6ELZ | pdb_00006elz

State E (TAP-Flag-Ytm1 E80A) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
G [auth R]SCOP2 FamilyRibosomal protein L19 (L19e) 8077484 4001138 SCOP2 (2022-06-29)
G [auth R]SCOP2 SuperfamilyRibosomal protein L19 (L19e) 8077485 3000890 SCOP2 (2022-06-29)
F [auth Q]SCOP2B SuperfamilyRibosomal proteins L15p and L18e 8095970 3001045 SCOP2B (2022-06-29)
AB [auth G]SCOP2B SuperfamilyL30e-like 8063962 3001739 SCOP2B (2022-06-29)
ZA [auth E]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8053109 3000334 SCOP2B (2022-06-29)
E [auth N]SCOP2B SuperfamilyRibosomal proteins S24e, L23 and L15e 8082481 3000210 SCOP2B (2022-06-29)
QA [auth y]SCOP2B SuperfamilyPentein 8036230 3000640 SCOP2B (2022-06-29)
LA [auth o]SCOP2B SuperfamilyRNA-binding domain, RBD 8061969 3000110 SCOP2B (2022-06-29)
CA [auth C]SCOP2B Superfamily60S ribosomal protein L4 C-terminal domain-like 8052815 3002143 SCOP2B (2022-06-29)
CA [auth C]SCOP2B SuperfamilyRibosomal protein L4 8052816 3001146 SCOP2B (2022-06-29)
BA [auth B]SCOP2B SuperfamilyTranslational proteins 8078363 3000811 SCOP2B (2022-06-29)
AA [auth F]SCOP2B SuperfamilyRibosomal protein L30p/L7e 8052917 3001378 SCOP2B (2022-06-29)
AA [auth F]SCOP2B SuperfamilyRibosomal L30p/L7e protein, N-terminal domain-lke 8052916 3002152 SCOP2B (2022-06-29)
YSCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8076760 3000334 SCOP2B (2022-06-29)
XSCOP2B SuperfamilyRibosomal proteins S24e, L23 and L15e 8095962 3000210 SCOP2B (2022-06-29)
W [auth P]SCOP2B SuperfamilyRibosomal protein L22 8076708 3001078 SCOP2B (2022-06-29)
U [auth V]SCOP2B Superfamily50S Ribosomal protein L14-like 8103364 3000433 SCOP2B (2022-06-29)
T [auth O]SCOP2B SuperfamilyRibosomal protein L13 8066053 3001134 SCOP2B (2022-06-29)
S [auth k]SCOP2B SuperfamilyRibosomal L38e protein-like 8053562 3002206 SCOP2B (2022-06-29)
Q [auth i]SCOP2B SuperfamilyRibosomal protein L36e 8053115 3002161 SCOP2B (2022-06-29)
P [auth g]SCOP2B SuperfamilyRibosomal protein L34e-like 8053547 3002203 SCOP2B (2022-06-29)
O [auth f]SCOP2B SuperfamilyTranslational proteins 8087451 3000811 SCOP2B (2022-06-29)
L [auth c]SCOP2B SuperfamilyL30e-like 8039862 3001739 SCOP2B (2022-06-29)
K [auth Z]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8053046 3000334 SCOP2B (2022-06-29)
J [auth U]SCOP2B Superfamily60S Ribosomal protein L22e 8053058 3002158 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
H [auth S]Ribosomal_L18Ae6elzS2 A: a+b two layersX: GP2-likeH: RplX-like (From Topology)T: RplX-likeF: Ribosomal_L18AECOD (1.6)
G [auth R]Ribosomal_L19e_Ne6elzR2 A: alpha arraysX: 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 domainF: Ribosomal_L19e_NECOD (1.6)
G [auth R]Ribosomal_L19e_Ce6elzR1 A: alpha bundlesX: 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 domainF: Ribosomal_L19e_CECOD (1.6)
F [auth Q]Ribosomal_L18e6elzQ1 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: Ribosomal_L18ECOD (1.6)
BB [auth M]Ribosomal_L14ee6elzM1 A: beta barrelsX: SH3H: SH3T: SH3F: Ribosomal_L14eECOD (1.6)
AB [auth G]Ribosomal_L7Ae_1e6elzG1 A: a+b three layersX: Bacillus chorismate mutase-likeH: L30e-like (From Topology)T: L30e-likeF: Ribosomal_L7Ae_1ECOD (1.6)
ZA [auth E]Ribosomal_L6ee6elzE1 A: beta barrelsX: SH3H: SH3T: SH3F: Ribosomal_L6eECOD (1.6)
E [auth N]Ribosomal_L15ee6elzN1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal proteins S24e, L23 and L15e (From Topology)T: Ribosomal proteins S24e, L23 and L15eF: Ribosomal_L15eECOD (1.6)
TA [auth q]Methyltr_RsmF_N_1e6elzq1 A: a+b two layersX: Alpha-beta plaitsH: NOL1/NOP2/sun N-terminal ferredoxin-like domain (From Topology)T: NOL1/NOP2/sun N-terminal ferredoxin-like domainF: Methyltr_RsmF_N_1ECOD (1.6)
TA [auth q]Methyltr_RsmB-F_1e6elzq2 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: S-adenosyl-L-methionine-dependent methyltransferasesF: Methyltr_RsmB-F_1ECOD (1.6)
SA [auth p]ANAPC4_WD40_15e6elzp1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_15ECOD (1.6)
QA [auth y]eIF-6e6elzy1 A: a+b duplicates or obligate multimersX: Pentein (From Topology)H: Pentein (From Topology)T: PenteinF: eIF-6ECOD (1.6)
