9C8K | pdb_00009c8k

Rabbit Hemorrhagic Disease Virus reinitiation stimulating TURBS RNA bound to rabbit ribosome


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ISCOP2B Superfamily50S Ribosomal protein L14-like 8053075 3000433 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyRibosomal protein S7 8066001 3000799 SCOP2B (2022-06-29)
DA [auth d]SCOP2B SuperfamilyGlucocorticoid receptor-like (DNA-binding domain) 8052584 3000068 SCOP2B (2022-06-29)
CA [auth c]SCOP2B SuperfamilyNucleic acid-binding proteins 8095265 3000135 SCOP2B (2022-06-29)
AA [auth a]SCOP2B SuperfamilyGlucocorticoid receptor-like (DNA-binding domain) 8053150 3000068 SCOP2B (2022-06-29)
ZSCOP2B SuperfamilyWinged helix DNA-binding domain 8090991 3000034 SCOP2B (2022-06-29)
WSCOP2B SuperfamilyRibosomal protein S8 8079081 3000709 SCOP2B (2022-06-29)
VSCOP2B SuperfamilyGlucocorticoid receptor-like (DNA-binding domain) 8053140 3000068 SCOP2B (2022-06-29)
USCOP2B SuperfamilyRibosomal protein S10 8097814 3001336 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyRibosomal S3Ae-like 8053216 3002166 SCOP2B (2022-06-29)
SSCOP2B SuperfamilyS13-like H2TH domain 8101439 3000053 SCOP2B (2022-06-29)
QSCOP2B SuperfamilyRibosomal protein S5 domain 2-like 8082683 3000100 SCOP2B (2022-06-29)
OSCOP2B SuperfamilyTranslational machinery components 8097824 3000571 SCOP2B (2022-06-29)
NSCOP2B SuperfamilyHomeodomain-like 8052970 3000001 SCOP2B (2022-06-29)
NSCOP2B SuperfamilyS15/NS1 RNA-binding domain 8052971 3001284 SCOP2B (2022-06-29)
MSCOP2B SuperfamilyL30e-like 8063980 3001739 SCOP2B (2022-06-29)
LSCOP2B SuperfamilyNucleic acid-binding proteins 8052707 3000135 SCOP2B (2022-06-29)
LSCOP2B SuperfamilyRibosomal S17 N-terminal domain-like 8052708 3002138 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyWinged helix DNA-binding domain 8055720 3000034 SCOP2B (2022-06-29)
ASCOP2B SuperfamilySIS domain/Ribosomal protein S2-like 8097826 3001397 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF01201Ribosomal protein S8e (Ribosomal_S8e)Ribosomal protein S8e- Family
PF01092Ribosomal protein S6e (Ribosomal_S6e)Ribosomal protein S6e- Family
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
PF00177Ribosomal protein S7p/S5e (Ribosomal_S7)Ribosomal protein S7p/S5eThis family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. Domain
PF01599Ribosomal protein S27a (Ribosomal_S27)Ribosomal protein S27aThis family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins ...This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis [3]. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [2].
Domain
PF00253Ribosomal protein S14p/S29e (Ribosomal_S14)Ribosomal protein S14p/S29e- Family
PF01200Ribosomal protein S28e (Ribosomal_S28e)Ribosomal protein S28eDomain
PF01282Ribosomal protein S24e (Ribosomal_S24e)Ribosomal protein S24e- Family
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
PF00410Ribosomal protein S8 (Ribosomal_S8)Ribosomal protein S8Domain
PF01249Ribosomal protein S21e (Ribosomal_S21e)Ribosomal protein S21e- Family
PF00338Ribosomal protein S10p/S20e (Ribosomal_S10)Ribosomal protein S10p/S20eThis family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes. Domain
PF01667Ribosomal protein S27 (Ribosomal_S27e)Ribosomal protein S27- Family
PF00416Ribosomal protein S13/S18 (Ribosomal_S13)Ribosomal protein S13/S18- Family
PF00380Ribosomal protein S9/S16 (Ribosomal_S9)Ribosomal protein S9/S16- Family
PF00411Ribosomal protein S11 (Ribosomal_S11)Ribosomal protein S11- Family
PF08069Ribosomal S13/S15 N-terminal domain (Ribosomal_S13_N)Ribosomal S13/S15 N-terminal domainThis domain is found at the N-terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [1]. Domain
PF00312Ribosomal protein S15 (Ribosomal_S15)Ribosomal protein S15Domain
PF01248Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae)Ribosomal protein L7Ae/L30e/S12e/Gadd45 familyThis 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 ...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 MyD118 [1].
Domain
PF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17Domain
PF03501Plectin/S10 domain (S10_plectin)Plectin/S10 domainThis presumed domain is found at the N-terminus of some isoforms of the cytoskeletal muscle protein plectin as well as the ribosomal S10 protein. This domain may be involved in RNA binding. Domain
PF00163Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4)Ribosomal protein S4/S9 N-terminal domain- Family
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
PF00318Ribosomal protein S2 (Ribosomal_S2)Ribosomal protein S2- Family
PF1612240S ribosomal protein SA C-terminus (40S_SA_C)40S ribosomal protein SA C-terminus- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
eS8
eS7
eS6
uS7
40S ribosomal protein eS4---
40S ribosomal protein uS3---
IA [auth 2]RHDV Reinitiation stimulating element RNA---
HA [auth 1]18S ribosomal RNA---
GA [auth g]Receptor for Activated C Kinase 1 (RACK1)
FA [auth f]eS31
EA [auth e]40S ribosomal protein eS30---
DA [auth d]uS14
40S ribosomal protein uS5---
CA [auth c]eS28
BA [auth b]eS27
AA [auth a]40S ribosomal protein S26
eS25
Small ribosomal subunit protein eS24
uS12
uS8
eS21
uS10
40S ribosomal protein eS19---
eS1
uS13
Small ribosomal subunit protein eS17
uS9
40S ribosomal protein uS19---
Small ribosomal subunit protein uS11
uS15
eS12
uS17
S10_plectin domain-containing protein -
uS4
Small ribosomal subunit protein uS2

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR001047Small ribosomal subunit protein eS8Family
IPR042563Small ribosomal subunit protein eS8 subdomain, eukaryotaHomologous Superfamily
IPR022309Ribosomal protein eS8/ribosomal biogenesis NSA2Family
IPR018283Small ribosomal subunit protein eS8, conserved siteConserved Site
IPR000554Small ribosomal subunit protein eS7Family
IPR047861Small ribosomal subunit protein eS7, conserved siteConserved Site
IPR014401Small ribosomal subunit protein eS6-likeFamily
IPR001377Small ribosomal subunit protein eS6Family
IPR018282Small ribosomal subunit protein eS6, conserved siteConserved Site
IPR020606Small ribosomal subunit protein uS7, conserved siteConserved Site
IPR000235Small ribosomal subunit protein uS7Family
IPR036823Small ribosomal subunit protein uS7 domain superfamilyHomologous Superfamily
IPR023798Small ribosomal subunit protein uS7 domainDomain
IPR005716Ribosomal protein uS7, eukaryotic/archaealFamily
GA [auth g]IPR019775WD40 repeat, conserved siteConserved Site
GA [auth g]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
GA [auth g]IPR045223Small ribosomal subunit protein RACK1-likeFamily
GA [auth g]IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
GA [auth g]IPR001680WD40 repeatRepeat
GA [auth g]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
FA [auth f]IPR019954Ubiquitin conserved siteConserved Site
FA [auth f]IPR000626Ubiquitin-like domainDomain
FA [auth f]IPR038582Small ribosomal subunit protein eS31 eukaryotic superfamilyHomologous Superfamily
FA [auth f]IPR002906Small ribosomal subunit protein eS31Domain
FA [auth f]IPR019956Ubiquitin domainDomain
FA [auth f]IPR050158Ubiquitin and ubiquitin-likeFamily
FA [auth f]IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily
FA [auth f]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
DA [auth d]IPR001209Small ribosomal subunit protein uS14Family
DA [auth d]IPR018271Small ribosomal subunit protein uS14, conserved siteConserved Site
DA [auth d]IPR039744Small ribosomal subunit protein uS14, eukaryotes/archaeaFamily
DA [auth d]IPR043140Small ribosomal subunit protein uS14 superfamilyHomologous Superfamily
CA [auth c]IPR028626Ribosomal protein eS28 conserved siteConserved Site
CA [auth c]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
CA [auth c]IPR000289Small ribosomal subunit protein eS28Family
BA [auth b]IPR023407Small ribosomal subunit protein eS27, zinc-binding domain superfamilyHomologous Superfamily
BA [auth b]IPR000592Small ribosomal subunit protein eS27Family
BA [auth b]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
AA [auth a]IPR038551Ribosomal protein eS26 superfamilyHomologous Superfamily
AA [auth a]IPR000892Small ribosomal subunit protein eS26Family
AA [auth a]IPR047864Ribosomal protein eS26, conserved siteConserved Site
IPR004977Small ribosomal subunit protein eS25Family
IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
IPR053709Eukaryotic Ribosomal Protein eS24Homologous Superfamily
IPR001976Small ribosomal subunit protein eS24Family
IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
IPR018098Small ribosomal subunit protein eS24 conserved siteConserved Site
IPR006032Small ribosomal subunit protein uS12Family
IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
IPR005680Small ribosomal subunit protein uS12, eukaryota/archaeaFamily
IPR000630Small ribosomal subunit protein uS8Family
IPR047863Small ribosomal subunit protein uS8, conserved siteConserved Site
IPR035987Small ribosomal subunit protein uS8 superfamilyHomologous Superfamily
IPR038579Small ribosomal subunit protein eS21 superfamilyHomologous Superfamily
IPR018279Small ribosomal subunit protein eS21, conserved siteConserved Site
IPR001931Small ribosomal subunit protein eS21Family
IPR001848Small ribosomal subunit protein uS10Family
IPR027486Small ribosomal subunit protein uS10 domainDomain
IPR036838Small ribosomal subunit protein uS10 domain superfamilyHomologous Superfamily
IPR005729Small ribosomal subunit protein uS10, eukaryotic/archaealFamily
IPR018268Small ribosomal subunit protein uS10, conserved siteConserved Site
IPR001593Small ribosomal subunit protein eS1Family
IPR018281Small ribosomal subunit protein eS1, conserved siteConserved Site
IPR027500Small ribosomal subunit protein eS1, eukaryotaFamily
IPR027437Small ribosomal subunit protein uS13, C-terminalHomologous Superfamily
IPR001892Small ribosomal subunit protein uS13Family
IPR018269Small ribosomal subunit protein uS13, conserved siteConserved Site
IPR010979Small ribosomal subunit protein uS13-like, H2THHomologous Superfamily
IPR036401Small ribosomal subunit protein eS17 superfamilyHomologous Superfamily
IPR001210Small ribosomal subunit protein eS17Family
IPR018273Small ribosomal subunit protein eS17, conserved siteConserved Site
IPR020574Small ribosomal subunit protein uS9, conserved siteConserved Site
IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
IPR000754Small ribosomal subunit protein uS9Family
IPR014721Small ribosomal subunit protein uS5 domain 2-type fold, subgroupHomologous Superfamily
IPR001971Small ribosomal subunit protein uS11Family
IPR036967Small ribosomal subunit protein uS11 superfamilyHomologous Superfamily
IPR018102Small ribosomal subunit protein uS11, conserved siteConserved Site
IPR012606Small ribosomal subunit protein uS15, N-terminalDomain
IPR009068uS15/NS1, RNA-binding domain superfamilyHomologous Superfamily
IPR023029Small ribosomal subunit protein uS15, archaea/eukaryotaFamily
IPR000589Small ribosomal subunit protein uS15Family
IPR000530Small ribosomal subunit protein eS12Family
IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
IPR047860Small ribosomal subunit protein eS12, conserved siteConserved Site
IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
IPR019979Small ribosomal subunit protein uS17, conserved siteConserved Site
IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
IPR000266Small ribosomal subunit protein uS17Family
IPR032440Small ribosomal subunit protein uS17, N-terminalDomain
IPR028333Small ribosomal subunit protein uS17, archaeal/eukaryoticFamily
IPR037447Small ribosomal subunit protein eS10Family
IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
IPR005326Plectin/eS10, N-terminalDomain
IPR002942RNA-binding S4 domainDomain
IPR022801Small ribosomal subunit protein uS4Family
IPR005710Small ribosomal subunit protein uS4, eukaryota/archaeaFamily
IPR018079Small ribosomal subunit protein uS4, conserved siteConserved Site
IPR001912Small ribosomal subunit protein uS4, N-terminalDomain
IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily
IPR032281Small ribosomal subunit protein uS2, C-terminal domainDomain
IPR027498Small ribosomal subunit protein uS2, eukaryotaFamily
IPR027504Small ribosomal subunit protein uS2, vertebratesFamily
IPR023591Small ribosomal subunit protein uS2, flavodoxin-like domain superfamilyHomologous Superfamily
IPR018130Small ribosomal subunit protein uS2, conserved siteConserved Site
IPR001865Small ribosomal subunit protein uS2Family
IPR005707Small ribosomal subunit protein uS2, eukaryota/archaeaFamily