1YIT
Crystal Structure Of Virginiamycin M and S Bound To The 50S Ribosomal Subunit Of Haloarcula Marismortui
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
K [auth E] | SCOP2B Superfamily | Ribosomal protein L6 | 8032623 | 3000724 | SCOP2B (2022-06-29) |
K [auth E] | SCOP2B Superfamily | Ribosomal protein L6 | 8032625 | 3000724 | SCOP2B (2022-06-29) |
L [auth F] | SCOP2B Superfamily | L30e-like | 8032628 | 3001739 | SCOP2B (2022-06-29) |
N [auth H] | SCOP2B Superfamily | Ribosomal protein L16p/L10e | 8035022 | 3000884 | SCOP2B (2022-06-29) |
R [auth L] | SCOP2B Superfamily | Ribosomal proteins L15p and L18e | 8032635 | 3001045 | SCOP2B (2022-06-29) |
U [auth O] | SCOP2B Superfamily | Ribosomal proteins L15p and L18e | 8032640 | 3001045 | SCOP2B (2022-06-29) |
CA [auth W] | SCOP2B Superfamily | Ribosomal protein L30p/L7e | 8032657 | 3001378 | SCOP2B (2022-06-29) |
EA [auth Y] | SCOP2B Superfamily | Ribosomal protein L32e | 8032660 | 3000982 | SCOP2B (2022-06-29) |
FA [auth Z] | SCOP2B Superfamily | Zn-binding ribosomal proteins | 8032661 | 3001320 | SCOP2B (2022-06-29) |
J [auth D] | SCOP2B Superfamily | RL5-like | 8032620 | 3001709 | SCOP2B (2022-06-29) |
O [auth I] | SCOP2B Superfamily | Ribosomal protein L11, C-terminal domain | 8032631 | 3001186 | SCOP2B (2022-06-29) |
P [auth J] | SCOP2B Superfamily | Ribosomal protein L13 | 8032632 | 3001134 | SCOP2B (2022-06-29) |
Q [auth K] | SCOP2B Superfamily | 50S Ribosomal protein L14-like | 8034442 | 3000433 | SCOP2B (2022-06-29) |
S [auth M] | SCOP2B Superfamily | Ribosomal proteins S24e, L23 and L15e | 8032636 | 3000210 | SCOP2B (2022-06-29) |
B [auth 1] | SCOP2B Superfamily | Zn-binding ribosomal proteins | 8032609 | 3001320 | SCOP2B (2022-06-29) |
T [auth N] | SCOP2B Superfamily | Translational machinery components | 8032638 | 3000571 | SCOP2B (2022-06-29) |
V [auth P] | SCOP2B Superfamily | Ribosomal protein L19 (L19e) | 8032641 | 3000890 | SCOP2B (2022-06-29) |
W [auth Q] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8032644 | 3000334 | SCOP2B (2022-06-29) |
X [auth R] | SCOP2B Superfamily | Ribosomal protein L22 | 8032645 | 3001078 | SCOP2B (2022-06-29) |
Y [auth S] | SCOP2B Superfamily | Ribosomal proteins S24e, L23 and L15e | 8032646 | 3000210 | SCOP2B (2022-06-29) |
Z [auth T] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8032648 | 3000334 | SCOP2B (2022-06-29) |
AA [auth U] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8032651 | 3000068 | SCOP2B (2022-06-29) |
BA [auth V] | SCOP2B Superfamily | Ribosomal protein L29 (L29p) | 8032653 | 3000713 | SCOP2B (2022-06-29) |
C [auth 2] | SCOP2B Superfamily | Ribosomal protein L39e | 8034428 | 3001756 | SCOP2B (2022-06-29) |
DA [auth X] | SCOP2B Superfamily | Ribosomal protein L31e | 8032659 | 3000699 | SCOP2B (2022-06-29) |
D [auth 3] | SCOP2B Superfamily | Zn-binding ribosomal proteins | 8032610 | 3001320 | SCOP2B (2022-06-29) |
G [auth A] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8032612 | 3000334 | SCOP2B (2022-06-29) |
G [auth A] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8032613 | 3000135 | SCOP2B (2022-06-29) |
H [auth B] | SCOP2B Superfamily | Translational proteins | 8032615 | 3000811 | SCOP2B (2022-06-29) |
I [auth C] | SCOP2B Superfamily | Ribosomal protein L4 | 8032619 | 3001146 | 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) |
---|---|---|---|---|---|---|---|---|
K [auth E] | Ribosomal_L6_2 | e1yitE2 | A: a+b two layers | X: Ribosomal protein L6 (From Topology) | H: Ribosomal protein L6 (From Topology) | T: Ribosomal protein L6 | F: Ribosomal_L6_2 | ECOD (1.6) |
K [auth E] | Ribosomal_L6 | e1yitE1 | A: a+b two layers | X: Ribosomal protein L6 (From Topology) | H: Ribosomal protein L6 (From Topology) | T: Ribosomal protein L6 | F: Ribosomal_L6 | ECOD (1.6) |
L [auth F] | Ribosomal_L7Ae_1 | e1yitF1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: Ribosomal_L7Ae_1 | ECOD (1.6) |
N [auth H] | Ribosomal_L16 | e1yitH1 | A: a+b complex topology | X: alpha/beta-Hammerhead/Barrel-sandwich hybrid | H: alpha/beta-Hammerhead/Barrel-sandwich hybrid | T: Ribosomal protein L10e | F: Ribosomal_L16 | ECOD (1.6) |
R [auth L] | Ribosomal_L18 | e1yitL1 | 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: Ribosomal_L18 | ECOD (1.6) |
U [auth O] | Ribosomal_L18 | e1yitO1 | 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: Ribosomal_L18 | ECOD (1.6) |
