8HKV
Cryo-EM Structures and Translocation Mechanism of Crenarchaeota Ribosome
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
M [auth L14P] | PF00238 | e8hkvL14P1 | A: beta barrels | X: Ribosomal protein L14-like | H: Ribosomal protein L14-related (From Topology) | T: Ribosomal protein L14-related | F: PF00238 | ECOD (1.6) |
J [auth L13P] | PF00572 | e8hkvL13P1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal protein L13 and L16-A (From Topology) | T: Ribosomal protein L13 and L16-A | F: PF00572 | ECOD (1.6) |
K [auth L141] | PF00467 | e8hkvL1411 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF00467 | ECOD (1.6) |
L [auth L142] | PF00467 | e8hkvL1421 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF00467 | ECOD (1.6) |
N [auth L15E] | PF00827 | e8hkvL15E1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal proteins S24e, L23 and L15e (From Topology) | T: Ribosomal proteins S24e, L23 and L15e | F: PF00827 | ECOD (1.6) |
O [auth L18E] | PF00828 | e8hkvL18E1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal proteins L15p and L18e (From Topology) | T: Ribosomal proteins L15p and L18e | F: PF00828 | ECOD (1.6) |
P [auth L18P] | PF17144 | e8hkvL18P1 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PF17144 | ECOD (1.6) |
Q [auth L19E] | PF01280 | e8hkvL19E1 | A: alpha arrays | X: Ribosomal protein L19 (L19e) N-terminal domain (From Topology) | H: Ribosomal protein L19 (L19e) N-terminal domain (From Topology) | T: Ribosomal protein L19 (L19e) N-terminal domain | F: PF01280 | ECOD (1.6) |
Q [auth L19E] | PF01280 | e8hkvL19E2 | A: alpha bundles | X: Ribosomal protein L19 (L19e) C-terminal domain (From Topology) | H: Ribosomal protein L19 (L19e) C-terminal domain (From Topology) | T: Ribosomal protein L19 (L19e) C-terminal domain | F: PF01280 | ECOD (1.6) |
R [auth L22P] | PF00237 | e8hkvL22P1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Ribosomal protein L22 (From Topology) | T: Ribosomal protein L22 | F: PF00237 | ECOD (1.6) |
S [auth L23P] | PF00276 | e8hkvL23P1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal proteins S24e, L23 and L15e (From Topology) | T: Ribosomal proteins S24e, L23 and L15e | F: PF00276 | ECOD (1.6) |
T [auth L24E] | PF01246 | e8hkvL24E1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: LIM domain-like | F: PF01246 | ECOD (1.6) |
U [auth L24P] | PF16906 | e8hkvL24P1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF16906 | ECOD (1.6) |
V [auth L29P] | PF00831 | e8hkvL29P1 | A: alpha bundles | X: Long alpha-hairpin | H: Ribosomal protein L29 (L29p) (From Topology) | T: Ribosomal protein L29 (L29p) | F: PF00831 | ECOD (1.6) |
W [auth L30E] | PF01248 | e8hkvL30E1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: PF01248 | ECOD (1.6) |
X [auth L30P] | PF00327 | e8hkvL30P1 | A: a+b two layers | X: Ribosomal protein L30p/L7e (From Topology) | H: Ribosomal protein L30p/L7e (From Topology) | T: Ribosomal protein L30p/L7e | F: PF00327 | ECOD (1.6) |
Y [auth L31E] | PF01198 | e8hkvL31E1 | A: a+b two layers | X: Ribosomal protein L31e-like | H: Ribosomal protein L31e/gp120 outer domain (From Topology) | T: Ribosomal protein L31e/gp120 outer domain | F: PF01198 | ECOD (1.6) |
Z [auth L32E] | PF01655 | e8hkvL32E1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal protein L32e (From Topology) | T: Ribosomal protein L32e | F: PF01655 | ECOD (1.6) |
AA [auth L34E] | PF01199 | e8hkvL34E1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: RPL34 (From Topology) | T: RPL34 | F: PF01199 | ECOD (1.6) |
BA [auth L37A] | PF01780 | e8hkvL37A1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01780 | ECOD (1.6) |