PA [auth t]Ribosomal_L30_1e6elzt1 A: a+b two layersX: Ribosomal protein L30p/L7e (From Topology)H: Ribosomal protein L30p/L7e (From Topology)T: Ribosomal protein L30p/L7eF: Ribosomal_L30_1ECOD (1.6)
D [auth L]Ribosomal_L13ee6elzL1 A: extended segmentsX: RPL13 (From Topology)H: RPL13 (From Topology)T: RPL13F: Ribosomal_L13eECOD (1.6)
JA [auth l]PUAe6elzl1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: PUA domainF: PUAECOD (1.6)
JA [auth l]KOG3492e6elzl2 A: a+b two layersX: Cystatin-likeH: Pre-PUA domain (From Topology)T: Pre-PUA domainF: KOG3492ECOD (1.6)
IA [auth W]Ribosomal_L10e6elzW2 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal protein L10-like (From Topology)T: Ribosomal protein L10-likeF: Ribosomal_L10ECOD (1.6)
IA [auth W]Ribosomal_P0_L10ee6elzW1 A: a+b two layersX: Insertion domain in 60S ribosomal protein rpP0 (L10P) (From Topology)H: Insertion domain in 60S ribosomal protein rpP0 (L10P) (From Topology)T: Insertion domain in 60S ribosomal protein rpP0 (L10P)F: Ribosomal_P0_L10eECOD (1.6)
HA [auth D]UNK_F_TYPEe6elzD1 A: alpha duplicates or obligate multimersX: RNA helicase Hera dimerization domain (From Topology)H: RNA helicase Hera dimerization domain (From Topology)T: RNA helicase Hera dimerization domainF: UNK_F_TYPEECOD (1.6)
HA [auth D]Helicase_C_1e6elzD2 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Helicase_C_1ECOD (1.6)
FA [auth K]Ribosomal_L1_2nde6elzK1 A: a+b two layersX: a+b domain in Ribosomal protein L1 (From Topology)H: a+b domain in Ribosomal protein L1 (From Topology)T: a+b domain in Ribosomal protein L1F: Ribosomal_L1_2ndECOD (1.6)
FA [auth K]Ribosomal_L1_1st_1e6elzK2 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Rossmann-like domain in Ribosomal protein L1 (From Topology)T: Rossmann-like domain in Ribosomal protein L1F: Ribosomal_L1_1st_1ECOD (1.6)
EA [auth A]Brixe6elzA1 A: a/b three-layered sandwichesX: Anticodon-binding domain of Class II aaRS (From Topology)H: Anticodon-binding domain of Class II aaRS (From Topology)T: Anticodon-binding domain of Class II aaRSF: BrixECOD (1.6)
DA [auth H]Ribosomal_L6_2e6elzH1 A: a+b two layersX: Ribosomal protein L6 (From Topology)H: Ribosomal protein L6 (From Topology)T: Ribosomal protein L6F: Ribosomal_L6_2ECOD (1.6)
DA [auth H]Ribosomal_L6e6elzH2 A: a+b two layersX: Ribosomal protein L6 (From Topology)H: Ribosomal protein L6 (From Topology)T: Ribosomal protein L6F: Ribosomal_L6ECOD (1.6)
CA [auth C]Ribosomal_L4e6elzC2 A: a/b three-layered sandwichesX: Ribosomal protein L4 (From Topology)H: Ribosomal protein L4 (From Topology)T: Ribosomal protein L4F: Ribosomal_L4ECOD (1.6)
CA [auth C]Ribos_L4_asso_Ce6elzC1 A: extended segmentsX: C-terminal helical region in 60S ribosomal protein L4 (L4p) (From Topology)H: C-terminal helical region in 60S ribosomal protein L4 (L4p) (From Topology)T: C-terminal helical region in 60S ribosomal protein L4 (L4p)F: Ribos_L4_asso_CECOD (1.6)
BA [auth B]Ribosomal_L3e6elzB1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: Alanine racemase-CF: Ribosomal_L3ECOD (1.6)
AA [auth F]Ribosomal_L30_1e6elzF1 A: a+b two layersX: Ribosomal protein L30p/L7e (From Topology)H: Ribosomal protein L30p/L7e (From Topology)T: Ribosomal protein L30p/L7eF: Ribosomal_L30_1ECOD (1.6)
Z [auth h]Ribosomal_L29_2e6elzh1 A: alpha bundlesX: Long alpha-hairpinH: Ribosomal protein L29 (L29p) (From Topology)T: Ribosomal protein L29 (L29p)F: Ribosomal_L29_2ECOD (1.6)
YRibosomal_L26e6elzY1 A: beta barrelsX: SH3H: SH3T: SH3F: Ribosomal_L26ECOD (1.6)
XRibosomal_L23_3e6elzX1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal proteins S24e, L23 and L15e (From Topology)T: Ribosomal proteins S24e, L23 and L15eF: Ribosomal_L23_3ECOD (1.6)
W [auth P]Ribosomal_L22e6elzP1 A: a+b two layersX: Enolase-N/ribosomal proteinH: Ribosomal protein L22 (From Topology)T: Ribosomal protein L22F: Ribosomal_L22ECOD (1.6)
V [auth a]Ribosomal_L18e6elza1 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: Ribosomal_L18ECOD (1.6)
U [auth V]Ribosomal_L14e6elzV1 A: beta barrelsX: Ribosomal protein L14-likeH: Ribosomal protein L14-related (From Topology)T: Ribosomal protein L14-relatedF: Ribosomal_L14ECOD (1.6)
T [auth O]Ribosomal_L13e6elzO1 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: Ribosomal_L13ECOD (1.6)