CA [auth W] | Ribosomal_L30_1 | e1yitW1 | 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: Ribosomal_L30_1 | ECOD (1.6) |
EA [auth Y] | Ribosomal_L32e | e1yitY1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal protein L32e (From Topology) | T: Ribosomal protein L32e | F: Ribosomal_L32e | ECOD (1.6) |
FA [auth Z] | Ribosomal_L37ae | e1yitZ1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L37ae | ECOD (1.6) |
J [auth D] | Ribosomal_L5_C | e1yitD1 | A: a+b two layers | X: Ribosomal protein L5 (From Topology) | H: Ribosomal protein L5 (From Topology) | T: Ribosomal protein L5 | F: Ribosomal_L5_C | ECOD (1.6) |
M [auth G] | rplP0_like | e1yitG1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal protein L10-like (From Topology) | T: Ribosomal protein L10-like | F: rplP0_like | ECOD (1.6) |
O [auth I] | Ribosomal_L11 | e1yitI1 | A: alpha arrays | X: HTH | H: HTH | T: Ribosomal protein L11, C-terminal domain | F: Ribosomal_L11 | ECOD (1.6) |
P [auth J] | Ribosomal_L13 | e1yitJ1 | 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: Ribosomal_L13 | ECOD (1.6) |
Q [auth K] | Ribosomal_L14 | e1yitK1 | A: beta barrels | X: Ribosomal protein L14-like | H: Ribosomal protein L14-related (From Topology) | T: Ribosomal protein L14-related | F: Ribosomal_L14 | ECOD (1.6) |
S [auth M] | Ribosomal_L15e | e1yitM1 | 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: Ribosomal_L15e | ECOD (1.6) |
B [auth 1] | Ribosomal_L37e | e1yit11 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L37e | ECOD (1.6) |
T [auth N] | Ribosomal_L5e | e1yitN1 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: Ribosomal_L5e | ECOD (1.6) |
V [auth P] | Ribosomal_L19e_N | e1yitP1 | 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: Ribosomal_L19e_N | ECOD (1.6) |
V [auth P] | Ribosomal_L19e_C | e1yitP2 | 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: Ribosomal_L19e_C | ECOD (1.6) |
W [auth Q] | Ribosomal_L21e | e1yitQ1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L21e | ECOD (1.6) |
X [auth R] | Ribosomal_L22 | e1yitR1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Ribosomal protein L22 (From Topology) | T: Ribosomal protein L22 | F: Ribosomal_L22 | ECOD (1.6) |
Y [auth S] | Ribosomal_L23_1 | e1yitS1 | 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: Ribosomal_L23_1 | ECOD (1.6) |
Z [auth T] | Ribosomal_L26 | e1yitT1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L26 | ECOD (1.6) |
AA [auth U] | Ribosomal_L24e | e1yitU1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: LIM domain-like | F: Ribosomal_L24e | ECOD (1.6) |
BA [auth V] | Ribosomal_L29 | e1yitV1 | A: alpha bundles | X: Long alpha-hairpin | H: Ribosomal protein L29 (L29p) (From Topology) | T: Ribosomal protein L29 (L29p) | F: Ribosomal_L29 | ECOD (1.6) |
C [auth 2] | Ribosomal_L39 | e1yit21 | A: extended segments | X: Ribosomal protein L39e (From Topology) | H: Ribosomal protein L39e (From Topology) | T: Ribosomal protein L39e | F: Ribosomal_L39 | ECOD (1.6) |
DA [auth X] | Ribosomal_L31e | e1yitX1 | 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: Ribosomal_L31e | ECOD (1.6) |
D [auth 3] | Ribosomal_L44 | e1yit31 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L44 | ECOD (1.6) |
G [auth A] | Ribosomal_L2_1 | e1yitA1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: Ribosomal_L2_1 | ECOD (1.6) |
G [auth A] | Ribosomal_L2_C_2 | e1yitA2 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L2_C_2 | ECOD (1.6) |
H [auth B] | Ribosomal_L3 | e1yitB1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: Ribosomal_L3 | ECOD (1.6) |
I [auth C] | Ribosomal_L4 | e1yitC1 | A: a/b three-layered sandwiches | X: Ribosomal protein L4 (From Topology) | H: Ribosomal protein L4 (From Topology) | T: Ribosomal protein L4 | F: Ribosomal_L4 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
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 |
A [auth 0] | 1MA | Parent Component: A |
A [auth 0] | OMG | Parent Component: G |
A [auth 0] | OMU | Parent Component: U |
A [auth 0] | PSU | Parent Component: U |
A [auth 0] | UR3 | Parent Component: U |
E [auth 8] | 004 | |
E [auth 8] | DBB | AA0112 :  (2S,3S,2'R)-3-methyllanthionine MOD:00121 | : 
E [auth 8] | MEA | Parent Component: PHE :  AA0112 , AA0065 :  (2S,3S,2'R)-3-methyllanthionine MOD:00121 , N-methyl-L-phenylalanine MOD:00074 |
E [auth 8] | MHV | AA0112 , AA0065 | : 
E [auth 8] | MHW | AA0112 , AA0065 | :