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| | rpsO | Ribosomal protein S15; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome. (88 aa) |
| | rplE | Ribosomal 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. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. (183 aa) |
| | rpsZ | Ribosomal 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. (61 aa) |
| | rpsH | Ribosomal 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. (132 aa) |
| | rplF | Ribosomal protein L6; This protein binds to the 23S rRNA, and 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; Belongs to the universal ribosomal protein uL6 family. (181 aa) |
| | rplR | Ribosomal protein L18; This is one 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. (119 aa) |
| | rpsE | Ribosomal protein S5; Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body. Belongs to the universal ribosomal protein uS5 family. (170 aa) |
| | rpmD | KEGG: llm:llmg_2363 50S ribosomal protein L30; TIGRFAM: Ribosomal protein L30, bacterial-type; PFAM: Ribosomal protein L30, ferredoxin-like fold domain. (62 aa) |
| | rplO | Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (143 aa) |
| | rpmJ | TIGRFAM: Ribosomal protein L36; HAMAP: Ribosomal protein L36; KEGG: ssm:Spirs_0976 ribosomal protein L36; PFAM: Ribosomal protein L36; Belongs to the bacterial ribosomal protein bL36 family. (37 aa) |
| | rpsM | 30S ribosomal protein S13; Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits; these bridges are implicated in subunit movement. Contacts the tRNAs in the A and P-sites. Belongs to the universal ribosomal protein uS13 family. (121 aa) |
| | rpsK | 30S ribosomal 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; Belongs to the universal ribosomal protein uS11 family. (125 aa) |
| | rpsD | Ribosomal protein S4; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit. (213 aa) |
| | rplQ | TIGRFAM: Ribosomal protein L17; HAMAP: Ribosomal protein L17; KEGG: ssm:Spirs_0981 ribosomal protein L17; PFAM: Ribosomal protein L17. (152 aa) |
| | rpsT | 30S ribosomal protein S20; Binds directly to 16S ribosomal RNA. (93 aa) |
| | ADY14607.1 | Histone family protein DNA-binding protein; Histone-like DNA-binding protein which is capable of wrapping DNA to stabilize it, and thus to prevent its denaturation under extreme environmental conditions. (108 aa) |
| | rpmE | 50S ribosomal protein L31; Binds the 23S rRNA. (67 aa) |
| | ADY14458.1 | PFAM: ADP-ribosylation/Crystallin J1; KEGG: cpb:Cphamn1_1670 ADP-ribosylation/crystallin J1. (345 aa) |
| | ADY14212.1 | KEGG: app:CAP2UW1_4401 hypothetical protein. (297 aa) |
| | ADY14210.1 | PFAM: RNA polymerase, alpha subunit, C-terminal; KEGG: fma:FMG_0966 hypothetical protein. (395 aa) |
| | ADY14198.1 | KEGG: afl:Aflv_2632 IstB-like ATP-binding protein; PFAM: IstB-like ATP-binding protein; SMART: ATPase, AAA+ type, core. (260 aa) |
| | ADY14169.1 | KEGG: amt:Amet_4685 IstB ATP binding domain-containing protein; PFAM: IstB-like ATP-binding protein; SMART: ATPase, AAA+ type, core. (254 aa) |
| | ADY14158.1 | DnaB domain protein helicase domain protein; PFAM: DNA helicase, DnaB-like, C-terminal; KEGG: sta:STHERM_c13140 hypothetical protein. (415 aa) |
| | ADY14157.1 | KEGG: cth:Cthe_2466 hypothetical protein. (251 aa) |
| | priA | Primosomal protein N; Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA; Belongs to the helicase family. PriA subfamily. (654 aa) |
| | ADY14091.1 | KEGG: ssm:Spirs_4125 hypothetical protein. (235 aa) |
| | rplM | Ribosomal 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) |
| | rpsI | PFAM: Ribosomal protein S9; KEGG: ssm:Spirs_3752 ribosomal protein S9; Belongs to the universal ribosomal protein uS9 family. (137 aa) |
| | topA | DNA topoisomerase I; Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA- (5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supe [...] (847 aa) |
| | rplU | 50S ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family. (121 aa) |
| | rpmA | TIGRFAM: Ribosomal protein L27; HAMAP: Ribosomal protein L27; KEGG: sta:STHERM_c10280 50S ribosomal protein L27; PFAM: Ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family. (83 aa) |