S [auth k]Ribosomal_L38ee6elzk1 A: a+b two layersX: SRP9/14-likeH: Signal recognition particle alu RNA binding heterodimer SRP9/14-related (From Topology)T: Signal recognition particle alu RNA binding heterodimer SRP9/14-relatedF: Ribosomal_L38eECOD (1.6)
R [auth j]Ribosomal_L37ee6elzj1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: Ribosomal_L37eECOD (1.6)
Q [auth i]Ribosomal_L36ee6elzi1 A: alpha arraysX: 60S ribosomal protein rpL36 (L36e) (From Topology)H: 60S ribosomal protein rpL36 (L36e) (From Topology)T: 60S ribosomal protein rpL36 (L36e)F: Ribosomal_L36eECOD (1.6)
P [auth g]Ribosomal_L34ee6elzg1 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: RPL34 (From Topology)T: RPL34F: Ribosomal_L34eECOD (1.6)
O [auth f]Ribosomal_L35Aee6elzf1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: Alanine racemase-CF: Ribosomal_L35AeECOD (1.6)
N [auth e]Ribosomal_L32ee6elze1 A: a/b three-layered sandwichesX: Ribosomal protein L13/L15p/L18e/L32eH: Ribosomal protein L32e (From Topology)T: Ribosomal protein L32eF: Ribosomal_L32eECOD (1.6)
M [auth d]Ribosomal_L31ee6elzd1 A: a+b two layersX: Ribosomal protein L31e-likeH: Ribosomal protein L31e/gp120 outer domain (From Topology)T: Ribosomal protein L31e/gp120 outer domainF: Ribosomal_L31eECOD (1.6)
L [auth c]Ribosomal_L7Aee6elzc1 A: a+b three layersX: Bacillus chorismate mutase-likeH: L30e-like (From Topology)T: L30e-likeF: Ribosomal_L7AeECOD (1.6)
K [auth Z]Ribosomal_L27ee6elzZ1 A: beta barrelsX: SH3H: SH3T: SH3F: Ribosomal_L27eECOD (1.6)
J [auth U]Ribosomal_L22ee6elzU1 A: a+b two layersX: Ribosomal protein L22e (From Topology)H: Ribosomal protein L22e (From Topology)T: Ribosomal protein L22eF: Ribosomal_L22eECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
I [auth T]PF00327Ribosomal protein L30p/L7e (Ribosomal_L30)Ribosomal protein L30p/L7eThis family includes prokaryotic L30 and eukaryotic L7. Domain
H [auth S]PF08701GNL3L/Grn1 putative GTPase (GN3L_Grn1)GNL3L/Grn1 putative GTPase- Family
H [auth S]PF01775Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A (Ribosomal_L18A)Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18AThis 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
G [auth R]PF01280Ribosomal protein L19e, N-terminal domain (Ribosomal_L19e)Ribosomal protein L19e, N-terminal domainThis domain is found at the N-terminal end of the large ribosomal subunit protein eL19 found in eukaryotes and archaea. This is an helical domain that assumes an orthogonal bundle topology. Domain
G [auth R]PF01201Ribosomal protein S8e (Ribosomal_S8e)Ribosomal protein S8e- Family
BB [auth M]PF01929Ribosomal protein L14 (Ribosomal_L14e)Ribosomal protein L14- Family
BB [auth M]PF00467KOW motif (KOW)KOW motif- Family
AB [auth G]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
ZA [auth E]PF01655Ribosomal protein L32 (Ribosomal_L32e)Ribosomal protein L32- Family
ZA [auth E]PF01159Ribosomal protein L6e (Ribosomal_L6e)Ribosomal protein L6e- Family
XA [auth I]PF03914CBF/Mak21 family (CBF)CBF/Mak21 family- Repeat
XA [auth I]PF07540Nucleolar complex-associated protein (NOC3p)Nucleolar complex-associated protein- Family
E [auth N]PF00827Ribosomal L15 (Ribosomal_L15e)Ribosomal L15- Family
E [auth N]PF06732Pescadillo N-terminus (Pescadillo_N)Pescadillo N-terminus- Family
D [auth L]PF01294Ribosomal protein L13e (Ribosomal_L13e)Ribosomal protein L13e- Family
D [auth L]PF03657UPF0113 PUA domain (UPF0113)UPF0113 PUA domainDomain
D [auth L]PF17833NIP7/UPF0113, pre-PUA domain (pre-PUA_NIP7)NIP7/UPF0113, pre-PUA domainThis entry represents the N-terminal, pre-PUA domain of yeast 60S ribosome subunit biogenesis protein NIP7 and homologues, some uncharacterised proteins from the UPF0113 family and similar sequences from eukaryotes and some archaeal species. NIP7 is ...This entry represents the N-terminal, pre-PUA domain of yeast 60S ribosome subunit biogenesis protein NIP7 and homologues, some uncharacterised proteins from the UPF0113 family and similar sequences from eukaryotes and some archaeal species. NIP7 is required for proper 27S pre-rRNA processing and 60S ribosome subunit assembly. This domain is found associated with Pfam:PF03657.
