8B5L
Cryo-EM structure of ribosome-Sec61-TRAP (TRanslocon Associated Protein) translocon complex
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
J [auth D] | SCOP2B Superfamily | Translational machinery components | 8052886 | 3000571 | SCOP2B (2022-06-29) |
K [auth V] | SCOP2B Superfamily | 50S Ribosomal protein L14-like | 8072048 | 3000433 | SCOP2B (2022-06-29) |
M [auth J] | SCOP2B Superfamily | RL5-like | 8073894 | 3001709 | SCOP2B (2022-06-29) |
O [auth k] | SCOP2B Superfamily | Ribosomal L38e protein-like | 8093716 | 3002206 | SCOP2B (2022-06-29) |
R [auth Z] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8053047 | 3000334 | SCOP2B (2022-06-29) |
T [auth i] | SCOP2B Superfamily | Ribosomal protein L36e | 8053119 | 3002161 | SCOP2B (2022-06-29) |
AA [auth Y] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8076754 | 3000334 | SCOP2B (2022-06-29) |
BA [auth B] | SCOP2B Superfamily | Translational proteins | 8078357 | 3000811 | SCOP2B (2022-06-29) |
CA [auth R] | SCOP2B Superfamily | Ribosomal protein L19 (L19e) | 8107568 | 3000890 | SCOP2B (2022-06-29) |
DA [auth X] | SCOP2B Superfamily | Ribosomal proteins S24e L23 and L15e | 8095966 | 3000210 | SCOP2B (2022-06-29) |
EA [auth p] | SCOP2B Superfamily | Zn-binding ribosomal proteins | 8101435 | 3001320 | SCOP2B (2022-06-29) |
KA [auth f] | SCOP2B Superfamily | Translational proteins | 8093714 | 3000811 | SCOP2B (2022-06-29) |
LA [auth a] | SCOP2B Superfamily | Ribosomal proteins L15p and L18e | 8097818 | 3001045 | SCOP2B (2022-06-29) |
NA [auth g] | SCOP2B Superfamily | Ribosomal protein L34e-like | 8103328 | 3002203 | SCOP2B (2022-06-29) |
SA [auth N] | SCOP2B Superfamily | Ribosomal proteins S24e L23 and L15e | 8082477 | 3000210 | SCOP2B (2022-06-29) |
VA [auth c] | SCOP2B Superfamily | L30e-like | 8094953 | 3001739 | SCOP2B (2022-06-29) |
XA [auth l] | SCOP2B Superfamily | Ribosomal protein L39e | 8095597 | 3001756 | SCOP2B (2022-06-29) |
F [auth e] | SCOP2B Superfamily | Ribosomal protein L32e | 8102090 | 3000982 | SCOP2B (2022-06-29) |
I | SCOP2B Superfamily | Ribosomal protein L16p/L10e | 8097320 | 3000884 | 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) |
---|---|---|---|---|---|---|---|---|
A [auth h] | PF00831 | e8b5lh1 | A: alpha bundles | X: Long alpha-hairpin | H: Ribosomal protein L29 (L29p) (From Topology) | T: Ribosomal protein L29 (L29p) | F: PF00831 | ECOD (1.6) |
J [auth D] | PF14204,PF17144 | e8b5lD1 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PF14204,PF17144 | ECOD (1.6) |
K [auth V] | PF00238 | e8b5lV1 | A: beta barrels | X: Ribosomal protein L14-like | H: Ribosomal protein L14-related (From Topology) | T: Ribosomal protein L14-related | F: PF00238 | ECOD (1.6) |
L [auth E] | PF01159,PF03868 | e8b5lE1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01159,PF03868 | ECOD (1.6) |
M [auth J] | PF00281,PF00673 | e8b5lJ1 | A: a+b two layers | X: Ribosomal protein L5 (From Topology) | H: Ribosomal protein L5 (From Topology) | T: Ribosomal protein L5 | F: PF00281,PF00673 | ECOD (1.6) |
N [auth q] | PF03896 | e8b5lq1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: PF03896 | ECOD (1.6) |
N [auth q] | F_UNCLASSIFIED | e8b5lq2 | A: extended segments | X: Notch transmembrane helix (From Topology) | H: Notch transmembrane helix (From Topology) | T: Notch transmembrane helix | F: F_UNCLASSIFIED | ECOD (1.6) |
O [auth k] | PF01781 | e8b5lk1 | A: a+b two layers | X: SRP9/14-like | H: Signal recognition particle alu RNA binding heterodimer SRP9/14-related (From Topology) | T: Signal recognition particle alu RNA binding heterodimer SRP9/14-related | F: PF01781 | ECOD (1.6) |
P [auth b] | PF01779 | e8b5lb1 | A: extended segments | X: RPL29 (From Topology) | H: RPL29 (From Topology) | T: RPL29 | F: PF01779 | ECOD (1.6) |
Q [auth m] | PF01020 | e8b5lm1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01020 | ECOD (1.6) |
