6N8N

Cryo-EM structure of Lsg1-engaged (LE) pre-60S ribosomal subunit


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
J [auth F]SCOP2B SuperfamilyRibosomal protein L48052816 3001146 SCOP2B (2022-06-29)
J [auth F]SCOP2B Superfamily60S ribosomal protein L4 C-terminal domain-like8052815 3002143 SCOP2B (2022-06-29)
K [auth G]SCOP2B SuperfamilyTranslational machinery components8052875 3000571 SCOP2B (2022-06-29)
L [auth H]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain8053109 3000334 SCOP2B (2022-06-29)
M [auth I]SCOP2B SuperfamilyRibosomal protein L30p/L7e8052917 3001378 SCOP2B (2022-06-29)
M [auth I]SCOP2B SuperfamilyRibosomal L30p/L7e protein N-terminal domain-lke8052916 3002152 SCOP2B (2022-06-29)
N [auth J]SCOP2B SuperfamilyL30e-like8063962 3001739 SCOP2B (2022-06-29)
P [auth M]SCOP2B SuperfamilyRL5-like8073884 3001709 SCOP2B (2022-06-29)
Q [auth N]SCOP2B SuperfamilyRibosomal protein L13e-like8053159 3002162 SCOP2B (2022-06-29)
T [auth R]SCOP2B SuperfamilyZn-binding ribosomal proteins8103126 3001320 SCOP2B (2022-06-29)
V [auth a]SCOP2B SuperfamilyRibosomal proteins S24e L23 and L15e8082481 3000210 SCOP2B (2022-06-29)
W [auth b]SCOP2B SuperfamilyRibosomal protein L138066053 3001134 SCOP2B (2022-06-29)
X [auth c]SCOP2B SuperfamilyRibosomal protein L228076708 3001078 SCOP2B (2022-06-29)
Y [auth d]SCOP2B SuperfamilyRibosomal proteins L15p and L18e8095970 3001045 SCOP2B (2022-06-29)
Z [auth e]SCOP2B SuperfamilyRibosomal protein L19 (L19e)8077485 3000890 SCOP2B (2022-06-29)
CA [auth h]SCOP2B Superfamily60S Ribosomal protein L22e8053058 3002158 SCOP2B (2022-06-29)
DA [auth i]SCOP2B Superfamily50S Ribosomal protein L14-like8103364 3000433 SCOP2B (2022-06-29)
FA [auth k]SCOP2B SuperfamilyRibosomal proteins S24e L23 and L15e8095962 3000210 SCOP2B (2022-06-29)
GA [auth l]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain8076760 3000334 SCOP2B (2022-06-29)
HA [auth m]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain8053046 3000334 SCOP2B (2022-06-29)
IA [auth n]SCOP2B SuperfamilyRibosomal proteins L15p and L18e8077127 3001045 SCOP2B (2022-06-29)
JA [auth o]SCOP2B SuperfamilyRibosomal protein L29e8053045 3002157 SCOP2B (2022-06-29)
KA [auth p]SCOP2B SuperfamilyL30e-like8039862 3001739 SCOP2B (2022-06-29)
NA [auth s]SCOP2B SuperfamilyTranslational proteins8087451 3000811 SCOP2B (2022-06-29)
OA [auth t]SCOP2B SuperfamilyRibosomal protein L34e-like8053547 3002203 SCOP2B (2022-06-29)
QA [auth v]SCOP2B SuperfamilyRibosomal protein L36e8053115 3002161 SCOP2B (2022-06-29)
RA [auth w]SCOP2B SuperfamilyZn-binding ribosomal proteins8080044 3001320 SCOP2B (2022-06-29)
SA [auth x]SCOP2B SuperfamilyRibosomal L38e protein-like8053562 3002206 SCOP2B (2022-06-29)
TA [auth y]SCOP2B SuperfamilyRibosomal protein L39e8078549 3001756 SCOP2B (2022-06-29)
E [auth X]SCOP2B SuperfamilyPentein8036230 3000640 SCOP2B (2022-06-29)
I [auth E]SCOP2B SuperfamilyTranslational proteins8078363 3000811 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
J [auth F]PF00573e6n8nF3 A: a/b three-layered sandwichesX: Ribosomal protein L4 (From Topology)H: Ribosomal protein L4 (From Topology)T: Ribosomal protein L4F: PF00573ECOD (1.6)
J [auth F]PF14374e6n8nF2 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: PF14374ECOD (1.6)
K [auth G]PF14204,PF17144e6n8nG1 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: PF14204,PF17144ECOD (1.6)
L [auth H]PF01159e6n8nH1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01159ECOD (1.6)
M [auth I]PF00327,PF08079e6n8nI1 A: a+b two layersX: Ribosomal protein L30p/L7e (From Topology)H: Ribosomal protein L30p/L7e (From Topology)T: Ribosomal protein L30p/L7eF: PF00327,PF08079ECOD (1.6)
