8C94 | pdb_00008c94

Cryo-EM captures early ribosome assembly in action


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
I [auth K]SCOP2B Superfamily50S Ribosomal protein L14-like 8103358 3000433 SCOP2B (2022-06-29)
H [auth J]SCOP2B SuperfamilyRibosomal protein L13 8096350 3001134 SCOP2B (2022-06-29)
G [auth F]SCOP2B SuperfamilyRL5-like 8096352 3001709 SCOP2B (2022-06-29)
F [auth E]SCOP2B SuperfamilyRibosomal protein L4 8096356 3001146 SCOP2B (2022-06-29)
E [auth D]SCOP2B SuperfamilyTranslational proteins 8032955 3000811 SCOP2B (2022-06-29)
U [auth Z]SCOP2B SuperfamilyRibosomal protein L30p/L7e 8096372 3001378 SCOP2B (2022-06-29)
T [auth Y]SCOP2B SuperfamilyRibosomal protein L29 (L29p) 8096370 3000713 SCOP2B (2022-06-29)
S [auth W]SCOP2B SuperfamilyRibosomal L27 protein-like 8096338 3000539 SCOP2B (2022-06-29)
R [auth V]SCOP2B SuperfamilyRibosomal protein L25-like 8042538 3001161 SCOP2B (2022-06-29)
Q [auth U]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8096358 3000334 SCOP2B (2022-06-29)
P [auth S]SCOP2B SuperfamilyRibosomal protein L22 8096336 3001078 SCOP2B (2022-06-29)
O [auth R]SCOP2B Superfamilyl21p-like 8096354 3002005 SCOP2B (2022-06-29)
N [auth Q]SCOP2B SuperfamilyRibosomal protein L20 8096382 3000563 SCOP2B (2022-06-29)
M [auth P]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8096364 3000334 SCOP2B (2022-06-29)
L [auth O]SCOP2B SuperfamilyTranslational machinery components 8032969 3000571 SCOP2B (2022-06-29)
K [auth N]SCOP2B SuperfamilyProkaryotic ribosomal protein L17 8035409 3000995 SCOP2B (2022-06-29)
A [auth 0]SCOP2B SuperfamilyZn-binding ribosomal proteins 8096380 3001320 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
I [auth K]F_UNCLASSIFIEDe8c94K1 A: beta barrelsX: Ribosomal protein L14-likeH: Ribosomal protein L14-related (From Topology)T: Ribosomal protein L14-relatedF: F_UNCLASSIFIEDECOD (1.6)
H [auth J]F_UNCLASSIFIEDe8c94J1 A: a/b three-layered sandwichesX: Ribosomal protein L13/L15p/L18e/L32eH: Ribosomal protein L13 and L16-A (From Topology)T: Ribosomal protein L13 and L16-AF: F_UNCLASSIFIEDECOD (1.6)
G [auth F]F_UNCLASSIFIEDe8c94F1 A: a+b two layersX: Ribosomal protein L5 (From Topology)H: Ribosomal protein L5 (From Topology)T: Ribosomal protein L5F: F_UNCLASSIFIEDECOD (1.6)
F [auth E]F_UNCLASSIFIEDe8c94E1 A: a/b three-layered sandwichesX: Ribosomal protein L4 (From Topology)H: Ribosomal protein L4 (From Topology)T: Ribosomal protein L4F: F_UNCLASSIFIEDECOD (1.6)
E [auth D]F_UNCLASSIFIEDe8c94D1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: Alanine racemase-CF: F_UNCLASSIFIEDECOD (1.6)
U [auth Z]F_UNCLASSIFIEDe8c94Z1 A: a+b two layersX: Ribosomal protein L30p/L7e (From Topology)H: Ribosomal protein L30p/L7e (From Topology)T: Ribosomal protein L30p/L7eF: F_UNCLASSIFIEDECOD (1.6)
T [auth Y]F_UNCLASSIFIEDe8c94Y1 A: alpha bundlesX: Long alpha-hairpinH: Ribosomal protein L29 (L29p) (From Topology)T: Ribosomal protein L29 (L29p)F: F_UNCLASSIFIEDECOD (1.6)
B [auth 2]F_UNCLASSIFIEDe8c9421 A: extended segmentsX: 50S ribosomal protein L34 (From Topology)H: 50S ribosomal protein L34 (From Topology)T: 50S ribosomal protein L34F: F_UNCLASSIFIEDECOD (1.6)
S [auth W]F_UNCLASSIFIEDe8c94W1 A: a+b complex topologyX: alpha/beta-Hammerhead/Barrel-sandwich hybridH: alpha/beta-Hammerhead/Barrel-sandwich hybridT: Ribosomal L27 proteinF: F_UNCLASSIFIEDECOD (1.6)
R [auth V]F_UNCLASSIFIEDe8c94V1 A: beta barrelsX: Ribosomal protein L25-likeH: Ribosomal protein L25-like (From Topology)T: Ribosomal protein L25-likeF: F_UNCLASSIFIEDECOD (1.6)
Q [auth U]F_UNCLASSIFIEDe8c94U1 A: beta barrelsX: SH3H: SH3T: SH3F: F_UNCLASSIFIEDECOD (1.6)
P [auth S]F_UNCLASSIFIEDe8c94S1 A: a+b two layersX: Enolase-N/ribosomal proteinH: Ribosomal protein L22 (From Topology)T: Ribosomal protein L22F: F_UNCLASSIFIEDECOD (1.6)
O [auth R]F_UNCLASSIFIEDe8c94R1 A: beta barrelsX: Ribosomal protein L21p (From Topology)H: Ribosomal protein L21p (From Topology)T: Ribosomal protein L21pF: F_UNCLASSIFIEDECOD (1.6)
N [auth Q]F_UNCLASSIFIEDe8c94Q1 A: alpha arraysX: PABP domain-likeH: Ribosomal protein L20 (From Topology)T: Ribosomal protein L20F: F_UNCLASSIFIEDECOD (1.6)
M [auth P]F_UNCLASSIFIEDe8c94P1 A: beta barrelsX: SH3H: SH3T: SH3F: F_UNCLASSIFIEDECOD (1.6)
L [auth O]F_UNCLASSIFIEDe8c94O1 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: F_UNCLASSIFIEDECOD (1.6)
K [auth N]F_UNCLASSIFIEDe8c94N1 A: a+b two layersX: Enolase-N/ribosomal proteinH: Prokaryotic ribosomal protein L17 (From Topology)T: Prokaryotic ribosomal protein L17F: F_UNCLASSIFIEDECOD (1.6)
J [auth L]F_UNCLASSIFIEDe8c94L1 A: a/b three-layered sandwichesX: Ribosomal protein L13/L15p/L18e/L32eH: Ribosomal proteins L15p and L18e (From Topology)T: Ribosomal proteins L15p and L18eF: F_UNCLASSIFIEDECOD (1.6)
A [auth 0]F_UNCLASSIFIEDe8c9401 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: F_UNCLASSIFIEDECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
G [auth F]3.30.1440.10 Alpha Beta 2-Layer Sandwich 50s Ribosomal Protein L5 Chain: A,CATH (utative)
P [auth S]3.90.470.10 Alpha Beta Alpha-Beta Complex Ribosomal Protein L22 Chain ACATH (utative)
J [auth L]3.100.10.10 Alpha Beta Ribosomal Protein L15 Chain: K domain 2CATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
I [auth K]PF00238Ribosomal protein L14p/L23e (Ribosomal_L14)Ribosomal protein L14p/L23eDomain
H [auth J]PF00572Ribosomal protein L13 (Ribosomal_L13)Ribosomal protein L13- Family
G [auth F]PF00281Ribosomal protein L5 (Ribosomal_L5)Ribosomal protein L5Domain
G [auth F]PF00673ribosomal L5P family C-terminus (Ribosomal_L5_C)ribosomal L5P family C-terminusThis region is found associated with Pfam:PF00281. Domain
F [auth E]PF00573Ribosomal protein L4/L1 family (Ribosomal_L4)Ribosomal protein L4/L1 family- Family
E [auth D]PF00297Ribosomal protein L3 (Ribosomal_L3)Ribosomal protein L3- Family
U [auth Z]PF00327Ribosomal protein L30p/L7e (Ribosomal_L30)Ribosomal protein L30p/L7eThis family includes prokaryotic L30 and eukaryotic L7. Domain
T [auth Y]PF00831Ribosomal L29 protein (Ribosomal_L29)Ribosomal L29 protein- Family
R [auth V]PF01386Ribosomal L25p family (Ribosomal_L25p)Ribosomal L25p familyRibosomal protein L25 is an RNA binding protein, that binds 5S rRNA. This family includes Ctc from B. subtilis Swiss:P14194, which is induced by stress. Domain
Q [auth U]PF17136Large ribosomal subunit protein uL24, C-terminal domain (ribosomal_L24)Large ribosomal subunit protein uL24, C-terminal domainThis entry describes the C-terminal domain in large ribosomal subunit protein uL24 (also known as RPL26). RPL26 is one of the proteins from the large ribosomal subunit. In their mature form, these proteins have 103 to 150 amino-acid residues. RPL26 m ...This entry describes the C-terminal domain in large ribosomal subunit protein uL24 (also known as RPL26). RPL26 is one of the proteins from the large ribosomal subunit. In their mature form, these proteins have 103 to 150 amino-acid residues. RPL26 makes very minor contributions to the biogenesis structure, and function of 60s ribosomal subunits [1]. However, RPL24 is essential to generate the first intermediate during 50s ribosomal subunits assembly [2]. RPL26 have an extra-ribosomal function to enhances p53 translation after DNA damage [3].
