5AJ3
Structure of the small subunit of the mammalian mitoribosome
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
J [auth L] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8096284 | 3000135 | SCOP2B (2022-06-29) |
K [auth N] | SCOP2 Family | Ribosomal protein S14p/S29e | 8047583 | 4003647 | SCOP2 (2022-06-29) |
K [auth N] | SCOP2 Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8052589 | 3000068 | SCOP2 (2022-06-29) |
B | SCOP2 Family | Ribosomal protein S2-like | 8063847 | 4003744 | SCOP2 (2022-06-29) |
B | SCOP2 Superfamily | SIS domain/Ribosomal protein S2-like | 8063848 | 3001397 | SCOP2 (2022-06-29) |
BA [auth h] | SCOP2B Superfamily | Mitochondrial 28S ribosomal protein S31-like | 8090912 | 3002471 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
J [auth L] | PF00164 | e5aj3L1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00164 | ECOD (1.6) |
K [auth N] | PF00253 | e5aj3N1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: LIM domain-like | F: PF00253 | ECOD (1.6) |
L [auth O] | PF00312 | e5aj3O1 | A: alpha arrays | X: S15/NS1 RNA-binding domain (From Topology) | H: S15/NS1 RNA-binding domain (From Topology) | T: S15/NS1 RNA-binding domain | F: PF00312 | ECOD (1.6) |
M [auth P] | PF00886 | e5aj3P1 | A: a+b two layers | X: Ribosomal protein S16 (From Topology) | H: Ribosomal protein S16 (From Topology) | T: Ribosomal protein S16 | F: PF00886 | ECOD (1.6) |
N [auth Q] | PF00366 | e5aj3Q1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00366 | ECOD (1.6) |
O [auth R] | PF01084 | e5aj3R1 | A: alpha arrays | X: HTH | H: HTH | T: tri-helical | F: PF01084 | ECOD (1.6) |
Q [auth U] | PF01165 | e5aj3U1 | A: extended segments | X: 30S ribosomal protein S21 (From Topology) | H: 30S ribosomal protein S21 (From Topology) | T: 30S ribosomal protein S21 | F: PF01165 | ECOD (1.6) |
B | PF00318 | e5aj3B1 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Ribosomal protein S2/SIS domain (From Topology) | T: Ribosomal protein S2/SIS domain | F: PF00318 | ECOD (1.6) |
U [auth a] | PF10245 | e5aj3a1 | A: a+b complex topology | X: Mitoribosomal protein mS22 (From Topology) | H: Mitoribosomal protein mS22 (From Topology) | T: Mitoribosomal protein mS22 | F: PF10245 | ECOD (1.6) |
V [auth b] | PF10484 | e5aj3b1 | A: alpha arrays | X: RuvA-C | H: Mitoribosomal protein mS23 (From Topology) | T: Mitoribosomal protein mS23 | F: PF10484 | ECOD (1.6) |
W [auth c] | PF05047 | e5aj3c1 | A: a+b three layers | X: Thioredoxin-like | H: Thioredoxin-like (From Topology) | T: Thioredoxin-like | F: PF05047 | ECOD (1.6) |
X [auth d] | PF14943 | e5aj3d1 | A: extended segments | X: Mitoribosomal protein mS26 (From Topology) | H: Mitoribosomal protein mS26 (From Topology) | T: Mitoribosomal protein mS26 | F: PF14943 | ECOD (1.6) |
Z [auth f] | PF10246 | e5aj3f1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF10246 | ECOD (1.6) |
AA [auth g] | PF10236 | e5aj3g2 | A: alpha arrays | X: Histone-like | H: Histone-related | T: AAA+ ATPase lid domain | F: PF10236 | ECOD (1.6) |
AA [auth g] | PF10236 | e5aj3g1 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF10236 | ECOD (1.6) |
BA [auth h] | PF15433 | e5aj3h1 | A: extended segments | X: Mitoribosomal protein mS31 (From Topology) | H: Mitoribosomal protein mS31 (From Topology) | T: Mitoribosomal protein mS31 | F: PF15433 | ECOD (1.6) |
CA [auth i] | PF08293 | e5aj3i1 | A: extended segments | X: Mitoribosomal protein mS33 (From Topology) | H: Mitoribosomal protein mS33 (From Topology) | T: Mitoribosomal protein mS33 | F: PF08293 | ECOD (1.6) |
