6ZQE
Cryo-EM structure of the 90S pre-ribosome from Saccharomyces cerevisiae, state Dis-A (Poly-Ala)
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
QA [auth DA] | SCOP2B Superfamily | Ribosomal S3Ae-like | 8053211 | 3002166 | SCOP2B (2022-06-29) |
K [auth UM] | SCOP2B Superfamily | UTPB complex component-like | 8061270 | 3002330 | SCOP2B (2022-06-29) |
T [auth UV] | SCOP2B Superfamily | Nucleotidyltransferase-like | 8053726 | 3000129 | SCOP2B (2022-06-29) |
T [auth UV] | SCOP2B Superfamily | PAP/Archaeal CCA-adding enzyme C-terminal domain-like | 8053729 | 3001147 | SCOP2B (2022-06-29) |
T [auth UV] | SCOP2B Superfamily | PAP/OAS1 substrate-binding domain-like | 8053728 | 3000941 | SCOP2B (2022-06-29) |
T [auth UV] | SCOP2B Superfamily | Nucleotidyltransferase-like | 8053725 | 3000129 | SCOP2B (2022-06-29) |
T [auth UV] | SCOP2B Superfamily | PAP/OAS1 substrate-binding domain-like | 8053727 | 3000941 | SCOP2B (2022-06-29) |
T [auth UV] | SCOP2B Superfamily | PAP/Archaeal CCA-adding enzyme C-terminal domain-like | 8053730 | 3001147 | SCOP2B (2022-06-29) |
V [auth CA] | SCOP2B Superfamily | S-adenosyl-L-methionine-dependent methyltransferases | 8063662 | 3000118 | SCOP2B (2022-06-29) |
W [auth CB] | SCOP2B Superfamily | S-adenosyl-L-methionine-dependent methyltransferases | 8063662 | 3000118 | SCOP2B (2022-06-29) |
AA [auth CG] | SCOP2B Superfamily | L30e-like | 8033484 | 3001739 | SCOP2B (2022-06-29) |
Z [auth CF] | SCOP2B Superfamily | L30e-like | 8033484 | 3001739 | SCOP2B (2022-06-29) |
HA [auth CN] | SCOP2B Superfamily | RNA-binding domain RBD | 8053724 | 3000110 | SCOP2B (2022-06-29) |
HA [auth CN] | SCOP2B Superfamily | RRP7 C-terminal domain-like | 8053722 | 3002219 | SCOP2B (2022-06-29) |
JA [auth JF] | SCOP2B Superfamily | alpha/beta knot | 8037153 | 3001122 | SCOP2B (2022-06-29) |
KA [auth JG] | SCOP2B Superfamily | alpha/beta knot | 8037153 | 3001122 | SCOP2B (2022-06-29) |
RA [auth DE] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8052760 | 3000334 | SCOP2B (2022-06-29) |
RA [auth DE] | SCOP2B Superfamily | Alpha-L RNA-binding motif | 8052758 | 3001473 | SCOP2B (2022-06-29) |
RA [auth DE] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052759 | 3000135 | SCOP2B (2022-06-29) |
SA [auth DF] | SCOP2B Superfamily | Ribosomal protein S7 | 8065993 | 3000799 | SCOP2B (2022-06-29) |
TA [auth DG] | SCOP2B Superfamily | GS N-terminal domain-like | 8053173 | 3000408 | SCOP2B (2022-06-29) |
VA [auth DI] | SCOP2B Superfamily | 50S Ribosomal protein L14-like | 8053083 | 3000433 | SCOP2B (2022-06-29) |
XA [auth DL] | SCOP2B Superfamily | Ribosomal S17 N-terminal domain-like | 8052736 | 3002138 | SCOP2B (2022-06-29) |
XA [auth DL] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052738 | 3000135 | SCOP2B (2022-06-29) |
YA [auth DN] | SCOP2B Superfamily | S15/NS1 RNA-binding domain | 8052974 | 3001284 | SCOP2B (2022-06-29) |
YA [auth DN] | SCOP2B Superfamily | Homeodomain-like | 8052973 | 3000001 | SCOP2B (2022-06-29) |
ZA [auth DO] | SCOP2B Superfamily | Translational machinery components | 8095805 | 3000571 | SCOP2B (2022-06-29) |
AB [auth DQ] | SCOP2B Superfamily | Ribosomal protein S5 domain 2-like | 8103366 | 3000100 | SCOP2B (2022-06-29) |
DB [auth DW] | SCOP2B Superfamily | Ribosomal protein S8 | 8096922 | 3000709 | SCOP2B (2022-06-29) |
GB [auth Dc] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8063430 | 3000135 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
