6HCM

Structure of the rabbit collided di-ribosome (stalled monosome)


Protein Family Annotation Pfam Database Homepage

ChainsAccessionIdentifierDescriptionCommentsSource
PF01015Ribosomal S3Ae family (Ribosomal_S3Ae)Ribosomal S3Ae family- Family
PF07650KH domain (KH_2)KH domain- Domain
PF00189Ribosomal protein S3, C-terminal domain (Ribosomal_S3_C)Ribosomal protein S3, C-terminal domainThis family contains a central domain Pfam:PF00013, hence the amino and carboxyl terminal domains are stored separately. This is a minimal carboxyl-terminal domain. Some are much longer.Domain
PF00177Ribosomal protein S7p/S5e (Ribosomal_S7)Ribosomal protein S7p/S5eThis family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes.Domain
PF01092Ribosomal protein S6e (Ribosomal_S6e)Ribosomal protein S6e- Family
PF01251Ribosomal protein S7e (Ribosomal_S7e)Ribosomal protein S7e- Family
PF00163Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4)Ribosomal protein S4/S9 N-terminal domain- Family
PF01479S4 domain (S4)S4 domainThe S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain
PF03501Plectin/S10 domain (S10_plectin)Plectin/S10 domainThis presumed domain is found at the N-terminus of some isoforms of the cytoskeletal muscle protein plectin as well as the ribosomal S10 protein. This domain may be involved in RNA binding.Domain
PF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17- Domain
PF16205Ribosomal_S17 N-terminal (Ribosomal_S17_N)Ribosomal_S17 N-terminal- Family
PF01248Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae)Ribosomal protein L7Ae/L30e/S12e/Gadd45 familyThis family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD11 ...This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118 [1].
Domain
PF08069Ribosomal S13/S15 N-terminal domain (Ribosomal_S13_N)Ribosomal S13/S15 N-terminal domainThis domain is found at the N-terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [1].Domain
PF00312Ribosomal protein S15 (Ribosomal_S15)Ribosomal protein S15- Domain
PF00203Ribosomal protein S19 (Ribosomal_S19)Ribosomal protein S19- Domain
PF00380Ribosomal protein S9/S16 (Ribosomal_S9)Ribosomal protein S9/S16- Family
PF00833Ribosomal S17 (Ribosomal_S17e)Ribosomal S17- Family
PF00416Ribosomal protein S13/S18 (Ribosomal_S13)Ribosomal protein S13/S18- Family
PF00338Ribosomal protein S10p/S20e (Ribosomal_S10)Ribosomal protein S10p/S20eThis family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes.Domain
PF00410Ribosomal protein S8 (Ribosomal_S8)Ribosomal protein S8- Domain
PF03297S25 ribosomal protein (Ribosomal_S25)S25 ribosomal protein- Family
PF01667Ribosomal protein S27 (Ribosomal_S27e)Ribosomal protein S27- Family
PF01200Ribosomal protein S28e (Ribosomal_S28e)Ribosomal protein S28e- Family
PF00253Ribosomal protein S14p/S29e (Ribosomal_S14)Ribosomal protein S14p/S29e- Family
PF04758Ribosomal protein S30 (Ribosomal_S30)Ribosomal protein S30- Family
PF01599Ribosomal protein S27a (Ribosomal_S27)Ribosomal protein S27aThis family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins ...This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis [3]. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [2].
Domain
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
PF04068Possible Fer4-like domain in RNase L inhibitor, RLI (RLI)Possible Fer4-like domain in RNase L inhibitor, RLI- Family
PF000374Fe-4S binding domain (Fer4)4Fe-4S binding domainSuperfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich.Domain
PF00005ABC transporter (ABC_tran)ABC transporterABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are comp ...ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are composed of two copies of this domain and two copies of a transmembrane domain Pfam:PF00664. These four domains may belong to a single polypeptide as in Swiss:P13569, or belong in different polypeptide chains.
