7WTS | pdb_00007wts

Cryo-EM structure of a human pre-40S ribosomal subunit - State UTP14


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
K [auth W]SCOP2B SuperfamilyRibosomal protein S8 8095469 3000709 SCOP2B (2022-06-29)
M [auth O]SCOP2B SuperfamilyTranslational machinery components 8098844 3000571 SCOP2B (2022-06-29)
NSCOP2B SuperfamilyS15/NS1 RNA-binding domain 8052959 3001284 SCOP2B (2022-06-29)
NSCOP2B SuperfamilyHomeodomain-like 8052958 3000001 SCOP2B (2022-06-29)
O [auth L]SCOP2B SuperfamilyNucleic acid-binding proteins 8052717 3000135 SCOP2B (2022-06-29)
O [auth L]SCOP2B SuperfamilyRibosomal S17 N-terminal domain-like 8052715 3002138 SCOP2B (2022-06-29)
Q [auth I]SCOP2B Superfamily50S Ribosomal protein L14-like 8053077 3000433 SCOP2B (2022-06-29)
W [auth 3]SCOP2B SuperfamilyS13-like H2TH domain 8090728 3000053 SCOP2B (2022-06-29)
W [auth 3]SCOP2B SuperfamilyS-adenosyl-L-methionine-dependent methyltransferases 8036137 3000118 SCOP2B (2022-06-29)
C [auth B]SCOP2B SuperfamilyRibosomal S3Ae-like 8053212 3002166 SCOP2B (2022-06-29)
D [auth E]SCOP2B SuperfamilyAlpha-L RNA-binding motif 8052755 3001473 SCOP2B (2022-06-29)
D [auth E]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8052757 3000334 SCOP2B (2022-06-29)
D [auth E]SCOP2B SuperfamilyNucleic acid-binding proteins 8052756 3000135 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyGS N-terminal domain-like 8053171 3000408 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
J [auth X]Ribosom_S12_S23e7wtsX1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: Ribosom_S12_S23ECOD (1.6)
K [auth W]Ribosomal_S8_N_1e7wtsW1 A: a+b two layersX: R3H domain-likeH: Ribosomal protein S8, N-terminal domain (From Topology)T: Ribosomal protein S8, N-terminal domainF: Ribosomal_S8_N_1ECOD (1.6)
K [auth W]Ribosomal_S8_C_1e7wtsW2 A: a+b two layersX: Ribosomal protein S8, C-terminal domain (From Topology)H: Ribosomal protein S8, C-terminal domain (From Topology)T: Ribosomal protein S8, C-terminal domainF: Ribosomal_S8_C_1ECOD (1.6)
M [auth O]Ribosomal_S11e7wtsO1 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: Ribosomal_S11ECOD (1.6)
NRibosomal_S13_Ne7wtsN1 A: alpha arraysX: HTHH: 40S ribosomal protein S13 N-terminal domain (From Topology)T: 40S ribosomal protein S13 N-terminal domainF: Ribosomal_S13_NECOD (1.6)
NRibosomal_S15_2e7wtsN2 A: alpha arraysX: S15/NS1 RNA-binding domain (From Topology)H: S15/NS1 RNA-binding domain (From Topology)T: S15/NS1 RNA-binding domainF: Ribosomal_S15_2ECOD (1.6)
O [auth L]Ribosomal_S17_1e7wtsL1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: Ribosomal_S17_1ECOD (1.6)
P [auth J]S4e7wtsJ1 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Alpha-L RNA-binding motifF: S4ECOD (1.6)
Q [auth I]Ribosomal_S8ee7wtsI1 A: beta barrelsX: Ribosomal protein L14-likeH: Ribosomal protein L14-related (From Topology)T: Ribosomal protein L14-relatedF: Ribosomal_S8eECOD (1.6)
R [auth r]Trm112pe7wtsr1 A: few secondary structure elementsX: Trm112p-like (From Topology)H: Trm112p-like (From Topology)T: Trm112p-likeF: Trm112pECOD (1.6)
B [auth b]Ribosomal_S27ee7wtsb1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: Ribosomal_S27eECOD (1.6)
W [auth 3]PTZ00338e7wts31 A: alpha arraysX: HhH/H2THH: H2TH (From Topology)T: H2THF: PTZ00338ECOD (1.6)
W [auth 3]RrnaAD_Ne7wts32 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: S-adenosyl-L-methionine-dependent methyltransferasesF: RrnaAD_NECOD (1.6)
C [auth B]Ribosomal_S3Ae_Ne7wtsB1 A: beta barrelsX: Ribosomal protein L25-likeH: 40S ribosomal protein S3A N-terminal domain (From Topology)T: 40S ribosomal protein S3A N-terminal domainF: Ribosomal_S3Ae_NECOD (1.6)