CA [auth L37E] | PF01907 | e8hkvL37E1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01907 | ECOD (1.6) |
DA [auth L39E] | PF00832 | e8hkvL39E1 | A: extended segments | X: Ribosomal protein L39e (From Topology) | H: Ribosomal protein L39e (From Topology) | T: Ribosomal protein L39e | F: PF00832 | ECOD (1.6) |
C [auth AL2P] | PF00181 | e8hkvAL2P2 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00181 | ECOD (1.6) |
C [auth AL2P] | PF03947 | e8hkvAL2P1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF03947 | ECOD (1.6) |
EA [auth L40E] | PF01020 | e8hkvL40E1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01020 | ECOD (1.6) |
FA [auth L44E] | PF00935 | e8hkvL44E1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF00935 | ECOD (1.6) |
HA [auth L7A2] | PF01248 | e8hkvL7A21 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: PF01248 | ECOD (1.6) |
GA [auth L7A1] | PF01248 | e8hkvL7A11 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: PF01248 | ECOD (1.6) |
IA [auth L15P] | PF00828 | e8hkvL15P1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal proteins L15p and L18e (From Topology) | T: Ribosomal proteins L15p and L18e | F: PF00828 | ECOD (1.6) |
JA [auth L21E] | PF01157 | e8hkvL21E1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01157 | ECOD (1.6) |
LA [auth L46A] | PF18533 | e8hkvL46A1 | A: a+b two layers | X: Archaea-specific ribosomal protein L46a (From Topology) | H: Archaea-specific ribosomal protein L46a (From Topology) | T: Archaea-specific ribosomal protein L46a | F: PF18533 | ECOD (1.6) |
D [auth AL3P] | PF00297 | e8hkvAL3P1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: PF00297 | ECOD (1.6) |
E [auth AL4P] | PF00573 | e8hkvAL4P1 | A: a/b three-layered sandwiches | X: Ribosomal protein L4 (From Topology) | H: Ribosomal protein L4 (From Topology) | T: Ribosomal protein L4 | F: PF00573 | ECOD (1.6) |
F [auth AL5P] | PF00281,PF00673 | e8hkvAL5P1 | A: a+b two layers | X: Ribosomal protein L5 (From Topology) | H: Ribosomal protein L5 (From Topology) | T: Ribosomal protein L5 | F: PF00281,PF00673 | ECOD (1.6) |
G [auth AL6P] | PF00347 | e8hkvAL6P2 | A: a+b two layers | X: Ribosomal protein L6 (From Topology) | H: Ribosomal protein L6 (From Topology) | T: Ribosomal protein L6 | F: PF00347 | ECOD (1.6) |
H [auth ALX0] | PF01775 | e8hkvALX01 | A: a+b two layers | X: GP2-like | H: RplX-like (From Topology) | T: RplX-like | F: PF01775 | ECOD (1.6) |
I [auth L10E] | PF00252 | e8hkvL10E1 | A: a+b complex topology | X: alpha/beta-Hammerhead/Barrel-sandwich hybrid | H: alpha/beta-Hammerhead/Barrel-sandwich hybrid | T: Ribosomal protein L10e | F: PF00252 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
M [auth L14P] | PF00238 | Ribosomal protein L14p/L23e (Ribosomal_L14) | Ribosomal protein L14p/L23e | - | Domain |
J [auth L13P] | PF00572 | Ribosomal protein L13 (Ribosomal_L13) | Ribosomal protein L13 | - | Family |
K [auth L141], L [auth L142] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
N [auth L15E] | PF00827 | Ribosomal L15 (Ribosomal_L15e) | Ribosomal L15 | - | Family |
O [auth L18E] | PF17135 | Ribosomal protein 60S L18 and 50S L18e (Ribosomal_L18) | Ribosomal protein 60S L18 and 50S L18e | - | Family |
P [auth L18P] | PF17144 | Ribosomal large subunit proteins 60S L5, and 50S L18 (Ribosomal_L5e) | Ribosomal large subunit proteins 60S L5, and 50S L18 | - | Family |
Q [auth L19E] | PF01280 | Ribosomal protein L19e (Ribosomal_L19e) | Ribosomal protein L19e | - | Family |
R [auth L22P] | PF00237 | Ribosomal protein L22p/L17e (Ribosomal_L22) | Ribosomal protein L22p/L17e | This family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes. | Domain |
S [auth L23P] | PF00276 | Ribosomal protein L23 (Ribosomal_L23) | Ribosomal protein L23 | - | Family |
T [auth L24E] | PF01246 | Ribosomal protein L24e (Ribosomal_L24e) | Ribosomal protein L24e | - | Domain |
U [auth L24P] | PF16906 | Ribosomal proteins L26 eukaryotic, L24P archaeal (Ribosomal_L26) | Ribosomal proteins L26 eukaryotic, L24P archaeal | - | Family |
U [auth L24P] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
V [auth L29P] | PF00831 | Ribosomal L29 protein (Ribosomal_L29) | Ribosomal L29 protein | - | Family |
W [auth L30E] | PF01248 | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae) | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family | 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 MyD11 ... | Domain |
X [auth L30P] | PF00327 | Ribosomal protein L30p/L7e (Ribosomal_L30) | Ribosomal protein L30p/L7e | This family includes prokaryotic L30 and eukaryotic L7. | Domain |
Y [auth L31E] | PF01198 | Ribosomal protein L31e (Ribosomal_L31e) | Ribosomal protein L31e | - | Family |
Z [auth L32E] | PF01655 | Ribosomal protein L32 (Ribosomal_L32e) | Ribosomal protein L32 | - | Family |
AA [auth L34E] | PF01199 | Ribosomal protein L34e (Ribosomal_L34e) | Ribosomal protein L34e | - | Family |
BA [auth L37A] | PF01780 | Ribosomal L37ae protein family (Ribosomal_L37ae) | Ribosomal L37ae protein family | - | Family |
CA [auth L37E] | PF01907 | Ribosomal protein L37e (Ribosomal_L37e) | Ribosomal protein L37e | - | Family |
DA [auth L39E] | PF00832 | Ribosomal L39 protein (Ribosomal_L39) | Ribosomal L39 protein | - | Family |
C [auth AL2P] | PF03947 | Ribosomal Proteins L2, C-terminal domain (Ribosomal_L2_C) | Ribosomal Proteins L2, C-terminal domain | - | Domain |
C [auth AL2P] | PF00181 | Ribosomal Proteins L2, RNA binding domain (Ribosomal_L2) | Ribosomal Proteins L2, RNA binding domain | - | Domain |
EA [auth L40E] | PF01020 | Ribosomal L40e family (Ribosomal_L40e) | Ribosomal L40e family | - | Family |
FA [auth L44E] | PF00935 | Ribosomal protein L44 (Ribosomal_L44) | Ribosomal protein L44 | - | Family |
GA [auth L7A1], HA [auth L7A2] | PF01248 | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae) | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family | 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 MyD11 ... | Domain |
JA [auth L21E] | PF01157 | Ribosomal protein L21e (Ribosomal_L21e) | Ribosomal protein L21e | - | Family |
LA [auth L46A] | PF18533 | Domain of unknown function (DUF5622) (DUF5622) | Domain of unknown function (DUF5622) | This is a domain of unknown function found in archaea-specific ribosomal proteins such as L46a which is suggested to directly bind to rRNA in the ribosome [1]. | Domain |
D [auth AL3P] | PF00297 | Ribosomal protein L3 (Ribosomal_L3) | Ribosomal protein L3 | - | Family |
E [auth AL4P] | PF00573 | Ribosomal protein L4/L1 family (Ribosomal_L4) | Ribosomal protein L4/L1 family | - | Family |
F [auth AL5P] | PF00281 | Ribosomal protein L5 (Ribosomal_L5) | Ribosomal protein L5 | - | Domain |
F [auth AL5P] | PF00673 | ribosomal L5P family C-terminus (Ribosomal_L5_C) | ribosomal L5P family C-terminus | This region is found associated with Pfam:PF00281. | Domain |
G [auth AL6P] | PF00347 | Ribosomal protein L6 (Ribosomal_L6) | Ribosomal protein L6 | - | Domain |
H [auth ALX0] | PF01775 | Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A (Ribosomal_L18A) | Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A | This family includes: archaeal 50S ribosomal protein L18Ae, often referred to as L20e or LX; fungal 60S ribosomal protein L20; and higher eukaryote 60S ribosomal protein L18A. | Domain |
I [auth L10E] | PF00252 | Ribosomal protein L16p/L10e (Ribosomal_L16) | Ribosomal protein L16p/L10e | - | Domain |