Structure of a crosslinked yeast ABCE1-bound 43S pre-initiation complex
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
| Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
|---|---|---|---|---|---|---|---|---|
| GA [auth O] | d7a1go_ | All beta proteins | 7-bladed beta-propeller | WD40 repeat-like | automated matches | automated matches | (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
| Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
|---|---|---|---|---|---|
| F [auth T] | SCOP2B Superfamily | GS N-terminal domain-like | 8053173 | 3000408 | SCOP2B (2022-06-29) |
| J [auth X] | SCOP2B Superfamily | Ribosomal S17 N-terminal domain-like | 8052736 | 3002138 | SCOP2B (2022-06-29) |
| J [auth X] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052738 | 3000135 | SCOP2B (2022-06-29) |
| M [auth a] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8053136 | 3000068 | SCOP2B (2022-06-29) |
| N [auth b] | SCOP2B Superfamily | Ribosomal protein S8 | 8096922 | 3000709 | SCOP2B (2022-06-29) |
| X [auth D] | SCOP2B Superfamily | L30e-like | 8096946 | 3001739 | SCOP2B (2022-06-29) |
| Y [auth F] | SCOP2B Superfamily | Ribosomal protein S5 domain 2-like | 8103366 | 3000100 | SCOP2B (2022-06-29) |
| DA [auth L] | SCOP2B Superfamily | Winged helix DNA-binding domain | 8059235 | 3000034 | SCOP2B (2022-06-29) |
| EA [auth M] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8052569 | 3000068 | SCOP2B (2022-06-29) |
| H [auth V] | SCOP2B Superfamily | 50S Ribosomal protein L14-like | 8053083 | 3000433 | SCOP2B (2022-06-29) |
| E [auth S] | SCOP2B Superfamily | Alpha-L RNA-binding motif | 8052758 | 3001473 | SCOP2B (2022-06-29) |
| E [auth S] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8052760 | 3000334 | SCOP2B (2022-06-29) |
| E [auth S] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052759 | 3000135 | SCOP2B (2022-06-29) |
| KA [auth x] | SCOP2B Superfamily | ABC transporter-like P-loop ATPases | 8089770 | 3002020 | SCOP2B (2022-06-29) |
| KA [auth x] | SCOP2B Superfamily | ABC transporter-like P-loop ATPases | 8089771 | 3002020 | SCOP2B (2022-06-29) |
| KA [auth x] | SCOP2B Superfamily | 4Fe-4S ferredoxins | 8089767 | 3000020 | SCOP2B (2022-06-29) |
| HA [auth h] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8063430 | 3000135 | SCOP2B (2022-06-29) |
| C [auth Q] | SCOP2B Superfamily | Ribosomal S3Ae-like | 8053211 | 3002166 | SCOP2B (2022-06-29) |
| CA [auth K] | SCOP2B Superfamily | Ribosomal protein S10 | 8098648 | 3001336 | SCOP2B (2022-06-29) |
| AA [auth I] | SCOP2B Superfamily | S13-like H2TH domain | 8098450 | 3000053 | SCOP2B (2022-06-29) |
| W [auth C] | SCOP2B Superfamily | Winged helix DNA-binding domain | 8055713 | 3000034 | SCOP2B (2022-06-29) |
| V [auth B] | SCOP2B Superfamily | Ribosomal protein S7 | 8065993 | 3000799 | SCOP2B (2022-06-29) |
| T [auth E] | SCOP2B Superfamily | Ribosomal protein S19 | 8086076 | 3000686 | SCOP2B (2022-06-29) |
| B [auth P] | SCOP2B Superfamily | SIS domain/Ribosomal protein S2-like | 8061280 | 3001397 | SCOP2B (2022-06-29) |
| S [auth g] | SCOP2B Superfamily | Ribosomal protein S30e-like | 8053451 | 3002190 | SCOP2B (2022-06-29) |
| Q [auth e] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8053149 | 3000068 | SCOP2B (2022-06-29) |
| L [auth Z] | SCOP2B Superfamily | Translational machinery components | 8098660 | 3000571 | SCOP2B (2022-06-29) |
| K [auth Y] | SCOP2B Superfamily | S15/NS1 RNA-binding domain | 8052974 | 3001284 | SCOP2B (2022-06-29) |
