6DZK
Cryo-EM Structure of Mycobacterium smegmatis C(minus) 30S ribosomal subunit with MPY
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
J | SCOP2B Superfamily | Ribosomal protein S10 | 8096980 | 3001336 | SCOP2B (2021-05-27) |
K | SCOP2B Superfamily | Translational machinery components | 8096984 | 3000571 | SCOP2B (2021-05-27) |
L | SCOP2B Superfamily | Nucleic acid-binding proteins | 8096978 | 3000135 | SCOP2B (2021-05-27) |
M | SCOP2 Family | Ribosomal protein S13 | 8096981 | 4000260 | SCOP2 (2021-05-27) |
M | SCOP2 Superfamily | S13-like H2TH domain | 8096982 | 3000053 | SCOP2 (2021-05-27) |
N [auth O] | SCOP2B Superfamily | S15/NS1 RNA-binding domain | 8072635 | 3001284 | SCOP2B (2021-05-27) |
P [auth Q] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8059280 | 3000135 | SCOP2B (2021-05-27) |
Q [auth S] | SCOP2B Superfamily | Ribosomal protein S19 | 8086054 | 3000686 | SCOP2B (2021-05-27) |
S [auth V] | SCOP2B Superfamily | SIS domain/Ribosomal protein S2-like | 8063840 | 3001397 | SCOP2B (2021-05-27) |
U [auth Y] | SCOP2B Superfamily | YfiA/CsgE-like | 8086112 | 3000912 | SCOP2B (2021-05-27) |
V [auth N] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8059246 | 3000068 | SCOP2B (2021-05-27) |
D | SCOP2B Superfamily | Alpha-L RNA-binding motif | 8083402 | 3001473 | SCOP2B (2021-05-27) |
G | SCOP2B Superfamily | Ribosomal protein S7 | 8077977 | 3000799 | SCOP2B (2021-05-27) |
H | SCOP2B Superfamily | Ribosomal protein S8 | 8079055 | 3000709 | SCOP2B (2021-05-27) |
I | SCOP2B Superfamily | Ribosomal protein S5 domain 2-like | 8082671 | 3000100 | 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) |
---|---|---|---|---|---|---|---|---|
J | PF00338 | e6dzkJ1 | 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 | PF00411 | e6dzkK1 | 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 | PF00164 | e6dzkL1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00164 | ECOD (1.6) |
M | PF00416 | e6dzkM1 | A: alpha arrays | X: HhH/H2TH | H: H2TH (From Topology) | T: H2TH | F: PF00416 | ECOD (1.6) |
N [auth O] | PF00312 | e6dzkO1 | 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 P] | PF00886 | e6dzkP1 | 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 Q] | PF00366 | e6dzkQ1 | 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 S] | PF00203 | e6dzkS1 | A: a+b two layers | X: Ribosomal protein S19 (From Topology) | H: Ribosomal protein S19 (From Topology) | T: Ribosomal protein S19 | F: PF00203 | ECOD (1.6) |
R [auth T] | PF01649 | e6dzkT1 | A: alpha bundles | X: Spectrin repeat-like | H: Ribosomal protein S20 (From Topology) | T: Ribosomal protein S20 | F: PF01649 | ECOD (1.6) |
S [auth V] | PF00318 | e6dzkV1 | 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) |
T [auth r] | PF01084 | e6dzkr1 | A: alpha arrays | X: HTH | H: HTH | T: tri-helical | F: PF01084 | ECOD (1.6) |
U [auth Y] | PF02482 | e6dzkY1 | A: a+b two layers | X: dsRBD-like | H: Ribosome binding protein Y (YfiA homologue) (From Topology) | T: Ribosome binding protein Y (YfiA homologue) | F: PF02482 | ECOD (1.6) |
V [auth N] | PF00253 | e6dzkN1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: LIM domain-like | F: PF00253 | ECOD (1.6) |
C | PF00189 | e6dzkC2 | A: a+b two layers | X: T-fold | H: Ribosomal protein S3-C (From Topology) | T: Ribosomal protein S3-C | F: PF00189 | ECOD (1.6) |
C | PF07650 | e6dzkC1 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: KH-domains | T: Prokaryotic type KH domain (KH-domain type II) | F: PF07650 | ECOD (1.6) |