N [auth J]PF01248e6n8nJ1 A: a+b three layersX: Bacillus chorismate mutase-likeH: L30e-like (From Topology)T: L30e-likeF: PF01248ECOD (1.6)
O [auth K]PF00347e6n8nK2 A: a+b two layersX: Ribosomal protein L6 (From Topology)H: Ribosomal protein L6 (From Topology)T: Ribosomal protein L6F: PF00347ECOD (1.6)
P [auth M]PF00281,PF00673e6n8nM1 A: a+b two layersX: Ribosomal protein L5 (From Topology)H: Ribosomal protein L5 (From Topology)T: Ribosomal protein L5F: PF00281,PF00673ECOD (1.6)
Q [auth N]PF01294e6n8nN1 A: extended segmentsX: RPL13 (From Topology)H: RPL13 (From Topology)T: RPL13F: PF01294ECOD (1.6)
R [auth O]PF00467,PF01929e6n8nO1 A: beta barrelsX: SH3H: SH3T: SH3F: PF00467,PF01929ECOD (1.6)
S [auth Q]PF00935e6n8nQ1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: PF00935ECOD (1.6)
T [auth R]PF01780e6n8nR1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: PF01780ECOD (1.6)
V [auth a]PF00827e6n8na1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal proteins S24e, L23 and L15e (From Topology)T: Ribosomal proteins S24e, L23 and L15eF: PF00827ECOD (1.6)
W [auth b]PF00572e6n8nb1 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: PF00572ECOD (1.6)
X [auth c]PF00237e6n8nc1 A: a+b two layersX: Enolase-N/ribosomal proteinH: Ribosomal protein L22 (From Topology)T: Ribosomal protein L22F: PF00237ECOD (1.6)
Y [auth d]PF17135e6n8nd1 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: PF17135ECOD (1.6)
Z [auth e]PF01280e6n8ne2 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: PF01280ECOD (1.6)
Z [auth e]PF01280e6n8ne1 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: PF01280ECOD (1.6)
AA [auth f]F_UNCLASSIFIEDe6n8nf1 A: a+b two layersX: GP2-likeH: RplX-like (From Topology)T: RplX-likeF: F_UNCLASSIFIEDECOD (1.6)
AA [auth f]PF01775e6n8nf2 A: a+b two layersX: GP2-likeH: RplX-like (From Topology)T: RplX-likeF: PF01775ECOD (1.6)
BA [auth g]PF01157e6n8ng1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01157ECOD (1.6)
CA [auth h]PF01776e6n8nh1 A: a+b two layersX: Ribosomal protein L22e (From Topology)H: Ribosomal protein L22e (From Topology)T: Ribosomal protein L22eF: PF01776ECOD (1.6)
DA [auth i]PF00238e6n8ni1 A: beta barrelsX: Ribosomal protein L14-likeH: Ribosomal protein L14-related (From Topology)T: Ribosomal protein L14-relatedF: PF00238ECOD (1.6)
EA [auth j]PF01246e6n8nj1 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: LIM domain-likeT: LIM domain-likeF: PF01246ECOD (1.6)
FA [auth k]PF00276,PF03939e6n8nk1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal proteins S24e, L23 and L15e (From Topology)T: Ribosomal proteins S24e, L23 and L15eF: PF00276,PF03939ECOD (1.6)
GA [auth l]PF16906e6n8nl1 A: beta barrelsX: SH3H: SH3T: SH3F: PF16906ECOD (1.6)
HA [auth m]PF01777e6n8nm1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01777ECOD (1.6)
IA [auth n]PF00828e6n8nn1 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: PF00828ECOD (1.6)
JA [auth o]PF01779e6n8no1 A: extended segmentsX: RPL29 (From Topology)H: RPL29 (From Topology)T: RPL29F: PF01779ECOD (1.6)
KA [auth p]PF01248e6n8np1 A: a+b three layersX: Bacillus chorismate mutase-likeH: L30e-like (From Topology)T: L30e-likeF: PF01248ECOD (1.6)
LA [auth q]PF01198e6n8nq1 A: a+b two layersX: Ribosomal protein L31e-likeH: Ribosomal protein L31e/gp120 outer domain (From Topology)T: Ribosomal protein L31e/gp120 outer domainF: PF01198ECOD (1.6)
MA [auth r]PF01655e6n8nr1 A: a/b three-layered sandwichesX: Ribosomal protein L13/L15p/L18e/L32eH: Ribosomal protein L32e (From Topology)T: Ribosomal protein L32eF: PF01655ECOD (1.6)
D [auth Y]F_UNCLASSIFIEDe6n8nY1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: F_UNCLASSIFIEDECOD (1.6)
NA [auth s]PF01247e6n8ns1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: Alanine racemase-CF: PF01247ECOD (1.6)