| K [auth Y] | SCOP2B Superfamily | Homeodomain-like | 8052973 | 3000001 | 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 R] | e7a1gR1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| F [auth T] | e7a1gT1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| G [auth U] | e7a1gU1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| J [auth X] | e7a1gX1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| M [auth a] | e7a1ga1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| N [auth b] | e7a1gb1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| R [auth f] | e7a1gf1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| U [auth A] | e7a1gA1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| X [auth D] | e7a1gD1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| Y [auth F] | e7a1gF1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| Z [auth H] | e7a1gH1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| BA [auth J] | e7a1gJ1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| DA [auth L] | e7a1gL1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| EA [auth M] | e7a1gM1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| FA [auth N] | e7a1gN1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| GA [auth O] | e7a1gO1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| IA [auth z] | e7a1gz1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: VWD | F: | ECOD (20:10:01) | |
| JA [auth y] | e7a1gy1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| I [auth W] | e7a1gW1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| H [auth V] | e7a1gV1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| E [auth S] | e7a1gS1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| KA [auth x] | e7a1gx1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| HA [auth h] | e7a1gh1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| C [auth Q] | e7a1gQ1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| CA [auth K] | e7a1gK1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| AA [auth I] | e7a1gI1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| W [auth C] | e7a1gC1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| V [auth B] | e7a1gB1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| T [auth E] | e7a1gE1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| B [auth P] | e7a1gP1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| S [auth g] | e7a1gg1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| Q [auth e] | e7a1ge1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| P [auth d] | e7a1gd1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| O [auth c] | e7a1gc1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| L [auth Z] | e7a1gZ1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) | |
| K [auth Y] | e7a1gY1 | A: Family A G protein-coupled receptor-like | X: Family A G protein-coupled receptor-like | H: Family A G protein-coupled receptor-like | T: Ldh_1_C | F: | ECOD (20:10:01) |
Domain Annotation: CATH CATH Database Homepage
| Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
|---|---|---|---|---|---|---|
| D [auth R] | 3.30.160.20 | Alpha Beta | 2-Layer Sandwich | Double Stranded RNA Binding Domain | CATH (utative) | |
| D [auth R] | 3.30.230.10 | Alpha Beta | 2-Layer Sandwich | Ribosomal Protein S5 | domain 2 | CATH (utative) |
| U [auth A] | 3.30.300.20 | Alpha Beta | 2-Layer Sandwich | GMP Synthetase | Chain A, domain 3 | CATH (utative) |
| KA [auth x] | 3.40.50.300 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | P-loop containing nucleotide triphosphate hydrolases | CATH (utative) |
| T [auth E] | 3.30.860.10 | Alpha Beta | 2-Layer Sandwich | 30s Ribosomal Protein S19 | Chain A | CATH (utative) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| D [auth R] | PF03719 | Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C) | Ribosomal protein S5, C-terminal domain | Domain | |
| D [auth R] | PF00333 | Ribosomal protein S5, N-terminal domain (Ribosomal_S5) | Ribosomal protein S5, N-terminal domain | Domain | |
| F [auth T] | PF01092 | Ribosomal protein S6e (Ribosomal_S6e) | Ribosomal protein S6e | - | Family |
| G [auth U] | PF01251 | Ribosomal protein S7e (Ribosomal_S7e) | Ribosomal protein S7e | - | Family |
| J [auth X] | PF04068 | Possible Fer4-like domain in RNase L inhibitor, RLI (Fer4_RLI) | Possible Fer4-like domain in RNase L inhibitor, RLI | - | Family |
| J [auth X] | PF00366 | Ribosomal protein S17 (Ribosomal_S17) | Ribosomal protein S17 | Domain | |