QA [auth DA] | PF01015 | e6zqeDA1 | A: beta barrels | X: Ribosomal protein L25-like | H: 40S ribosomal protein S3A N-terminal domain (From Topology) | T: 40S ribosomal protein S3A N-terminal domain | F: PF01015 | ECOD (1.6) |
QA [auth DA] | PF01015 | e6zqeDA2 | A: a+b two layers | X: T-fold | H: 40S ribosomal protein S3A C-terminal domain (From Topology) | T: 40S ribosomal protein S3A C-terminal domain | F: PF01015 | ECOD (1.6) |
A [auth UA] | PF00400 | e6zqeUA3 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
A [auth UA] | PF04003 | e6zqeUA1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: PF04003 | ECOD (1.6) |
J [auth UL] | PF00400 | e6zqeUL1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
J [auth UL] | PF04003 | e6zqeUL2 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: PF04003 | ECOD (1.6) |
K [auth UM] | PF00400 | e6zqeUM1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
K [auth UM] | PF08625 | e6zqeUM3 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: PF08625 | ECOD (1.6) |
M [auth UO] | PF00400 | e6zqeUO1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 8-bladed | F: PF00400 | ECOD (1.6) |
M [auth UO] | PF09384 | e6zqeUO2 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: PF09384 | ECOD (1.6) |
T [auth UV] | PF17403 | e6zqeUV1 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: PAP/OAS1 substrate-binding domain | F: PF17403 | ECOD (1.6) |
T [auth UV] | PF17406 | e6zqeUV3 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: PAP/OAS1 substrate-binding domain | F: PF17406 | ECOD (1.6) |
T [auth UV] | PF17404 | e6zqeUV4 | A: a+b two layers | X: Alpha-beta plaits | H: PAP/Archaeal CCA-adding enzyme, C-terminal domain (From Topology) | T: PAP/Archaeal CCA-adding enzyme, C-terminal domain | F: PF17404 | ECOD (1.6) |
T [auth UV] | PF17407 | e6zqeUV6 | A: a+b two layers | X: Alpha-beta plaits | H: PAP/Archaeal CCA-adding enzyme, C-terminal domain (From Topology) | T: PAP/Archaeal CCA-adding enzyme, C-terminal domain | F: PF17407 | ECOD (1.6) |
T [auth UV] | PF03813 | e6zqeUV5 | A: a+b three layers | X: Nucleotidyltransferase-like | H: Nucleotidyltransferase (From Topology) | T: Nucleotidyltransferase | F: PF03813 | ECOD (1.6) |
T [auth UV] | PF17405 | e6zqeUV2 | A: a+b three layers | X: Nucleotidyltransferase-like | H: Nucleotidyltransferase (From Topology) | T: Nucleotidyltransferase | F: PF17405 | ECOD (1.6) |
U [auth UX] | PF04900 | e6zqeUX1 | A: a/b three-layered sandwiches | X: HAD domain-like | H: HAD domain-related | T: PIN domain-like | F: PF04900 | ECOD (1.6) |
V [auth CA] | PF01269 | e6zqeCA1 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: S-adenosyl-L-methionine-dependent methyltransferases | F: PF01269 | ECOD (1.6) |
W [auth CB] | PF01269 | e6zqeCB1 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: S-adenosyl-L-methionine-dependent methyltransferases | F: PF01269 | ECOD (1.6) |
X [auth CD] | PF01798 | e6zqeCD3 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: Nop C-terminal domain | F: PF01798 | ECOD (1.6) |
X [auth CD] | PF01798 | e6zqeCD2 | A: alpha complex topology | X: Nop N-terminal domain (From Topology) | H: Nop N-terminal domain (From Topology) | T: Nop N-terminal domain | F: PF01798 | ECOD (1.6) |
X [auth CD] | PF08156 | e6zqeCD1 | A: mixed a+b and a/b | X: Nop N-terminal domain (From Topology) | H: Nop N-terminal domain (From Topology) | T: Nop N-terminal domain | F: PF08156 | ECOD (1.6) |
AA [auth CG] | PF01248 | e6zqeCG1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: PF01248 | ECOD (1.6) |