Domain
PF03947Ribosomal Proteins L2, C-terminal domain (Ribosomal_L2_C)Ribosomal Proteins L2, C-terminal domain- Domain
PF00181Ribosomal Proteins L2, RNA binding domain (Ribosomal_L2)Ribosomal Proteins L2, RNA binding domain- Domain
PF00297Ribosomal protein L3 (Ribosomal_L3)Ribosomal protein L3- Family
PF03868Ribosomal protein L6, N-terminal domain (Ribosomal_L6e_N)Ribosomal protein L6, N-terminal domain- Domain
PF01159Ribosomal protein L6e (Ribosomal_L6e)Ribosomal protein L6e- Family
PF08079Ribosomal L30 N-terminal domain (Ribosomal_L30_N)Ribosomal L30 N-terminal domainThis presumed domain is found at the N-terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018 [1].Domain
PF00327Ribosomal protein L30p/L7e (Ribosomal_L30)Ribosomal protein L30p/L7eThis family includes prokaryotic L30 and eukaryotic L7.Domain
PF00347Ribosomal protein L6 (Ribosomal_L6)Ribosomal protein L6- Domain
PF01929Ribosomal protein L14 (Ribosomal_L14e)Ribosomal protein L14- Family
PF00827Ribosomal L15 (Ribosomal_L15e)Ribosomal L15- Family
PF00237Ribosomal protein L22p/L17e (Ribosomal_L22)Ribosomal protein L22p/L17eThis family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes.Domain
PF01157Ribosomal protein L21e (Ribosomal_L21e)Ribosomal protein L21e- Family
PF00238Ribosomal protein L14p/L23e (Ribosomal_L14)Ribosomal protein L14p/L23e- Domain
PF01246Ribosomal protein L24e (Ribosomal_L24e)Ribosomal protein L24e- Domain
PF03939Ribosomal protein L23, N-terminal domain (Ribosomal_L23eN)Ribosomal protein L23, N-terminal domain- Family
PF00276Ribosomal protein L23 (Ribosomal_L23)Ribosomal protein L23- Family
PF16906Ribosomal proteins L26 eukaryotic, L24P archaeal (Ribosomal_L26)Ribosomal proteins L26 eukaryotic, L24P archaeal- Family
PF00467KOW motif (KOW)KOW motif- Family
PF01248Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae)Ribosomal protein L7Ae/L30e/S12e/Gadd45 familyThis family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD11 ...This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118 [1].
Domain
PF01198Ribosomal protein L31e (Ribosomal_L31e)Ribosomal protein L31e- Family
PF01655Ribosomal protein L32 (Ribosomal_L32e)Ribosomal protein L32- Family
PF01247Ribosomal protein L35Ae (Ribosomal_L35Ae)Ribosomal protein L35Ae- Domain
PF00831Ribosomal L29 protein (Ribosomal_L29)Ribosomal L29 protein- Family
PF01158Ribosomal protein L36e (Ribosomal_L36e)Ribosomal protein L36e- Family
PF01907Ribosomal protein L37e (Ribosomal_L37e)Ribosomal protein L37e- Family
PF00832Ribosomal L39 protein (Ribosomal_L39)Ribosomal L39 protein- Family
PF01780Ribosomal L37ae protein family (Ribosomal_L37ae)Ribosomal L37ae protein family- Family
PF01778Ribosomal L28e protein family (Ribosomal_L28e)Ribosomal L28e protein family- Family
PF03946Ribosomal protein L11, N-terminal domain (Ribosomal_L11_N)Ribosomal protein L11, N-terminal domainThe N-terminal domain of Ribosomal protein L11 adopts an alpha/beta fold and is followed by the RNA binding C-terminal domain.Domain
PF00298Ribosomal protein L11, RNA binding domain (Ribosomal_L11)Ribosomal protein L11, RNA binding domain- Domain
PF00281Ribosomal protein L5 (Ribosomal_L5)Ribosomal protein L5- Domain
PF00673ribosomal L5P family C-terminus (Ribosomal_L5_C)ribosomal L5P family C-terminusThis region is found associated with Pfam:PF00281.Domain
PF17144Ribosomal large subunit proteins 60S L5, and 50S L18 (Ribosomal_L5e)Ribosomal large subunit proteins 60S L5, and 50S L18- Family
PF14204Ribosomal L18 C-terminal region (Ribosomal_L18_c)Ribosomal L18 C-terminal regionThis domain is the C-terminal end of ribosomal L18/L5 proteins.Domain
PF00252Ribosomal protein L16p/L10e (Ribosomal_L16)Ribosomal protein L16p/L10e- Domain
PF00687Ribosomal protein L1p/L10e family (Ribosomal_L1)Ribosomal protein L1p/L10e familyThis family includes prokaryotic L1 and eukaryotic L10.Domain

