6P5J

Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2)


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
PF00900Ribosomal family S4e (Ribosomal_S4e)Ribosomal family S4e- Family
PF1612140S ribosomal protein S4 C-terminus (40S_S4_C)40S ribosomal protein S4 C-terminus- Family
PF08071RS4NT (NUC023) domain (RS4NT)RS4NT (NUC023) domainThis is the N-terminal domain of Ribosomal S4 / S4e proteins. This domain is associated with S4 and KOW domains [1].Domain
PF00467KOW motif (KOW)KOW motif- Family
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
PF00411Ribosomal protein S11 (Ribosomal_S11)Ribosomal protein S11- Family
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
PF01090Ribosomal protein S19e (Ribosomal_S19e)Ribosomal protein S19e- Family
PF00338Ribosomal protein S10p/S20e (Ribosomal_S10)Ribosomal protein S10p/S20eThis family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes.Domain
PF01249Ribosomal protein S21e (Ribosomal_S21e)Ribosomal protein S21e- Family
PF00410Ribosomal protein S8 (Ribosomal_S8)Ribosomal protein S8- Domain
PF00164Ribosomal protein S12/S23 (Ribosom_S12_S23)Ribosomal protein S12/S23- Family
PF01282Ribosomal protein S24e (Ribosomal_S24e)Ribosomal protein S24e- Family
PF03297S25 ribosomal protein (Ribosomal_S25)S25 ribosomal protein- Family
PF01283Ribosomal protein S26e (Ribosomal_S26e)Ribosomal protein S26e- 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
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
PF1437460S ribosomal protein L4 C-terminal domain (Ribos_L4_asso_C)60S ribosomal protein L4 C-terminal domainThis family is found at the very C-terminal of 60 ribosomal L4 proteins.Domain
PF00573Ribosomal protein L4/L1 family (Ribosomal_L4)Ribosomal protein L4/L1 family- Family
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
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
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
PF00347Ribosomal protein L6 (Ribosomal_L6)Ribosomal protein L6- Domain
PF00252Ribosomal protein L16p/L10e (Ribosomal_L16)Ribosomal protein L16p/L10e- 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
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
PF01280Ribosomal protein L19e (Ribosomal_L19e)Ribosomal protein L19e- Family
PF01157Ribosomal protein L21e (Ribosomal_L21e)Ribosomal protein L21e- Family
PF01776Ribosomal L22e protein family (Ribosomal_L22e)Ribosomal L22e protein family- 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
PF01777Ribosomal L27e protein family (Ribosomal_L27e)Ribosomal L27e protein family- Family
PF00467KOW motif (KOW)KOW motif- Family
PF00828Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A)Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A- Family
PF01779Ribosomal L29e protein family (Ribosomal_L29e)Ribosomal L29e protein family- 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
PF01655Ribosomal protein L32 (Ribosomal_L32e)Ribosomal protein L32- Family
PF01247Ribosomal protein L35Ae (Ribosomal_L35Ae)Ribosomal protein L35Ae- Domain
PF01199Ribosomal protein L34e (Ribosomal_L34e)Ribosomal protein L34e- Family
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
PF05162Ribosomal protein L41 (Ribosomal_L41)Ribosomal protein L41- Family
PF00935Ribosomal protein L44 (Ribosomal_L44)Ribosomal protein L44- Family
PF01780Ribosomal L37ae protein family (Ribosomal_L37ae)Ribosomal L37ae protein family- Family
PF01778Ribosomal L28e protein family (Ribosomal_L28e)Ribosomal L28e protein family- Family
PF00687Ribosomal protein L1p/L10e family (Ribosomal_L1)Ribosomal protein L1p/L10e familyThis family includes prokaryotic L1 and eukaryotic L10.Domain
PF01198Ribosomal protein L31e (Ribosomal_L31e)Ribosomal protein L31e- Family

Gene Product Annotation Gene Product Annotation

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
18S rRNAnonenonenone
uS2nonenonenone
eS1
uS5nonenonenone
uS3
eS4
    uS7
      eS6
      eS7
        eS8nonenonenone
        uS4
          eS10
              uS17
                eS12
                  uS15
                    uS11
                      uS19
                        uS9
                          eS17
                            uS13
                              eS19
                                uS10
                                  eS21
                                    uS8
                                      uS12
                                        eS24
                                          eS25
                                              eS26
                                                eS27
                                                  eS28
                                                  eS29
                                                    eS30
                                                      eS31
                                                        RACK1
                                                              28S rRNAnonenonenone
                                                              5S rRNAnonenonenone
                                                              5.8S rRNAnonenonenone
                                                              uL2
                                                                uL3
                                                                  uL4
                                                                    uL18
                                                                      eL6
                                                                        uL30
                                                                          eL8
                                                                            uL6
                                                                              uL16
                                                                                uL11
                                                                                  eL13nonenonenone
                                                                                  L14e
                                                                                    eL15
                                                                                      uL13nonenonenone
                                                                                      uL22
                                                                                        eL18nonenonenone
                                                                                        eL19
                                                                                          eL20nonenonenone
                                                                                          eL21
                                                                                            eL22
                                                                                              uL14
                                                                                                eL24
                                                                                                    eL23
                                                                                                      uL24
                                                                                                      eL27
                                                                                                        uL15
                                                                                                          eL29
                                                                                                            eL30
                                                                                                              eL32
                                                                                                                eL33
                                                                                                                  eL34
                                                                                                                    eL35
                                                                                                                      eL36
                                                                                                                        eL37
                                                                                                                          eL38nonenonenone
                                                                                                                          eL39
                                                                                                                            eL40nonenonenone
                                                                                                                            eL41
                                                                                                                              eL42
                                                                                                                                eL43
                                                                                                                                  eL28
                                                                                                                                    uL1
                                                                                                                                      IAPV-IRESnonenonenone
                                                                                                                                      eL31