Z [auth CF] | PF01248 | e6zqeCF1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: PF01248 | ECOD (1.6) |
BA [auth CH] | PF00400 | e6zqeCH1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
CA [auth CI] | PF00163,PF01479 | e6zqeCI1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00163,PF01479 | ECOD (1.6) |
GA [auth CM] | PF01137 | e6zqeCM1 | A: a+b two layers | X: IF3-like | H: EPT/RTPC-like (From Topology) | T: EPT/RTPC-like | F: PF01137 | ECOD (1.6) |
GA [auth CM] | PF05189 | e6zqeCM2 | A: a+b three layers | X: Thioredoxin-like | H: RNA 3'-terminal phosphate cyclase, RPTC, insert domain (From Topology) | T: RNA 3'-terminal phosphate cyclase, RPTC, insert domain | F: PF05189 | ECOD (1.6) |
HA [auth CN] | PF12923,PF17799 | e6zqeCN1 | A: a+b two layers | X: Alpha-beta plaits | H: RNA-binding domain, RBD (From Topology) | T: RNA-binding domain, RBD | F: PF12923,PF17799 | ECOD (1.6) |
JA [auth JF] | PF03587 | e6zqeJF1 | A: a/b three-layered sandwiches | X: alpha/beta knot (From Topology) | H: alpha/beta knot (From Topology) | T: alpha/beta knot | F: PF03587 | ECOD (1.6) |
KA [auth JG] | PF03587 | e6zqeJG1 | A: a/b three-layered sandwiches | X: alpha/beta knot (From Topology) | H: alpha/beta knot (From Topology) | T: alpha/beta knot | F: PF03587 | ECOD (1.6) |
LA [auth JH] | PF05291 | e6zqeJH1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: PF05291 | ECOD (1.6) |
MA [auth JL] | PF00398 | e6zqeJL1 | A: alpha arrays | X: HhH/H2TH | H: H2TH (From Topology) | T: H2TH | F: PF00398 | ECOD (1.6) |
MA [auth JL] | PF00398 | e6zqeJL2 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: S-adenosyl-L-methionine-dependent methyltransferases | F: PF00398 | ECOD (1.6) |
OA [auth Db] | PF01667 | e6zqeDb1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01667 | ECOD (1.6) |
PA [auth JJ] | PF17903 | e6zqeJJ2 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: KH-domains | T: Eukaryotic type KH-domain (KH-domain type I) | F: PF17903 | ECOD (1.6) |
PA [auth JJ] | PF22891 | e6zqeJJ1 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: KH-domains | T: Eukaryotic type KH-domain (KH-domain type I) | F: PF22891 | ECOD (1.6) |
D [auth UD] | F_UNCLASSIFIED | e6zqeUD1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: F_UNCLASSIFIED | ECOD (1.6) |
D [auth UD] | PF00400 | e6zqeUD2 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
RA [auth DE] | PF00900 | e6zqeDE1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00900 | ECOD (1.6) |
RA [auth DE] | PF00467,PF16121 | e6zqeDE3 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF00467,PF16121 | ECOD (1.6) |
RA [auth DE] | PF00900,PF01479,PF08071 | e6zqeDE2 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00900,PF01479,PF08071 | ECOD (1.6) |
SA [auth DF] | PF00177 | e6zqeDF1 | A: alpha arrays | X: Ribosomal protein S7 (From Topology) | H: Ribosomal protein S7 (From Topology) | T: Ribosomal protein S7 | F: PF00177 | ECOD (1.6) |
TA [auth DG] | PF01092 | e6zqeDG1 | A: beta barrels | X: Ribosomal protein L25-like | H: Ribosomal protein L25-like (From Topology) | T: Ribosomal protein L25-like | F: PF01092 | ECOD (1.6) |
UA [auth DH] | PF01251 | e6zqeDH2 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: 40S ribosomal protein S7-A (From Topology) | T: 40S ribosomal protein S7-A | F: PF01251 | ECOD (1.6) |
VA [auth DI] | PF01201 | e6zqeDI1 | A: beta barrels | X: Ribosomal protein L14-like | H: Ribosomal protein L14-related (From Topology) | T: Ribosomal protein L14-related | F: PF01201 | ECOD (1.6) |
