP - HIGH-signature proteins, UspA, and PP-ATPase.
The HUP class contains the HIGH-signature proteins, UspA superfamily and the PP-ATPase superfamily [1]. The HIGH superfamily has the HIGH Nucleotidyl transferases and the class I tRNA synthetases both of which have the HIGH and the KMSKS motif [1],[2]. The PP-loop ATPase named after the ATP PyroPhosphatase domain, was initially identified as a conserved amino acid sequence motif in four distinct groups of enzymes that catalyse the hydrolysis of the alpha-beta phosphate bond of ATP, namely GMP synthetases, argininosuccinate synthetases, asparagine synthetases, and ATP sulfurylases [3]. The USPA superfamily contains USPA, ETFP and Photolyases [1]
This clan contains 32 families and the total number of domains in the clan is 440379. The clan was built by A Bateman and V Anantharaman.
Literature references
- Aravind L, Anantharaman V, Koonin EV; , Proteins 2002;48:1-14.: Monophyly of class I aminoacyl tRNA synthetase, USPA, ETFP, photolyase, and PP-ATPase nucleotide-binding domains: implications for protein evolution in the RNA. PUBMED:12012333 EPMC:12012333
- Wolf YI, Aravind L, Grishin NV, Koonin EV; , Genome Res 1999;9:689-710.: Evolution of aminoacyl-tRNA synthetases--analysis of unique domain architectures and phylogenetic trees reveals a complex history of horizontal gene transfer events. PUBMED:10447505 EPMC:10447505
- Bork P, Koonin EV; , Proteins 1994;20:347-355.: A P-loop-like motif in a widespread ATP pyrophosphatase domain: implications for the evolution of sequence motifs and enzyme activity. PUBMED:7731953 EPMC:7731953
Members
This clan contains the following 32 member families:
Arginosuc_synth Asn_synthase ATP-sulfurylase ATP_bind_3 BshC CDPS Citrate_ly_lig CTP_transf_like Diphthami_syn_2 DNA_photolyase DPRP ETF FAD_syn HIGH_NTase1 HIGH_NTase1_ass NAD_synthase Pantoate_ligase PAPS_reduct QueC QueH ThiI tRNA-synt_1 tRNA-synt_1_2 tRNA-synt_1b tRNA-synt_1c tRNA-synt_1d tRNA-synt_1e tRNA-synt_1f tRNA-synt_1g tRNA_Me_trans UDPG_MGDP_dh_C UspExternal database links
| CATH: | 3.40.50.620 3.40.510.10 3.40.50.610 |
| SCOP: | 52403 82359 52410 52375 52394 |
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 |
|---|---|---|
| Usp (PF00582) | 62462 (14.2%) | View |
| tRNA-synt_1 (PF00133) | 46827 (10.6%) | View |
| CTP_transf_like (PF01467) | 34489 (7.8%) | View |
| tRNA-synt_1b (PF00579) | 26965 (6.1%) | View |
| tRNA-synt_1c (PF00749) | 24704 (5.6%) | View |
| tRNA-synt_1g (PF09334) | 23206 (5.3%) | View |
| ETF (PF01012) | 21131 (4.8%) | View |
| Asn_synthase (PF00733) | 20644 (4.7%) | View |
| NAD_synthase (PF02540) | 20589 (4.7%) | View |
| UDPG_MGDP_dh_C (PF03720) | 17233 (3.9%) | View |
| PAPS_reduct (PF01507) | 16149 (3.7%) | View |
| ATP_bind_3 (PF01171) | 14925 (3.4%) | View |
| tRNA-synt_1e (PF01406) | 13610 (3.1%) | View |
| tRNA-synt_1d (PF00750) | 13516 (3.1%) | View |
| DNA_photolyase (PF00875) | 12432 (2.8%) | View |
| tRNA_Me_trans (PF03054) | 10646 (2.4%) | View |
| Arginosuc_synth (PF00764) | 9901 (2.2%) | View |
| continued | ||
| Pfam family | Num. domains | Alignment |
|---|---|---|
| tRNA-synt_1_2 (PF13603) | 9249 (2.1%) | View |
| FAD_syn (PF06574) | 8344 (1.9%) | View |
| Pantoate_ligase (PF02569) | 7618 (1.7%) | View |
| QueC (PF06508) | 4942 (1.1%) | View |
| ATP-sulfurylase (PF01747) | 4764 (1.1%) | View |
| Diphthami_syn_2 (PF01902) | 3421 (0.8%) | View |
| ThiI (PF02568) | 3098 (0.7%) | View |
| DPRP (PF04244) | 2049 (0.5%) | View |
| tRNA-synt_1f (PF01921) | 1974 (0.4%) | View |
| HIGH_NTase1 (PF05636) | 1723 (0.4%) | View |
| QueH (PF02677) | 1624 (0.4%) | View |
| BshC (PF10079) | 1301 (0.3%) | View |
| Citrate_ly_lig (PF08218) | 575 (0.1%) | View |
| CDPS (PF16715) | 235 (0.1%) | View |
| HIGH_NTase1_ass (PF16581) | 33 (0.0%) | View |
| Total: 32 | Total: 440379 | 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
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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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