Gene Product Annotation Gene Product Annotation

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
18S ribosomal RNAnonenonenone
uS2nonenonenone
40S ribosomal protein S3a
uS5nonenonenone
uS3
eS4nonenonenone
Ribosomal protein S5
    40S ribosomal protein S6
    40S ribosomal protein S7
      eS8nonenonenone
      Ribosomal protein S9 (Predicted)
        eS10
            Ribosomal protein S11
              40S ribosomal protein S12
                uS15
                  uS11nonenonenone
                  uS19
                    Ribosomal protein S16
                      eS17
                        uS13
                          eS19nonenonenone
                          uS10
                            eS21nonenonenone
                            Ribosomal protein S15a
                              uS12nonenonenone
                              eS24nonenonenone
                              eS25
                                  eS26nonenonenone
                                  40S ribosomal protein S27
                                    Ribosomal protein S28
                                    uS14
                                      40S ribosomal protein S30
                                        Ribosomal protein S27a
                                          RACK1
                                                eRF1(AAQ)nonenonenone
                                                ATP binding cassette subfamily E member 1
                                                    28S ribosomal RNAnonenonenone
                                                    5S ribosomal RNAnonenonenone
                                                    5.8S ribosomal RNAnonenonenone
                                                    Ribosomal protein L8
                                                      uL3
                                                        uL4nonenonenone
                                                        60S ribosomal protein L6
                                                          uL30
                                                            uL6
                                                              eL13nonenonenone
                                                              Ribosomal protein L14
                                                                Ribosomal protein L15
                                                                  uL13nonenonenone
                                                                  uL22
                                                                    eL18nonenonenone
                                                                    eL19nonenonenone
                                                                    eL20nonenonenone
                                                                    eL21
                                                                      eL22nonenonenone
                                                                      Ribosomal protein L23
                                                                        eL24
                                                                            uL23
                                                                              Ribosomal protein L26
                                                                              eL27nonenonenone
                                                                              uL15nonenonenone
                                                                              eL29nonenonenone
                                                                              eL30
                                                                                eL31
                                                                                  eL32
                                                                                    eL33
                                                                                      eL34nonenonenone
                                                                                      uL29
                                                                                        60S ribosomal protein L36
                                                                                          Ribosomal protein L37
                                                                                            eL38nonenonenone
                                                                                            eL39
                                                                                              eL40nonenonenone
                                                                                              eL41nonenonenone
                                                                                              eL42nonenonenone
                                                                                              eL43
                                                                                                eL28
                                                                                                  uL10nonenonenone
                                                                                                  Ribosomal protein L12
                                                                                                    P-site tRNAnonenonenone
                                                                                                    mRNAnonenonenone
                                                                                                    Ribosomal protein L11
                                                                                                      eL8nonenonenone
                                                                                                      60S ribosomal protein L5
                                                                                                        60S ribosomal protein L10
                                                                                                          nascent chainnonenonenone
                                                                                                          Ribosomal protein