WA [auth DJ] | PF00163,PF01479 | e6zqeDJ1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00163,PF01479 | ECOD (1.6) |
XA [auth DL] | PF00366,PF16205 | e6zqeDL1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00366,PF16205 | ECOD (1.6) |
YA [auth DN] | PF08069 | e6zqeDN1 | A: alpha arrays | X: HTH | H: 40S ribosomal protein S13 N-terminal domain (From Topology) | T: 40S ribosomal protein S13 N-terminal domain | F: PF08069 | ECOD (1.6) |
YA [auth DN] | PF00312 | e6zqeDN2 | A: alpha arrays | X: S15/NS1 RNA-binding domain (From Topology) | H: S15/NS1 RNA-binding domain (From Topology) | T: S15/NS1 RNA-binding domain | F: PF00312 | ECOD (1.6) |
ZA [auth DO] | PF00411 | e6zqeDO1 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PF00411 | ECOD (1.6) |
E [auth UE] | F_UNCLASSIFIED | e6zqeUE1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: F_UNCLASSIFIED | ECOD (1.6) |
AB [auth DQ] | PF00380 | e6zqeDQ1 | A: a+b two layers | X: Ribosomal protein S5 domain 2-like (From Topology) | H: Ribosomal protein S5 domain 2-like (From Topology) | T: Ribosomal protein S5 domain 2-like | F: PF00380 | ECOD (1.6) |
BB [auth DS] | PF00416 | e6zqeDS1 | A: alpha arrays | X: HhH/H2TH | H: H2TH (From Topology) | T: H2TH | F: PF00416 | ECOD (1.6) |
CB [auth DT] | PF01090 | e6zqeDT1 | A: alpha arrays | X: HTH | H: HTH | T: winged | F: PF01090 | ECOD (1.6) |
DB [auth DW] | PF00410 | e6zqeDW1 | A: a+b two layers | X: R3H domain-like | H: Ribosomal protein S8, N-terminal domain (From Topology) | T: Ribosomal protein S8, N-terminal domain | F: PF00410 | ECOD (1.6) |
DB [auth DW] | PF00410 | e6zqeDW2 | A: a+b two layers | X: Ribosomal protein S8, C-terminal domain (From Topology) | H: Ribosomal protein S8, C-terminal domain (From Topology) | T: Ribosomal protein S8, C-terminal domain | F: PF00410 | ECOD (1.6) |
EB [auth DX] | PF00164 | e6zqeDX1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00164 | ECOD (1.6) |
FB [auth DY] | PF01282 | e6zqeDY1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal proteins S24e, L23 and L15e (From Topology) | T: Ribosomal proteins S24e, L23 and L15e | F: PF01282 | ECOD (1.6) |
GB [auth Dc] | PF01200 | e6zqeDc1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF01200 | ECOD (1.6) |
G [auth UI] | F_UNCLASSIFIED | e6zqeUI1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 8-bladed | F: F_UNCLASSIFIED | ECOD (1.6) |
G [auth UI] | PF04003 | e6zqeUI2 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 (From Topology) | T: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 | F: PF04003 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
QA [auth DA] | PF01015 | Ribosomal S3Ae family (Ribosomal_S3Ae) | Ribosomal S3Ae family | - | Family |
A [auth UA] | PF04003 | Dip2/Utp12 Family (Utp12) | Dip2/Utp12 Family | - | Family |
A [auth UA] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
J [auth UL] | PF04003 | Dip2/Utp12 Family (Utp12) | Dip2/Utp12 Family | - | Family |
J [auth UL] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
K [auth UM] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
K [auth UM] | PF08625 | Utp13 specific WD40 associated domain (Utp13) | Utp13 specific WD40 associated domain | Utp13 is a component of the five protein Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome [1]. Pwp2 is capable o ... | Domain |
L [auth UN] | PF04615 | Utp14 protein (Utp14) | Utp14 protein | - | Family |
M [auth UO] | PF09384 | UTP15 C terminal (UTP15_C) | UTP15 C terminal | - | Family |
M [auth UO] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