| J [auth X] | PF16205 | Ribosomal_S17 N-terminal (Ribosomal_S17_N) | Ribosomal_S17 N-terminal | - | Family |
| J [auth X] | PF00037 | 4Fe-4S binding domain (Fer4) | 4Fe-4S binding domain | Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. | Domain |
| J [auth X] | PF00005 | ABC transporter (ABC_tran) | ABC transporter | ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are comp ... | Domain |
| U [auth A] | PF07650 | KH domain (KH_2) | KH domain | Domain | |
| U [auth A] | PF00189 | Ribosomal protein S3, C-terminal domain (Ribosomal_S3_C) | Ribosomal protein S3, C-terminal domain | This family contains a central domain Pfam:PF00013, hence the amino and carboxyl terminal domains are stored separately. This is a minimal carboxyl-terminal domain. Some are much longer. | Domain |
| X [auth D] | 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 |
| Y [auth F] | PF01667 | Ribosomal protein S27 (Ribosomal_S27e) | Ribosomal protein S27 | - | Family |
| Y [auth F] | PF00380 | Ribosomal protein S9/S16 (Ribosomal_S9) | Ribosomal protein S9/S16 | - | Family |
| Z [auth H] | PF00833 | Ribosomal S17 (Ribosomal_S17e) | Ribosomal S17 | - | Family |
| Z [auth H] | PF01200 | Ribosomal protein S28e (Ribosomal_S28e) | Ribosomal protein S28e | Domain | |
| BA [auth J] | PF01090 | Ribosomal protein S19e (Ribosomal_S19e) | Ribosomal protein S19e | - | Family |
| DA [auth L] | PF03297 | S25 ribosomal protein (Ribosomal_S25) | S25 ribosomal protein | - | Family |
| EA [auth M] | PF00253 | Ribosomal protein S14p/S29e (Ribosomal_S14) | Ribosomal protein S14p/S29e | - | Family |
| FA [auth N] | PF01599 | Ribosomal protein S27a (Ribosomal_S27) | Ribosomal protein S27a | This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins ... | Domain |
| GA [auth O] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
| I [auth W] | PF00163 | Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4) | Ribosomal protein S4/S9 N-terminal domain | - | Family |
| I [auth W] | 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 |
| H [auth V] | PF01201 | Ribosomal protein S8e (Ribosomal_S8e) | Ribosomal protein S8e | - | Family |
| E [auth S] | PF00900 | Ribosomal family S4e (Ribosomal_S4e) | Ribosomal family S4e | - | Family |
| E [auth S] | PF16121 | 40S ribosomal protein S4 C-terminus (40S_S4_C) | 40S ribosomal protein S4 C-terminus | - | Family |
| E [auth S] | 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 |
| E [auth S] | 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 |
| E [auth S] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
| CA [auth K] | PF00338 | Ribosomal protein S10p/S20e (Ribosomal_S10) | Ribosomal protein S10p/S20e | This family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes. | Domain |
| AA [auth I] | PF00416 | Ribosomal protein S13/S18 (Ribosomal_S13) | Ribosomal protein S13/S18 | - | Family |
| W [auth C] | PF00164 | Ribosomal protein S12/S23 (Ribosom_S12_S23) | Ribosomal protein S12/S23 | This protein is known as S12 in bacteria and archaea and S23 in eukaryotes. | Domain |
| W [auth C] | PF03501 | Plectin/S10 domain (S10_plectin) | Plectin/S10 domain | This presumed domain is found at the N-terminus of some isoforms of the cytoskeletal muscle protein plectin as well as the ribosomal S10 protein. This domain may be involved in RNA binding. | Domain |
| V [auth B] | PF00177 | Ribosomal protein S7p/S5e (Ribosomal_S7) | Ribosomal protein S7p/S5e | This family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. | Domain |
| T [auth E] | PF00203 | Ribosomal protein S19 (Ribosomal_S19) | Ribosomal protein S19 | Domain | |
| B [auth P] | PF00318 | Ribosomal protein S2 (Ribosomal_S2) | Ribosomal protein S2 | - | Family |
| L [auth Z] | PF00411 | Ribosomal protein S11 (Ribosomal_S11) | Ribosomal protein S11 | - | Family |
| K [auth Y] | 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 |
| K [auth Y] | PF00312 | Ribosomal protein S15 (Ribosomal_S15) | Ribosomal protein S15 | Domain |














