6GAZ
Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM. This file contains the 28S ribosomal subunit.
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
K [auth AK] | SCOP2B Superfamily | Translational machinery components | 8096616 | 3000571 | SCOP2B (2021-05-27) |
L [auth AL] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8096284 | 3000135 | SCOP2B (2021-05-27) |
M [auth AN] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8052589 | 3000068 | SCOP2B (2021-05-27) |
R [auth AU] | SCOP2B Superfamily | Ribosomal protein S21 | 8083456 | 3002159 | SCOP2B (2021-05-27) |
V [auth Aa] | SCOP2B Superfamily | Mitochondrial 28S ribosomal protein S22-like | 8096620 | 3002074 | SCOP2B (2021-05-27) |
D [auth AB] | SCOP2B Superfamily | SIS domain/Ribosomal protein S2-like | 8063848 | 3001397 | SCOP2B (2021-05-27) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth BC] | F_UNCLASSIFIED | e6gazBC1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: F_UNCLASSIFIED | ECOD (1.6) |
A [auth BC] | PF22042 | e6gazBC4 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: PF22042 | ECOD (1.6) |
A [auth BC] | PF00009 | e6gazBC3 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF00009 | ECOD (1.6) |
A [auth BC] | PF11987 | e6gazBC2 | A: a/b three-layered sandwiches | X: Initiation factor IF2/eIF5b, domain 3 (From Topology) | H: Initiation factor IF2/eIF5b, domain 3 (From Topology) | T: Initiation factor IF2/eIF5b, domain 3 | F: PF11987 | ECOD (1.6) |
J [auth AJ] | PF00338 | e6gazAJ1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal protein S10 (From Topology) | T: Ribosomal protein S10 | F: PF00338 | ECOD (1.6) |
K [auth AK] | PF00411 | e6gazAK1 | 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) |
L [auth AL] | PF00164 | e6gazAL1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00164 | ECOD (1.6) |
M [auth AN] | PF00253 | e6gazAN1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: LIM domain-like | F: PF00253 | ECOD (1.6) |
N [auth AO] | PF00312 | e6gazAO1 | 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) |
O [auth AP] | PF00886 | e6gazAP1 | 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) |
P [auth AQ] | PF00366 | e6gazAQ1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00366 | ECOD (1.6) |
Q [auth AR] | PF01084 | e6gazAR1 | A: alpha arrays | X: HTH | H: HTH | T: tri-helical | F: PF01084 | ECOD (1.6) |
R [auth AU] | PF01165 | e6gazAU1 | 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) |
V [auth Aa] | PF10245 | e6gazAa1 | 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) |
W [auth Ab] | PF10484 | e6gazAb1 | A: alpha arrays | X: RuvA-C | H: Mitoribosomal protein mS23 (From Topology) | T: Mitoribosomal protein mS23 | F: PF10484 | ECOD (1.6) |
X [auth Ac] | PF05047 | e6gazAc1 | A: a+b three layers | X: Thioredoxin-like | H: Thioredoxin-like (From Topology) | T: Thioredoxin-like | F: PF05047 | ECOD (1.6) |
Y [auth Ad] | PF14943 | e6gazAd1 | 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 Ae] | PF10037 | e6gazAe1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: PF10037 | ECOD (1.6) |
AA [auth Af] | PF10246 | e6gazAf1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF10246 | ECOD (1.6) |
BA [auth Ag] | PF10236 | e6gazAg1 | A: alpha arrays | X: Histone-like | H: Histone-related | T: AAA+ ATPase lid domain | F: PF10236 | ECOD (1.6) |
BA [auth Ag] | PF10236 | e6gazAg2 | 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) |
CA [auth Ah] | PF15433 | e6gazAh1 | A: extended segments | X: Mitoribosomal protein mS31 (From Topology) | H: Mitoribosomal protein mS31 (From Topology) | T: Mitoribosomal protein mS31 | F: PF15433 | ECOD (1.6) |
DA [auth Ai] | PF08293 | e6gazAi1 | A: extended segments | X: Mitoribosomal protein mS33 (From Topology) | H: Mitoribosomal protein mS33 (From Topology) | T: Mitoribosomal protein mS33 | F: PF08293 | ECOD (1.6) |
EA [auth Aj] | PF16053 | e6gazAj1 | A: beta barrels | X: SH3 | H: Mitoribosomal protein mS34 (From Topology) | T: Mitoribosomal protein mS34 | F: PF16053 | ECOD (1.6) |
FA [auth Ak] | PF10213 | e6gazAk1 | 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) |
GA [auth Am] | PF06747 | e6gazAm1 | 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) |
HA [auth An] | PF08213 | e6gazAn1 | A: extended segments | X: Mitoribosomal protein mS38 (From Topology) | H: Mitoribosomal protein mS38 (From Topology) | T: Mitoribosomal protein mS38 | F: PF08213 | ECOD (1.6) |
JA [auth Ap] | PF01084 | e6gazAp1 | A: alpha arrays | X: HTH | H: HTH | T: tri-helical | F: PF01084 | ECOD (1.6) |
D [auth AB] | PF00318 | e6gazAB1 | 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) |
E [auth AC] | PF14955 | e6gazAC1 | 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) |
F [auth AE] | PF03719 | e6gazAE3 | 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) |
