UniProtKB - Q9RX88 (RL25_DEIRA)
50S ribosomal protein L25
rplY
Functioni
This is one of 3 proteins that mediate the attachment of the 5S rRNA onto the large ribosomal subunit. This protein has three domains. The N-terminal one is bound on the solvent face, the middle domain fills the space between the 5S rRNA and the L11 arm contacting the 23S rRNA while the C-terminal domain is on the edge of the intersubunit interface and contacts the A site. The protein conformation changes upon binding of a tRNA mimic to the A site, although the mimic does not interact directly with CTC itself, consistent with CTCs presumed role in moderating A site binding.
GO - Molecular functioni
- 5S rRNA binding Source: GO_Central
- structural constituent of ribosome Source: InterPro
- tRNA binding Source: UniProtKB-KW
GO - Biological processi
- translation Source: GO_Central
Keywordsi
Molecular function | Ribonucleoprotein, Ribosomal protein, RNA-binding, rRNA-binding, tRNA-binding |
Names & Taxonomyi
Protein namesi | Recommended name: 50S ribosomal protein L25Alternative name(s): General stress protein CTC |
Gene namesi | Name:rplY Synonyms:ctc Ordered Locus Names:DR_0427 |
Organismi | Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422) |
Taxonomic identifieri | 243230 [NCBI] |
Taxonomic lineagei | Bacteria › Deinococcus-Thermus › Deinococci › Deinococcales › Deinococcaceae › Deinococcus › |
Proteomesi |
|
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000181543 | 1 – 237 | 50S ribosomal protein L25Add BLAST | 237 |
Interactioni
Subunit structurei
Part of the 50S ribosomal subunit. Contacts proteins L11 and L16, the A site tRNA, and the 5S and 23S rRNAs.
6 PublicationsProtein-protein interaction databases
IntActi | Q9RX88, 1 interactor |
STRINGi | 243230.DR_0427 |
Structurei
Secondary structure
3D structure databases
AlphaFoldDBi | Q9RX88 |
SMRi | Q9RX88 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q9RX88 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 1 – 104 | N-terminal domainAdd BLAST | 104 | |
Regioni | 105 – 189 | Middle domainAdd BLAST | 85 | |
Regioni | 190 – 237 | C-terminal domainAdd BLAST | 48 | |
Regioni | 205 – 237 | DisorderedSequence analysisAdd BLAST | 33 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 211 – 225 | Basic and acidic residuesSequence analysisAdd BLAST | 15 |
Sequence similaritiesi
Phylogenomic databases
eggNOGi | COG1825, Bacteria |
HOGENOMi | CLU_075939_2_0_0 |
InParanoidi | Q9RX88 |
OMAi | HVDFYEV |
OrthoDBi | 1673077at2 |
Family and domain databases
CDDi | cd00495, Ribosomal_L25_TL5_CTC, 1 hit |
Gene3Di | 2.170.120.20, 1 hit 2.40.240.10, 1 hit |
HAMAPi | MF_01334, Ribosomal_L25_CTC, 1 hit |
InterProi | View protein in InterPro IPR020056, Rbsml_L25/Gln-tRNA_synth_N IPR029751, Ribosomal_L25 IPR011035, Ribosomal_L25/Gln-tRNA_synth IPR020057, Ribosomal_L25_b-dom IPR037121, Ribosomal_L25_C IPR001021, Ribosomal_L25_long |
Pfami | View protein in Pfam PF01386, Ribosomal_L25p, 1 hit PF14693, Ribosomal_TL5_C, 1 hit |
SUPFAMi | SSF50715, SSF50715, 1 hit |
TIGRFAMsi | TIGR00731, bL25_bact_ctc, 1 hit |
i Sequence
Sequence statusi: Complete.
10 20 30 40 50
MELTAKPRTP KQKLDESMIA AVAYNKENNV SFALDRKAFD RAFRQQSTTG
60 70 80 90 100
LFDITVEGGE TFPALVKAVQ MDKRKRAPIH VDFYMVTYGE PVEVSVPVHT
110 120 130 140 150
TGRSQGEVQG GLVDIVVHNL QIVAPGPRRI PQELVVDVTK MNIGDHITAG
160 170 180 190 200
DIKLPEGCTL AADPELTVVS VLPPRLTAEE LEAEVQAAQV AGLVAAGELS
210 220 230
EEAAEAVLEG DASLEEVKAE ASEDNAGTDS EDNSDAQ
Sequence cautioni
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AE000513 Genomic DNA Translation: AAF10004.1 Different initiation. |
PIRi | A75521 |
RefSeqi | NP_294150.1, NC_001263.1 WP_027479566.1, NC_001263.1 |
Genome annotation databases
EnsemblBacteriai | AAF10004; AAF10004; DR_0427 |
KEGGi | dra:DR_0427 |
PATRICi | fig|243230.17.peg.601 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AE000513 Genomic DNA Translation: AAF10004.1 Different initiation. |
PIRi | A75521 |
RefSeqi | NP_294150.1, NC_001263.1 WP_027479566.1, NC_001263.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1NJM | X-ray | 3.60 | T | 1-237 | [»] | |
1NJP | X-ray | 3.50 | T | 1-237 | [»] | |
1NKW | X-ray | 3.10 | T | 1-237 | [»] | |
1NWX | X-ray | 3.50 | T | 1-237 | [»] | |
1NWY | X-ray | 3.30 | T | 1-237 | [»] | |
1SM1 | X-ray | 3.42 | T | 1-237 | [»] | |
1XBP | X-ray | 3.50 | T | 1-237 | [»] | |
2ZJP | X-ray | 3.70 | S | 1-237 | [»] | |
2ZJQ | X-ray | 3.30 | S | 1-237 | [»] | |
2ZJR | X-ray | 2.91 | S | 1-237 | [»] | |
3CF5 | X-ray | 3.30 | S | 1-237 | [»] | |
3DLL | X-ray | 3.50 | S | 1-237 | [»] | |
3PIO | X-ray | 3.25 | S | 1-237 | [»] | |
3PIP | X-ray | 3.45 | S | 1-237 | [»] | |
4IO9 | X-ray | 3.20 | S | 1-237 | [»] | |
4IOA | X-ray | 3.20 | S | 1-237 | [»] | |
4IOC | X-ray | 3.60 | S | 1-237 | [»] | |
4U67 | X-ray | 3.65 | S | 1-237 | [»] | |
4V49 | X-ray | 8.70 | T | 1-173 | [»] | |
4V4A | X-ray | 9.50 | T | 1-173 | [»] | |
4V4G | X-ray | 11.50 | W | 1-173 | [»] | |
4V4P | X-ray | 5.50 | V | 1-237 | [»] | |
4V4R | X-ray | 5.90 | Z | 1-237 | [»] | |
4V4S | X-ray | 6.76 | Z | 1-237 | [»] | |
4V4T | X-ray | 6.46 | Z | 1-237 | [»] | |
4WFN | X-ray | 3.54 | S | 1-237 | [»] | |
5DM6 | X-ray | 2.90 | S | 1-175 | [»] | |
5DM7 | X-ray | 3.00 | S | 1-175 | [»] | |
5JVG | X-ray | 3.43 | S | 1-237 | [»] | |
5JVH | X-ray | 3.58 | S | 1-237 | [»] | |
7A0R | X-ray | 3.30 | S | 1-175 | [»] | |
7A0S | X-ray | 3.22 | S | 1-175 | [»] | |
7A18 | X-ray | 3.40 | S | 1-175 | [»] | |
AlphaFoldDBi | Q9RX88 | |||||
SMRi | Q9RX88 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
IntActi | Q9RX88, 1 interactor |
STRINGi | 243230.DR_0427 |
Genome annotation databases
EnsemblBacteriai | AAF10004; AAF10004; DR_0427 |
KEGGi | dra:DR_0427 |
PATRICi | fig|243230.17.peg.601 |
Phylogenomic databases
eggNOGi | COG1825, Bacteria |
HOGENOMi | CLU_075939_2_0_0 |
InParanoidi | Q9RX88 |
OMAi | HVDFYEV |
OrthoDBi | 1673077at2 |
Miscellaneous databases
EvolutionaryTracei | Q9RX88 |
Family and domain databases
CDDi | cd00495, Ribosomal_L25_TL5_CTC, 1 hit |
Gene3Di | 2.170.120.20, 1 hit 2.40.240.10, 1 hit |
HAMAPi | MF_01334, Ribosomal_L25_CTC, 1 hit |
InterProi | View protein in InterPro IPR020056, Rbsml_L25/Gln-tRNA_synth_N IPR029751, Ribosomal_L25 IPR011035, Ribosomal_L25/Gln-tRNA_synth IPR020057, Ribosomal_L25_b-dom IPR037121, Ribosomal_L25_C IPR001021, Ribosomal_L25_long |
Pfami | View protein in Pfam PF01386, Ribosomal_L25p, 1 hit PF14693, Ribosomal_TL5_C, 1 hit |
SUPFAMi | SSF50715, SSF50715, 1 hit |
TIGRFAMsi | TIGR00731, bL25_bact_ctc, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | RL25_DEIRA | |
Accessioni | Q9RX88Primary (citable) accession number: Q9RX88 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | March 15, 2004 |
Last sequence update: | March 15, 2004 | |
Last modified: | May 25, 2022 | |
This is version 147 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Direct protein sequencing, Reference proteomeDocuments
- Ribosomal proteins
Ribosomal proteins families and list of entries - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families