OA [auth t]PF01199e6n8nt1 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: RPL34 (From Topology)T: RPL34F: PF01199ECOD (1.6)
PA [auth u]PF00831e6n8nu1 A: alpha bundlesX: Long alpha-hairpinH: Ribosomal protein L29 (L29p) (From Topology)T: Ribosomal protein L29 (L29p)F: PF00831ECOD (1.6)
QA [auth v]PF01158e6n8nv1 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: PF01158ECOD (1.6)
RA [auth w]PF01907e6n8nw1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: PF01907ECOD (1.6)
SA [auth x]PF01781e6n8nx1 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: PF01781ECOD (1.6)
TA [auth y]PF00832e6n8ny1 A: extended segmentsX: Ribosomal protein L39e (From Topology)H: Ribosomal protein L39e (From Topology)T: Ribosomal protein L39eF: PF00832ECOD (1.6)
UA [auth z]PF01020e6n8nz1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: PF01020ECOD (1.6)
VA [auth L]PF00298e6n8nL2 A: alpha arraysX: HTHH: HTHT: Ribosomal protein L11, C-terminal domainF: PF00298ECOD (1.6)
VA [auth L]F_UNCLASSIFIEDe6n8nL1 A: a+b two layersX: Ribosomal protein L11/L12e N-terminal domain-likeH: Ribosomal protein L11/L12e N-terminal domain (From Topology)T: Ribosomal protein L11/L12e N-terminal domainF: F_UNCLASSIFIEDECOD (1.6)
E [auth X]PF01912e6n8nX1 A: a+b duplicates or obligate multimersX: Pentein (From Topology)H: Pentein (From Topology)T: PenteinF: PF01912ECOD (1.6)
F [auth W]PF01926e6n8nW1 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: PF01926ECOD (1.6)
H [auth D]PF00181e6n8nD2 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: PF00181ECOD (1.6)
H [auth D]PF03947e6n8nD1 A: beta barrelsX: SH3H: SH3T: SH3F: PF03947ECOD (1.6)
I [auth E]PF00297e6n8nE1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: Alanine racemase-CF: PF00297ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
J [auth F]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
J [auth F]PF00573Ribosomal protein L4/L1 family (Ribosomal_L4)Ribosomal protein L4/L1 family- Family
K [auth G]PF17144Ribosomal large subunit proteins 60S L5, and 50S L18 (Ribosomal_L5e)Ribosomal large subunit proteins 60S L5, and 50S L18- Family
K [auth G]PF14204Ribosomal L18 C-terminal region (Ribosomal_L18_c)Ribosomal L18 C-terminal regionThis domain is the C-terminal end of ribosomal L18/L5 proteins.Domain
L [auth H]PF01159Ribosomal protein L6e (Ribosomal_L6e)Ribosomal protein L6e- Family
M [auth I]PF08079Ribosomal L30 N-terminal domain (Ribosomal_L30_N)Ribosomal L30 N-terminal domainThis presumed domain is found at the N-terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018 [1].Domain
M [auth I]PF00327Ribosomal protein L30p/L7e (Ribosomal_L30)Ribosomal protein L30p/L7eThis family includes prokaryotic L30 and eukaryotic L7.Domain
N [auth J]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
O [auth K]PF00347Ribosomal protein L6 (Ribosomal_L6)Ribosomal protein L6- Domain
P [auth M]PF00281Ribosomal protein L5 (Ribosomal_L5)Ribosomal protein L5- Domain
P [auth M]PF00673ribosomal L5P family C-terminus (Ribosomal_L5_C)ribosomal L5P family C-terminusThis region is found associated with Pfam:PF00281.Domain
Q [auth N]PF01294Ribosomal protein L13e (Ribosomal_L13e)Ribosomal protein L13e- Family
R [auth O]PF01929Ribosomal protein L14 (Ribosomal_L14e)Ribosomal protein L14- Family
R [auth O]PF00467KOW motif (KOW)KOW motif- Family
S [auth Q]PF00935Ribosomal protein L44 (Ribosomal_L44)Ribosomal protein L44- Family
T [auth R]PF01780Ribosomal L37ae protein family (Ribosomal_L37ae)Ribosomal L37ae protein family- Family
V [auth a]PF00827Ribosomal L15 (Ribosomal_L15e)Ribosomal L15- Family
W [auth b]PF00572Ribosomal protein L13 (Ribosomal_L13)Ribosomal protein L13- Family
