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1263  structures 22259  species 65  interactions 699142  sequences 1223  architectures

Clan: HUP (CL0039)

Summary

HUP - HIGH-signature proteins, UspA, and PP-ATPase. Add an annotation

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 26 families and the total number of domains in the clan is 699142. The clan was built by A Bateman and V Anantharaman.

Literature references

  1. 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
  2. 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
  3. 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 26 member families:

Arginosuc_synth Asn_synthase ATP-sulfurylase ATP_bind_3 Citrate_ly_lig CTP_transf_like Diphthami_syn_2 ETF FAD_syn HIGH_NTase1 HIGH_NTase1_ass NAD_synthase Pantoate_ligase PAPS_reduct QueC 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 Usp

External database links

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) 103451 (14.8%) View
tRNA-synt_1 (PF00133) 79028 (11.3%) View
CTP_transf_like (PF01467) 55935 (8.0%) View
tRNA-synt_1b (PF00579) 45767 (6.5%) View
tRNA-synt_1c (PF00749) 39211 (5.6%) View
NAD_synthase (PF02540) 36104 (5.2%) View
ETF (PF01012) 35895 (5.1%) View
tRNA-synt_1g (PF09334) 32516 (4.7%) View
ATP_bind_3 (PF01171) 29784 (4.3%) View
PAPS_reduct (PF01507) 29596 (4.2%) View
tRNA_Me_trans (PF03054) 25087 (3.6%) View
tRNA-synt_1e (PF01406) 23063 (3.3%) View
tRNA-synt_1d (PF00750) 22293 (3.2%) View
Asn_synthase (PF00733) 21020 (3.0%) View
continued
Pfam family Num. domains Alignment
tRNA-synt_1_2 (PF13603) 19776 (2.8%) View
FAD_syn (PF06574) 19339 (2.8%) View
Arginosuc_synth (PF00764) 17954 (2.6%) View
Pantoate_ligase (PF02569) 16453 (2.4%) View
QueC (PF06508) 14074 (2.0%) View
ThiI (PF02568) 12767 (1.8%) View
HIGH_NTase1 (PF05636) 7850 (1.1%) View
Citrate_ly_lig (PF08218) 5295 (0.8%) View
Diphthami_syn_2 (PF01902) 2888 (0.4%) View
ATP-sulfurylase (PF01747) 2431 (0.3%) View
tRNA-synt_1f (PF01921) 1520 (0.2%) View
HIGH_NTase1_ass (PF16581) 45 (0.0%) View
Total: 26 Total: 699142 Clan alignment
 

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Family relationships

This diagram shows the relationships between members of this clan. More...

Species distribution

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This tree shows the occurrence of the domains in this clan across different species. More...

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Interactions

There are 65 interactions for this clan. More...

Interacting families
A B
Acyl-CoA_dh_N ETF
APS_kinase ATP-sulfurylase
Arg_tRNA_synt_N tRNA-synt_1d
Arginosuc_synth Arginosuc_synth
Asn_synthase Asn_synthase
DUF1933
GATase_7
ATP-sulfurylase APS_kinase
ATP-sulfurylase
PUA_2
ATP_bind_3 ATP_bind_3
TilS
CN_hydrolase NAD_synthase
CTP_transf_like CoaE
CTP_transf_like
NUDIX
Diphthami_syn_2 Diphthami_syn_2
DUF1933 Asn_synthase
ETF ETF
ETF_alpha
ETF_alpha ETF
FAD_syn Flavokinase
Flavokinase FAD_syn
GATase NAD_synthase
GATase_7 Asn_synthase
GatB_N tRNA-synt_1c
GMP_synt_C NAD_synthase
NAD_synthase CN_hydrolase
GATase
GMP_synt_C
NAD_synthase
NUDIX CTP_transf_like
Pantoate_ligase Pantoate_ligase
PAPS_reduct GTP_EFTU
GTP_EFTU_D2
PAPS_reduct
Thioredoxin
PUA_2 ATP-sulfurylase
Pyr_redox_2 ETF
QueC QueC
ThiI ThiI
THUMP
THUMP ThiI
tRNA-synt_1 Anticodon_1
Leucyl-specific
tRNA-synt_1
tRNA-synt_1_2
tRNA-synt_1_2 tRNA-synt_1
tRNA-synt_1_2
tRNA-synt_1b tRNA-synt_1b
tRNA-synt_1c tRNA-synt_1c
tRNA-synt_1c_C
tRNA-synt_1d Arg_tRNA_synt_N
DALR_1
tRNA-synt_1d
tRNA-synt_1e DALR_2
tRNA-synt_1e
tRNA-synt_1g Anticodon_1
tRNA-synt_1
tRNA-synt_1_2
tRNA-synt_1g
tRNA_Me_trans tRNA_Me_trans
tRNA_synt_1c_R2 tRNA-synt_1c
Usp Usp
WHEP-TRS tRNA-synt_1b

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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