| | rplY | 50S ribosomal 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. Belongs to the bacterial ribosomal protein bL25 family. CTC subfamily. (211 aa) |
| | ADY13724.1 | Glucose-1-phosphate adenylyltransferase; KEGG: ssm:Spirs_2619 nucleotidyl transferase; PFAM: Nucleotidyl transferase. (431 aa) |
| | rplT | 50S ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit. (119 aa) |
| | rpmI | TIGRFAM: Ribosomal protein L35, non-mitochondrial; HAMAP: Ribosomal protein L35, non-mitochondrial; KEGG: ssm:Spirs_2591 ribosomal protein L35; PFAM: Ribosomal protein L35; Belongs to the bacterial ribosomal protein bL35 family. (65 aa) |
| | ADY13693.1 | KEGG: she:Shewmr4_3737 hypothetical protein. (289 aa) |
| | rpmB | TIGRFAM: Ribosomal protein L28; HAMAP: Ribosomal protein L28; KEGG: ssm:Spirs_2771 ribosomal protein L28; PFAM: Ribosomal protein L28; Belongs to the bacterial ribosomal protein bL28 family. (76 aa) |
| | ADY13527.1 | TIGRFAM: DNA helicase, ATP-dependent, RecQ type; PFAM: DNA/RNA helicase, DEAD/DEAH box type, N-terminal; Helicase, C-terminal; KEGG: ssm:Spirs_2762 ATP-dependent DNA helicase, RecQ family; SMART: DEAD-like helicase, N-terminal; Helicase, C-terminal. (506 aa) |
| | ADY13525.1 | PFAM: ADP-ribosylation/Crystallin J1; KEGG: plt:Plut_0825 putative ribosylglycohydrolase. (314 aa) |
| | recO | DNA repair protein recO; Involved in DNA repair and RecF pathway recombination. (251 aa) |
| | rpsU | TIGRFAM: Ribosomal protein S21; HAMAP: Ribosomal protein S21; KEGG: ssm:Spirs_2139 ribosomal protein S21; PFAM: Ribosomal protein S21; Belongs to the bacterial ribosomal protein bS21 family. (69 aa) |
| | ADY13375.1 | KEGG: afl:Aflv_2632 IstB-like ATP-binding protein; PFAM: IstB-like ATP-binding protein; SMART: ATPase, AAA+ type, core. (260 aa) |
| | ADY13311.1 | PFAM: Abortive phage infection; KEGG: aba:Acid345_4269 hypothetical protein. (715 aa) |
| | ADY13308.1 | PFAM: Adenylate cyclase; KEGG: ssm:Spirs_2340 adenylyl cyclase CyaB. (193 aa) |
| | rplX | Ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. (101 aa) |
| | ADY13200.1 | RNA binding S1 domain protein; Binds mRNA; thus facilitating recognition of the initiation point. It is needed to translate mRNA with a short Shine-Dalgarno (SD) purine-rich sequence. (571 aa) |
| | dnaG | DNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (598 aa) |
| | rpmF | TIGRFAM: Ribosomal protein L32p; HAMAP: Ribosomal protein L32p; KEGG: ssm:Spirs_1887 ribosomal protein L32; PFAM: Ribosomal protein L32p; Belongs to the bacterial ribosomal protein bL32 family. (61 aa) |
| | rplS | 50S ribosomal protein L19; This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. (118 aa) |
| | rimM | Ribosome maturation factor rimM; An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes; Belongs to the RimM family. (168 aa) |
| | rpsP | TIGRFAM: Ribosomal protein S16; HAMAP: Ribosomal protein S16; KEGG: ssm:Spirs_1872 ribosomal protein S16; PFAM: Ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family. (88 aa) |
| | rpsB | KEGG: ssm:Spirs_2864 ribosomal protein S2; TIGRFAM: Ribosomal protein S2, bacteria/mitochondria/plastid; PFAM: Ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family. (296 aa) |
| | ADY13036.1 | Replicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity. Belongs to the helicase family. DnaB subfamily. (461 aa) |
| | rplI | 50S ribosomal protein L9; Binds to the 23S rRNA. (190 aa) |
| | rpsR | 30S ribosomal 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. (96 aa) |
| | rpsF | 30S ribosomal protein S6; Binds together with S18 to 16S ribosomal RNA. (93 aa) |
| | ADY13005.1 | PFAM: Domain of unknown function DUF362; 4Fe-4S binding domain; KEGG: toc:Toce_1178 hypothetical protein. (372 aa) |
| | ADY12934.1 | SMART: DNA topoisomerase, type IA, DNA-binding; DNA topoisomerase, type IA, domain 2; Toprim domain; TIGRFAM: DNA topoisomerase III, bacterial-type; KEGG: cce:Ccel_0922 DNA topoisomerase III; PFAM: DNA topoisomerase, type IA, central; Toprim domain. (774 aa) |
| | ADY12915.1 | KEGG: ssm:Spirs_1297 AAA ATPase central domain protein; PFAM: ATPase, AAA-type, core; SMART: ATPase, AAA+ type, core. (727 aa) |
| | ADY12691.1 | PFAM: Maritimacin/linocin-M18 bacteriocin protein; KEGG: amt:Amet_4421 Linocin_M18 bacteriocin protein. (261 aa) |