X [auth c]PF00237Ribosomal protein L22p/L17e (Ribosomal_L22)Ribosomal protein L22p/L17eThis family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes.Domain
Y [auth d]PF17135Ribosomal protein 60S L18 and 50S L18e (Ribosomal_L18)Ribosomal protein 60S L18 and 50S L18e- Family
Z [auth e]PF01280Ribosomal protein L19e (Ribosomal_L19e)Ribosomal protein L19e- Family
AA [auth f]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
BA [auth g]PF01157Ribosomal protein L21e (Ribosomal_L21e)Ribosomal protein L21e- Family
CA [auth h]PF01776Ribosomal L22e protein family (Ribosomal_L22e)Ribosomal L22e protein family- Family
DA [auth i]PF00238Ribosomal protein L14p/L23e (Ribosomal_L14)Ribosomal protein L14p/L23e- Domain
EA [auth j]PF01246Ribosomal protein L24e (Ribosomal_L24e)Ribosomal protein L24e- Domain
FA [auth k]PF03939Ribosomal protein L23, N-terminal domain (Ribosomal_L23eN)Ribosomal protein L23, N-terminal domain- Family
FA [auth k]PF00276Ribosomal protein L23 (Ribosomal_L23)Ribosomal protein L23- Family
GA [auth l]PF16906Ribosomal proteins L26 eukaryotic, L24P archaeal (Ribosomal_L26)Ribosomal proteins L26 eukaryotic, L24P archaeal- Family
GA [auth l]PF00467KOW motif (KOW)KOW motif- Family
HA [auth m]PF01777Ribosomal L27e protein family (Ribosomal_L27e)Ribosomal L27e protein family- Family
IA [auth n]PF00828Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A)Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A- Family
JA [auth o]PF01779Ribosomal L29e protein family (Ribosomal_L29e)Ribosomal L29e protein family- Family
KA [auth p]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
LA [auth q]PF01198Ribosomal protein L31e (Ribosomal_L31e)Ribosomal protein L31e- Family
MA [auth r]PF01655Ribosomal protein L32 (Ribosomal_L32e)Ribosomal protein L32- Family
NA [auth s]PF01247Ribosomal protein L35Ae (Ribosomal_L35Ae)Ribosomal protein L35Ae- Domain
OA [auth t]PF01199Ribosomal protein L34e (Ribosomal_L34e)Ribosomal protein L34e- Family
PA [auth u]PF00831Ribosomal L29 protein (Ribosomal_L29)Ribosomal L29 protein- Family
QA [auth v]PF01158Ribosomal protein L36e (Ribosomal_L36e)Ribosomal protein L36e- Family
RA [auth w]PF01907Ribosomal protein L37e (Ribosomal_L37e)Ribosomal protein L37e- Family
SA [auth x]PF01781Ribosomal L38e protein family (Ribosomal_L38e)Ribosomal L38e protein family- Family
TA [auth y]PF00832Ribosomal L39 protein (Ribosomal_L39)Ribosomal L39 protein- Family
UA [auth z]PF01020Ribosomal L40e family (Ribosomal_L40e)Ribosomal L40e family- Family
VA [auth L]PF03946Ribosomal protein L11, N-terminal domain (Ribosomal_L11_N)Ribosomal protein L11, N-terminal domainThe N-terminal domain of Ribosomal protein L11 adopts an alpha/beta fold and is followed by the RNA binding C-terminal domain.Domain
VA [auth L]PF00298Ribosomal protein L11, RNA binding domain (Ribosomal_L11)Ribosomal protein L11, RNA binding domain- Domain
E [auth X]PF01912eIF-6 family (eIF-6)eIF-6 family- Family
F [auth W]PF0192650S ribosome-binding GTPase (MMR_HSR1)50S ribosome-binding GTPase- Family
G [auth V]PF21192NMD3 OB-fold domain (NMD3_OB)NMD3 OB-fold domainA key step in ribosome biogenesis is the nuclear export of pre-ribosomal particles. Nmd3, a highly conserved protein in eukaryotes, is a specific adaptor required for the export of pre-60S particles. This entry represents the third domain in NMD3 whi ...A key step in ribosome biogenesis is the nuclear export of pre-ribosomal particles. Nmd3, a highly conserved protein in eukaryotes, is a specific adaptor required for the export of pre-60S particles. This entry represents the third domain in NMD3 which adopts an OB-fold [1]. The OB of Nmd3 does not recognise 25S rRNA. Instead it interacts with two ribosomal proteins, eL42 and uL1 [1].