DA [auth j] | PF16053 | e5aj3j1 | A: beta barrels | X: SH3 | H: Mitoribosomal protein mS34 (From Topology) | T: Mitoribosomal protein mS34 | F: PF16053 | ECOD (1.6) |
C | PF14955 | e5aj3C1 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: KH-domains | T: Prokaryotic type KH domain (KH-domain type II) | F: PF14955 | ECOD (1.6) |
EA [auth k] | PF10213 | e5aj3k1 | A: a+b two layers | X: dsRBD-like | H: Peptidyl-tRNA hydrolase domain-like (From Topology) | T: Peptidyl-tRNA hydrolase domain-like | F: PF10213 | ECOD (1.6) |
FA [auth m] | PF06747 | e5aj3m1 | A: few secondary structure elements | X: p8-MTCP1-related (From Topology) | H: p8-MTCP1-related (From Topology) | T: p8-MTCP1-related | F: PF06747 | ECOD (1.6) |
GA [auth n] | PF08213 | e5aj3n1 | A: extended segments | X: Mitoribosomal protein mS38 (From Topology) | H: Mitoribosomal protein mS38 (From Topology) | T: Mitoribosomal protein mS38 | F: PF08213 | ECOD (1.6) |
IA [auth p] | PF01084 | e5aj3p1 | A: alpha arrays | X: HTH | H: HTH | T: tri-helical | F: PF01084 | ECOD (1.6) |
D [auth E] | PF03719 | e5aj3E2 | A: a+b two layers | X: Ribosomal protein S5 domain 2-like (From Topology) | H: Ribosomal protein S5 domain 2-like (From Topology) | T: Ribosomal protein S5 domain 2-like | F: PF03719 | ECOD (1.6) |
D [auth E] | PF00333 | e5aj3E1 | A: a+b two layers | X: dsRBD-like | H: dsRNA-binding domain-like (From Topology) | T: dsRNA-binding domain-like | F: PF00333 | ECOD (1.6) |
D [auth E] | PF21251 | e5aj3E3 | A: extended segments | X: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology) | H: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology) | T: N-terminal region in 40S ribosomal protein rpS2 (S5p) | F: PF21251 | ECOD (1.6) |
E [auth F] | PF01250 | e5aj3F1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal protein S6 (From Topology) | T: Ribosomal protein S6 | F: PF01250 | ECOD (1.6) |
F [auth G] | PF00177 | e5aj3G1 | A: alpha arrays | X: Ribosomal protein S7 (From Topology) | H: Ribosomal protein S7 (From Topology) | T: Ribosomal protein S7 | F: PF00177 | ECOD (1.6) |
G [auth I] | PF00380 | e5aj3I1 | A: a+b two layers | X: Ribosomal protein S5 domain 2-like (From Topology) | H: Ribosomal protein S5 domain 2-like (From Topology) | T: Ribosomal protein S5 domain 2-like | F: PF00380 | ECOD (1.6) |
H [auth J] | PF00338 | e5aj3J1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal protein S10 (From Topology) | T: Ribosomal protein S10 | F: PF00338 | ECOD (1.6) |
I [auth K] | PF00411 | e5aj3K1 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PF00411 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
J [auth L] | 2.40.50.140 | Mainly Beta | Beta Barrel | OB fold (Dihydrolipoamide Acetyltransferase, E2P) | Nucleic acid-binding proteins | CATH (4.3.0) |
K [auth N] | 1.10.287.1480 | Mainly Alpha | Orthogonal Bundle | Helix Hairpins | CATH (4.3.0) | |
M [auth P] | 3.30.1320.10 | Alpha Beta | 2-Layer Sandwich | S16 Ribosomal Protein | Chain: A | CATH (4.3.0) |
N [auth Q] | 2.40.50.140 | Mainly Beta | Beta Barrel | OB fold (Dihydrolipoamide Acetyltransferase, E2P) | Nucleic acid-binding proteins | CATH (4.3.0) |
E [auth F] | 3.30.70.60 | Alpha Beta | 2-Layer Sandwich | Alpha-Beta Plaits | Ribosomal protein S6/Translation elongation factor EF1B | CATH (4.3.0) |
I [auth K] | 3.30.420.80 | Alpha Beta | 2-Layer Sandwich | Nucleotidyltransferase | domain 5 | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
J [auth L] | PF00164 | Ribosomal protein S12/S23 (Ribosom_S12_S23) | Ribosomal protein S12/S23 | - | Family |
K [auth N] | PF00253 | Ribosomal protein S14p/S29e (Ribosomal_S14) | Ribosomal protein S14p/S29e | - | Family |