C [auth B]Ribosomal_S3Ae_Ce7wtsB2 A: a+b two layersX: T-foldH: 40S ribosomal protein S3A C-terminal domain (From Topology)T: 40S ribosomal protein S3A C-terminal domainF: Ribosomal_S3Ae_CECOD (1.6)
D [auth E]Ribosomal_S4ee7wtsE2 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: Ribosomal_S4eECOD (1.6)
D [auth E]40S_S4_Ce7wtsE3 A: beta barrelsX: SH3H: SH3T: SH3F: 40S_S4_CECOD (1.6)
D [auth E]RS4NTe7wtsE1 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Alpha-L RNA-binding motifF: RS4NTECOD (1.6)
E [auth e]Ribosomal_S30e7wtse1 A: extended segmentsX: 40S ribosomal protein S30 (S30e) (From Topology)H: 40S ribosomal protein S30 (S30e) (From Topology)T: 40S ribosomal protein S30 (S30e)F: Ribosomal_S30ECOD (1.6)
F [auth H]Ribosomal_S7e_Ne7wtsH1 A: a+b two layersX: Alpha-lytic protease prodomain-likeH: 40S ribosomal protein S7-A (From Topology)T: 40S ribosomal protein S7-AF: Ribosomal_S7e_NECOD (1.6)
F [auth H]Ribosomal_S7e_C_1e7wtsH2 A: a+b two layersX: Alpha-lytic protease prodomain-likeH: 40S ribosomal protein S7-A (From Topology)T: 40S ribosomal protein S7-AF: Ribosomal_S7e_C_1ECOD (1.6)
GRibosomal_S6ee7wtsG1 A: beta barrelsX: Ribosomal protein L25-likeH: Ribosomal protein L25-like (From Topology)T: Ribosomal protein L25-likeF: Ribosomal_S6eECOD (1.6)
H [auth Y]Ribosomal_S24ee7wtsY1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal proteins S24e, L23 and L15e (From Topology)T: Ribosomal proteins S24e, L23 and L15eF: Ribosomal_S24eECOD (1.6)
I [auth x]KH_1e7wtsx1 A: a+b two layersX: Alpha-lytic protease prodomain-likeH: KH-domainsT: Eukaryotic type KH-domain (KH-domain type I)F: KH_1ECOD (1.6)
I [auth x]KOG3273e7wtsx2 A: a+b two layersX: Alpha-lytic protease prodomain-likeH: KH-domainsT: Eukaryotic type KH-domain (KH-domain type I)F: KOG3273ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
H [auth Y]3.30.70.3370 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits CATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
J [auth X]PF00164Ribosomal protein S12/S23 (Ribosom_S12_S23)Ribosomal protein S12/S23This protein is known as S12 in bacteria and archaea and S23 in eukaryotes. Domain
K [auth W]PF00410Ribosomal protein S8 (Ribosomal_S8)Ribosomal protein S8Domain
M [auth O]PF00411Ribosomal protein S11 (Ribosomal_S11)Ribosomal protein S11- Family
PF00312Ribosomal protein S15 (Ribosomal_S15)Ribosomal protein S15Domain
O [auth L]PF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17Domain
O [auth L]PF16205Ribosomal_S17 N-terminal (Ribosomal_S17_N)Ribosomal_S17 N-terminal- Family
P [auth J]PF00163Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4)Ribosomal protein S4/S9 N-terminal domain- Family
P [auth J]PF01479S4 domain (S4)S4 domainThe 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 ...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 protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain
Q [auth I]PF01201Ribosomal protein S8e (Ribosomal_S8e)Ribosomal protein S8e- Family
C [auth B]PF01667Ribosomal protein S27 (Ribosomal_S27e)Ribosomal protein S27- Family
D [auth E]PF00900Ribosomal family S4e (Ribosomal_S4e)Ribosomal family S4e- Family
D [auth E]PF1612140S ribosomal protein S4 C-terminus (40S_S4_C)40S ribosomal protein S4 C-terminus- Family
D [auth E]PF08071RS4NT (NUC023) domain (RS4NT)RS4NT (NUC023) domainThis is the N-terminal domain of Ribosomal S4 / S4e proteins. This domain is associated with S4 and KOW domains [1]. Domain
D [auth E]PF00467KOW motif (KOW)KOW motif- Family
PF01092Ribosomal protein S6e (Ribosomal_S6e)Ribosomal protein S6e- Family
H [auth Y]PF01282Ribosomal protein S24e (Ribosomal_S24e)Ribosomal protein S24e- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth 2]18S rRNA---