Domain
G [auth V]PF04981NMD3 family (NMD3)NMD3 family- Family
G [auth V]PF21193NMD3 SH3 domain (NMD_SH3)NMD3 SH3 domainA key step in ribosome biogenesis is the nuclear export of pre-ribosomal particles. Nmd3, a highly conserved protein in eukaryotes, is a specific adaptor required for the export of pre-60S particles. This entry represents the second domain in NMD3 wh ...A key step in ribosome biogenesis is the nuclear export of pre-ribosomal particles. Nmd3, a highly conserved protein in eukaryotes, is a specific adaptor required for the export of pre-60S particles. This entry represents the second domain in NMD3 which adopts an SH3-fold denoted as RBDII in [1]. The two short alpha-helices in RBDII participate in rRNA recognition [1].
Domain
H [auth D]PF03947Ribosomal Proteins L2, C-terminal domain (Ribosomal_L2_C)Ribosomal Proteins L2, C-terminal domain- Domain
H [auth D]PF00181Ribosomal Proteins L2, RNA binding domain (Ribosomal_L2)Ribosomal Proteins L2, RNA binding domain- Domain
I [auth E]PF00297Ribosomal protein L3 (Ribosomal_L3)Ribosomal protein L3- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Saccharomyces cerevisiae S288C 35S pre-ribosomal RNA (RDN37-1), miscRNA---
J [auth F]60S ribosomal protein L4-A
K [auth G]60S ribosomal protein L5
L [auth H]60S ribosomal protein L6-A
M [auth I]60S ribosomal protein L7-A
N [auth J]60S ribosomal protein L8-A
O [auth K]60S ribosomal protein L9-A
P [auth M]60S ribosomal protein L11-A
Q [auth N]60S ribosomal protein L13-A
R [auth O]60S ribosomal protein L14-A
S [auth Q]60S ribosomal protein L42-A
5S rRNA---
T [auth R]60S ribosomal protein L43-A
U [auth S]Ribosomal Protein uL1---
V [auth a]60S ribosomal protein L15-A
W [auth b]60S ribosomal protein L16-A
X [auth c]60S ribosomal protein L17-A
Y [auth d]60S ribosomal protein L18-A
Z [auth e]60S ribosomal protein L19-A
AA [auth f]60S ribosomal protein L20-A
BA [auth g]60S ribosomal protein L21-A
CA [auth h]60S ribosomal protein L22-A
5.8S rRNA---
DA [auth i]60S ribosomal protein L23-A
EA [auth j]60S ribosomal protein L24-A
FA [auth k]60S ribosomal protein L25
GA [auth l]60S ribosomal protein L26-A
HA [auth m]60S ribosomal protein L27-A
IA [auth n]60S ribosomal protein L28
JA [auth o]60S ribosomal protein L29
KA [auth p]60S ribosomal protein L30
LA [auth q]60S ribosomal protein L31-A
MA [auth r]60S ribosomal protein L32
D [auth Y]Tyrosine-protein phosphatase YVH1
NA [auth s]60S ribosomal protein L33-A
OA [auth t]60S ribosomal protein L34-A
PA [auth u]60S ribosomal protein L35-A
QA [auth v]60S ribosomal protein L36-A
RA [auth w]60S ribosomal protein L37-A
SA [auth x]60S ribosomal protein L38
TA [auth y]60S ribosomal protein L39
UA [auth z]Ubiquitin-60S ribosomal protein L40
VA [auth L]Ribosomal protein L12
E [auth X]Eukaryotic translation initiation factor 6
F [auth W]Large subunit GTPase 1
G [auth V]60S ribosomal export protein NMD3
H [auth D]60S ribosomal protein L2-A
I [auth E]60S ribosomal protein L3

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
J [auth F]IPR025755Large ribosomal subunit protein uL4, C-terminal domainDomain
J [auth F]IPR002136Large ribosomal subunit protein uL4Family
J [auth F]IPR013000Large ribosomal subunit protein uL4, eukaryotic/archaeal, conserved siteConserved Site
J [auth F]IPR045240Large ribosomal subunit protein uL4, eukaryotic and archaeal typeFamily
J [auth F]IPR023574Large ribosomal subunit protein uL4 domain superfamilyHomologous Superfamily
K [auth G]IPR005485Large ribosomal subunit protein uL18 eukaryotic/archaealFamily
K [auth G]IPR025607Large ribosomal subunit protein uL18, C-terminal, eukaryotesDomain
L [auth H]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
L [auth H]IPR041997Large ribosomal subunit protein eL6, KOW domainDomain
L [auth H]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
L [auth H]IPR000915Large ribosomal subunit protein eL6Family
M [auth I]IPR035808Large ribosomal subunit protein uL30, eukaryotic/archaealDomain