Domain
IA [auth W]PF01728FtsJ-like methyltransferase (FtsJ)FtsJ-like methyltransferase- Family
IA [auth W]PF17777Insertion domain in 60S ribosomal protein L10P (RL10P_insert)Insertion domain in 60S ribosomal protein L10PThis domain is found in prokaryotic and archaeal ribosomal L10 protein [1]. Domain
IA [auth W]PF00466Ribosomal protein L10 (Ribosomal_L10)Ribosomal protein L10- Family
HA [auth D]PF13959ATP-dependent rRNA helicase SPB4-like, C-terminal extension (CTE_SPB4)ATP-dependent rRNA helicase SPB4-like, C-terminal extensionThis short domain is found at the C-terminus of many helicase proteins, including ATP-dependent rRNA helicase SPB4 from Saccharomyces cerevisiae, which is involved in the biogenesis of 60S ribosomal subunits. SPB4 is organised into four domains: dual ...This short domain is found at the C-terminus of many helicase proteins, including ATP-dependent rRNA helicase SPB4 from Saccharomyces cerevisiae, which is involved in the biogenesis of 60S ribosomal subunits. SPB4 is organised into four domains: dual RecA domains (Pfam:PF00270 and Pfam:PF00271), a C-terminal extension (CTE, represented by this entry) and a C-terminal tail (Pfam:PF23681). This domain packs closely onto the catalytic core and engages the four nucleotides immediately 5' to those within the RNA binding pocket. It shows a mainly alpha- helical structure [1].
Domain
HA [auth D]PF00271Helicase conserved C-terminal domain (Helicase_C)Helicase conserved C-terminal domainThe Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. Domain
HA [auth D]PF01198Ribosomal protein L31e (Ribosomal_L31e)Ribosomal protein L31e- Family
FA [auth K]PF01781Ribosomal L38e protein family (Ribosomal_L38e)Ribosomal L38e protein family- Family
FA [auth K]PF00687Ribosomal protein L1p/L10e family (Ribosomal_L1)Ribosomal protein L1p/L10e familyThis family includes prokaryotic L1 and eukaryotic L10. Domain
EA [auth A]PF04427Brix domain (Brix)Brix domainDomain
DA [auth H]PF00347Ribosomal protein L6 (Ribosomal_L6)Ribosomal protein L6Domain
DA [auth H]PF00831Ribosomal L29 protein (Ribosomal_L29)Ribosomal L29 protein- Family
CA [auth C]PF1437460S ribosomal protein L4 C-terminal domain (Ribos_L4_asso_C)60S ribosomal protein L4 C-terminal domainThis family is found at the very C-terminal of 60 ribosomal L4 proteins. Domain
CA [auth C]PF00573Ribosomal protein L4/L1 family (Ribosomal_L4)Ribosomal protein L4/L1 family- Family
BA [auth B]PF17835NOG1 N-terminal helical domain (NOG1_N)NOG1 N-terminal helical domainThis domain is found at the N-terminus of NOG1 GTPase proteins. Domain
BA [auth B]PF06858Nucleolar GTP-binding protein 1 (NOG1) (NOG1)Nucleolar GTP-binding protein 1 (NOG1)- Family
AA [auth F]PF00327Ribosomal protein L30p/L7e (Ribosomal_L30)Ribosomal protein L30p/L7eThis family includes prokaryotic L30 and eukaryotic L7. Domain
AA [auth F]PF01247Ribosomal protein L35Ae (Ribosomal_L35Ae)Ribosomal protein L35AeThis entry represents the ribosomal eL33 previously known as L35A, eukaryotic and archaebacterial ribosomal proteins. Domain
PF01912eIF-6 family (eIF-6)eIF-6 family- Family
PF16906Ribosomal proteins L26 eukaryotic, L24P archaeal (Ribosomal_L26)Ribosomal proteins L26 eukaryotic, L24P archaeal- Family
PF00467KOW motif (KOW)KOW motif- Family
PF03939Ribosomal protein L23, N-terminal domain (Ribosomal_L23eN)Ribosomal protein L23, N-terminal domain- Family
PF00276Ribosomal protein L23 (Ribosomal_L23)Ribosomal protein L23- Family
W [auth P]PF00237Ribosomal protein L22p/L17e (Ribosomal_L22)Ribosomal protein L22p/L17eThis family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes. Domain
W [auth P]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
U [auth V]PF00238Ribosomal protein L14p/L23e (Ribosomal_L14)Ribosomal protein L14p/L23eDomain
U [auth V]PF09420Ribosome biogenesis protein Nop16 (Nop16)Ribosome biogenesis protein Nop16- Family
T [auth O]PF00076RNA recognition motif (RRM_1)RNA recognition motifThe RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ...The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.
