STRINGSTRING
ykgM ykgM rpsT rpsT rpsB rpsB ykgO ykgO rplI rplI rpsR rpsR rpsF rpsF rplL rplL rplJ rplJ rplA rplA rplK rplK rpmE rpmE rpmH rpmH rpmB rpmB rpmG rpmG rbbA rbbA rpsL rpsL rpsG rpsG rpsJ rpsJ rplC rplC rplD rplD rplW rplW rplB rplB rpsS rpsS rplV rplV rpsC rpsC rplP rplP rpmC rpmC rpsQ rpsQ rplN rplN rplX rplX rplE rplE rpsN rpsN rpsH rpsH rplF rplF rplR rplR rpsE rpsE rpmD rpmD rplO rplO rpmJ rpmJ rpsM rpsM rpsK rpsK rpsD rpsD rplQ rplQ rplM rplM rpsI rpsI hpf hpf rplU rplU rpmA rpmA rpsO rpsO rpsU rpsU rpsP rpsP rplS rplS raiA raiA rplY rplY rpmI rpmI rplT rplT sra sra rpmF rpmF rpsA rpsA
Nodes:
Network nodes represent proteins
splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.
Node Color
colored nodes:
query proteins and first shell of interactors
white nodes:
second shell of interactors
Node Content
empty nodes:
proteins of unknown 3D structure
filled nodes:
a 3D structure is known or predicted
Edges:
Edges represent protein-protein associations
associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.
Known Interactions
from curated databases
experimentally determined
Predicted Interactions
gene neighborhood
gene fusions
gene co-occurrence
Others
textmining
co-expression
protein homology
Your Input:
ykgM50S ribosomal protein L31 type B; alternative zinc-limitation L31 protein. (87 aa)
rpsT30S ribosomal subunit protein S20; Binds directly to 16S ribosomal RNA. (87 aa)
rpsB30S ribosomal subunit protein S2; Required for ribosomal protein S1 to bind to the 30S subunit. (241 aa)
ykgORpmJ-like protein. (46 aa)
rplI50S ribosomal subunit protein L9; One of the primary rRNA binding proteins, it binds very close to the 3' end of the 23S rRNA; Belongs to the bacterial ribosomal protein bL9 family. (149 aa)
rpsR30S ribosomal subunit protein S18; Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit; Belongs to the bacterial ribosomal protein bS18 family. (75 aa)
rpsF30S ribosomal subunit protein S6; Binds together with S18 to 16S ribosomal RNA. (131 aa)
rplL50S ribosomal subunit protein L7/L12; The binding site for several of the GTPase factors involved in protein synthesis (IF-2, EF-Tu, EF-G and RF3). Is thus essential for accurate translation. Deletion of 1 of the L12 dimers from the ribosome (by deleting the binding site on L10) leads to decreased IF-2 association with the 70S ribosome and decreased stimulation of the GTPase activity of EF-G; Belongs to the bacterial ribosomal protein bL12 family. (121 aa)
rplJ50S ribosomal subunit protein L10; Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors. Belongs to the universal ribosomal protein uL10 family. (165 aa)
rplA50S ribosomal subunit protein L1; One of the primary rRNA binding proteins, it binds very close to the 3'-end of the 23S rRNA. Forms part of the L1 stalk. It is often not seen in high-resolution crystal structures, but can be seen in cryo_EM and 3D reconstruction models. These indicate that the distal end of the stalk moves by approximately 20 angstroms. This stalk movement is thought to be coupled to movement of deacylated tRNA into and out of the E site, and thus to participate in tRNA translocation. Contacts the P and E site tRNAs. (234 aa)
rplK50S ribosomal subunit protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors; Belongs to the universal ribosomal protein uL11 family. (142 aa)
rpmE50S ribosomal subunit protein L31; Binds the 23S rRNA. (70 aa)
rpmH50S ribosomal subunit protein L34; Protein involved in structural constituent of ribosome and translation; Belongs to the bacterial ribosomal protein bL34 family. (46 aa)
rpmB50S ribosomal subunit protein L28; Protein involved in structural constituent of ribosome and translation. (78 aa)
rpmG50S ribosomal subunit protein L33; Protein involved in structural constituent of ribosome and translation. (55 aa)
rbbARibosome-associated ATPase: ATP-binding protein/ATP-binding membrane protein; Exhibits an intrinsic ATPase activity that is stimulated by both 70S ribosomes and 30S ribosomal subunits. Could be involved in protein-chain elongation and in release of deacyl-tRNA from ribosomes after peptide bond synthesis. Stimulates the synthesis of polyphenylalanine in vitro; In the C-terminal section; belongs to the ABC-2 integral membrane protein family. (911 aa)