M [auth I]IPR036919Large ribosomal subunit protein uL30, ferredoxin-like fold domain superfamilyHomologous Superfamily
M [auth I]IPR012988Large ribosomal subunit protein uL30, N-terminal, eukaryotesDomain
M [auth I]IPR039699Large ribosomal subunit protein uL30Family
M [auth I]IPR005998Large ribosomal subunit protein uL30, eukaryoticFamily
M [auth I]IPR016082Large ribosomal subunit protein uL30-like, ferredoxin-like fold domainDomain
M [auth I]IPR018038Large ribosomal subunit protein uL30, conserved siteConserved Site
N [auth J]IPR001921Large ribosomal subunit protein eL8Family
N [auth J]IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
N [auth J]IPR004037Large ribosomal subunit protein eL8-like, conserved siteConserved Site
N [auth J]IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
N [auth J]IPR018492Ribosomal protein eL8/Nhp2 familyFamily
O [auth K]IPR020040Large ribosomal subunit protein uL6, alpha-beta domainDomain
O [auth K]IPR002359Large ribosomal subunit protein uL6, conserved site-2Conserved Site
O [auth K]IPR036789Large ribosomal subunit protein uL6-like, alpha-beta domain superfamilyHomologous Superfamily
O [auth K]IPR000702Large ribosomal subunit protein uL6-likeFamily
P [auth M]IPR020929Large ribosomal subunit protein uL5, conserved siteConserved Site
P [auth M]IPR022803Large ribosomal subunit protein uL5 domain superfamilyHomologous Superfamily
P [auth M]IPR031309Large ribosomal subunit protein uL5, C-terminalDomain
P [auth M]IPR031310Large ribosomal subunit protein uL5, N-terminalDomain
P [auth M]IPR002132Large ribosomal subunit protein uL5Family
Q [auth N]IPR001380Large ribosomal subunit protein eL13Family
Q [auth N]IPR018256Large ribosomal subunit protein eL13, conserved siteConserved Site
R [auth O]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
R [auth O]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
R [auth O]IPR039660Large ribosomal subunit protein eL14Family
R [auth O]IPR041985Large ribosomal subunit protein eL14, KOW motifDomain
R [auth O]IPR002784Large ribosomal subunit protein eL14 domainDomain
R [auth O]IPR005824KOWDomain
S [auth Q]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
S [auth Q]IPR000552Large ribosomal subunit protein eL42Family
T [auth R]IPR002674Large ribosomal subunit protein eL43Family
T [auth R]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
T [auth R]IPR011331Large ribosomal subunit protein eL37/eL43Homologous Superfamily
V [auth a]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
V [auth a]IPR020925Large ribosomal subunit protein eL15, conserved siteConserved Site
V [auth a]IPR024794Large ribosomal subunit protein eL15 core domain superfamilyHomologous Superfamily
V [auth a]IPR000439Large ribosomal subunit protein eL15Family
W [auth b]IPR023563Large ribosomal subunit protein uL13, conserved siteConserved Site
W [auth b]IPR005822Large ribosomal subunit protein uL13Family
W [auth b]IPR036899Large ribosomal subunit protein uL13 superfamilyHomologous Superfamily
W [auth b]IPR005755Large ribosomal subunit protein uL13, eukaryotic/archaealFamily
X [auth c]IPR018260Large ribosomal subunit protein uL22, conserved siteConserved Site
X [auth c]IPR036394Ribosomal protein uL22 superfamilyHomologous Superfamily
X [auth c]IPR001063Large ribosomal subunit protein uL22Family
X [auth c]IPR005721Large ribosomal subunit protein uL22, eukaryotic/archaealFamily
Y [auth d]IPR021131Large ribosomal subunit protein uL15/eL18Domain
Y [auth d]IPR021132Large ribosomal subunit protein eL18, conserved siteConserved Site
Y [auth d]IPR000039Large ribosomal subunit protein eL18Family
Y [auth d]IPR036227Large ribosomal subunit protein uL15/eL18 superfamilyHomologous Superfamily
Z [auth e]IPR015972Large ribosomal subunit protein eL19, domain 1Homologous Superfamily
Z [auth e]IPR039547Large ribosomal subunit protein eL19Family
Z [auth e]IPR023638Large ribosomal subunit protein eL19, conserved siteConserved Site
Z [auth e]IPR035970Large ribosomal subunit protein eL19 superfamilyHomologous Superfamily