Domain
T [auth O]PF00572Ribosomal protein L13 (Ribosomal_L13)Ribosomal protein L13- Family
K [auth Z]PF01777Ribosomal L27e protein family (Ribosomal_L27e)Ribosomal L27e protein family- Family
J [auth U]PF01246Ribosomal protein L24e (Ribosomal_L24e)Ribosomal protein L24eDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
I [auth T]60S ribosomal protein L21-A
H [auth S]60S ribosomal protein L20-A
G [auth R]60S ribosomal protein L19-A
F [auth Q]60S ribosomal protein L18-A
BB [auth M]60S ribosomal protein L14-A
AB [auth G]60S ribosomal protein L8-A
ZA [auth E]60S ribosomal protein L6-A
YA [auth J]rRNA-processing protein EBP2
XA [auth I]Nucleolar complex-associated protein 3
E [auth N]60S ribosomal protein L15-A
WA [auth w]27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase
VA [auth v]Nucleolar protein 16-
UA [auth u]Ribosome biogenesis protein RLP24
TA [auth q]25S rRNA (cytosine(2870)-C(5))-methyltransferase
SA [auth p]Ribosome biogenesis protein YTM1
RA [auth z]UPF0642 protein YBL028C- -
QA [auth y]Eukaryotic translation initiation factor 6
PA [auth t]Ribosome biogenesis protein RLP7
OA [auth s]Nuclear GTP-binding protein NUG1
NA [auth r]Ribosome biogenesis protein NSA2-
D [auth L]60S ribosomal protein L13-A
MA [auth n]Pescadillo homolog
LA [auth o]Ribosome biogenesis protein 15
KA [auth b]Nucleolar GTP-binding protein 1
JA [auth l]60S ribosome subunit biogenesis protein NIP7
IA [auth W]Ribosome assembly factor MRT4
HA [auth D]ATP-dependent RNA helicase HAS1
GA [auth m]Ribosome biogenesis protein ERB1
FA [auth K]Proteasome-interacting protein CIC1
EA [auth A]Ribosome biogenesis protein BRX1
DA [auth H]60S ribosomal protein L9-A
C [auth 6]Internal transcribed spacer 2---
CA [auth C]60S ribosomal protein L4-A
BA [auth B]60S ribosomal protein L3
AA [auth F]60S ribosomal protein L7-A
Z [auth h]60S ribosomal protein L35-A
60S ribosomal protein L26-A
60S ribosomal protein L25
W [auth P]60S ribosomal protein L17-A
V [auth a]60S ribosomal protein L28
U [auth V]60S ribosomal protein L23-A
T [auth O]60S ribosomal protein L16-A
B [auth 2]5.8S ribosomal RNA---
S [auth k]60S ribosomal protein L38
R [auth j]60S ribosomal protein L37-A
Q [auth i]60S ribosomal protein L36-A
P [auth g]60S ribosomal protein L34-A
O [auth f]60S ribosomal protein L33-A
N [auth e]60S ribosomal protein L32
M [auth d]60S ribosomal protein L31-A
L [auth c]60S ribosomal protein L30
K [auth Z]60S ribosomal protein L27-A
J [auth U]60S ribosomal protein L22-A
A [auth 1]25S ribosomal RNA---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
I [auth T]IPR018259Large ribosomal subunit protein eL21, conserved siteConserved Site
I [auth T]IPR036948Large ribosomal subunit protein eL21 superfamilyHomologous Superfamily
I [auth T]IPR001147Large ribosomal subunit protein eL21Family
I [auth T]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
H [auth S]IPR028877Large ribosomal subunit protein eL20Family
H [auth S]IPR023573Large ribosomal subunit protein eL20 domainDomain
H [auth S]IPR021138Large ribosomal subunit protein eL20, eukaryotaFamily
G [auth R]IPR015972Large ribosomal subunit protein eL19, domain 1Homologous Superfamily
G [auth R]IPR039547Large ribosomal subunit protein eL19Family
G [auth R]IPR023638Large ribosomal subunit protein eL19, conserved siteConserved Site
G [auth R]IPR035970Large ribosomal subunit protein eL19 superfamilyHomologous Superfamily
G [auth R]IPR000196Large ribosomal subunit protein eL19 domainDomain
G [auth R]IPR033935Large ribosomal subunit protein eL19, eukaryoticDomain
F [auth Q]IPR021131Large ribosomal subunit protein uL15/eL18Domain
F [auth Q]IPR021132Large ribosomal subunit protein eL18, conserved siteConserved Site
F [auth Q]IPR000039Large ribosomal subunit protein eL18Family
F [auth Q]IPR036227Large ribosomal subunit protein uL15/eL18 superfamilyHomologous Superfamily
BB [auth M]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
BB [auth M]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
BB [auth M]IPR039660Large ribosomal subunit protein eL14Family
BB [auth M]IPR002784Large ribosomal subunit protein eL14 domainDomain
BB [auth M]IPR005824KOWDomain
AB [auth G]IPR050257Large ribosomal subunit protein eL8/uL1-likeFamily
AB [auth G]IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
AB [auth G]IPR004037Large ribosomal subunit protein eL8-like, conserved siteConserved Site
AB [auth G]IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
AB [auth G]IPR018492Ribosomal protein eL8/Nhp2 familyFamily