N [auth UP] | PF08297 | U3 snoRNA associated (U3_snoRNA_assoc) | U3 snoRNA associated | - | Family |
O [auth UQ] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
P [auth UR] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
Q [auth US] | PF03914 | CBF/Mak21 family (CBF) | CBF/Mak21 family | - | Repeat |
R [auth UT] | PF07539 | U3 small nucleolar RNA-associated protein 20, N-terminal (UTP20_N) | U3 small nucleolar RNA-associated protein 20, N-terminal | This domain is found towards the N-terminal of eukaryotic proteins including U3 small nucleolar RNA-associated protein 20 (UTP20) from yeast and the homologue from human, also known as DRIM (Down-Regulated In Metastasis) (Swiss:O75691), which is diff ... | Domain |
S [auth UU] | PF04192 | Utp21 specific WD40 associated putative domain (Utp21) | Utp21 specific WD40 associated putative domain | Utp21 is a subunit of U3 snoRNP, which is essential for synthesis of 18S rRNA. | Domain |
S [auth UU] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
T [auth UV] | PF03813 | Nrap protein domain 1 (Nrap) | Nrap protein domain 1 | Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ... | Domain |
T [auth UV] | PF17403 | Nrap protein PAP/OAS-like domain (Nrap_D2) | Nrap protein PAP/OAS-like domain | Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ... | Domain |
T [auth UV] | PF17406 | Nrap protein PAP/OAS1-like domain 5 (Nrap_D5) | Nrap protein PAP/OAS1-like domain 5 | Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ... | Domain |
T [auth UV] | PF17407 | Nrap protein domain 6 (Nrap_D6) | Nrap protein domain 6 | Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ... | Domain |
T [auth UV] | PF17404 | Nrap protein domain 3 (Nrap_D3) | Nrap protein domain 3 | Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ... | Domain |
T [auth UV] | PF17405 | Nrap protein nucleotidyltransferase domain 4 (Nrap_D4) | Nrap protein nucleotidyltransferase domain 4 | Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus [1]. Nrap is a ... | Domain |
U [auth UX] | PF04900 | Fcf1 (Fcf1) | Fcf1 | - | Family |
V [auth CA], W [auth CB] | PF01269 | Fibrillarin (Fibrillarin) | Fibrillarin | - | Domain |
X [auth CD] | PF08156 | NOP5NT (NUC127) domain (NOP5NT) | NOP5NT (NUC127) domain | This N terminal domain is found in RNA-binding proteins of the NOP5 family [1]. | Domain |
X [auth CD] | PF01798 | snoRNA binding domain, fibrillarin (Nop) | snoRNA binding domain, fibrillarin | - | Family |
Y [auth CE] | PF08156 | NOP5NT (NUC127) domain (NOP5NT) | NOP5NT (NUC127) domain | This N terminal domain is found in RNA-binding proteins of the NOP5 family [1]. | Domain |
Y [auth CE] | PF01798 | snoRNA binding domain, fibrillarin (Nop) | snoRNA binding domain, fibrillarin | - | Family |
AA [auth CG], Z [auth CF] | PF01248 | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae) | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family | 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 MyD11 ... | Domain |
BA [auth CH] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
CA [auth CI] | PF00163 | Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4) | Ribosomal protein S4/S9 N-terminal domain | - | Family |
CA [auth CI] | PF01479 | S4 domain (S4) | S4 domain | 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 pro ... | Domain |
DA [auth CJ] | PF04427 | Brix domain (Brix) | Brix domain | - | Domain |
EA [auth CK] | PF04006 | Mpp10 protein (Mpp10) | Mpp10 protein | - | Family |