rpsL30S ribosomal subunit protein S12; With S4 and S5 plays an important role in translational accuracy. Cryo-EM studies suggest that S12 contacts the EF-Tu bound tRNA in the A-site during codon-recognition. This contact is most likely broken as the aminoacyl-tRNA moves into the peptidyl transferase center in the 50S subunit; Belongs to the universal ribosomal protein uS12 family. (124 aa)
rpsG30S ribosomal subunit protein S7; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit. Is located at the subunit interface close to the decoding center, where it has been shown to contact mRNA. Has been shown to contact tRNA in both the P and E sites; it probably blocks exit of the E site tRNA. (179 aa)
rpsJ30S ribosomal subunit protein S10; Involved in the binding of tRNA to the ribosomes. In addition, in complex with NusB, is involved in the regulation of ribosomal RNA (rRNA) biosynthesis by transcriptional antitermination. S10 binds RNA non-specifically and increases the affinity of NusB for the boxA RNA sequence. S10 may constitute the critical antitermination component of the NusB-S10 complex. Belongs to the universal ribosomal protein uS10 family. (103 aa)
rplC50S ribosomal subunit protein L3; One of two assembly initiator proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. (209 aa)
rplD50S ribosomal subunit protein L4; One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. Forms part of the polypeptide exit tunnel. Belongs to the universal ribosomal protein uL4 family. (201 aa)
rplW50S ribosomal subunit protein L23; One of the early assembly proteins, it binds 23S rRNA; is essential for growth. One of the proteins that surround the polypeptide exit tunnel on the outside of the subunit. Acts as the docking site for trigger factor for Ffh binding to the ribosome (SRP54, and and to nascent polypeptide chains. Belongs to the universal ribosomal protein uL23 family. (100 aa)
rplB50S ribosomal subunit protein L2; One of the primary rRNA binding proteins. Located near the base of the L1 stalk, it is probably also mobile. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is highly controversial. Belongs to the universal ribosomal protein uL2 family. (273 aa)
rpsS30S ribosomal subunit protein S19; In the E.coli 70S ribosome in the initiation state it has been modeled to contact the 23S rRNA of the 50S subunit forming part of bridge B1a; this bridge is broken in the model with bound EF-G. The 23S rRNA contact site in bridge B1a is modeled to differ in different ribosomal states , contacting alternately S13 or S19. In the 3.5 angstroms resolved ribosome structures the contacts between L5, S13 and S19 bridge B1b are different, confirming the dynamic nature of this interaction. Bridge B1a is not visible in the crystallized ribosomes due to 23S rR [...] (92 aa)
rplV50S ribosomal subunit protein L22; This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. (110 aa)
rpsC30S ribosomal subunit protein S3; Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation (By similarity). Belongs to the universal ribosomal protein uS3 family. (233 aa)
rplP50S ribosomal subunit protein L16; This protein binds directly to 23S ribosomal RNA and is located at the A site of the peptidyltransferase center. It contacts the A and P site tRNAs. It has an essential role in subunit assembly, which is not well understood. (136 aa)
rpmC50S ribosomal subunit protein L29; Binds 23S rRNA. It is not essential for growth. (63 aa)
rpsQ30S ribosomal subunit protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. Also plays a role in translational accuracy; neamine-resistant ribosomes show reduced neamine-induced misreading in vitro. (84 aa)
rplN50S ribosomal subunit protein L14; This protein binds directly to 23S ribosomal RNA. In the E.coli 70S ribosome it has been modeled to make two contacts with the 16S rRNA of the 30S subunit, forming part of bridges B5 and B8, connecting the 2 subunits. Although the protein undergoes significant rotation during the transition from an initiation to and EF-G bound state, the bridges remain stable. In the 3.5 A resolved structures L14 and L19 interact and together make contact with the 16S rRNA in bridges B5 and B8. (123 aa)
rplX50S ribosomal subunit protein L24; One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. It is not thought to be involved in the functions of the mature 50S subunit in vitro; Belongs to the universal ribosomal protein uL24 family. (104 aa)
rplE50S ribosomal subunit protein L5; This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. Its 5S rRNA binding is significantly enhanced in the presence of L18. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. (179 aa)
rpsN30S ribosomal subunit protein S14; Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site. (101 aa)
rpsH30S ribosomal subunit protein S8; One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit; Belongs to the universal ribosomal protein uS8 family. (130 aa)
rplF50S ribosomal subunit protein L6; This protein binds directly to at least 2 domains of the 23S ribosomal RNA, thus is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. (177 aa)
rplR50S ribosomal subunit protein L18; This is one of the proteins that mediates the attachment of the 5S rRNA subcomplex onto the large ribosomal subunit where it forms part of the central protuberance. Binds stably to 5S rRNA; increases binding abilities of L5 in a cooperative fashion; both proteins together confer 23S rRNA binding. The 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. (117 aa)
rpsE30S ribosomal subunit protein S5; With S4 and S12 plays an important role in translational accuracy. Many suppressors of streptomycin-dependent mutants of protein S12 are found in this protein, some but not all of which decrease translational accuracy (ram, ribosomal ambiguity mutations). The physical location of this protein suggests it may also play a role in mRNA unwinding by the ribosome, possibly by forming part of a processivity clamp. (167 aa)
rpmD50S ribosomal subunit protein L30; Protein involved in structural constituent of ribosome and translation. (59 aa)
rplO50S ribosomal subunit protein L15; This protein binds the 5S rRNA. It is required for the late stages of subunit assembly, and is essential for 5S rRNA assembly onto the ribosome; Belongs to the universal ribosomal protein uL15 family. (144 aa)
rpmJ50S ribosomal subunit protein L36; Protein involved in structural constituent of ribosome and translation; Belongs to the bacterial ribosomal protein bL36 family. (38 aa)
rpsM30S ribosomal subunit protein S13; Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. Contacts the tRNAs in the A and P sites. Belongs to the universal ribosomal protein uS13 family. (118 aa)
rpsK30S ribosomal subunit protein S11; Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine- Dalgarno cleft in the 70S ribosome (By similarity); Belongs to the universal ribosomal protein uS11 family. (129 aa)
rpsD30S ribosomal subunit protein S4; One of two assembly initiator proteins for the 30S subunit, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit. Plays a role in mRNA unwinding by the ribosome, possibly by forming part of a processivity clamp. Also functions as a rho-dependent antiterminator of rRNA transcription, increasing the synthesis of rRNA under conditions of excess protein, allowing a more rapid return to homeostasis. Binds directly to RNA polymerase; Belongs to the universal ribosomal protein uS4 family. (206 aa)
rplQ50S ribosomal subunit protein L17; Requires L15 for assembly into the 50S subunit. (127 aa)
rplM50S ribosomal subunit protein L13; This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. (142 aa)
rpsI30S ribosomal subunit protein S9; The C-terminal tail plays a role in the affinity of the 30S P site for different tRNAs. Mutations that decrease this affinity are suppressed in the 70S ribosome. (130 aa)
hpfRibosome hibernation promoting factor HPF; During stationary phase, promotes and stabilizes dimerization of 70S ribosomes by the ribosome modulation factor (RMF), leading to the formation of inactive 100S ribosomes. Converts immature 90S particles formed by RMF into 100S ribosomes. Crystallization with T.thermophilus 70S ribosomes shows it binds in the channel between the head and body of the 30S subunit, where mRNA, tRNAs, initiation factors IF1 and IF3 and elongation factor G would bind; however RMF is still able to bind. In this crystal binding of HPF induces movement of the 30S hea [...] (95 aa)
rplU50S ribosomal subunit protein L21; This protein binds to 23S rRNA in the presence of protein L20. (103 aa)
rpmA50S ribosomal subunit protein L27; Protein involved in structural constituent of ribosome and translation. (85 aa)
rpsO30S ribosomal subunit protein S15; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it helps nucleate assembly of the platform of the 30S subunit by binding and bridging several RNA helices of the 16S rRNA. Binds to its own mRNA, stabilizing it 5-UTR and preventing its translation. (89 aa)
rpsU30S ribosomal subunit protein S21; Protein involved in structural constituent of ribosome and translation; Belongs to the bacterial ribosomal protein bS21 family. (71 aa)
rpsP30S ribosomal subunit protein S16; In addition to being a ribosomal protein, S16 also has a cation-dependent endonuclease activity. (82 aa)
rplS50S ribosomal subunit protein L19; This protein is located at the 30S-50S ribosomal subunit interface. In the 70S ribosome it has been modeled to make two contacts with the 16S rRNA of the 30S subunit forming part of bridges B6 and B8. In the 3.5 A resolved structures L14 and L19 interact and together make contact with the 16S rRNA. The protein conformation is quite different between the 50S and 70S structures, which may be necessary for translocation. (115 aa)
raiACold shock protein associated with 30S ribosomal subunit; During stationary phase prevents 70S dimer formation, probably in order to regulate translation efficiency during transition between the exponential and the stationary phases. During environmental stress such as cold shock or excessive cell density at stationary phase, stabilizes the 70S ribosome against dissociation, inhibits translation elongation and increases translation accuracy. When normal growth conditions are restored, is quickly released from the ribosome. Has been suggested to inhibit translation elongation by blockin [...] (113 aa)
rplY50S ribosomal subunit protein L25; This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. Binds to the 5S rRNA independently of L5 and L18. Not required for binding of the 5S rRNA/L5/L18 subcomplex to 23S rRNA. (94 aa)
rpmI50S ribosomal subunit protein A; Protein involved in structural constituent of ribosome and translation; Belongs to the bacterial ribosomal protein bL35 family. (65 aa)
rplT50S ribosomal subunit protein L20; One of the primary rRNA binding proteins, it binds close to the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. (118 aa)
sraStationary-phase-induced ribosome-associated protein; Although this protein associates with the 30S subunit of the ribosome it is not considered to be a bona fide ribosomal protein. Belongs to the SRA family. (45 aa)
rpmF50S ribosomal subunit protein L32; Protein involved in structural constituent of ribosome and translation. (57 aa)
rpsA30S ribosomal subunit protein S1; Required for translation of most natural mRNAs except for leaderless mRNA. Binds mRNA upstream of the Shine- Dalgarno (SD) sequence and helps it bind to the 30S ribosomal subunit; acts as an RNA chaperone to unfold structured mRNA on the ribosome but is not essential for mRNAs with strong SDs and little 5'-UTR structure, thus it may help fine-tune which mRNAs that are translated. Unwinds dsRNA by binding to transiently formed ssRNA regions; binds about 10 nucleotides. Has a preference for polypyrimidine tracts. Negatively autoregulates its own translat [...] (557 aa)
Your Current Organism:
Escherichia coli K12
NCBI taxonomy Id: 511145
Other names: E. coli str. K-12 substr. MG1655, Escherichia coli MG1655, Escherichia coli str. K-12 substr. MG1655, Escherichia coli str. K12 substr. MG1655, Escherichia coli str. MG1655, Escherichia coli strain MG1655
Server load: low (10%) [HD]
STRING is a Core Data Resource as designated by Global Biodata Coalition and ELIXIR.