J [auth X]40S ribosomal protein S23
K [auth W]40S ribosomal protein S15a
L [auth u]Pre-rRNA-processing protein TSR1 homolog
M [auth O]40S ribosomal protein S14
40S ribosomal protein S13
O [auth L]40S ribosomal protein S11
P [auth J]40S ribosomal protein S9
Q [auth I]40S ribosomal protein S8
R [auth r]Multifunctional methyltransferase subunit TRM112-like protein
S [auth q]Probable 18S rRNA (guanine-N(7))-methyltransferase
B [auth b]40S ribosomal protein S27
T [auth K]RRP12-like protein -
U [auth z]Ribosome biogenesis protein SLX9 homolog-
V [auth 5]U3 small nucleolar RNA-associated protein 14 homolog A
W [auth 3]Probable dimethyladenosine transferase
C [auth B]40S ribosomal protein S3a
D [auth E]40S ribosomal protein S4, X isoform
E [auth e]40S ribosomal protein S30
F [auth H]40S ribosomal protein S7
40S ribosomal protein S6
H [auth Y]40S ribosomal protein S24
I [auth x]RNA-binding protein PNO1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
J [auth X]IPR006032Small ribosomal subunit protein uS12Family
J [auth X]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
J [auth X]IPR005680Small ribosomal subunit protein uS12, eukaryotic/archaealFamily
K [auth W]IPR047863Small ribosomal subunit protein uS8, conserved siteConserved Site
K [auth W]IPR000630Small ribosomal subunit protein uS8Family
K [auth W]IPR035987Small ribosomal subunit protein uS8 superfamilyHomologous Superfamily
L [auth u]IPR007034Ribosome biogenesis protein BMS1/TSR1, C-terminalDomain
L [auth u]IPR030387Bms1/Tsr1-type G domainDomain
L [auth u]IPR039761Ribosome biogenesis protein Bms1/Tsr1Family
L [auth u]IPR012948AARP2CNDomain
M [auth O]IPR036967Small ribosomal subunit protein uS11 superfamilyHomologous Superfamily
M [auth O]IPR018102Small ribosomal subunit protein uS11, conserved siteConserved Site
M [auth O]IPR001971Small ribosomal subunit protein uS11Family
IPR009068uS15/NS1, RNA-binding domain superfamilyHomologous Superfamily
IPR000589Small ribosomal subunit protein uS15Family
IPR023029Small ribosomal subunit protein uS15, archaea/eukaryotesFamily
IPR012606Small ribosomal subunit protein uS15, N-terminalDomain
O [auth L]IPR019979Small ribosomal subunit protein uS17, conserved siteConserved Site
O [auth L]IPR032440Small ribosomal subunit protein uS17, N-terminalDomain
O [auth L]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
O [auth L]IPR000266Small ribosomal subunit protein uS17Family
O [auth L]IPR028333Small ribosomal subunit protein uS17, archaeal/eukaryoticFamily
P [auth J]IPR002942RNA-binding S4 domainDomain
P [auth J]IPR022801Small ribosomal subunit protein uS4Family
P [auth J]IPR018079Small ribosomal subunit protein uS4, conserved siteConserved Site
P [auth J]IPR001912Small ribosomal subunit protein uS4, N-terminalDomain
P [auth J]IPR005710Small ribosomal subunit protein uS4, eukaryotic/archaealFamily
P [auth J]IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily
Q [auth I]IPR042563Small ribosomal subunit protein eS8 subdomain, eukaryotesHomologous Superfamily
Q [auth I]IPR022309Ribosomal protein eS8/ribosomal biogenesis NSA2Family
Q [auth I]IPR018283Small ribosomal subunit protein eS8, conserved siteConserved Site
Q [auth I]IPR001047Small ribosomal subunit protein eS8Family
R [auth r]IPR039127Multifunctional methyltransferase subunit Trm112Family
R [auth r]IPR005651Trm112-likeFamily
S [auth q]IPR02223818S rRNA (guanine(1575)-N(7))-methyltransferase Bud23, C-terminalDomain
S [auth q]IPR03976918S rRNA (guanine(1575)-N(7))-methyltransferase Bud23-likeFamily
S [auth q]IPR029063S-adenosyl-L-methionine-dependent methyltransferase superfamilyHomologous Superfamily
S [auth q]IPR013216Methyltransferase type 11Domain