FA [auth CL] | PF08142 | AARP2CN (NUC121) domain (AARP2CN) | AARP2CN (NUC121) domain | This domain is the central domain of AARP2. It is weakly similar to the GTP-binding domain of elongation factor TU [1]. | Domain |
FA [auth CL] | PF00004 | ATPase family associated with various cellular activities (AAA) (AAA) | ATPase family associated with various cellular activities (AAA) | AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2]. | Domain |
GA [auth CM] | PF05189 | RNA 3'-terminal phosphate cyclase (RTC), insert domain (RTC_insert) | RNA 3'-terminal phosphate cyclase (RTC), insert domain | RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organisms. They catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation o ... | Domain |
GA [auth CM] | PF01137 | RNA 3'-terminal phosphate cyclase (RTC) | RNA 3'-terminal phosphate cyclase | RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organisms. They catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation o ... | Domain |
HA [auth CN] | PF17799 | Rrp7 RRM-like N-terminal domain (RRM_Rrp7) | Rrp7 RRM-like N-terminal domain | This domain corresponds to the N-terminal RNA-binding domain found in the Rrp7 protein. It has an RRM-like fold with a circular permutation [1]. | Domain |
HA [auth CN] | PF12923 | Ribosomal RNA-processing protein 7 (RRP7) C-terminal domain (RRP7) | Ribosomal RNA-processing protein 7 (RRP7) C-terminal domain | RRP7 is an essential protein in yeast that is involved in pre-rRNA processing and ribosome assembly [1]. It is speculated to be required for correct assembly of rpS27 into the pre-ribosomal particle [1-2]. | Domain |
IA [auth JD] | PF04408 | Helicase associated domain (HA2), winged-helix (HA2_N) | Helicase associated domain (HA2), winged-helix | The helicase associated domain (HA2) has an all alpha-helical fold and consists of a N-terminal winged-helix (WH) domain and a C-terminal degenerate helical-bundle domain, referred to as the ratchet-like domain [1,2,3]. These domains collaborate wit ... | Domain |
IA [auth JD] | PF07717 | Oligonucleotide/oligosaccharide-binding (OB)-fold (OB_NTP_bind) | Oligonucleotide/oligosaccharide-binding (OB)-fold | This family is found towards the C-terminus of the DEAD-box helicases (Pfam:PF00270). In these helicases it is apparently always found in association with Pfam:PF04408. There do seem to be a couple of instances where it occurs by itself - e.g. Swiss: ... | Domain |
IA [auth JD] | PF00270 | DEAD/DEAH box helicase (DEAD) | DEAD/DEAH box helicase | Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ... | Domain |
IA [auth JD] | PF21010 | Helicase associated domain (HA2), ratchet-like (HA2_C) | Helicase associated domain (HA2), ratchet-like | The helicase associated domain (HA2) has an all alpha-helical fold and consists of a N-terminal winged-helix (WH) domain (Pfam:PF04408) and a C-terminal degenerate helical-bundle domain, referred to as the ratchet-like domain [1,2,3]. These domains c ... | Domain |
JA [auth JF], KA [auth JG] | PF03587 | EMG1/NEP1 methyltransferase (EMG1) | EMG1/NEP1 methyltransferase | - | Family |
LA [auth JH] | PF05291 | Bystin (Bystin) | Bystin | - | Family |
MA [auth JL] | PF00398 | Ribosomal RNA adenine dimethylase (RrnaAD) | Ribosomal RNA adenine dimethylase | - | Domain |
OA [auth Db] | PF01667 | Ribosomal protein S27 (Ribosomal_S27e) | Ribosomal protein S27 | - | Family |
PA [auth JJ] | PF17903 | Krr1 KH1 domain (KH_8) | Krr1 KH1 domain | This entry represents the first KH domain in the KRR1 protein [1]. Krr1 is a ribosomal assembly factor. The KH1 domain is a divergent KH domain that lacks the RNA-binding GXXG motif and is involved in binding another assembly factor, Kri1 [1]. | Domain |
