6RBD

State 1 of yeast Tsr1-TAP Rps20-Deltaloop pre-40S particles


ChainDomainClassArchitectureTopologyHomology
2.20.25.100 Mainly Beta Single Sheet N-terminal domain of TfIIb Ribosomal protein S27
3.40.50.10490 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold Glucose-6-phosphate isomerase like protein
3.30.160.20 Alpha Beta 2-Layer Sandwich Double Stranded RNA Binding Domain
3.30.230.10 Alpha Beta 2-Layer Sandwich Ribosomal Protein S5 domain 2
1.10.168.20 Mainly Alpha Orthogonal Bundle Phosducin domain 2
2.40.50.1000 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P)
1.10.287.10 Mainly Alpha Orthogonal Bundle Helix Hairpins S15/NS1, RNA-binding
3.30.1230.20 Alpha Beta 2-Layer Sandwich Hypothetical Cytosolic Protein Chain: A
3.30.1370.30 Alpha Beta 2-Layer Sandwich Ribosomal Protein S8 Chain: A, domain 1
3.30.1490.10 Alpha Beta 2-Layer Sandwich Dna Ligase domain 1
3.30.70.3370 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits
2.40.50.140 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Nucleic acid-binding proteins
1.10.455.10 Mainly Alpha Orthogonal Bundle Ribosomal Protein S7 Ribosomal protein S7/S5
3.30.1330.30 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: A
3.30.420.80 Alpha Beta 2-Layer Sandwich Nucleotidyltransferase domain 5
3.30.230.10 Alpha Beta 2-Layer Sandwich Ribosomal Protein S5 domain 2
1.10.10.10 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
3.30.70.600 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Ribosomal protein S10
3.10.290.10 Alpha Beta Roll Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region Chain A
2.40.50.740 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Ribosomal protein S4, central domain
2.30.30.30 Mainly Beta Roll SH3 type barrels.

Protein Family Annotation Pfam Database Homepage

ChainsAccessionIdentifierDescriptionCommentsSource
PF01667Ribosomal protein S27 (Ribosomal_S27e)Ribosomal protein S27- Family
PF04758Ribosomal protein S30 (Ribosomal_S30)Ribosomal protein S30- Family
PF00318Ribosomal protein S2 (Ribosomal_S2)Ribosomal protein S2- Family
PF01015Ribosomal S3Ae family (Ribosomal_S3Ae)Ribosomal S3Ae family- Family
PF03719Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C)Ribosomal protein S5, C-terminal domain- Domain
PF00333Ribosomal protein S5, N-terminal domain (Ribosomal_S5)Ribosomal protein S5, N-terminal domain- Domain
PF01092Ribosomal protein S6e (Ribosomal_S6e)Ribosomal protein S6e- Family
PF01201Ribosomal protein S8e (Ribosomal_S8e)Ribosomal protein S8e- 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
PF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17- Domain
PF16205Ribosomal_S17 N-terminal (Ribosomal_S17_N)Ribosomal_S17 N-terminal- Family
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
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
PF01200Ribosomal protein S28e (Ribosomal_S28e)Ribosomal protein S28e- Family
PF00253Ribosomal protein S14p/S29e (Ribosomal_S14)Ribosomal protein S14p/S29e- Family
PF17903Krr1 KH1 domain (KH_8)Krr1 KH1 domainThis entry represents the first KH domain in the KRR1 protein [1]. Krr1 is a ribosomal assembly factor. The KH1 domain is a divergent KH domain that lacks the RNA-binding GXXG motif and is involved in binding another assembly factor, Kri1 [1].Domain
PF05291Bystin (Bystin)Bystin- Family
PF08142AARP2CN (NUC121) domain (AARP2CN)AARP2CN (NUC121) domainThis domain is the central domain of AARP2. It is weakly similar to the GTP-binding domain of elongation factor TU [1].Domain
PF0495040S ribosome biogenesis protein Tsr1 and BMS1 C-terminal (RIBIOP_C)40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal- Family
PF09202Rio2, N-terminal (Rio2_N)Rio2, N-terminalMembers of this family are found in Rio2, and are structurally homologous to the winged helix (wHTH) domain. They adopt a structure consisting of four alpha helices followed by two beta strands and a fifth alpha helix. The domain confers DNA binding ...Members of this family are found in Rio2, and are structurally homologous to the winged helix (wHTH) domain. They adopt a structure consisting of four alpha helices followed by two beta strands and a fifth alpha helix. The domain confers DNA binding properties to the protein, as per other winged helix domains [1].
Domain
PF00398Ribosomal RNA adenine dimethylase (RrnaAD)Ribosomal RNA adenine dimethylase- Domain
PF00177Ribosomal protein S7p/S5e (Ribosomal_S7)Ribosomal protein S7p/S5eThis family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes.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
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
PF03297S25 ribosomal protein (Ribosomal_S25)S25 ribosomal protein- 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
PF00338Ribosomal protein S10p/S20e (Ribosomal_S10)Ribosomal protein S10p/S20eThis family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes.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
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
PF00467KOW motif (KOW)KOW motif- Family
PF01251Ribosomal protein S7e (Ribosomal_S7e)Ribosomal protein S7e- Family

Gene Product Annotation Gene Product Annotation

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
40S ribosomal protein S27-A
    40S ribosomal protein S30-A
      C [auth 2]
      20S ribosomal RNAnonenonenone
      40S ribosomal protein S0-A
        40S ribosomal protein S1-A
          40S ribosomal protein S2
            40S ribosomal protein S6-A
              40S ribosomal protein S8-A
                40S ribosomal protein S9-A
                  40S ribosomal protein S11-A
                    40S ribosomal protein S13
                      40S ribosomal protein S21-A
                        40S ribosomal protein S22-A
                          40S ribosomal protein S23-A
                            40S ribosomal protein S24-A
                              40S ribosomal protein S28-A
                                40S ribosomal protein S29-A
                                  Pre-rRNA-processing protein PNO1
                                  Essential nuclear protein 1
                                    Ribosome biogenesis protein TSR1
                                      Serine/threonine-protein kinase RIO2
                                        Dimethyladenosine transferase
                                          40S ribosomal protein S5
                                            40S ribosomal protein S12
                                              40S ribosomal protein S14-A
                                                40S ribosomal protein S15
                                                  40S ribosomal protein S16-A
                                                    40S ribosomal protein S17-A
                                                      40S ribosomal protein S18-A
                                                        40S ribosomal protein S19-A
                                                        40S ribosomal protein S25-A
                                                          40S ribosomal protein S3
                                                            40S ribosomal protein S20
                                                              40S ribosomal protein S4-A
                                                                40S ribosomal protein S7-A