D | PF00163,PF01479 | e6dzkD1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00163,PF01479 | ECOD (1.6) |
E | PF03719 | e6dzkE2 | 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) |
E | PF00333 | e6dzkE1 | 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 | PF01250 | e6dzkF1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal protein S6 (From Topology) | T: Ribosomal protein S6 | F: PF01250 | ECOD (1.6) |
G | PF00177 | e6dzkG1 | A: alpha arrays | X: Ribosomal protein S7 (From Topology) | H: Ribosomal protein S7 (From Topology) | T: Ribosomal protein S7 | F: PF00177 | ECOD (1.6) |
H | PF00410 | e6dzkH1 | A: a+b two layers | X: R3H domain-like | H: Ribosomal protein S8, N-terminal domain (From Topology) | T: Ribosomal protein S8, N-terminal domain | F: PF00410 | ECOD (1.6) |
H | PF00410 | e6dzkH2 | A: a+b two layers | X: Ribosomal protein S8, C-terminal domain (From Topology) | H: Ribosomal protein S8, C-terminal domain (From Topology) | T: Ribosomal protein S8, C-terminal domain | F: PF00410 | ECOD (1.6) |
I | PF00380 | e6dzkI1 | 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) |
Domain Annotation: CATH CATH Database Homepage
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
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 | |
PF00411 | Ribosomal protein S11 (Ribosomal_S11) | Ribosomal protein S11 | - | Family | |
PF00164 | Ribosomal protein S12/S23 (Ribosom_S12_S23) | Ribosomal protein S12/S23 | - | Family | |
PF00416 | Ribosomal protein S13/S18 (Ribosomal_S13) | Ribosomal protein S13/S18 | - | Family | |
N [auth O] | PF00312 | Ribosomal protein S15 (Ribosomal_S15) | Ribosomal protein S15 | - | Domain |
O [auth P] | PF00886 | Ribosomal protein S16 (Ribosomal_S16) | Ribosomal protein S16 | - | Family |
P [auth Q] | PF00366 | Ribosomal protein S17 (Ribosomal_S17) | Ribosomal protein S17 | - | Domain |
Q [auth S] | PF00203 | Ribosomal protein S19 (Ribosomal_S19) | Ribosomal protein S19 | - | Domain |
R [auth T] | PF01649 | Ribosomal protein S20 (Ribosomal_S20p) | Ribosomal protein S20 | - | Family |
S [auth V] | PF00318 | Ribosomal protein S2 (Ribosomal_S2) | Ribosomal protein S2 | - | Family |
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 | |
U [auth Y] | PF02482 | Sigma 54 modulation protein / S30EA ribosomal protein (Ribosomal_S30AE) | Sigma 54 modulation protein / S30EA ribosomal protein | - | Family |
V [auth N] | PF00253 | Ribosomal protein S14p/S29e (Ribosomal_S14) | Ribosomal protein S14p/S29e | - | Family |
PF07650 | KH domain (KH_2) | KH domain | - | Domain | |
PF00189 | Ribosomal protein S3, C-terminal domain (Ribosomal_S3_C) | Ribosomal protein S3, C-terminal domain | This 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 | |
PF00163 | Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4) | Ribosomal protein S4/S9 N-terminal domain | - | Family | |
PF01479 | S4 domain (S4) | S4 domain | 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 pro ... | Domain | |
PF03719 | Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C) | Ribosomal protein S5, C-terminal domain | - | Domain | |
PF00333 | Ribosomal protein S5, N-terminal domain (Ribosomal_S5) | Ribosomal protein S5, N-terminal domain | - | Domain | |
PF00410 | Ribosomal protein S8 (Ribosomal_S8) | Ribosomal protein S8 | - | Domain | |
PF00380 | Ribosomal protein S9/S16 (Ribosomal_S9) | Ribosomal protein S9/S16 | - | Family |