Z [auth e]IPR000196Large ribosomal subunit protein eL19 domainDomain
Z [auth e]IPR033935Large ribosomal subunit protein eL19, eukaryoticDomain
AA [auth f]IPR028877Large ribosomal subunit protein eL20Family
AA [auth f]IPR023573Large ribosomal subunit protein eL20 domainDomain
AA [auth f]IPR021138Large ribosomal subunit protein eL20, eukaryotesFamily
BA [auth g]IPR018259Large ribosomal subunit protein eL21, conserved siteConserved Site
BA [auth g]IPR036948Large ribosomal subunit protein eL21 superfamilyHomologous Superfamily
BA [auth g]IPR001147Large ribosomal subunit protein eL21Family
BA [auth g]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
CA [auth h]IPR002671Large ribosomal subunit protein eL22Family
CA [auth h]IPR038526Large ribosomal subunit protein eL22 superfamilyHomologous Superfamily
DA [auth i]IPR036853Large ribosomal subunit protein uL14 superfamilyHomologous Superfamily
DA [auth i]IPR000218Large ribosomal subunit protein uL14Family
DA [auth i]IPR019972Large ribosomal subunit protein uL14, conserved siteConserved Site
EA [auth j]IPR000988Large ribosomal subunit protein eL24-relatedFamily
EA [auth j]IPR023442Large ribosomal subunit protein eL24, conserved siteConserved Site
EA [auth j]IPR038630Ribosomal protein L24e/L24 superfamilyHomologous Superfamily
FA [auth k]IPR001014Large ribosomal subunit protein uL23, conserved siteConserved Site
FA [auth k]IPR013025Large ribosomal subunit protein uL23-likeFamily
FA [auth k]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
FA [auth k]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
FA [auth k]IPR005633Large ribosomal subunit protein uL23, N-terminalDomain
GA [auth l]IPR041988Large ribosomal subunit protein uL24, KOW domainDomain
GA [auth l]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
GA [auth l]IPR005824KOWDomain
GA [auth l]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
GA [auth l]IPR005756Large ribosomal subunit protein uL24, eukaryotic/archaealFamily
GA [auth l]IPR005825Large ribosomal subunit protein uL24, conserved siteConserved Site
HA [auth m]IPR018262Large ribosomal subunit protein eL27, conserved siteConserved Site
HA [auth m]IPR038655Large ribosomal subunit protein eL27 superfamilyHomologous Superfamily
HA [auth m]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
HA [auth m]IPR001141Large ribosomal subunit protein eL27Family
HA [auth m]IPR041991Large ribosomal subunit protein eL27, KOW domainDomain
IA [auth n]IPR021131Large ribosomal subunit protein uL15/eL18Domain
IA [auth n]IPR030878Large ribosomal subunit protein uL15Family
IA [auth n]IPR001196Large ribosomal subunit protein uL15, conserved siteConserved Site
IA [auth n]IPR036227Large ribosomal subunit protein uL15/eL18 superfamilyHomologous Superfamily
JA [auth o]IPR002673Large ribosomal subunit protein eL29Family
KA [auth p]IPR022991Large ribosomal subunit protein eL30, conserved siteConserved Site
KA [auth p]IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
KA [auth p]IPR039109Large ribosomal subunit protein eL30-likeFamily
KA [auth p]IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
LA [auth q]IPR020052Large ribosomal subunit protein eL31, conserved siteConserved Site
LA [auth q]IPR023621Large ribosomal subunit protein eL31 domain superfamilyHomologous Superfamily
LA [auth q]IPR000054Large ribosomal subunit protein eL31Family
MA [auth r]IPR036351Large ribosomal subunit protein eL32 superfamilyHomologous Superfamily
MA [auth r]IPR001515Large ribosomal subunit protein eL32Family
MA [auth r]IPR018263Large ribosomal subunit protein eL32, conserved siteConserved Site
D [auth Y]IPR016278Dual specificity protein phosphatase 12Family
D [auth Y]IPR029021Protein-tyrosine phosphatase-likeHomologous Superfamily
D [auth Y]IPR000387Tyrosine-specific protein phosphatases domainDomain
D [auth Y]IPR020422Dual specificity protein phosphatase domainDomain
D [auth Y]IPR000340Dual specificity phosphatase, catalytic domainDomain
NA [auth s]IPR038661Large ribosomal subunit protein eL33 superfamilyHomologous Superfamily