Domain
Q [auth U]PF00467KOW motif (KOW)KOW motif- Family
P [auth S]PF00237Ribosomal protein L22p/L17e (Ribosomal_L22)Ribosomal protein L22p/L17eThis family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes. Domain
O [auth R]PF00829Ribosomal prokaryotic L21 protein (Ribosomal_L21p)Ribosomal prokaryotic L21 protein- Family
N [auth Q]PF00453Ribosomal protein L20 (Ribosomal_L20)Ribosomal protein L20- Family
M [auth P]PF01245Ribosomal protein L19 (Ribosomal_L19)Ribosomal protein L19- Family
K [auth N]PF01196Ribosomal protein L17 (Ribosomal_L17)Ribosomal protein L17- Family
J [auth L]PF00828Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A)Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27AThis family includes higher eukaryotic ribosomal 60S L27A, archaeal 50S L18e, prokaryotic 50S L15, fungal mitochondrial L10, plant L27A, mitochondrial L15 and chloroplast L18-3 proteins. Domain
A [auth 0]PF01783Ribosomal L32p protein family (Ribosomal_L32p)Ribosomal L32p protein family- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
I [auth K]50S ribosomal protein L14
H [auth J]50S ribosomal protein L13
G [auth F]50S ribosomal protein L5
F [auth E]50S ribosomal protein L4
E [auth D]50S ribosomal protein L3
D [auth B]5S rRNA---
C [auth A]23S rRNA---
U [auth Z]50S ribosomal protein L30
T [auth Y]50S ribosomal protein L29
B [auth 2]50S ribosomal protein L34
S [auth W]50S ribosomal protein L27
R [auth V]50S ribosomal protein L25
Q [auth U]50S ribosomal protein L24
P [auth S]50S ribosomal protein L22
O [auth R]50S ribosomal protein L21
N [auth Q]50S ribosomal protein L20
M [auth P]50S ribosomal protein L19
L [auth O]50S ribosomal protein L18
K [auth N]50S ribosomal protein L17
J [auth L]50S ribosomal protein L15
A [auth 0]50S ribosomal protein L32

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
I [auth K]IPR036853Large ribosomal subunit protein uL14 superfamilyHomologous Superfamily
I [auth K]IPR000218Large ribosomal subunit protein uL14Family
I [auth K]IPR019972Large ribosomal subunit protein uL14, conserved siteConserved Site
I [auth K]IPR005745Large ribosomal subunit protein uL14, bacteriaFamily
H [auth J]IPR023563Large ribosomal subunit protein uL13, conserved siteConserved Site
H [auth J]IPR005822Large ribosomal subunit protein uL13Family
H [auth J]IPR005823Large ribosomal subunit protein uL13, bacteriaFamily
H [auth J]IPR036899Large ribosomal subunit protein uL13 superfamilyHomologous Superfamily
G [auth F]IPR020929Large ribosomal subunit protein uL5, conserved siteConserved Site
G [auth F]IPR022803Large ribosomal subunit protein uL5 domain superfamilyHomologous Superfamily
G [auth F]IPR031309Large ribosomal subunit protein uL5, C-terminalDomain
G [auth F]IPR031310Large ribosomal subunit protein uL5, N-terminalDomain
G [auth F]IPR002132Large ribosomal subunit protein uL5Family
G [auth F]IPR020930Large ribosomal subunit protein uL5, bacteriaFamily
F [auth E]IPR013005Large ribosomal subunit protein uL4-likeFamily
F [auth E]IPR002136Large ribosomal subunit protein uL4Family
F [auth E]IPR023574Large ribosomal subunit protein uL4 domain superfamilyHomologous Superfamily
E [auth D]IPR019926Large ribosomal subunit protein uL3, conserved siteConserved Site
E [auth D]IPR019927Large ribosomal subunit protein uL3, bacteria/organellaFamily
E [auth D]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
E [auth D]IPR000597Large ribosomal subunit protein uL3Family
U [auth Z]IPR036919Large ribosomal subunit protein uL30, ferredoxin-like fold domain superfamilyHomologous Superfamily
U [auth Z]IPR005996Large ribosomal subunit protein uL30, bacteriaFamily
U [auth Z]IPR016082Large ribosomal subunit protein uL30-like, ferredoxin-like fold domainDomain
U [auth Z]IPR018038Large ribosomal subunit protein uL30, conserved siteConserved Site
T [auth Y]IPR050063Universal ribosomal protein uL29Family
T [auth Y]IPR001854Large ribosomal subunit protein uL29Family
T [auth Y]IPR036049Large ribosomal subunit protein uL29 superfamilyHomologous Superfamily
T [auth Y]IPR018254Large ribosomal subunit protein uL29, conserved siteConserved Site
B [auth 2]IPR020939Large ribosomal subunit protein bL34, conserved siteConserved Site
B [auth 2]IPR000271Large ribosomal subunit protein bL34Family
S [auth W]IPR001684Large ribosomal subunit protein bL27Family
S [auth W]IPR018261Large ribosomal subunit protein bL27, conserved siteConserved Site
R [auth V]IPR020055Ribosomal protein bL25, short-formFamily
R [auth V]IPR029751Large ribosomal subunit protein bL25, L25 domainDomain
R [auth V]IPR020056Large ribosomal subunit protein bL25/Gln-tRNA synthetase, N-terminalHomologous Superfamily
R [auth V]IPR011035Large ribosomal subunit protein bL25/Gln-tRNA synthetase, anti-codon-binding domain superfamilyHomologous Superfamily
R [auth V]IPR020930Large ribosomal subunit protein uL5, bacteriaFamily
Q [auth U]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
Q [auth U]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
Q [auth U]IPR003256Large ribosomal subunit protein uL24Family
Q [auth U]IPR041988Large ribosomal subunit protein uL24, KOW domainDomain
Q [auth U]IPR005824KOWDomain
Q [auth U]IPR005825Large ribosomal subunit protein uL24, conserved siteConserved Site
P [auth S]IPR036394Ribosomal protein uL22 superfamilyHomologous Superfamily
P [auth S]IPR001063Large ribosomal subunit protein uL22Family
P [auth S]IPR047867Large ribosomal subunit protein uL22, bacteria/organellaFamily
P [auth S]IPR018260Large ribosomal subunit protein uL22, conserved siteConserved Site
P [auth S]IPR005727Large ribosomal subunit protein uL22, bacterial/chloroplast-typeFamily
O [auth R]IPR028909Large ribosomal subunit protein bL21-likeFamily
O [auth R]IPR001787Large ribosomal subunit protein bL21Family
O [auth R]IPR036164Large ribosomal subunit protein bL21-like superfamilyHomologous Superfamily
O [auth R]IPR018258Large ribosomal subunit protein bL21, conserved siteConserved Site
N [auth Q]IPR049946Large ribosomal subunit protein bL20, conserved siteConserved Site
N [auth Q]IPR035566Ribosomal protein bL20, C-terminalHomologous Superfamily
N [auth Q]IPR005813Large ribosomal subunit protein bL20Family
M [auth P]IPR001857Large ribosomal subunit protein bL19Family
M [auth P]IPR038657Large ribosomal subunit protein bL19 superfamilyHomologous Superfamily
M [auth P]IPR018257Large ribosomal subunit protein bL19, conserved siteConserved Site
M [auth P]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
L [auth O]IPR005484Large ribosomal subunit protein uL18, bacterial/plantae/animaliaFamily
L [auth O]IPR004389Large ribosomal subunit protein uL18, bacteriaFamily
K [auth N]IPR036373Large ribosomal subunit protein bL17 superfamilyHomologous Superfamily
K [auth N]IPR047859Large ribosomal subunit protein bL17, conserved siteConserved Site
K [auth N]IPR000456Large ribosomal subunit protein bL17Family
J [auth L]IPR021131Large ribosomal subunit protein uL15/eL18Domain
J [auth L]IPR030878Large ribosomal subunit protein uL15Family
J [auth L]IPR001196Large ribosomal subunit protein uL15, conserved siteConserved Site
J [auth L]IPR036227Large ribosomal subunit protein uL15/eL18 superfamilyHomologous Superfamily
J [auth L]IPR005749Large ribosomal subunit protein uL15, bacteriaFamily
A [auth 0]IPR002677Large ribosomal subunit protein bL32Family
A [auth 0]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
A [auth 0]IPR044957Large ribosomal subunit protein bL32, bacteriaFamily