AB [auth G]IPR001921Large ribosomal subunit protein eL8, eukaryotaFamily
ZA [auth E]IPR049633Large ribosomal subunit protein eL6, conserved siteConserved Site
ZA [auth E]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
ZA [auth E]IPR041997Large ribosomal subunit protein eL6, KOW domainDomain
ZA [auth E]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
ZA [auth E]IPR000915Large ribosomal subunit protein eL6Family
YA [auth J]IPR008610Eukaryotic rRNA processingFamily
XA [auth I]IPR016024Armadillo-type foldHomologous Superfamily
XA [auth I]IPR016903Nucleolar complex-associated protein 3Family
XA [auth I]IPR011501Nucleolar complex-associated protein 3, N-terminalDomain
XA [auth I]IPR005612CCAAT-binding factorDomain
E [auth N]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
E [auth N]IPR020925Large ribosomal subunit protein eL15, conserved siteConserved Site
E [auth N]IPR024794Large ribosomal subunit protein eL15 core domain superfamilyHomologous Superfamily
E [auth N]IPR000439Large ribosomal subunit protein eL15Family
WA [auth w]IPR024576Ribosomal RNA methyltransferase Spb1, domain of unknown function DUF3381Domain
WA [auth w]IPR012920Ribosomal RNA methyltransferase, SPB1-like, C-terminalDomain
WA [auth w]IPR029063S-adenosyl-L-methionine-dependent methyltransferase superfamilyHomologous Superfamily
WA [auth w]IPR002877Ribosomal RNA methyltransferase, FtsJ domainDomain
WA [auth w]IPR015507Ribosomal RNA large subunit methyltransferase EFamily
WA [auth w]IPR028589AdoMet-dependent rRNA methyltransferase SPB1-likeFamily
WA [auth w]IPR050082Ribosomal RNA large subunit methyltransferase RlmEFamily
VA [auth v]IPR019002Ribosome biogenesis protein Nop16Family
UA [auth u]IPR011017TRASH domainDomain
UA [auth u]IPR000988Large ribosomal subunit protein eL24-related, N-terminalDomain
UA [auth u]IPR038630Ribosomal protein L24e/L24 superfamilyHomologous Superfamily
UA [auth u]IPR056366Large ribosomal subunit protein eL24Family
TA [auth q]IPR018314RsmB/NOL1/NOP2-like, conserved siteConserved Site
TA [auth q]IPR001678SAM-dependent methyltransferase RsmB-F/NOP2-type domainDomain
TA [auth q]IPR029063S-adenosyl-L-methionine-dependent methyltransferase superfamilyHomologous Superfamily
TA [auth q]IPR023267RNA (C5-cytosine) methyltransferaseFamily
TA [auth q]IPR011023Nop2pDomain
TA [auth q]IPR023273RNA (C5-cytosine) methyltransferase, NOP2Family
TA [auth q]IPR049560SAM-dependent methyltransferase RsmB-F/NOP2-type, catalytic coreDomain
SA [auth p]IPR019775WD40 repeat, conserved siteConserved Site
SA [auth p]IPR012972NLEDomain
SA [auth p]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
SA [auth p]IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
SA [auth p]IPR001680WD40 repeatRepeat
SA [auth p]IPR028599WD repeat WDR12/Ytm1Family
SA [auth p]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
RA [auth z]IPR019434Domain of unknown function DUF2423Domain
QA [auth y]IPR002769Translation initiation factor IF6Family
PA [auth t]IPR036919Large ribosomal subunit protein uL30, ferredoxin-like fold domain superfamilyHomologous Superfamily
PA [auth t]IPR035808Large ribosomal subunit protein uL30, eukaryota/archaeaDomain
PA [auth t]IPR039699Large ribosomal subunit protein uL30Family
PA [auth t]IPR016082Large ribosomal subunit protein uL30-like, ferredoxin-like fold domainDomain
PA [auth t]IPR018038Large ribosomal subunit protein uL30, conserved siteConserved Site
OA [auth s]IPR050755TRAFAC YlqF/YawG GTPases, Ribosome MaturationFamily
OA [auth s]IPR030378Circularly permuted (CP)-type guanine nucleotide-binding (G) domainDomain
OA [auth s]IPR006073GTP binding domainDomain
OA [auth s]IPR014813Guanine nucleotide-binding protein-like 3, N-terminal domainDomain
OA [auth s]IPR023179GTP-binding protein, orthogonal bundle domain superfamilyHomologous Superfamily
OA [auth s]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
NA [auth r]IPR039411Ribosomal biogenesis NSA2 familyFamily
NA [auth r]IPR022309Ribosomal protein eS8/ribosomal biogenesis NSA2Family
D [auth L]IPR001380Large ribosomal subunit protein eL13Family
D [auth L]IPR018256Large ribosomal subunit protein eL13, conserved siteConserved Site
MA [auth n]IPR010613PescadilloFamily
MA [auth n]IPR001357BRCT domainDomain
MA [auth n]IPR036420BRCT domain superfamilyHomologous Superfamily
LA [auth o]IPR000504RNA recognition motif domainDomain
LA [auth o]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