NA [auth s]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
NA [auth s]IPR001780Large ribosomal subunit protein eL33Family
NA [auth s]IPR018266Large ribosomal subunit protein eL33, conserved siteConserved Site
OA [auth t]IPR008195Large ribosomal subunit protein eL34Family
OA [auth t]IPR018065Large ribosomal subunit protein eL34, conserved siteConserved Site
PA [auth u]IPR045059Large ribosomal subunit protein uL29, eukaryotesFamily
PA [auth u]IPR001854Large ribosomal subunit protein uL29Family
PA [auth u]IPR036049Large ribosomal subunit protein uL29 superfamilyHomologous Superfamily
PA [auth u]IPR018254Large ribosomal subunit protein uL29, conserved siteConserved Site
QA [auth v]IPR000509Large ribosomal subunit protein eL36Family
QA [auth v]IPR038097Large ribosomal subunit protein eL36 domain superfamilyHomologous Superfamily
RA [auth w]IPR011331Large ribosomal subunit protein eL37/eL43Homologous Superfamily
RA [auth w]IPR001569Large ribosomal subunit protein eL37Family
RA [auth w]IPR018267Large ribosomal subunit protein eL37, conserved siteConserved Site
RA [auth w]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
SA [auth x]IPR002675Large ribosomal subunit protein eL38Family
SA [auth x]IPR038464Large ribosomal subunit protein eL38 superfamilyHomologous Superfamily
TA [auth y]IPR023626Large ribosomal subunit protein eL39 domain superfamilyHomologous Superfamily
TA [auth y]IPR000077Large ribosomal subunit protein eL39Family
TA [auth y]IPR020083Large ribosomal subunit protein eL39, conserved siteConserved Site
UA [auth z]IPR019954Ubiquitin conserved siteConserved Site
UA [auth z]IPR038587Large ribosomal subunit protein eL40 superfamilyHomologous Superfamily
UA [auth z]IPR000626Ubiquitin-like domainDomain
UA [auth z]IPR019956Ubiquitin domainDomain
UA [auth z]IPR001975Large ribosomal subunit protein eL40 domainDomain
UA [auth z]IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily
VA [auth L]IPR020785Large ribosomal subunit protein uL11, conserved siteConserved Site
VA [auth L]IPR020783Large ribosomal subunit protein uL11, C-terminalDomain
VA [auth L]IPR000911Ribosomal protein uL11Family
VA [auth L]IPR020784Large ribosomal subunit protein uL11, N-terminalDomain
VA [auth L]IPR036769Large ribosomal subunit protein uL11, C-terminal domain superfamilyHomologous Superfamily
VA [auth L]IPR036796Large ribosomal subunit protein uL11, N-terminal domain superfamilyHomologous Superfamily
E [auth X]IPR002769Translation initiation factor IF6Family
F [auth W]IPR043358Ras GTPase GNL1-likeFamily
F [auth W]IPR030378Circularly permuted (CP)-type guanine nucleotide-binding (G) domainDomain
F [auth W]IPR006073GTP binding domainDomain
F [auth W]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
G [auth V]IPR007064Nmd3, N-terminalDomain
G [auth V]IPR039768Ribosomal export protein Nmd3Family
G [auth V]IPR04889960S ribosomal export protein NMD3, SH3 domainDomain
G [auth V]IPR04889860S ribosomal export protein NMD3, OB-fold domainDomain
H [auth D]IPR022669Large ribosomal subunit protein uL2, C-terminalDomain
H [auth D]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
H [auth D]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
H [auth D]IPR022671Large ribosomal subunit protein uL2, conserved siteConserved Site
H [auth D]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
H [auth D]IPR022666Large ribosomal subunit protein uL2, RNA-binding domainDomain
H [auth D]IPR014726Large ribosomal subunit protein uL2, domain 3Homologous Superfamily
H [auth D]IPR002171Large ribosomal subunit protein uL2Family
I [auth E]IPR019926Large ribosomal subunit protein uL3, conserved siteConserved Site
I [auth E]IPR045077Large ribosomal subunit protein uL3, archaeal/eukaryotic-typeFamily
I [auth E]IPR044892Ribosomal protein L3, domain 3, archaeal-type superfamilyHomologous Superfamily
I [auth E]IPR000597Large ribosomal subunit protein uL3Family
I [auth E]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily