6LQU
Cryo-EM structure of 90S small subunit preribosomes in transition states (State A1)
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
D [auth SF] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052759 | 3000135 | SCOP2B (2022-06-29) |
D [auth SF] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8052760 | 3000334 | SCOP2B (2022-06-29) |
D [auth SF] | SCOP2B Superfamily | Alpha-L RNA-binding motif | 8052758 | 3001473 | SCOP2B (2022-06-29) |
J [auth SM] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052738 | 3000135 | SCOP2B (2022-06-29) |
K [auth SN] | SCOP2B Superfamily | L30e-like | 8096946 | 3001739 | SCOP2B (2022-06-29) |
L [auth SO] | SCOP2B Superfamily | Homeodomain-like | 8052973 | 3000001 | SCOP2B (2022-06-29) |
L [auth SO] | SCOP2B Superfamily | S15/NS1 RNA-binding domain | 8052974 | 3001284 | SCOP2B (2022-06-29) |
M [auth SP] | SCOP2B Superfamily | Translational machinery components | 8095805 | 3000571 | SCOP2B (2022-06-29) |
N [auth SR] | SCOP2B Superfamily | Ribosomal protein S5 domain 2-like | 8103366 | 3000100 | SCOP2B (2022-06-29) |
O [auth ST] | SCOP2B Superfamily | S13-like H2TH domain | 8098450 | 3000053 | SCOP2B (2022-06-29) |
S [auth Sd] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8063430 | 3000135 | SCOP2B (2022-06-29) |
T [auth 3B] | SCOP2B Superfamily | S-adenosyl-L-methionine-dependent methyltransferases | 8063662 | 3000118 | SCOP2B (2022-06-29) |
U [auth 3C] | SCOP2B Superfamily | S-adenosyl-L-methionine-dependent methyltransferases | 8063662 | 3000118 | SCOP2B (2022-06-29) |
Y [auth 3G] | SCOP2B Superfamily | L30e-like | 8033484 | 3001739 | SCOP2B (2022-06-29) |
Z [auth 3H] | SCOP2B Superfamily | L30e-like | 8033484 | 3001739 | SCOP2B (2022-06-29) |
JA [auth B3] | SCOP2B Superfamily | UTPB complex component-like | 8061270 | 3002330 | SCOP2B (2022-06-29) |
E [auth SG] | SCOP2B Superfamily | Ribosomal protein S7 | 8065993 | 3000799 | SCOP2B (2022-06-29) |
BB [auth RE] | SCOP2B Superfamily | Nucleotidyltransferase-like | 8053726 | 3000129 | SCOP2B (2022-06-29) |
BB [auth RE] | SCOP2B Superfamily | PAP/OAS1 substrate-binding domain-like | 8053728 | 3000941 | SCOP2B (2022-06-29) |
BB [auth RE] | SCOP2B Superfamily | PAP/OAS1 substrate-binding domain-like | 8053727 | 3000941 | SCOP2B (2022-06-29) |
BB [auth RE] | SCOP2B Superfamily | Nucleotidyltransferase-like | 8053725 | 3000129 | SCOP2B (2022-06-29) |
BB [auth RE] | SCOP2B Superfamily | PAP/Archaeal CCA-adding enzyme C-terminal domain-like | 8053729 | 3001147 | SCOP2B (2022-06-29) |
BB [auth RE] | SCOP2B Superfamily | PAP/Archaeal CCA-adding enzyme C-terminal domain-like | 8053730 | 3001147 | SCOP2B (2022-06-29) |
CB [auth RF] | SCOP2B Superfamily | RRP7 C-terminal domain-like | 8053722 | 3002219 | SCOP2B (2022-06-29) |
CB [auth RF] | SCOP2B Superfamily | RNA-binding domain RBD | 8053724 | 3000110 | SCOP2B (2022-06-29) |
DB [auth RG] | SCOP2B Superfamily | alpha/beta knot | 8037153 | 3001122 | SCOP2B (2022-06-29) |
EB [auth RH] | SCOP2B Superfamily | alpha/beta knot | 8037153 | 3001122 | SCOP2B (2022-06-29) |
F [auth SH] | SCOP2B Superfamily | GS N-terminal domain-like | 8053173 | 3000408 | 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) |
---|---|---|---|---|---|---|---|---|
D [auth SF] | PF00900 | e6lquSF3 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00900 | ECOD (1.6) |
D [auth SF] | PF00467,PF16121 | e6lquSF2 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF00467,PF16121 | ECOD (1.6) |
D [auth SF] | PF00900,PF01479,PF08071 | e6lquSF1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00900,PF01479,PF08071 | ECOD (1.6) |
FA [auth AF] | PF00400 | e6lquAF1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 8-bladed | F: PF00400 | ECOD (1.6) |
FA [auth AF] | PF09384 | e6lquAF2 | 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) |
J [auth SM] | PF00366,PF16205 | e6lquSM1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00366,PF16205 | ECOD (1.6) |
K [auth SN] | PF01248 | e6lquSN1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: PF01248 | ECOD (1.6) |
L [auth SO] | PF08069 | e6lquSO1 | 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) |
L [auth SO] | PF00312 | e6lquSO2 | 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) |
M [auth SP] | PF00411 | e6lquSP1 | 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) |
N [auth SR] | PF00380 | e6lquSR1 | 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) |
O [auth ST] | PF00416 | e6lquST1 | A: alpha arrays | X: HhH/H2TH | H: H2TH (From Topology) | T: H2TH | F: PF00416 | ECOD (1.6) |
P [auth SX] | PF00410 | e6lquSX2 | 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) |
P [auth SX] | PF00410 | e6lquSX1 | 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) |
Q [auth SY] | PF00164 | e6lquSY1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00164 | ECOD (1.6) |
R [auth SZ] | PF01282 | e6lquSZ1 | 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) |
S [auth Sd] | PF01200 | e6lquSd1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF01200 | ECOD (1.6) |
T [auth 3B] | PF01269 | e6lqu3B1 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: S-adenosyl-L-methionine-dependent methyltransferases | F: PF01269 | ECOD (1.6) |
U [auth 3C] | PF01269 | e6lqu3C1 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: S-adenosyl-L-methionine-dependent methyltransferases | F: PF01269 | ECOD (1.6) |
V [auth 3D] | PF01798 | e6lqu3D2 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: Nop C-terminal domain | F: PF01798 | ECOD (1.6) |
V [auth 3D] | PF01798 | e6lqu3D1 | 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) |
V [auth 3D] | PF08156 | e6lqu3D3 | 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) |
X [auth 3F] | PF00400 | e6lqu3F1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
Y [auth 3G] | PF01248 | e6lqu3G1 | 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 3H] | PF01248 | e6lqu3H1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: PF01248 | ECOD (1.6) |
AA [auth A4] | F_UNCLASSIFIED | e6lquA42 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: F_UNCLASSIFIED | ECOD (1.6) |
AA [auth A4] | PF00400 | e6lquA41 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
DA [auth A9] | F_UNCLASSIFIED | e6lquA91 | 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) |
HA [auth B1] | PF00400 | e6lquB12 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
HA [auth B1] | PF04003 | e6lquB11 | 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) |
IA [auth B2] | PF00400 | e6lquB23 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
IA [auth B2] | PF04003 | e6lquB21 | 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) |
JA [auth B3] | PF00400 | e6lquB31 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: PF00400 | ECOD (1.6) |
JA [auth B3] | PF08625 | e6lquB33 | 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) |
RA [auth 5F] | PF00163,PF01479 | e6lqu5F1 | 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 RA] | F_UNCLASSIFIED | e6lquRA1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 8-bladed | F: F_UNCLASSIFIED | ECOD (1.6) |
E [auth SG] | PF00177 | e6lquSG1 | A: alpha arrays | X: Ribosomal protein S7 (From Topology) | H: Ribosomal protein S7 (From Topology) | T: Ribosomal protein S7 | F: PF00177 | ECOD (1.6) |
ZA [auth RC] | PF17903 | e6lquRC1 | 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) |
ZA [auth RC] | PF21800 | e6lquRC2 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: KH-domains | T: Eukaryotic type KH-domain (KH-domain type I) | F: PF21800 | ECOD (1.6) |
AB [auth RD] | F_UNCLASSIFIED | e6lquRD1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: F_UNCLASSIFIED | ECOD (1.6) |
BB [auth RE] | PF17403 | e6lquRE4 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: PAP/OAS1 substrate-binding domain | F: PF17403 | ECOD (1.6) |
BB [auth RE] | PF17406 | e6lquRE6 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: PAP/OAS1 substrate-binding domain | F: PF17406 | ECOD (1.6) |
BB [auth RE] | PF17404 | e6lquRE1 | 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) |
BB [auth RE] | PF17407 | e6lquRE2 | 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) |
BB [auth RE] | PF03813 | e6lquRE3 | A: a+b three layers | X: Nucleotidyltransferase-like | H: Nucleotidyltransferase (From Topology) | T: Nucleotidyltransferase | F: PF03813 | ECOD (1.6) |
BB [auth RE] | PF17405 | e6lquRE5 | A: a+b three layers | X: Nucleotidyltransferase-like | H: Nucleotidyltransferase (From Topology) | T: Nucleotidyltransferase | F: PF17405 | ECOD (1.6) |
CB [auth RF] | PF17799 | e6lquRF1 | A: a+b two layers | X: Alpha-beta plaits | H: RNA-binding domain, RBD (From Topology) | T: RNA-binding domain, RBD | F: PF17799 | ECOD (1.6) |
DB [auth RG] | PF03587 | e6lquRG1 | 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) |
EB [auth RH] | PF03587 | e6lquRH1 | 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) |
FB [auth RI] | PF00687 | e6lquRI1 | A: a+b two layers | X: 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 L1 | F: PF00687 | ECOD (1.6) |
FB [auth RI] | PF00687 | e6lquRI2 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Rossmann-like domain in Ribosomal protein L1 (From Topology) | T: Rossmann-like domain in Ribosomal protein L1 | F: PF00687 | ECOD (1.6) |
HB [auth RK] | PF01137 | e6lquRK1 | A: a+b two layers | X: IF3-like | H: EPT/RTPC-like (From Topology) | T: EPT/RTPC-like | F: PF01137 | ECOD (1.6) |
HB [auth RK] | PF05189 | e6lquRK2 | 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) |
IB [auth RL] | PF13725 | e6lquRL4 | A: alpha arrays | X: HTH | H: HTH | T: tri-helical | F: PF13725 | ECOD (1.6) |
IB [auth RL] | PF13718,PF13725 | e6lquRL1 | A: a+b three layers | X: Nat/Ivy | H: Acyl-CoA N-acyltransferases (Nat) (From Topology) | T: Acyl-CoA N-acyltransferases (Nat) | F: PF13718,PF13725 | ECOD (1.6) |
IB [auth RL] | PF05127 | e6lquRL2 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF05127 | ECOD (1.6) |
IB [auth RL] | PF08351 | e6lquRL3 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF08351 | ECOD (1.6) |
JB [auth RM] | PF13725 | e6lquRM4 | A: alpha arrays | X: HTH | H: HTH | T: tri-helical | F: PF13725 | ECOD (1.6) |
JB [auth RM] | PF13718,PF13725 | e6lquRM1 | A: a+b three layers | X: Nat/Ivy | H: Acyl-CoA N-acyltransferases (Nat) (From Topology) | T: Acyl-CoA N-acyltransferases (Nat) | F: PF13718,PF13725 | ECOD (1.6) |
JB [auth RM] | PF05127 | e6lquRM2 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF05127 | ECOD (1.6) |
JB [auth RM] | PF08351 | e6lquRM3 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: PF08351 | ECOD (1.6) |
F [auth SH] | PF01092 | e6lquSH1 | 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) |
OB [auth RS] | PF05291 | e6lquRS1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: PF05291 | ECOD (1.6) |
PB [auth RT] | PF17903 | e6lquRT1 | 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) |
PB [auth RT] | PF22891 | e6lquRT2 | 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) |
G [auth SI] | PF01251 | e6lquSI1 | 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) |
H [auth SJ] | PF01201 | e6lquSJ1 | 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) |
I [auth SK] | PF00163,PF01479 | e6lquSK1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00163,PF01479 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
D [auth SF] | PF00900 | Ribosomal family S4e (Ribosomal_S4e) | Ribosomal family S4e | - | Family |
D [auth SF] | PF16121 | 40S ribosomal protein S4 C-terminus (40S_S4_C) | 40S ribosomal protein S4 C-terminus | - | Family |
D [auth SF] | 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 |
D [auth SF] | 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 |
D [auth SF] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
FA [auth AF] | PF09384 | UTP15 C terminal (UTP15_C) | UTP15 C terminal | - | Family |
FA [auth AF] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
MA [auth B6] | PF08640 | U3 small nucleolar RNA-associated protein 6 (U3_assoc_6) | U3 small nucleolar RNA-associated protein 6 | - | Family |
LB [auth RO] | PF03914 | CBF/Mak21 family (CBF) | CBF/Mak21 family | - | Repeat |
NB [auth RQ] | PF04615 | Utp14 protein (Utp14) | Utp14 protein | - | Family |
J [auth SM] | PF00366 | Ribosomal protein S17 (Ribosomal_S17) | Ribosomal protein S17 | - | Domain |
J [auth SM] | PF16205 | Ribosomal_S17 N-terminal (Ribosomal_S17_N) | Ribosomal_S17 N-terminal | - | Family |
K [auth SN] | 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 |
L [auth SO] | 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 |
L [auth SO] | PF00312 | Ribosomal protein S15 (Ribosomal_S15) | Ribosomal protein S15 | - | Domain |
M [auth SP] | PF00411 | Ribosomal protein S11 (Ribosomal_S11) | Ribosomal protein S11 | - | Family |
N [auth SR] | PF00380 | Ribosomal protein S9/S16 (Ribosomal_S9) | Ribosomal protein S9/S16 | - | Family |
O [auth ST] | PF00416 | Ribosomal protein S13/S18 (Ribosomal_S13) | Ribosomal protein S13/S18 | - | Family |
P [auth SX] | PF00410 | Ribosomal protein S8 (Ribosomal_S8) | Ribosomal protein S8 | - | Domain |
Q [auth SY] | PF00164 | Ribosomal protein S12/S23 (Ribosom_S12_S23) | Ribosomal protein S12/S23 | - | Family |
R [auth SZ] | PF01282 | Ribosomal protein S24e (Ribosomal_S24e) | Ribosomal protein S24e | - | Family |
S [auth Sd] | PF01200 | Ribosomal protein S28e (Ribosomal_S28e) | Ribosomal protein S28e | - | Family |
T [auth 3B], U [auth 3C] | PF01269 | Fibrillarin (Fibrillarin) | Fibrillarin | - | Domain |
V [auth 3D] | PF08156 | NOP5NT (NUC127) domain (NOP5NT) | NOP5NT (NUC127) domain | This N terminal domain is found in RNA-binding proteins of the NOP5 family [1]. | Domain |
V [auth 3D] | PF01798 | snoRNA binding domain, fibrillarin (Nop) | snoRNA binding domain, fibrillarin | - | Family |
W [auth 3E] | PF08156 | NOP5NT (NUC127) domain (NOP5NT) | NOP5NT (NUC127) domain | This N terminal domain is found in RNA-binding proteins of the NOP5 family [1]. | Domain |
W [auth 3E] | PF01798 | snoRNA binding domain, fibrillarin (Nop) | snoRNA binding domain, fibrillarin | - | Family |
X [auth 3F] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
Y [auth 3G], Z [auth 3H] | 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 |
AA [auth A4] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
BA [auth A5] | PF04003 | Dip2/Utp12 Family (Utp12) | Dip2/Utp12 Family | - | Family |
CA [auth A8] | PF10395 | Utp8 family (Utp8) | Utp8 family | - | Family |
EA [auth AE] | PF08146 | BP28CT (NUC211) domain (BP28CT) | BP28CT (NUC211) domain | This C terminal domain is found in BAP28-like nucleolar proteins [1]. | Domain |
EA [auth AE] | PF12397 | U3 small nucleolar RNA-associated protein 10 (U3snoRNP10) | U3 small nucleolar RNA-associated protein 10 | - | Family |
GA [auth AG] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
HA [auth B1] | PF04003 | Dip2/Utp12 Family (Utp12) | Dip2/Utp12 Family | - | Family |
HA [auth B1] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
IA [auth B2] | PF04003 | Dip2/Utp12 Family (Utp12) | Dip2/Utp12 Family | - | Family |
IA [auth B2] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
JA [auth B3] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
JA [auth B3] | 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 |
KA [auth B8] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
LA [auth BE] | 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 |
LA [auth BE] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
NA [auth 5B] | PF08297 | U3 snoRNA associated (U3_snoRNA_assoc) | U3 snoRNA associated | - | Family |
OA [auth 5C] | PF08149 | BING4CT (NUC141) domain (BING4CT) | BING4CT (NUC141) domain | This C terminal domain is found in the BING4 family of nucleolar WD40 repeat proteins [1]. | Domain |
OA [auth 5C] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
PA [auth 5D] | PF03998 | Utp11 protein (Utp11) | Utp11 protein | - | Family |
QA [auth 5E] | PF04006 | Mpp10 protein (Mpp10) | Mpp10 protein | - | Family |
RA [auth 5F] | PF00163 | Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4) | Ribosomal protein S4/S9 N-terminal domain | - | Family |
RA [auth 5F] | 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 |
SA [auth 5G] | PF04427 | Brix domain (Brix) | Brix domain | - | Domain |
TA [auth 5H] | PF09368 | Sas10 C-terminal domain (Sas10) | Sas10 C-terminal domain | Sas10 is an Essential subunit of U3-containing Small Subunit (SSU) processome complex involved in the production of the 18S rRNA and assembly of the small ribosomal subunit. | Domain |
UA [auth 5I] | PF04158 | Sof1-like domain (Sof1) | Sof1-like domain | - | Family |
UA [auth 5I] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
WA [auth 5K] | PF04900 | Fcf1 (Fcf1) | Fcf1 | - | Family |
E [auth SG] | PF00177 | Ribosomal protein S7p/S5e (Ribosomal_S7) | Ribosomal protein S7p/S5e | This family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. | Domain |
ZA [auth RC] | 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 |
ZA [auth RC] | PF21800 | KRR1 small subunit processome component, second KH domain (KRR1-like_KH2) | KRR1 small subunit processome component, second KH domain | This is the second K homology domain (KH2) found in KRR1 small subunit processome component from the fungus Chaetomium thermophilum and similar eukaryotic sequences. | Domain |
BB [auth RE] | 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 |
BB [auth RE] | 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 |
BB [auth RE] | 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 |
BB [auth RE] | 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 |
BB [auth RE] | 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 |
BB [auth RE] | 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 |
CB [auth RF] | 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 |
CB [auth RF] | 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 |
DB [auth RG], EB [auth RH] | PF03587 | EMG1/NEP1 methyltransferase (EMG1) | EMG1/NEP1 methyltransferase | - | Family |
FB [auth RI] | PF00687 | Ribosomal protein L1p/L10e family (Ribosomal_L1) | Ribosomal protein L1p/L10e family | This family includes prokaryotic L1 and eukaryotic L10. | Domain |
GB [auth RJ] | 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 |
GB [auth RJ] | 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 |
HB [auth RK] | 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 |
HB [auth RK] | 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 |
IB [auth RL], JB [auth RM] | PF13725 | Possible tRNA binding domain (tRNA_bind_2) | Possible tRNA binding domain | - | Family |
IB [auth RL], JB [auth RM] | PF08351 | tRNA(Met) cytidine acetyltransferase TmcA, N-terminal (TmcA_N) | tRNA(Met) cytidine acetyltransferase TmcA, N-terminal | - | Family |
IB [auth RL], JB [auth RM] | PF13718 | GNAT acetyltransferase 2 (GNAT_acetyltr_2) | GNAT acetyltransferase 2 | - | Family |
IB [auth RL], JB [auth RM] | PF05127 | Helicase (Helicase_RecD) | Helicase | This domain contains a P-loop (Walker A) motif, suggesting that it has ATPase activity, and a Walker B motif. In tRNA(Met) cytidine acetyltransferase (TmcA) it may function as an RNA helicase motor (driven by ATP hydrolysis) which delivers the wobble ... | Domain |
F [auth SH] | PF01092 | Ribosomal protein S6e (Ribosomal_S6e) | Ribosomal protein S6e | - | Family |
MB [auth RP] | 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 |
OB [auth RS] | PF05291 | Bystin (Bystin) | Bystin | - | Family |
RB [auth RW] | PF17075 | Regular of rDNA transcription protein 14 (RRT14) | Regular of rDNA transcription protein 14 | - | Family |
SB [auth RY] | PF08164 | Apoptosis-antagonizing transcription factor, C-terminal (TRAUB) | Apoptosis-antagonizing transcription factor, C-terminal | This C terminal domain is found in traube proteins [1]. This is the domain of the AATF proteins that interacts with BLOS2 or Ceap, that functions as an adaptor in processes such as protein and vesicle processing and transport, and perhaps transcripti ... | Domain |
G [auth SI] | PF01251 | Ribosomal protein S7e (Ribosomal_S7e) | Ribosomal protein S7e | - | Family |
H [auth SJ] | PF01201 | Ribosomal protein S8e (Ribosomal_S8e) | Ribosomal protein S8e | - | Family |
I [auth SK] | PF00163 | Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4) | Ribosomal protein S4/S9 N-terminal domain | - | Family |
I [auth SK] | 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 |