R [auth Z] | PF00467,PF01777 | e8b5lZ1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF00467,PF01777 | ECOD (1.6) |
S [auth T] | PF01157 | e8b5lT1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF01157 | ECOD (1.6) |
B [auth P] | PF00237 | e8b5lP1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Ribosomal protein L22 (From Topology) | T: Ribosomal protein L22 | F: PF00237 | ECOD (1.6) |
T [auth i] | PF01158 | e8b5li1 | A: alpha arrays | X: 60S ribosomal protein rpL36 (L36e) (From Topology) | H: 60S ribosomal protein rpL36 (L36e) (From Topology) | T: 60S ribosomal protein rpL36 (L36e) | F: PF01158 | ECOD (1.6) |
U [auth F] | PF00327,PF08079 | e8b5lF1 | A: a+b two layers | X: Ribosomal protein L30p/L7e (From Topology) | H: Ribosomal protein L30p/L7e (From Topology) | T: Ribosomal protein L30p/L7e | F: PF00327,PF08079 | ECOD (1.6) |
V [auth n] | PF05162 | e8b5ln1 | A: extended segments | X: Ribosomal protein L41-A (From Topology) | H: Ribosomal protein L41-A (From Topology) | T: Ribosomal protein L41-A | F: PF05162 | ECOD (1.6) |
W [auth L] | PF01294 | e8b5lL1 | A: extended segments | X: RPL13 (From Topology) | H: RPL13 (From Topology) | T: RPL13 | F: PF01294 | ECOD (1.6) |
X [auth O] | PF00572 | e8b5lO1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal protein L13 and L16-A (From Topology) | T: Ribosomal protein L13 and L16-A | F: PF00572 | ECOD (1.6) |
Z [auth C] | PF00573 | e8b5lC1 | A: a/b three-layered sandwiches | X: Ribosomal protein L4 (From Topology) | H: Ribosomal protein L4 (From Topology) | T: Ribosomal protein L4 | F: PF00573 | ECOD (1.6) |
Z [auth C] | PF14374 | e8b5lC2 | A: extended segments | X: 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: PF14374 | ECOD (1.6) |
AA [auth Y] | PF16906 | e8b5lY1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF16906 | ECOD (1.6) |
BA [auth B] | PF00297 | e8b5lB1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: PF00297 | ECOD (1.6) |
CA [auth R] | PF01280 | e8b5lR1 | A: alpha arrays | X: 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 domain | F: PF01280 | ECOD (1.6) |
CA [auth R] | PF01280 | e8b5lR2 | A: alpha bundles | X: 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 domain | F: PF01280 | ECOD (1.6) |
C [auth d] | PF01198 | e8b5ld1 | A: a+b two layers | X: Ribosomal protein L31e-like | H: Ribosomal protein L31e/gp120 outer domain (From Topology) | T: Ribosomal protein L31e/gp120 outer domain | F: PF01198 | ECOD (1.6) |
DA [auth X] | PF00276,PF03939 | e8b5lX1 | 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: PF00276,PF03939 | ECOD (1.6) |
EA [auth p] | PF01780 | e8b5lp1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01780 | ECOD (1.6) |
FA [auth M] | PF00467,PF01929 | e8b5lM1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF00467,PF01929 | ECOD (1.6) |
GA [auth H] | PF00347 | e8b5lH1 | A: a+b two layers | X: Ribosomal protein L6 (From Topology) | H: Ribosomal protein L6 (From Topology) | T: Ribosomal protein L6 | F: PF00347 | ECOD (1.6) |
IA [auth r] | PF01778 | e8b5lr1 | A: a+b two layers | X: RPL28 (From Topology) | H: RPL28 (From Topology) | T: RPL28 | F: PF01778 | ECOD (1.6) |
JA [auth Q] | PF17135 | e8b5lQ1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal proteins L15p and L18e (From Topology) | T: Ribosomal proteins L15p and L18e | F: PF17135 | ECOD (1.6) |
KA [auth f] | PF01247 | e8b5lf1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: PF01247 | ECOD (1.6) |
LA [auth a] | PF00828 | e8b5la1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal proteins L15p and L18e (From Topology) | T: Ribosomal proteins L15p and L18e | F: PF00828 | ECOD (1.6) |
MA [auth A] | PF00181 | e8b5lA2 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00181 | ECOD (1.6) |
MA [auth A] | PF03947 | e8b5lA1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF03947 | ECOD (1.6) |
NA [auth g] | PF01199 | e8b5lg1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: RPL34 (From Topology) | T: RPL34 | F: PF01199 | ECOD (1.6) |
PA [auth u] | PF00584 | e8b5lu1 | A: extended segments | X: Preprotein translocase SecE subunit (From Topology) | H: Preprotein translocase SecE subunit (From Topology) | T: Preprotein translocase SecE subunit | F: PF00584 | ECOD (1.6) |
QA [auth v] | PF05753 | e8b5lv1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: PF05753 | ECOD (1.6) |
RA [auth j] | PF01907 | e8b5lj1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01907 | ECOD (1.6) |
SA [auth N] | PF00827 | e8b5lN1 | 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: PF00827 | ECOD (1.6) |
TA [auth o] | PF00935 | e8b5lo1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF00935 | ECOD (1.6) |
UA [auth s] | PF00344,PF10559 | e8b5ls1 | A: alpha complex topology | X: Preprotein translocase SecY subunit (From Topology) | H: Preprotein translocase SecY subunit (From Topology) | T: Preprotein translocase SecY subunit | F: PF00344,PF10559 | ECOD (1.6) |
VA [auth c] | PF01248 | e8b5lc1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: PF01248 | ECOD (1.6) |
WA [auth W] | PF01246 | e8b5lW1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: LIM domain-like | F: PF01246 | ECOD (1.6) |
E [auth G] | PF01248 | e8b5lG1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: PF01248 | ECOD (1.6) |
XA [auth l] | PF00832 | e8b5ll1 | A: extended segments | X: Ribosomal protein L39e (From Topology) | H: Ribosomal protein L39e (From Topology) | T: Ribosomal protein L39e | F: PF00832 | ECOD (1.6) |
YA [auth U] | PF01776 | e8b5lU1 | A: a+b two layers | X: Ribosomal protein L22e (From Topology) | H: Ribosomal protein L22e (From Topology) | T: Ribosomal protein L22e | F: PF01776 | ECOD (1.6) |
F [auth e] | PF01655 | e8b5le1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal protein L32e (From Topology) | T: Ribosomal protein L32e | F: PF01655 | ECOD (1.6) |
H [auth S] | F_UNCLASSIFIED | e8b5lS2 | A: a+b two layers | X: GP2-like | H: RplX-like (From Topology) | T: RplX-like | F: F_UNCLASSIFIED | ECOD (1.6) |
H [auth S] | PF01775 | e8b5lS1 | A: a+b two layers | X: GP2-like | H: RplX-like (From Topology) | T: RplX-like | F: PF01775 | ECOD (1.6) |
I | PF00252 | e8b5lI1 | A: a+b complex topology | X: alpha/beta-Hammerhead/Barrel-sandwich hybrid | H: alpha/beta-Hammerhead/Barrel-sandwich hybrid | T: Ribosomal protein L10e | F: PF00252 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Protein Modification Annotation
Modified Residue(s) | ||
---|---|---|
Chain | Residue(s) | Description |
Q [auth m] | MLZ | Parent Component: LYS :  AA0076 :  N6-methyl-L-lysine MOD:00085 |
Z [auth C] | MLZ | Parent Component: LYS :  AA0076 , AA0076 :  N6-methyl-L-lysine MOD:00085 , N6-methyl-L-lysine MOD:00085 |
D [auth 5] | 1MA | Parent Component: A :  AA0076 , AA0076 |
D [auth 5] | 5MC | Parent Component: C :  AA0076 , AA0076 |
D [auth 5] | 7MG | Parent Component: G :  AA0076 , AA0076 |
D [auth 5] | A2M | Parent Component: A :  AA0076 , AA0076 |
D [auth 5] | B8H | Parent Component: U :  AA0076 , AA0076 |
D [auth 5] | B8K | Parent Component: G :  AA0076 , AA0076 |
D [auth 5] | BGH | Parent Component: G :  AA0076 , AA0076 |
D [auth 5] | E6G | Parent Component: G :  AA0076 , AA0076 |
D [auth 5] | E7G | Parent Component: G :  AA0076 , AA0076 |
D [auth 5] | I4U | Parent Component: U :  AA0076 , AA0076 |
D [auth 5] | OMC | Parent Component: C :  AA0076 , AA0076 |
D [auth 5] | OMG | Parent Component: G :  AA0076 , AA0076 |
D [auth 5] | OMU | Parent Component: U :  AA0076 , AA0076 |
D [auth 5] | P4U | Parent Component: U :  AA0076 , AA0076 |
D [auth 5] | P7G | Parent Component: G :  AA0076 , AA0076 |
D [auth 5] | PSU | Parent Component: U :  AA0076 , AA0076 |
D [auth 5] | UR3 | Parent Component: U :  AA0076 , AA0076 |