F [auth AE] | PF00333 | e6gazAE1 | 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) |
F [auth AE] | PF21251 | e6gazAE2 | 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) |
G [auth AF] | PF01250 | e6gazAF1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal protein S6 (From Topology) | T: Ribosomal protein S6 | F: PF01250 | ECOD (1.6) |
H [auth AG] | PF00177 | e6gazAG1 | A: alpha arrays | X: Ribosomal protein S7 (From Topology) | H: Ribosomal protein S7 (From Topology) | T: Ribosomal protein S7 | F: PF00177 | ECOD (1.6) |
I [auth AI] | PF00380 | e6gazAI1 | 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) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A [auth BC] | PF00009 | Elongation factor Tu GTP binding domain (GTP_EFTU) | Elongation factor Tu GTP binding domain | This domain contains a P-loop motif, also found in several other families such as Pfam:PF00071, Pfam:PF00025 and Pfam:PF00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains. | Domain |
A [auth BC] | PF22042 | Elongation factor G domain 2 (EF-G_D2) | Elongation factor G domain 2 | Elongation factor G (EF-G) catalyzes the translocation step of translation. It consists of five structural domains, this entry represents the second domain [1]. This domain adopts a beta barrel structure. This family also includes domains found in ot ... | Domain |
A [auth BC] | PF11987 | Translation-initiation factor 2 (IF-2) | Translation-initiation factor 2 | IF-2 is a translation initiator in each of the three main phylogenetic domains (Eukaryotes [1], Bacteria [2] and Archaea [3]). IF2 interacts with formylmethionine-tRNA, GTP, IF1, IF3 and both ribosomal subunits [2]. Through these interactions, IF2 pr ... | Domain |
J [auth AJ] | 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 |
K [auth AK] | PF10213 | Mitochondrial ribosomal subunit protein (MRP-S28) | Mitochondrial ribosomal subunit protein | - | Family |
K [auth AK] | PF00411 | Ribosomal protein S11 (Ribosomal_S11) | Ribosomal protein S11 | - | Family |
L [auth AL] | PF00164 | Ribosomal protein S12/S23 (Ribosom_S12_S23) | Ribosomal protein S12/S23 | - | Family |
M [auth AN] | PF00253 | Ribosomal protein S14p/S29e (Ribosomal_S14) | Ribosomal protein S14p/S29e | - | Family |
N [auth AO] | PF22330 | Small ribosomal subunit protein mS39, PPR (Rib_mS39_PPR) | Small ribosomal subunit protein mS39, PPR | - | Repeat |
N [auth AO] | PF00312 | Ribosomal protein S15 (Ribosomal_S15) | Ribosomal protein S15 | - | Domain |
O [auth AP] | PF01084 | Ribosomal protein S18 (Ribosomal_S18) | Ribosomal protein S18 | - | Family |
P [auth AQ] | PF00366 | Ribosomal protein S17 (Ribosomal_S17) | Ribosomal protein S17 | - | Domain |
Q [auth AR] | PF01084 | Ribosomal protein S18 (Ribosomal_S18) | Ribosomal protein S18 | - | Family |
R [auth AU] | PF01165 | Ribosomal protein S21 (Ribosomal_S21) | Ribosomal protein S21 | - | Family |
C [auth AA] | PF10245 | Mitochondrial 28S ribosomal protein S22 (MRP-S22) | Mitochondrial 28S ribosomal protein S22 | - | Family |
D [auth AB] | PF00318 | Ribosomal protein S2 (Ribosomal_S2) | Ribosomal protein S2 | - | Family |
D [auth AB] | PF10484 | Mitochondrial ribosomal protein S23 (MRP-S23) | Mitochondrial ribosomal protein S23 | - | Family |
E [auth AC] | PF14955 | Mitochondrial ribosome subunit S24 (MRP-S24) | Mitochondrial ribosome subunit S24 | - | Family |
E [auth AC] | 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 |
F [auth AE] | PF03719 | Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C) | Ribosomal protein S5, C-terminal domain | - | Domain |
F [auth AE] | PF21251 | Small ribosomal subunit protein uS5m, N-terminal (Ribosomal_uS5m_N) | Small ribosomal subunit protein uS5m, N-terminal | This entry represents an extension found at the N-terminal of the mitochondrial 28S Small ribosomal subunit protein uS5m [1,2]. This region lines a part of the mRNA entry path and connects the 28S subunit body to the head forming a latch across the m ... | Domain |
F [auth AE] | PF00333 | Ribosomal protein S5, N-terminal domain (Ribosomal_S5) | Ribosomal protein S5, N-terminal domain | - | Domain |
H [auth AG] | PF00177 | Ribosomal protein S7p/S5e (Ribosomal_S7) | Ribosomal protein S7p/S5e | This family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. | Domain |
H [auth AG] | PF10236 | Mitochondrial ribosomal death-associated protein 3 (DAP3) | Mitochondrial ribosomal death-associated protein 3 | - | Family |
I [auth AI] | PF00380 | Ribosomal protein S9/S16 (Ribosomal_S9) | Ribosomal protein S9/S16 | - | Family |
I [auth AI] | PF08293 | Mitochondrial ribosomal subunit S27 (MRP-S33) | Mitochondrial ribosomal subunit S27 | - | Family |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Pharos: Disease Associations Pharos Homepage Annotation
Chains | Drug Target   | Associated Disease |
---|---|---|
A [auth BC] | P46199 | :