N [auth Q] | PF00366 | Ribosomal protein S17 (Ribosomal_S17) | Ribosomal protein S17 | - | Domain |
O [auth R] | PF01084 | Ribosomal protein S18 (Ribosomal_S18) | Ribosomal protein S18 | - | Family |
PF00318 | Ribosomal protein S2 (Ribosomal_S2) | Ribosomal protein S2 | - | Family | |
W [auth c] | PF05047 | Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain (L51_S25_CI-B8) | Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain | The proteins in this family are located in the mitochondrion. The family includes ribosomal protein L51, and S25. This family also includes mitochondrial NADH-ubiquinone oxidoreductase B8 subunit (CI-B8) EC:1.6.5.3. It is not known whether all member ... | Domain |
X [auth d] | PF14943 | Mitochondrial ribosome subunit S26 (MRP-S26) | Mitochondrial ribosome subunit S26 | - | Family |
Z [auth f] | PF10246 | Mitochondrial ribosomal protein MRP-S35 (MRP-S35) | Mitochondrial ribosomal protein MRP-S35 | - | Family |
AA [auth g] | PF10236 | Mitochondrial ribosomal death-associated protein 3 (DAP3) | Mitochondrial ribosomal death-associated protein 3 | - | Family |
BA [auth h] | PF15433 | Mitochondrial 28S ribosomal protein S31 (MRP-S31) | Mitochondrial 28S ribosomal protein S31 | - | Family |
CA [auth i] | PF08293 | Mitochondrial ribosomal subunit S27 (MRP-S33) | Mitochondrial ribosomal subunit S27 | - | Family |
PF14955 | Mitochondrial ribosome subunit S24 (MRP-S24) | Mitochondrial ribosome subunit S24 | - | Family | |
EA [auth k] | PF10213 | Mitochondrial ribosomal subunit protein (MRP-S28) | Mitochondrial ribosomal subunit protein | - | Family |
FA [auth m] | PF06747 | CHCH domain (CHCH) | CHCH domain | we have identified a conserved motif in the LOC118487 protein that we have called the CHCH motif. Alignment of this protein with related members showed the presence of three subgroups of proteins, which are called the S (Small), N (N-terminal extende ... | Domain |
GA [auth n] | PF08213 | Mitochondrial mRNA-processing protein COX24, C-terminal (COX24_C) | Mitochondrial mRNA-processing protein COX24, C-terminal | This domain of unknown function is found at the C terminal end of Mitochondrial small ribosomal subunit protein mS38, also known as Mitochondrial mRNA-processing protein COX24 in yeast which is involved in the splicing of the COX1 mRNA [1]. COX24 is ... | Domain |
HA [auth o] | PF13812 | Pentatricopeptide repeat domain (PPR_3) | Pentatricopeptide repeat domain | - | Repeat |
IA [auth p] | PF01084 | Ribosomal protein S18 (Ribosomal_S18) | Ribosomal protein S18 | - | Family |
D [auth E] | PF03719 | Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C) | Ribosomal protein S5, C-terminal domain | - | Domain |
D [auth E] | PF21251 | 40S ribosomal protein rpS2 (S5p), N-terminal (S5p_N) | 40S ribosomal protein rpS2 (S5p), N-terminal | This entry represents an extension found at the N-terminal of mammalian 28S ribosomal protein S5 [1,2]. This lines a part of the mRNA entry path and connects the 28S subunit body to the head forming a latch across the mRNA channel entrance [2]. | Domain |
D [auth E] | PF00333 | Ribosomal protein S5, N-terminal domain (Ribosomal_S5) | Ribosomal protein S5, N-terminal domain | - | Domain |
E [auth F] | PF01250 | Ribosomal protein S6 (Ribosomal_S6) | Ribosomal protein S6 | - | Domain |
G [auth I] | PF00380 | Ribosomal protein S9/S16 (Ribosomal_S9) | Ribosomal protein S9/S16 | - | Family |
H [auth J] | PF00338 | Ribosomal protein S10p/S20e (Ribosomal_S10) | Ribosomal protein S10p/S20e | This family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes. | Domain |