| | ADY12608.1 | KEGG: ssm:Spirs_4049 ribosomal subunit interface protein. (98 aa) |
| | ADY12113.1 | KEGG: kol:Kole_1506 IstB domain protein ATP-binding protein. (270 aa) |
| | ADY12046.1 | KEGG: adg:Adeg_1768 hypothetical protein. (131 aa) |
| | ADY11947.1 | KEGG: tde:TDE0846 hypothetical protein. (729 aa) |
| | ADY11893.1 | KEGG: tde:TDE2245 DNA topoisomerase IV subunit B; PFAM: DNA topoisomerase, type IIA, subunit B, domain 2; ATPase-like, ATP-binding domain; SMART: DNA topoisomerase, type IIA, subunit B/N-terminal; ATPase-like, ATP-binding domain. (600 aa) |
| | rpmH | TIGRFAM: Ribosomal protein L34; HAMAP: Ribosomal protein L34; KEGG: ssm:Spirs_0006 ribosomal protein L34; PFAM: Ribosomal protein L34; Belongs to the bacterial ribosomal protein bL34 family. (55 aa) |
| | gyrB | DNA gyrase, B subunit; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner. (677 aa) |
| | gyrA | DNA gyrase, A subunit; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner. (855 aa) |
| | recR | Recombination protein recR; May play a role in DNA repair. It seems to be involved in an RecBC-independent recombinational process of DNA repair. It may act with RecF and RecO. (196 aa) |
| | ADY14843.1 | UPF0133 protein ybaB; Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection. (101 aa) |
| | ADY14780.1 | PFAM: Domain of unknown function DUF362; KEGG: csc:Csac_1323 hypothetical protein. (364 aa) |
| | rpmG | TIGRFAM: Ribosomal protein L33; HAMAP: Ribosomal protein L33; KEGG: ssm:Spirs_0942 ribosomal protein L33; PFAM: Ribosomal protein L33; Belongs to the bacterial ribosomal protein bL33 family. (59 aa) |
| | rplK | Ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. (143 aa) |
| | rplA | Ribosomal protein L1; Binds directly to 23S rRNA. The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release. (229 aa) |
| | rplJ | 50S ribosomal 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. (174 aa) |
| | rplL | 50S ribosomal protein L7/L12; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. Is thus essential for accurate translation; Belongs to the bacterial ribosomal protein bL12 family. (127 aa) |
| | rpsL | Ribosomal protein S12; Interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone. Located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side and probably holding the rRNA structure together. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit. (124 aa) |
| | rpsG | Ribosomal 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, probably blocks exit of the E-site tRNA; Belongs to the universal ribosomal protein uS7 family. (156 aa) |
| | rpsJ | 30S ribosomal protein S10; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (102 aa) |
| | rplC | 50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family. (206 aa) |
| | rplD | Ribosomal protein L4/L1e; Forms part of the polypeptide exit tunnel. (209 aa) |
| | rplW | Ribosomal protein L25/L23; One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome; Belongs to the universal ribosomal protein uL23 family. (100 aa) |
| | rplB | Ribosomal protein L2; One of the primary rRNA binding proteins. 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 somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family. (274 aa) |
| | rpsS | Ribosomal protein S19; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (90 aa) |
| | rplV | Ribosomal protein L22; The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. (124 aa) |
| | rpsC | Ribosomal protein S3; Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation; Belongs to the universal ribosomal protein uS3 family. (235 aa) |
| | rplP | 50S ribosomal protein L16; Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs; Belongs to the universal ribosomal protein uL16 family. (138 aa) |
| | rpmC | KEGG: btu:BT0486 50S ribosomal protein L29; TIGRFAM: Ribosomal protein L29; PFAM: Ribosomal protein L29; Belongs to the universal ribosomal protein uL29 family. (68 aa) |
| | rpsQ | 30S ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (83 aa) |
| | rplN | Ribosomal protein L14; Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome; Belongs to the universal ribosomal protein uL14 family. (121 aa) |