B [auth b]IPR023407Small ribosomal subunit protein eS27, zinc-binding domain superfamilyHomologous Superfamily
B [auth b]IPR000592Small ribosomal subunit protein eS27Family
B [auth b]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
T [auth K]IPR012978RRP12, HEAT domainDomain
T [auth K]IPR011989Armadillo-like helicalHomologous Superfamily
T [auth K]IPR016024Armadillo-type foldHomologous Superfamily
T [auth K]IPR052087Ribosomal RNA-processing protein RRP12Family
U [auth z]IPR028160Ribosome biogenesis protein Slx9-likeFamily
V [auth 5]IPR006709Small-subunit processome, Utp14Family
W [auth 3]IPR001737Ribosomal RNA adenine methyltransferase KsgA/ErmFamily
W [auth 3]IPR029063S-adenosyl-L-methionine-dependent methyltransferase superfamilyHomologous Superfamily
W [auth 3]IPR020598Ribosomal RNA adenine methylase transferase, N-terminalDomain
W [auth 3]IPR011530Ribosomal RNA adenine dimethylaseFamily
W [auth 3]IPR020596Ribosomal RNA adenine methylase transferase, conserved siteConserved Site
C [auth B]IPR001593Small ribosomal subunit protein eS1Family
C [auth B]IPR018281Small ribosomal subunit protein eS1, conserved siteConserved Site
C [auth B]IPR027500Small ribosomal subunit protein eS1, eukaryotesFamily
D [auth E]IPR013843Small ribosomal subunit protein eS4, N-terminalDomain
D [auth E]IPR032277Small ribosomal subunit protein eS4, C-terminal domainDomain
D [auth E]IPR013845Small ribosomal subunit protein eS4, central regionDomain
D [auth E]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
D [auth E]IPR041982Small ribosomal subunit protein eS4, KOW domainDomain
D [auth E]IPR018199Small ribosomal subunit protein eS4, N-terminal, conserved siteConserved Site
D [auth E]IPR002942RNA-binding S4 domainDomain
D [auth E]IPR000876Small ribosomal subunit protein eS4Family
D [auth E]IPR038237Small ribosomal subunit protein eS4, central domain superfamilyHomologous Superfamily
D [auth E]IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily
D [auth E]IPR005824KOWDomain
E [auth e]IPR019954Ubiquitin conserved siteConserved Site
E [auth e]IPR006846Small ribosomal subunit protein eS30Family
E [auth e]IPR039415Ubiquitin-like protein FUBIDomain
E [auth e]IPR000626Ubiquitin-like domainDomain
E [auth e]IPR019956Ubiquitin domainDomain
E [auth e]IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily
F [auth H]IPR000554Small ribosomal subunit protein eS7Family
F [auth H]IPR047861Small ribosomal subunit protein eS7, conserved siteConserved Site
IPR018282Small ribosomal subunit protein eS6, conserved siteConserved Site
IPR001377Small ribosomal subunit protein eS6Family
IPR014401Small ribosomal subunit protein eS6-likeFamily
H [auth Y]IPR053709Eukaryotic Ribosomal Protein eS24Homologous Superfamily
H [auth Y]IPR001976Small ribosomal subunit protein eS24Family
H [auth Y]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
H [auth Y]IPR018098Small ribosomal subunit protein eS24 conserved siteConserved Site
I [auth x]IPR004087K Homology domainDomain
I [auth x]IPR055211PNO1, second type I KH domainDomain
I [auth x]IPR036612K Homology domain, type 1 superfamilyHomologous Superfamily
I [auth x]IPR055212PNO1, first type I KH domainDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
J [auth X]PharosP62266
K [auth W]PharosP62244
L [auth u]PharosQ2NL82
M [auth O]PharosP62263
PharosP62277
O [auth L]PharosP62280
P [auth J]PharosP46781
Q [auth I]PharosP62241
R [auth r]PharosQ9UI30
S [auth q]PharosO43709
B [auth b]PharosP42677
T [auth K]PharosQ5JTH9
V [auth 5]PharosQ9BVJ6
W [auth 3]PharosQ9UNQ2
D [auth E]PharosP62701
E [auth e]PharosP62861
F [auth H]PharosP62081
PharosP62753
H [auth Y]PharosP62847
I [auth x]PharosQ9NRX1