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764  structures 6126  species 23  interactions 79017  sequences 344  architectures

Clan: S5 (CL0329)

Summary

Ribosomal protein S5 domain 2-like superfamily Add an annotation

This superfamily contains a wide range of families that possess a structure similar to the second domain of ribosomal S5 protein.

This clan contains 14 families and the total number of domains in the clan is 79017. The clan was built by A Bateman.

Literature references

  1. Ishii R, Nureki O, Yokoyama S;, J Biol Chem. 2003;278:32397-32404.: Crystal structure of the tRNA processing enzyme RNase PH from Aquifex aeolicus. PUBMED:12746447 EPMC:12746447

Members

This clan contains the following 14 member families:

ChlI DNA_mis_repair EFG_IV Fae GHMP_kinases_N IGPD Lon_C LpxC Ribonuclease_P Ribosomal_S5_C RNase_PH Topo-VIb_trans UPF0029 Xol-1_N

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
GHMP_kinases_N (PF00288) 15529 (19.7%) View
RNase_PH (PF01138) 13598 (17.2%) View
EFG_IV (PF03764) 9390 (11.9%) View
Lon_C (PF05362) 7706 (9.8%) View
ChlI (PF13541) 7224 (9.1%) View
Ribosomal_S5_C (PF03719) 5623 (7.1%) View
DNA_mis_repair (PF01119) 4737 (6.0%) View
Ribonuclease_P (PF00825) 4169 (5.3%) View
UPF0029 (PF01205) 4099 (5.2%) View
IGPD (PF00475) 3695 (4.7%) View
LpxC (PF03331) 2676 (3.4%) View
Fae (PF08714) 346 (0.4%) View
Topo-VIb_trans (PF09239) 213 (0.3%) View
Xol-1_N (PF09108) 12 (0.0%) View
Total: 14 Total: 79017 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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This tree shows the occurrence of the domains in this clan across different species. More...

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Interactions

There are 23 interactions for this clan. More...

Interacting families
A B
LpxC LpxC
IGPD IGPD
DNA_mis_repair DNA_mis_repair
HATPase_c
GHMP_kinases_N GHMP_kinases_N
GHMP_kinases_C
GalKase_gal_bdg
RNase_PH KH_1
S1
RNase_PH
RNase_PH_C
PNPase
EFG_IV GTP_EFTU
EFG_C
GTP_EFTU_D2
Fae Fae
Lon_C Lon_C
Ribonuclease_P Ribonuclease_P
Topo-VIb_trans HATPase_c
TP6A_N
FbpA
Topo-VIb_trans
Xol-1_N Xol-1_GHMP-like

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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