D [auth UD] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
RA [auth DE] | PF00900 | Ribosomal family S4e (Ribosomal_S4e) | Ribosomal family S4e | - | Family |
RA [auth DE] | PF16121 | 40S ribosomal protein S4 C-terminus (40S_S4_C) | 40S ribosomal protein S4 C-terminus | - | Family |
RA [auth DE] | PF08071 | RS4NT (NUC023) domain (RS4NT) | RS4NT (NUC023) domain | This is the N-terminal domain of Ribosomal S4 / S4e proteins. This domain is associated with S4 and KOW domains [1]. | Domain |
RA [auth DE] | PF01479 | S4 domain (S4) | S4 domain | 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 pro ... | Domain |
RA [auth DE] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
SA [auth DF] | PF00177 | Ribosomal protein S7p/S5e (Ribosomal_S7) | Ribosomal protein S7p/S5e | This family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. | Domain |
TA [auth DG] | PF01092 | Ribosomal protein S6e (Ribosomal_S6e) | Ribosomal protein S6e | - | Family |
UA [auth DH] | PF01251 | Ribosomal protein S7e (Ribosomal_S7e) | Ribosomal protein S7e | - | Family |
VA [auth DI] | PF01201 | Ribosomal protein S8e (Ribosomal_S8e) | Ribosomal protein S8e | - | Family |
WA [auth DJ] | PF00163 | Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4) | Ribosomal protein S4/S9 N-terminal domain | - | Family |
WA [auth DJ] | PF01479 | S4 domain (S4) | S4 domain | 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 pro ... | Domain |
XA [auth DL] | PF00366 | Ribosomal protein S17 (Ribosomal_S17) | Ribosomal protein S17 | - | Domain |
XA [auth DL] | PF16205 | Ribosomal_S17 N-terminal (Ribosomal_S17_N) | Ribosomal_S17 N-terminal | - | Family |
YA [auth DN] | PF08069 | Ribosomal S13/S15 N-terminal domain (Ribosomal_S13_N) | Ribosomal S13/S15 N-terminal domain | This domain is found at the N-terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [1]. | Domain |
YA [auth DN] | PF00312 | Ribosomal protein S15 (Ribosomal_S15) | Ribosomal protein S15 | - | Domain |
ZA [auth DO] | PF00411 | Ribosomal protein S11 (Ribosomal_S11) | Ribosomal protein S11 | - | Family |
AB [auth DQ] | PF00380 | Ribosomal protein S9/S16 (Ribosomal_S9) | Ribosomal protein S9/S16 | - | Family |
BB [auth DS] | PF00416 | Ribosomal protein S13/S18 (Ribosomal_S13) | Ribosomal protein S13/S18 | - | Family |
CB [auth DT] | PF01090 | Ribosomal protein S19e (Ribosomal_S19e) | Ribosomal protein S19e | - | Family |
DB [auth DW] | PF00410 | Ribosomal protein S8 (Ribosomal_S8) | Ribosomal protein S8 | - | Domain |
EB [auth DX] | PF00164 | Ribosomal protein S12/S23 (Ribosom_S12_S23) | Ribosomal protein S12/S23 | - | Family |
FB [auth DY] | PF01282 | Ribosomal protein S24e (Ribosomal_S24e) | Ribosomal protein S24e | - | Family |
GB [auth Dc] | PF01200 | Ribosomal protein S28e (Ribosomal_S28e) | Ribosomal protein S28e | - | Family |
F [auth UH] | PF10395 | Utp8 family (Utp8) | Utp8 family | - | Family |
G [auth UI] | PF04003 | Dip2/Utp12 Family (Utp12) | Dip2/Utp12 Family | - | Family |
H [auth UJ] | PF08146 | BP28CT (NUC211) domain (BP28CT) | BP28CT (NUC211) domain | This C terminal domain is found in BAP28-like nucleolar proteins [1]. | Domain |
H [auth UJ] | PF12397 | U3 small nucleolar RNA-associated protein 10 (U3snoRNP10) | U3 small nucleolar RNA-associated protein 10 | - | Family |
I [auth UK] | PF03998 | Utp11 protein (Utp11) | Utp11 protein | - | Family |