LA [auth o]IPR034469Ribosome biogenesis protein 15, RNA recognition motifDomain
LA [auth o]IPR035979RNA-binding domain superfamilyHomologous Superfamily
KA [auth b]IPR024926Nucleolar GTP-binding protein 1Family
KA [auth b]IPR031167OBG-type guanine nucleotide-binding (G) domainDomain
KA [auth b]IPR012973NOG, C-terminalDomain
KA [auth b]IPR010674Nucleolar GTP-binding protein 1, Rossman-fold domainDomain
KA [auth b]IPR041623NOG1, N-terminal helical domainDomain
KA [auth b]IPR006073GTP binding domainDomain
KA [auth b]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
JA [auth l]IPR015947PUA-like superfamilyHomologous Superfamily
JA [auth l]IPR005155UPF0113, PUA domainDomain
JA [auth l]IPR016686Ribosome biogenesis factor, NIP7Family
JA [auth l]IPR036974PUA domain superfamilyHomologous Superfamily
JA [auth l]IPR04059860S ribosome subunit biogenesis protein NIP7, pre-PUA domainDomain
JA [auth l]IPR002478PUA domainDomain
JA [auth l]IPR05535960S ribosome subunit biogenesis protein Nip7, pre-PUA domain, eukaryotesDomain
IA [auth W]IPR043141Large ribosomal subunit protein uL10-like domain superfamilyHomologous Superfamily
IA [auth W]IPR001790Large ribosomal subunit protein uL10Family
IA [auth W]IPR043164Large ribosomal subunit protein uL10-like, insertion domain superfamilyHomologous Superfamily
IA [auth W]IPR051742Ribosomal Assembly Factor uL10Family
IA [auth W]IPR040637Large ribosomal subunit protein uL10-like, insertion domainDomain
IA [auth W]IPR033867Ribosome assembly factor Mrt4Family
HA [auth D]IPR000629ATP-dependent RNA helicase DEAD-box, conserved siteConserved Site
HA [auth D]IPR014014RNA helicase, DEAD-box type, Q motifDomain
HA [auth D]IPR025313ATP-dependent rRNA helicase SPB4-like, C-terminal extensionDomain
HA [auth D]IPR011545DEAD/DEAH-box helicase domainDomain
HA [auth D]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
HA [auth D]IPR001650Helicase, C-terminal domain-likeDomain
HA [auth D]IPR014001Helicase superfamily 1/2, ATP-binding domainDomain
HA [auth D]IPR044773DDX18/Has1, DEAD-box helicase domainDomain
GA [auth m]IPR019775WD40 repeat, conserved siteConserved Site
GA [auth m]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
GA [auth m]IPR028598WD repeat BOP1/Erb1Family
GA [auth m]IPR001680WD40 repeatRepeat
GA [auth m]IPR012953BOP1, N-terminal domainDomain
GA [auth m]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
FA [auth K]IPR023674Ribosomal protein uL1-likeHomologous Superfamily
FA [auth K]IPR028364Ribosomal protein uL1/ribosomal biogenesis proteinFamily
EA [auth A]IPR026532Ribosome biogenesis protein BRX1Family
EA [auth A]IPR007109Brix domainDomain
DA [auth H]IPR020040Large ribosomal subunit protein uL6, alpha-beta domainDomain
DA [auth H]IPR002359Large ribosomal subunit protein uL6, conserved site-2Conserved Site
DA [auth H]IPR036789Large ribosomal subunit protein uL6-like, alpha-beta domain superfamilyHomologous Superfamily
DA [auth H]IPR000702Large ribosomal subunit protein uL6-likeFamily
CA [auth C]IPR025755Large ribosomal subunit protein uL4, C-terminal domainDomain
CA [auth C]IPR002136Large ribosomal subunit protein uL4Family
CA [auth C]IPR013000Large ribosomal subunit protein uL4, eukaryota/archaea, conserved siteConserved Site
CA [auth C]IPR045240Large ribosomal subunit protein uL4, eukaryota/archaeaFamily
CA [auth C]IPR023574Large ribosomal subunit protein uL4 domain superfamilyHomologous Superfamily
BA [auth B]IPR019926Large ribosomal subunit protein uL3, conserved siteConserved Site
BA [auth B]IPR044892Ribosomal protein L3, domain 3, archaeal-type superfamilyHomologous Superfamily
BA [auth B]IPR000597Large ribosomal subunit protein uL3Family
BA [auth B]IPR045077Large ribosomal subunit protein uL3, archaea/eukaryotaFamily
BA [auth B]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
AA [auth F]IPR036919Large ribosomal subunit protein uL30, ferredoxin-like fold domain superfamilyHomologous Superfamily
AA [auth F]IPR035808Large ribosomal subunit protein uL30, eukaryota/archaeaDomain
AA [auth F]IPR005998Large ribosomal subunit protein uL30, eukaryotaFamily
AA [auth F]IPR039699Large ribosomal subunit protein uL30Family
AA [auth F]IPR012988Large ribosomal subunit protein uL30, N-terminal, eukaryotaDomain
AA [auth F]IPR016082Large ribosomal subunit protein uL30-like, ferredoxin-like fold domainDomain
AA [auth F]IPR018038Large ribosomal subunit protein uL30, conserved siteConserved Site
Z [auth h]IPR001854Large ribosomal subunit protein uL29Family
Z [auth h]IPR036049Large ribosomal subunit protein uL29 superfamilyHomologous Superfamily
Z [auth h]IPR018254Large ribosomal subunit protein uL29, conserved siteConserved Site
Z [auth h]IPR045059Large ribosomal subunit protein uL29, eukaryotaFamily
IPR005756Large ribosomal subunit protein uL24, eukaryota_archaeaFamily
IPR041988Large ribosomal subunit protein uL24, KOW domainDomain
IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
IPR005824KOWDomain
IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
IPR005825Large ribosomal subunit protein uL24, conserved siteConserved Site
IPR001014Large ribosomal subunit protein uL23, conserved siteConserved Site
IPR013025Large ribosomal subunit protein uL23-likeFamily
IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
IPR005633Large ribosomal subunit protein uL23, N-terminalDomain
W [auth P]IPR018260Large ribosomal subunit protein uL22, conserved siteConserved Site
W [auth P]IPR005721Large ribosomal subunit protein uL22, eukaryota/archaeaFamily
W [auth P]IPR036394Ribosomal protein uL22 superfamilyHomologous Superfamily
W [auth P]IPR001063Large ribosomal subunit protein uL22Family
V [auth a]IPR021131Large ribosomal subunit protein uL15/eL18Domain
V [auth a]IPR030878Large ribosomal subunit protein uL15Family
V [auth a]IPR001196Large ribosomal subunit protein uL15, conserved siteConserved Site
V [auth a]IPR036227Large ribosomal subunit protein uL15/eL18 superfamilyHomologous Superfamily
U [auth V]IPR036853Large ribosomal subunit protein uL14 superfamilyHomologous Superfamily
U [auth V]IPR000218Large ribosomal subunit protein uL14Family
U [auth V]IPR019972Large ribosomal subunit protein uL14, conserved siteConserved Site
T [auth O]IPR023563Large ribosomal subunit protein uL13, conserved siteConserved Site
T [auth O]IPR005822Large ribosomal subunit protein uL13Family
T [auth O]IPR036899Large ribosomal subunit protein uL13 superfamilyHomologous Superfamily
T [auth O]IPR005755Large ribosomal subunit protein uL13, eukaryota/archaeaFamily
S [auth k]IPR002675Large ribosomal subunit protein eL38Family
S [auth k]IPR038464Large ribosomal subunit protein eL38 superfamilyHomologous Superfamily
R [auth j]IPR011331Large ribosomal subunit protein eL37/eL43Homologous Superfamily
R [auth j]IPR001569Large ribosomal subunit protein eL37Family
R [auth j]IPR018267Large ribosomal subunit protein eL37, conserved siteConserved Site
R [auth j]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
Q [auth i]IPR000509Large ribosomal subunit protein eL36Family
Q [auth i]IPR038097Large ribosomal subunit protein eL36 domain superfamilyHomologous Superfamily
P [auth g]IPR008195Large ribosomal subunit protein eL34Family
P [auth g]IPR038562Large ribosomal subunit protein eL34, C-terminal domain superfamilyHomologous Superfamily
P [auth g]IPR018065Large ribosomal subunit protein eL34, conserved siteConserved Site
O [auth f]IPR038661Large ribosomal subunit protein eL33 superfamilyHomologous Superfamily
O [auth f]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
O [auth f]IPR001780Large ribosomal subunit protein eL33Family
O [auth f]IPR018266Large ribosomal subunit protein eL33, conserved siteConserved Site
N [auth e]IPR036351Large ribosomal subunit protein eL32 superfamilyHomologous Superfamily
N [auth e]IPR001515Large ribosomal subunit protein eL32Family
N [auth e]IPR018263Large ribosomal subunit protein eL32, conserved siteConserved Site
M [auth d]IPR020052Large ribosomal subunit protein eL31, conserved siteConserved Site
M [auth d]IPR023621Large ribosomal subunit protein eL31 domain superfamilyHomologous Superfamily
M [auth d]IPR000054Large ribosomal subunit protein eL31Family
L [auth c]IPR022991Large ribosomal subunit protein eL30, conserved siteConserved Site
L [auth c]IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
L [auth c]IPR039109Large ribosomal subunit protein eL30-likeFamily
L [auth c]IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
K [auth Z]IPR018262Large ribosomal subunit protein eL27, conserved siteConserved Site
K [auth Z]IPR038655Large ribosomal subunit protein eL27 superfamilyHomologous Superfamily
K [auth Z]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
K [auth Z]IPR001141Large ribosomal subunit protein eL27Family
K [auth Z]IPR041991Large ribosomal subunit protein eL27, KOW domainDomain
J [auth U]IPR002671Large ribosomal subunit protein eL22Family
J [auth U]IPR038526Large ribosomal subunit protein eL22 superfamilyHomologous Superfamily